CTDSPL CTD small phosphatase like [Homo sapiens (human)] - Gene

Summary

Official Symbol: CTDSPLprovided by HGNC
Official Full Name: CTD small phosphatase likeprovided by HGNC
Primary source: HGNC:HGNC:16890
See related: Ensembl:ENSG00000144677 MIM:608592; AllianceGenome:HGNC:16890
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: PSR1; SCP3; HYA22; RBSP3; C3orf8
Summary: Predicted to enable RNA polymerase II CTD heptapeptide repeat phosphatase activity. Predicted to be involved in chromatin remodeling and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within negative regulation of G1/S transition of mitotic cell cycle and negative regulation of protein phosphorylation. Located in extracellular exosome. Biomarker of lung non-small cell carcinoma. [provided by Alliance of Genome Resources, Dec 2024]
Expression: Ubiquitous expression in skin (RPKM 20.1), gall bladder (RPKM 14.9) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 3p22.2

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	3	NC_000003.12 (37861880..37984469)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	3	NC_060927.1 (37866043..37988649)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	3	NC_000003.11 (37903371..38025960)

Chromosome 3 - NC_000003.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Tissue-specific circular RNA induction during human fetal development
Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
BioProject: PRJNA270632
Publication: PMID 26076956
Analysis date: Mon Apr 2 22:54:59 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Hsa-miR-503-5p regulates CTDSPL to accelerate cisplatin resistance and angiogenesis of lung adenocarcinoma cells.
Title: Hsa-miR-503-5p regulates CTDSPL to accelerate cisplatin resistance and angiogenesis of lung adenocarcinoma cells.
Tumor suppressor properties of the small C-terminal domain phosphatases in non-small cell lung cancer.
Title: Tumor suppressor properties of the small C-terminal domain phosphatases in non-small cell lung cancer.
we have presented herein the novel finding that miR-181b contributes to cell cycle progression through depressing the expression of CTDSPL, which in turn activates the downstream effector E2F1 and promotes S-phase entry.
Title: The miR-181 family promotes cell cycle by targeting CTDSPL, a phosphatase-like tumor suppressor in uveal melanoma.
our data also suggests the importance ofLIMD1 and CDC25A in conjunction with HPV for use as diagnostic and prognostic markers of HNSCC, whereas RBSP3 as a prognostic marker only.
Title: Differential transmission of the molecular signature of RBSP3, LIMD1 and CDC25A in basal/ parabasal versus spinous of normal epithelium during head and neck tumorigenesis: A mechanistic study.
data suggest that overexpression of p-RB1 in basal-parabasal layers of normal cervical epithelium was due to methylation/low functional-linked non-synonimous SNPs of P16 and RBSP3. This pattern was maintained during cervical carcinogenesis by additional deletion/mutation
Title: Association of P16-RBSP3 inactivation with phosphorylated RB1 overexpression in basal-parabasal layers of normal cervix unchanged during CACX development.
CTDSPL and Rb directly interact and can be involved in the common mechanism of cell cycle regulation.
Title: [Interaction of two tumor suppressors: Phosphatase CTDSPL and Rb protein].
identified RBSP3, a phosphatase-like tumor suppressor, as a bona fide target of miR-100 and validated that RBSP3 was involved in cell differentiation and survival in acute myeloid leukemia
Title: MiR-100 regulates cell differentiation and survival by targeting RBSP3, a phosphatase-like tumor suppressor in acute myeloid leukemia.
tumor suppressor genes RBSP3/CTDSPL, NPRL2/G21 and RASSF1A are downregulated in primary non-small cell lung cancer
Title: Simultaneous down-regulation of tumor suppressor genes RBSP3/CTDSPL, NPRL2/G21 and RASSF1A in primary non-small cell lung cancer.
dysregulation of hMLH1, ITGA9, and RBSP3 associated multiple cellular pathways are needed for the development of early dysplastic lesions of the head and neck.
Title: Frequent alterations of the candidate genes hMLH1, ITGA9 and RBSP3 in early dysplastic lesions of head and neck: clinical and prognostic significance.
Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.

Submit: New GeneRIF Correction See all GeneRIFs (17)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
A genome-wide association study of breast and prostate cancer in the NHLBI's Framingham Heart Study. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

G32937 (e-PCR)
- UniSTS:117515

SHGC-33953 (e-PCR)
- UniSTS:76563

RH16286 (e-PCR)
- UniSTS:40472

G32964 (e-PCR)
- UniSTS:117541

RH36200 (e-PCR)
- UniSTS:75823

CTDSPL_3523 (e-PCR)
- UniSTS:462132

SHGC-81988 (e-PCR)
- UniSTS:102966

RH44586 (e-PCR)
- UniSTS:35659

G29265 (e-PCR)
- UniSTS:65380

SHGC-34330 (e-PCR)
- UniSTS:32883

SHGC-132579 (e-PCR)
- UniSTS:173955

A009X11 (e-PCR)
- UniSTS:83076

A009X46 (e-PCR)
- UniSTS:15503

SHGC-36278 (e-PCR)
- UniSTS:38549

D3S3077 (e-PCR)
- UniSTS:74685

RH12233 (e-PCR)
- UniSTS:55022

D3S4237 (e-PCR)
- UniSTS:1007

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables MAP kinase serine/threonine phosphatase activity	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II CTD heptapeptide repeat S2 phosphatase activity	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II CTD heptapeptide repeat S5 phosphatase activity	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II CTD heptapeptide repeat S7 phosphatase activity	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II CTD heptapeptide repeat T4 phosphatase activity	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II CTD heptapeptide repeat Y1 phosphatase activity	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II CTD heptapeptide repeat phosphatase activity	IBA Inferred from Biological aspect of Ancestor more info
enables calmodulin-dependent protein phosphatase activity	IEA Inferred from Electronic Annotation more info
enables histone H2AXS140 phosphatase activity	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables myosin phosphatase activity	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of G1/S transition of mitotic cell cycle	IEA Inferred from Electronic Annotation more info
involved_in regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in extracellular exosome	HDA more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: CTD small phosphatase-like protein

Names: CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase-like; CTDSP-like; NIF-like protein; NLI-interacting factor 1; RB protein serine phosphatase from chromosome 3; carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 3; nuclear LIM interactor-interacting factor 1; small C-terminal domain phosphatase 3; small CTD phosphatase 3

NP_001008393.1

EC 3.1.3.16

NP_005799.2

EC 3.1.3.16

XP_016861008.1

EC 3.1.3.16

XP_016861009.1

EC 3.1.3.16

XP_047303138.1

EC 3.1.3.16

XP_054200880.1

EC 3.1.3.16

XP_054200881.1

EC 3.1.3.16

XP_054200882.1

EC 3.1.3.16

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)

NM_001008392.2 → NP_001008393.1 CTD small phosphatase-like protein isoform 1

See identical proteins and their annotated locations for NP_001008393.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).

Source sequence(s)

AC093415, AC105752, AI143812, AJ575645

Consensus CDS

CCDS33734.1

UniProtKB/Swiss-Prot

O15194, Q3ZTU0, Q70KI4, Q7Z5Q2

Related

ENSP00000273179.5, ENST00000273179.10

Conserved Domains (1) summary

TIGR02251
Location:106 → 265

HIF-SF_euk; Dullard-like phosphatase domain
NM_005808.3 → NP_005799.2 CTD small phosphatase-like protein isoform 2

See identical proteins and their annotated locations for NP_005799.2

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks an in-frame exon, compared to variant 1, resulting in a shorter protein (isoform 2) compared to isoform 1.

Source sequence(s)

AC093415, AC105752, AI192993, AJ575644

Consensus CDS

CCDS33735.1

UniProtKB/Swiss-Prot

O15194

Related

ENSP00000398288.2, ENST00000443503.6

Conserved Domains (1) summary

TIGR02251
Location:95 → 254

HIF-SF_euk; Dullard-like phosphatase domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000003.12 Reference GRCh38.p14 Primary Assembly

Range

37861880..37984469

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017005519.2 → XP_016861008.1 CTD small phosphatase-like protein isoform X1

UniProtKB/TrEMBL

H7C353

Related

ENSP00000409600.2, ENST00000436654.2

Conserved Domains (1) summary

TIGR02251
Location:106 → 265

HIF-SF_euk; Dullard-like phosphatase domain
XM_047447182.1 → XP_047303138.1 CTD small phosphatase-like protein isoform X2
XM_017005520.2 → XP_016861009.1 CTD small phosphatase-like protein isoform X3

Reference GRCh38.p14 PATCHES

Genomic

NW_025791771.1 Reference GRCh38.p14 PATCHES

Range

434537..434935

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

NC_060927.1 Alternate T2T-CHM13v2.0

Range

37866043..37988649

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054344905.1 → XP_054200880.1 CTD small phosphatase-like protein isoform X1

UniProtKB/TrEMBL

H7C353
XM_054344906.1 → XP_054200881.1 CTD small phosphatase-like protein isoform X2
XM_054344907.1 → XP_054200882.1 CTD small phosphatase-like protein isoform X3