Psip1 PC4 and SRSF1 interacting protein 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Psip1provided by RGD
Official Full Name: PC4 and SRSF1 interacting protein 1provided by RGD
Primary source: RGD:631439
See related: Ensembl:ENSRNOG00000011498 AllianceGenome:RGD:631439
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Ledgf; Psip2; SBP75
Summary: Enables supercoiled DNA binding activity. Predicted to be involved in several processes, including mRNA 5'-splice site recognition; positive regulation of transcription by RNA polymerase II; and response to heat. Located in heterochromatin and transcriptionally active chromatin. Orthologous to human PSIP1 (PC4 and SFRS1 interacting protein 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 360.6), Brain (RPKM 288.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q31

Exon count:: 17

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (102892929..102925191, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (97847010..97879280, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (101555691..101588659, complement)

Chromosome 5 - NC_086023.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Results suggest that LEDGFp52 might act as a dendritic arborization gene as well as an axonal elongation gene in RGCs and that it might be beneficial to the functional recovery of regenerating RGCs.
Title: LEDGFp52 controls rat retinal ganglion cell neurite growth in culture and regulates specific neuronal growth-associated genes and protein production.

Submit: New GeneRIF Correction

General gene information

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Markers

AU022012 (e-PCR)
- UniSTS:207632

RH134944 (e-PCR)
- UniSTS:218221

RH137948 (e-PCR)
- UniSTS:220035

BE118042 (e-PCR)
- UniSTS:248783

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor binding	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor binding	ISS Inferred from Sequence or Structural Similarity more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	ISS Inferred from Sequence or Structural Similarity more info
enables supercoiled DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables transcription coactivator activity	ISO Inferred from Sequence Orthology more info
enables transcription coactivator activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in chromatin remodeling	IBA Inferred from Biological aspect of Ancestor more info
involved_in mRNA 5'-splice site recognition	IEA Inferred from Electronic Annotation more info
involved_in mRNA 5'-splice site recognition	ISO Inferred from Sequence Orthology more info
involved_in mRNA 5'-splice site recognition	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to heat	IEA Inferred from Electronic Annotation more info
involved_in response to heat	ISO Inferred from Sequence Orthology more info
involved_in response to heat	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to oxidative stress	IEA Inferred from Electronic Annotation more info
involved_in response to oxidative stress	ISO Inferred from Sequence Orthology more info
involved_in response to oxidative stress	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
part_of euchromatin	IDA Inferred from Direct Assay more info	PubMed
part_of heterochromatin	IDA Inferred from Direct Assay more info	PubMed
part_of heterochromatin	ISO Inferred from Sequence Orthology more info
part_of heterochromatin	ISS Inferred from Sequence or Structural Similarity more info
located_in nuclear periphery	ISO Inferred from Sequence Orthology more info
located_in nuclear periphery	ISS Inferred from Sequence or Structural Similarity more info
NOT located_in nucleolus	IDA Inferred from Direct Assay more info	PubMed
NOT located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISS Inferred from Sequence or Structural Similarity more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: PC4 and SFRS1-interacting protein

Names: PC4 and SFRS1 interacting protein 1; PC4 and SFRS1 interacting protein 2; lens epithelium-derived growth factor; supercoiled DNA binding protein 75

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_175765.2 → NP_786941.1 PC4 and SFRS1-interacting protein

See identical proteins and their annotated locations for NP_786941.1

Status: PROVISIONAL

Source sequence(s)

AF339084

UniProtKB/Swiss-Prot

Q7TNY0, Q812D1

UniProtKB/TrEMBL

A0A8I5Y7G7

Related

ENSRNOP00000077371.1, ENSRNOT00000094774.1

Conserved Domains (2) summary

cd05834
Location:3 → 87

HDGF_related; The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, ...

pfam11467
Location:347 → 448

LEDGF; Lens epithelium-derived growth factor (LEDGF)

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086023.1 Reference GRCr8

Range

102892929..102925191 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063287634.1 → XP_063143704.1 PC4 and SFRS1-interacting protein isoform X2

UniProtKB/TrEMBL

A0A8I5Y7G7, F1SW39
XM_006238353.5 → XP_006238415.1 PC4 and SFRS1-interacting protein isoform X1

UniProtKB/TrEMBL

A0A8I5Y7G7, F7FJ14

Related

ENSRNOP00000016130.2

Conserved Domains (2) summary

cd05834
Location:3 → 87

HDGF_related; The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, ...

pfam11467
Location:348 → 449

LEDGF; Lens epithelium-derived growth factor (LEDGF)
XM_017593365.3 → XP_017448854.1 PC4 and SFRS1-interacting protein isoform X4

Conserved Domains (2) summary

cd05834
Location:3 → 87

HDGF_related; The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, ...

cl30717
Location:95 → 245

InfB; Translation initiation factor IF-2, a GTPase [Translation, ribosomal structure and biogenesis]
XM_008763779.4 → XP_008762001.1 PC4 and SFRS1-interacting protein isoform X6

See identical proteins and their annotated locations for XP_008762001.1

UniProtKB/TrEMBL

Q566D6

Conserved Domains (2) summary

cd05834
Location:3 → 87

HDGF_related; The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, ...

cl30717
Location:95 → 245

InfB; Translation initiation factor IF-2, a GTPase [Translation, ribosomal structure and biogenesis]
XM_017593366.3 → XP_017448855.1 PC4 and SFRS1-interacting protein isoform X8

UniProtKB/TrEMBL

A0A8I6AK62

Related

ENSRNOP00000094095.1

Conserved Domains (2) summary

cd05834
Location:3 → 87

HDGF_related; The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, ...

cl30717
Location:95 → 245

InfB; Translation initiation factor IF-2, a GTPase [Translation, ribosomal structure and biogenesis]
XM_039109886.2 → XP_038965814.1 PC4 and SFRS1-interacting protein isoform X3

Conserved Domains (2) summary

cd05834
Location:3 → 87

HDGF_related; The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, ...

cl30717
Location:95 → 245

InfB; Translation initiation factor IF-2, a GTPase [Translation, ribosomal structure and biogenesis]
XM_039109887.2 → XP_038965815.1 PC4 and SFRS1-interacting protein isoform X5

UniProtKB/TrEMBL

A0A0G2JTA2

Related

ENSRNOP00000068629.2

Conserved Domains (2) summary

cd05834
Location:3 → 87

HDGF_related; The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, ...

cl30717
Location:95 → 245

InfB; Translation initiation factor IF-2, a GTPase [Translation, ribosomal structure and biogenesis]
XM_039109888.2 → XP_038965816.1 PC4 and SFRS1-interacting protein isoform X7

Conserved Domains (2) summary

cd05834
Location:3 → 87

HDGF_related; The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, ...

cl30717
Location:95 → 245

InfB; Translation initiation factor IF-2, a GTPase [Translation, ribosomal structure and biogenesis]