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Trim9 tripartite motif-containing 9 [ Mus musculus (house mouse) ]

Gene ID: 94090, updated on 6-Nov-2018

Summary

Official Symbol
Trim9provided by MGI
Official Full Name
tripartite motif-containing 9provided by MGI
Primary source
MGI:MGI:2137354
See related
Ensembl:ENSMUSG00000021071
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Expression
Biased expression in frontal lobe adult (RPKM 15.7), cortex adult (RPKM 12.9) and 5 other tissues See more
Orthologs

Genomic context

See Trim9 in Genome Data Viewer
Location:
12; 12 C2
Exon count:
15
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 12 NC_000078.6 (70244531..70347614, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 12 NC_000078.5 (71345520..71448601, complement)

Chromosome 12 - NC_000078.6Genomic Context describing neighboring genes Neighboring gene liver glycogen phosphorylase Neighboring gene RIKEN cDNA F730035M05 gene Neighboring gene predicted gene, 38467 Neighboring gene predicted gene, 32151 Neighboring gene predicted gene, 40435 Neighboring gene thioredoxin-related transmembrane protein 1

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (3)  1 citation
  • Endonuclease-mediated (1) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • mKIAA0282, C030048G07Rik

Gene Ontology Provided by MGI

Function Evidence Code Pubs
SNARE binding ISO
Inferred from Sequence Orthology
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein domain specific binding ISO
Inferred from Sequence Orthology
more info
 
protein homodimerization activity ISO
Inferred from Sequence Orthology
more info
 
transferase activity IEA
Inferred from Electronic Annotation
more info
 
ubiquitin-protein transferase activity ISO
Inferred from Sequence Orthology
more info
 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
negative regulation of SNARE complex assembly ISO
Inferred from Sequence Orthology
more info
 
negative regulation of calcium ion-dependent exocytosis ISO
Inferred from Sequence Orthology
more info
 
proteasome-mediated ubiquitin-dependent protein catabolic process ISO
Inferred from Sequence Orthology
more info
 
synaptic vesicle exocytosis ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
cell junction IEA
Inferred from Electronic Annotation
more info
 
cell projection IEA
Inferred from Electronic Annotation
more info
 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasm ISO
Inferred from Sequence Orthology
more info
 
cytoplasmic vesicle IEA
Inferred from Electronic Annotation
more info
 
cytoskeleton ISO
Inferred from Sequence Orthology
more info
 
cytosol ISO
Inferred from Sequence Orthology
more info
 
dendrite IDA
Inferred from Direct Assay
more info
PubMed 
dendrite ISO
Inferred from Sequence Orthology
more info
 
intracellular IEA
Inferred from Electronic Annotation
more info
 
presynaptic cytosol ISO
Inferred from Sequence Orthology
more info
 
synapse IEA
Inferred from Electronic Annotation
more info
 
synaptic vesicle ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
E3 ubiquitin-protein ligase TRIM9
Names
RING-type E3 ubiquitin transferase TRIM9
tripartite motif-containing protein 9
NP_001103672.1
NP_001103673.1
NP_001273315.1
NP_001273316.1
NP_001273317.1
NP_444397.2
XP_006516463.1
XP_006516464.1
XP_006516465.1
XP_006516466.1
XP_006516467.1
XP_006516468.1
XP_006516469.1
XP_006516470.1
XP_017170752.1
XP_017170753.1
XP_017170754.1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001110202.1NP_001103672.1  E3 ubiquitin-protein ligase TRIM9 isoform b

    See identical proteins and their annotated locations for NP_001103672.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two in-frame exons in the central coding region, compared to variant 1. The encoded isoform (b) is shorter, compared to isoform a.
    Source sequence(s)
    AI835002, AK028280, BC052034
    Consensus CDS
    CCDS49077.1
    UniProtKB/Swiss-Prot
    Q8C7M3
    Related
    ENSMUSP00000106149.2, ENSMUST00000110520.9
    Conserved Domains (5) summary
    smart00502
    Location:273399
    BBC; B-Box C-terminal domain
    smart00336
    Location:224266
    BBOX; B-Box-type zinc finger
    cd00063
    Location:453532
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd12889
    Location:557704
    SPRY_PRY_TRIM67_9; PRY/SPRY domain in tripartite motif-containing proteins, TRIM9 and TRIM67
    cd16755
    Location:552
    RING-HC_TRIM9; RING finger, HC subclass, found in tripartite motif-containing protein 9 (TRIM9) and similar proteins
  2. NM_001110203.1NP_001103673.1  E3 ubiquitin-protein ligase TRIM9 isoform c

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks several exons, and contains an alternate 3'-terminal exon, compared to variant 1. This results in a novel 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (c) has a shorter and distinct C-terminus, compared to isoform a.
    Source sequence(s)
    AK035807, BC052034
    Consensus CDS
    CCDS49079.1
    UniProtKB/Swiss-Prot
    Q8C7M3
    UniProtKB/TrEMBL
    E9Q524
    Related
    ENSMUSP00000127081.1, ENSMUST00000167755.2
    Conserved Domains (4) summary
    smart00502
    Location:273399
    BBC; B-Box C-terminal domain
    smart00336
    Location:224266
    BBOX; B-Box-type zinc finger
    cd00063
    Location:453532
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cl17238
    Location:552
    RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
  3. NM_001286386.1NP_001273315.1  E3 ubiquitin-protein ligase TRIM9 isoform d

    See identical proteins and their annotated locations for NP_001273315.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks several exons, and contains an alternate 3'-terminal exon, compared to variant 1. This results in a novel 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (d) has a shorter and distinct C-terminus, compared to isoform a.
    Source sequence(s)
    AK035807, AK048875, BC052034
    UniProtKB/Swiss-Prot
    Q8C7M3
    Related
    ENSMUSP00000152692.1, ENSMUST00000221370.1
    Conserved Domains (4) summary
    smart00502
    Location:273399
    BBC; B-Box C-terminal domain
    smart00336
    Location:224266
    BBOX; B-Box-type zinc finger
    cd00063
    Location:453532
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cl17238
    Location:552
    RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
  4. NM_001286387.1NP_001273316.1  E3 ubiquitin-protein ligase TRIM9 isoform e

    See identical proteins and their annotated locations for NP_001273316.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) uses an alternate in-frame splice site in the central coding region, compared to variant 1. The encoded isoform (e) is shorter, compared to isoform a.
    Source sequence(s)
    AI835002, AK034357, AK163123, BC052034
    UniProtKB/Swiss-Prot
    Q8C7M3
    UniProtKB/TrEMBL
    Q3TR28
    Related
    ENSMUSP00000152691.1, ENSMUST00000221294.1
    Conserved Domains (5) summary
    smart00502
    Location:273399
    BBC; B-Box C-terminal domain
    smart00336
    Location:224266
    BBOX; B-Box-type zinc finger
    cd00063
    Location:453532
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd12889
    Location:630777
    SPRY_PRY_TRIM67_9; PRY/SPRY domain in tripartite motif-containing proteins, TRIM9 and TRIM67
    cd16755
    Location:552
    RING-HC_TRIM9; RING finger, HC subclass, found in tripartite motif-containing protein 9 (TRIM9) and similar proteins
  5. NM_001286388.1NP_001273317.1  E3 ubiquitin-protein ligase TRIM9 isoform f

    See identical proteins and their annotated locations for NP_001273317.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) uses an alternate in-frame splice site in the central coding region, compared to variant 1. The encoded isoform (f) is longer, compared to isoform a.
    Source sequence(s)
    AI835002, AK034357, AK163123, BC052034
    UniProtKB/Swiss-Prot
    Q8C7M3
    UniProtKB/TrEMBL
    Q3TR28
    Related
    ENSMUSP00000152147.1, ENSMUST00000222316.1
    Conserved Domains (5) summary
    smart00502
    Location:273399
    BBC; B-Box C-terminal domain
    smart00336
    Location:224266
    BBOX; B-Box-type zinc finger
    cd00063
    Location:453532
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd12889
    Location:631796
    SPRY_PRY_TRIM67_9; PRY/SPRY domain in tripartite motif-containing proteins, TRIM9 and TRIM67
    cd16755
    Location:552
    RING-HC_TRIM9; RING finger, HC subclass, found in tripartite motif-containing protein 9 (TRIM9) and similar proteins
  6. NM_053167.3NP_444397.2  E3 ubiquitin-protein ligase TRIM9 isoform a

    See identical proteins and their annotated locations for NP_444397.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes isoform (a).
    Source sequence(s)
    AI835002, AK028280, AK034357, AK048875, AK163123, BC052034
    Consensus CDS
    CCDS49078.1
    UniProtKB/Swiss-Prot
    Q8C7M3
    UniProtKB/TrEMBL
    E9QLH4, Q3TR28
    Related
    ENSMUSP00000106151.2, ENSMUST00000110522.9
    Conserved Domains (5) summary
    smart00502
    Location:273399
    BBC; B-Box C-terminal domain
    smart00336
    Location:224266
    BBOX; B-Box-type zinc finger
    cd00063
    Location:453532
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd12889
    Location:631778
    SPRY_PRY_TRIM67_9; PRY/SPRY domain in tripartite motif-containing proteins, TRIM9 and TRIM67
    cd16755
    Location:552
    RING-HC_TRIM9; RING finger, HC subclass, found in tripartite motif-containing protein 9 (TRIM9) and similar proteins

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm38.p4 C57BL/6J

Genomic

  1. NC_000078.6 Reference GRCm38.p4 C57BL/6J

    Range
    70244531..70347614 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006516405.3XP_006516468.1  E3 ubiquitin-protein ligase TRIM9 isoform X9

    See identical proteins and their annotated locations for XP_006516468.1

    UniProtKB/TrEMBL
    A0A1Y7VP88
    Related
    ENSMUSP00000152887.1, ENSMUST00000223160.1
    Conserved Domains (5) summary
    smart00502
    Location:273399
    BBC; B-Box C-terminal domain
    smart00336
    Location:224266
    BBOX; B-Box-type zinc finger
    cd00063
    Location:453532
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd12889
    Location:529700
    SPRY_PRY_TRIM67_9; PRY/SPRY domain in tripartite motif-containing proteins, TRIM9 and TRIM67
    cd16755
    Location:552
    RING-HC_TRIM9; RING finger, HC subclass, found in tripartite motif-containing protein 9 (TRIM9) and similar proteins
  2. XM_006516404.3XP_006516467.1  E3 ubiquitin-protein ligase TRIM9 isoform X8

    Conserved Domains (5) summary
    smart00502
    Location:273399
    BBC; B-Box C-terminal domain
    smart00336
    Location:224266
    BBOX; B-Box-type zinc finger
    cd00063
    Location:453532
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd00162
    Location:938
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
    cd12889
    Location:529714
    SPRY_PRY_TRIM67_9; PRY/SPRY domain in tripartite motif-containing proteins, TRIM9 and TRIM67
  3. XM_006516403.3XP_006516466.1  E3 ubiquitin-protein ligase TRIM9 isoform X7

    Conserved Domains (5) summary
    smart00502
    Location:273399
    BBC; B-Box C-terminal domain
    smart00336
    Location:224266
    BBOX; B-Box-type zinc finger
    cd00063
    Location:453532
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd00162
    Location:938
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
    cd12889
    Location:557722
    SPRY_PRY_TRIM67_9; PRY/SPRY domain in tripartite motif-containing proteins, TRIM9 and TRIM67
  4. XM_006516401.3XP_006516464.1  E3 ubiquitin-protein ligase TRIM9 isoform X3

    Conserved Domains (5) summary
    smart00502
    Location:273399
    BBC; B-Box C-terminal domain
    smart00336
    Location:224266
    BBOX; B-Box-type zinc finger
    cd00063
    Location:453532
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd00162
    Location:938
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
    cd12889
    Location:620785
    SPRY_PRY_TRIM67_9; PRY/SPRY domain in tripartite motif-containing proteins, TRIM9 and TRIM67
  5. XM_006516402.3XP_006516465.1  E3 ubiquitin-protein ligase TRIM9 isoform X6

    Conserved Domains (5) summary
    smart00502
    Location:273399
    BBC; B-Box C-terminal domain
    smart00336
    Location:224266
    BBOX; B-Box-type zinc finger
    cd00063
    Location:453532
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd00162
    Location:938
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
    cd12889
    Location:567732
    SPRY_PRY_TRIM67_9; PRY/SPRY domain in tripartite motif-containing proteins, TRIM9 and TRIM67
  6. XM_006516400.3XP_006516463.1  E3 ubiquitin-protein ligase TRIM9 isoform X1

    Conserved Domains (5) summary
    smart00502
    Location:273399
    BBC; B-Box C-terminal domain
    smart00336
    Location:224266
    BBOX; B-Box-type zinc finger
    cd00063
    Location:453532
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd00162
    Location:938
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
    cd12889
    Location:630795
    SPRY_PRY_TRIM67_9; PRY/SPRY domain in tripartite motif-containing proteins, TRIM9 and TRIM67
  7. XM_017315265.1XP_017170754.1  E3 ubiquitin-protein ligase TRIM9 isoform X5

  8. XM_017315263.1XP_017170752.1  E3 ubiquitin-protein ligase TRIM9 isoform X2

  9. XM_017315264.1XP_017170753.1  E3 ubiquitin-protein ligase TRIM9 isoform X4

  10. XM_006516407.3XP_006516470.1  E3 ubiquitin-protein ligase TRIM9 isoform X11

    Conserved Domains (4) summary
    smart00502
    Location:273399
    BBC; B-Box C-terminal domain
    smart00336
    Location:224266
    BBOX; B-Box-type zinc finger
    cd00063
    Location:453532
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd00162
    Location:938
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
  11. XM_006516406.3XP_006516469.1  E3 ubiquitin-protein ligase TRIM9 isoform X10

    Conserved Domains (3) summary
    smart00502
    Location:273399
    BBC; B-Box C-terminal domain
    smart00336
    Location:224266
    BBOX; B-Box-type zinc finger
    cd00063
    Location:453532
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

RNA

  1. XR_381560.3 RNA Sequence

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