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TSKU tsukushi, small leucine rich proteoglycan [ Homo sapiens (human) ]

Gene ID: 25987, updated on 1-Jun-2020

Summary

Official Symbol
TSKUprovided by HGNC
Official Full Name
tsukushi, small leucine rich proteoglycanprovided by HGNC
Primary source
HGNC:HGNC:28850
See related
Ensembl:ENSG00000182704 MIM:608015
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
TSK; E2IG4; LRRC54
Expression
Broad expression in liver (RPKM 39.4), fat (RPKM 26.7) and 20 other tissues See more
Orthologs

Genomic context

See TSKU in Genome Data Viewer
Location:
11q13.5
Exon count:
5
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 11 NC_000011.10 (76782313..76798154)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (76493357..76509198)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene guanylate cyclase 2E, pseudogene Neighboring gene uncharacterized LOC105369397 Neighboring gene uncharacterized LOC101928837 Neighboring gene CRISPRi-validated cis-regulatory element chr11.4478 Neighboring gene alkaline ceramidase 3 Neighboring gene Sharpr-MPRA regulatory region 1403

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Process Evidence Code Pubs
anterior commissure morphogenesis IEA
Inferred from Electronic Annotation
more info
 
ciliary body morphogenesis IEA
Inferred from Electronic Annotation
more info
 
corpus callosum morphogenesis IEA
Inferred from Electronic Annotation
more info
 
lateral ventricle development IEA
Inferred from Electronic Annotation
more info
 
negative regulation of Wnt signaling pathway IEA
Inferred from Electronic Annotation
more info
 
regulation of gene expression IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
extracellular space IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
tsukushin
Names
E2-induced gene 4 protein
leucine rich repeat containing 54
leucine-rich repeat-containing protein 54
tsukushi homolog
tsukushi small leucine rich proteoglycan homolog

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_001258210.1NP_001245139.1  tsukushin isoform b precursor

    See identical proteins and their annotated locations for NP_001245139.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 3. The resulting isoform (b) is shorter at the N-terminus compared to isoform a. Variants 1, 2, 4, and 5 all encode isoform b.
    Source sequence(s)
    BC020975, DB199776
    Consensus CDS
    CCDS8246.1
    UniProtKB/Swiss-Prot
    Q8WUA8
    UniProtKB/TrEMBL
    A0A024R5J8
    Related
    ENSP00000482145.1, ENST00000612930.1
    Conserved Domains (3) summary
    cd00116
    Location:38291
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:6285
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:89143
    LRR_8; Leucine rich repeat
  2. NM_001318477.1NP_001305406.1  tsukushin isoform a precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) represents the longest transcript and encodes the longer isoform (a).
    Source sequence(s)
    AK126536, AP003119, BC020975
    UniProtKB/Swiss-Prot
    Q8WUA8
    Conserved Domains (3) summary
    cd00116
    Location:52305
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:7699
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:103157
    LRR_8; Leucine rich repeat
  3. NM_001318478.1NP_001305407.1  tsukushin isoform b precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and coding sequence compared to variant 3. The resulting isoform (b) is shorter at the N-terminus compared to isoform a. Variants 1, 2, 4, and 5 all encode isoform b.
    Source sequence(s)
    BC020975, DA623614
    Consensus CDS
    CCDS8246.1
    UniProtKB/Swiss-Prot
    Q8WUA8
    UniProtKB/TrEMBL
    A0A024R5J8
    Conserved Domains (3) summary
    cd00116
    Location:38291
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:6285
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:89143
    LRR_8; Leucine rich repeat
  4. NM_001318479.1NP_001305408.1  tsukushin isoform b precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR and coding sequence compared to variant 3. The resulting isoform (b) is shorter at the N-terminus compared to isoform a. Variants 1, 2, 4, and 5 all encode isoform b.
    Source sequence(s)
    BC020975, DA879213
    Consensus CDS
    CCDS8246.1
    UniProtKB/Swiss-Prot
    Q8WUA8
    UniProtKB/TrEMBL
    A0A024R5J8
    Related
    ENSP00000434847.1, ENST00000527881.1
    Conserved Domains (3) summary
    cd00116
    Location:38291
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:6285
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:89143
    LRR_8; Leucine rich repeat
  5. NM_015516.4NP_056331.2  tsukushin isoform b precursor

    See identical proteins and their annotated locations for NP_056331.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) differs in the 5' UTR and coding sequence compared to variant 3. The resulting isoform (b) is shorter at the N-terminus compared to isoform a. Variants 1, 2, 4, and 5 all encode isoform b.
    Source sequence(s)
    AK091475, BC020975
    Consensus CDS
    CCDS8246.1
    UniProtKB/Swiss-Prot
    Q8WUA8
    UniProtKB/TrEMBL
    A0A024R5J8, B3KRF9
    Related
    ENSP00000332668.4, ENST00000333090.5
    Conserved Domains (3) summary
    cd00116
    Location:38291
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:6285
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:89143
    LRR_8; Leucine rich repeat

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p13 Primary Assembly

    Range
    76782313..76798154
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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