Tnp1 transition protein 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Tnp1provided by RGD
Official Full Name: transition protein 1provided by RGD
Primary source: RGD:3884
See related: EnsemblRapid:ENSRNOG00000017611 AllianceGenome:RGD:3884
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
Summary: Predicted to enable DNA binding activity. Predicted to be involved in several processes, including chromatin organization; regulation of gene expression; and spermatid nucleus elongation. Predicted to act upstream of or within spermatogenesis. Located in male germ cell nucleus. Orthologous to human TNP1 (transition protein 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Restricted expression toward (RPKM 14903.8) See more
Orthologs: human mouse all
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Genomic context

Location:: 9q33

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	9	NC_086027.1 (82043669..82044278, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	9	NC_051344.1 (74594463..74595072, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	9	NC_005108.4 (80294837..80295446, complement)

Chromosome 9 - NC_086027.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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 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?

TP1 and TP2 may have concerted functional roles during chromatin remodeling in mammalian spermiogenesis.
Title: Spatiotemporal organization of AT- and GC-rich DNA and their association with transition proteins TP1 and TP2 in rat condensing spermatids.
Results suggest that Sertoli cell-derived androgen-binding protein acts on spermatids by modifying the transition protein-1 mRNA level.
Title: Effects of androgen-binding protein (ABP) on spermatid Tnp1 gene expression in vitro.

Submit: New GeneRIF Correction

General gene information

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Markers

Tnp1 (e-PCR), detects polymorphism
- UniSTS:526985

PMC141152P1 (e-PCR)
- UniSTS:270992

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in chromatin remodeling	IBA Inferred from Biological aspect of Ancestor more info
involved_in chromatin remodeling	ISO Inferred from Sequence Orthology more info
involved_in chromatin remodeling	ISS Inferred from Sequence or Structural Similarity more info
involved_in flagellated sperm motility	ISO Inferred from Sequence Orthology more info
involved_in flagellated sperm motility	ISS Inferred from Sequence or Structural Similarity more info
involved_in heterochromatin formation	ISO Inferred from Sequence Orthology more info
involved_in heterochromatin formation	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity more info
involved_in nucleosome disassembly	ISO Inferred from Sequence Orthology more info
involved_in nucleosome disassembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of protein processing	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein processing	ISS Inferred from Sequence or Structural Similarity more info
involved_in sexual reproduction	ISO Inferred from Sequence Orthology more info
involved_in sexual reproduction	ISS Inferred from Sequence or Structural Similarity more info
involved_in single strand break repair	ISO Inferred from Sequence Orthology more info
involved_in single strand break repair	ISS Inferred from Sequence or Structural Similarity more info
involved_in sperm DNA condensation	ISO Inferred from Sequence Orthology more info
involved_in sperm DNA condensation	ISS Inferred from Sequence or Structural Similarity more info
involved_in spermatid development	ISO Inferred from Sequence Orthology more info
involved_in spermatid development	ISS Inferred from Sequence or Structural Similarity more info
involved_in spermatid nucleus elongation	IBA Inferred from Biological aspect of Ancestor more info
involved_in spermatid nucleus elongation	ISO Inferred from Sequence Orthology more info
involved_in spermatid nucleus elongation	ISS Inferred from Sequence or Structural Similarity more info
involved_in spermatogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within spermatogenesis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in male germ cell nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in male germ cell nucleus	IDA Inferred from Direct Assay more info	PubMed
part_of nucleosome	IBA Inferred from Biological aspect of Ancestor more info
part_of nucleosome	IEA Inferred from Electronic Annotation more info
part_of nucleosome	ISO Inferred from Sequence Orthology more info
part_of nucleosome	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: spermatid nuclear transition protein 1

Names: STP-1; TP-1; testis-specific basic protein

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.