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Ctdspl2 CTD small phosphatase like 2 [ Mus musculus (house mouse) ]

Gene ID: 329506, updated on 21-Apr-2024

Summary

Official Symbol
Ctdspl2provided by MGI
Official Full Name
CTD small phosphatase like 2provided by MGI
Primary source
MGI:MGI:1196405
See related
Ensembl:ENSMUSG00000033411 AllianceGenome:MGI:1196405
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
Also known as
SCP4; D2Ertd485e
Summary
Enables phosphoprotein phosphatase activity. Acts upstream of or within negative regulation of BMP signaling pathway; positive regulation of protein export from nucleus; and protein dephosphorylation. Located in nucleus. Is expressed in several structures, including adrenal gland; brain; gallbladder; genitourinary system; and gut. Orthologous to human CTDSPL2 (CTD small phosphatase like 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in limb E14.5 (RPKM 7.0), CNS E11.5 (RPKM 6.7) and 24 other tissues See more
Orthologs
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Genomic context

Location:
2 E5; 2 60.46 cM
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (121785879..121845807)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (121955398..122015326)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_05541 Neighboring gene golgi membrane protein 2 Neighboring gene STARR-seq mESC enhancer starr_05542 Neighboring gene STARR-seq mESC enhancer starr_05544 Neighboring gene STARR-seq mESC enhancer starr_05545 Neighboring gene predicted gene, 39916 Neighboring gene MAGE family member B3 Neighboring gene STARR-positive B cell enhancer ABC_E1597 Neighboring gene eukaryotic translation initiation factor 3, subunit J1 Neighboring gene SPG11, spatacsin vesicle trafficking associated Neighboring gene STARR-seq mESC enhancer starr_05546 Neighboring gene STARR-positive B cell enhancer ABC_E512 Neighboring gene protein associated with topoisomerase II homolog 2 (yeast) Neighboring gene beta-2 microglobulin

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 Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Gene trapped (1) 
  • Targeted (2) 
  • Endonuclease-mediated (2) 

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA polymerase II CTD heptapeptide repeat phosphatase activity ISO
Inferred from Sequence Orthology
more info
 
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
enables phosphatase activity IEA
Inferred from Electronic Annotation
more info
 
enables phosphoprotein phosphatase activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables phosphoprotein phosphatase activity IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
CTD small phosphatase-like protein 2
Names
CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase like 2
CTDSP-like 2
NP_001277920.1
NP_001277921.1
NP_997615.1
XP_011237929.1

NCBI Reference Sequences (RefSeq)

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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_001290991.1NP_001277920.1  CTD small phosphatase-like protein 2 isoform b

    See identical proteins and their annotated locations for NP_001277920.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1, resulting in an isoform (b) that is 1 aa shorter than isoform a.
    Source sequence(s)
    AK039162, AK053513, AK163262, BB183048
    Consensus CDS
    CCDS71130.1
    UniProtKB/Swiss-Prot
    Q8BG15
    Related
    ENSMUSP00000106207.2, ENSMUST00000110578.8
    Conserved Domains (1) summary
    TIGR02251
    Location:285446
    HIF-SF_euk; Dullard-like phosphatase domain
  2. NM_001290992.1NP_001277921.1  CTD small phosphatase-like protein 2 isoform c

    See identical proteins and their annotated locations for NP_001277921.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site in the 5' region, and it thus differs in its 5' UTR and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (c) is shorter at the N-terminus, compared to isoform a.
    Source sequence(s)
    AK033382, AK039162, AK163262, BB183048
    UniProtKB/Swiss-Prot
    Q8BG15
    Conserved Domains (1) summary
    TIGR02251
    Location:172327
    HIF-SF_euk; Dullard-like phosphatase domain
  3. NM_212450.4NP_997615.1  CTD small phosphatase-like protein 2 isoform a

    See identical proteins and their annotated locations for NP_997615.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
    Source sequence(s)
    AK033382, AK039162, AK163262, BB183048
    Consensus CDS
    CCDS16652.1
    UniProtKB/Swiss-Prot
    A2ARL6, Q3TF86, Q3TQW7, Q3TV36, Q7TPZ9, Q8BG15, Q8BPR3, Q8C9S0, Q8CEG6
    Related
    ENSMUSP00000047543.7, ENSMUST00000036647.13
    Conserved Domains (1) summary
    TIGR02251
    Location:286447
    HIF-SF_euk; Dullard-like phosphatase domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000068.8 Reference GRCm39 C57BL/6J

    Range
    121785879..121845807
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011239627.3XP_011237929.1  CTD small phosphatase-like protein 2 isoform X1

    See identical proteins and their annotated locations for XP_011237929.1

    Conserved Domains (1) summary
    cl21460
    Location:286322
    HAD_like; Haloacid Dehalogenase-like Hydrolases

RNA

  1. XR_001783138.2 RNA Sequence

  2. XR_003953663.1 RNA Sequence

  3. XR_003953664.1 RNA Sequence