Zfp335 zinc finger protein 335 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Zfp335provided by RGD
Full Name: zinc finger protein 335provided by RGD
Primary source: RGD:628751
See related: Ensembl:ENSRNOG00000017290 AllianceGenome:RGD:628751
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Nif; Nif1; Znf335
Summary: Predicted to enable RNA polymerase II cis-regulatory region sequence-specific DNA binding activity and nuclear receptor coactivator activity. Predicted to be involved in several processes, including histone H3-K4 trimethylation; nervous system development; and regulation of gene expression. Predicted to act upstream of or within in utero embryonic development and nervous system development. Predicted to be located in nucleoplasm. Predicted to be part of histone methyltransferase complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in primary autosomal recessive microcephaly 10. Orthologous to human ZNF335 (zinc finger protein 335). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 80.2), Lung (RPKM 74.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q42

Exon count:: 28

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (174046789..174073076, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (153618587..153648213, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (161357201..161378073, complement)

Chromosome 3 - NC_086021.1 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
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 NIF-1 directs neuronal morphogenesis during early developmental stages through modulating activity-dependent gene transcription
Title: NRC-interacting factor directs neurite outgrowth in an activity-dependent manner.

Submit: New GeneRIF Correction

General gene information

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Markers

BM385093 (e-PCR)
- UniSTS:260958

RH139455 (e-PCR)
- UniSTS:221541

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables histone methyltransferase binding	IEA Inferred from Electronic Annotation more info
enables histone methyltransferase binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nuclear receptor coactivator activity	ISS Inferred from Sequence or Structural Similarity more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transcription cis-regulatory region binding	ISO Inferred from Sequence Orthology more info
enables transcription cis-regulatory region binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in brain development	IBA Inferred from Biological aspect of Ancestor more info
involved_in brain development	ISO Inferred from Sequence Orthology more info
involved_in brain development	ISS Inferred from Sequence or Structural Similarity more info
involved_in brain morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within brain morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in cerebral cortex neuron differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cerebral cortex neuron differentiation	ISO Inferred from Sequence Orthology more info
involved_in epigenetic regulation of gene expression	IEA Inferred from Electronic Annotation more info
involved_in epigenetic regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in epigenetic regulation of gene expression	ISS Inferred from Sequence or Structural Similarity more info
involved_in in utero embryonic development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within in utero embryonic development	ISO Inferred from Sequence Orthology more info
involved_in neuron projection morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within neuron projection morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in neuron projection morphogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of lymphocyte proliferation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of lymphocyte proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of lymphocyte proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of neuroblast proliferation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of neuroblast proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of neuroblast proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of neurogenesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of neurogenesis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of gene expression	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of neurogenesis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of histone methyltransferase complex	IEA Inferred from Electronic Annotation more info
part_of histone methyltransferase complex	ISO Inferred from Sequence Orthology more info
part_of histone methyltransferase complex	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology 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: zinc finger protein 335

Names: NRC-interacting factor 1; zinc-finger/leucine-zipper co-transducer NIF-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)

NM_001100486.2 → NP_001093956.2 zinc finger protein 335

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/Swiss-Prot

G3V893, Q8CIV9

UniProtKB/TrEMBL

A0A8I5Y9K3

Related

ENSRNOP00000097203.1, ENSRNOT00000110042.1

Conserved Domains (5) summary

PHA03307
Location:713 → 1045

PHA03307; transcriptional regulator ICP4; Provisional

sd00017
Location:1048 → 1068

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:562 → 584

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:1088 → 1113

zf-H2C2_2; Zinc-finger double domain

pfam13909
Location:1074 → 1098

zf-H2C2_5; C2H2-type zinc-finger domain

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_086021.1 Reference GRCr8

Range

174046789..174073076 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039104392.2 → XP_038960320.1 zinc finger protein 335 isoform X2

UniProtKB/TrEMBL

A0A8I5Y9K3

Conserved Domains (5) summary

PHA03307
Location:714 → 1046

PHA03307; transcriptional regulator ICP4; Provisional

sd00017
Location:1049 → 1069

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:563 → 585

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:1089 → 1114

zf-H2C2_2; Zinc-finger double domain

pfam13909
Location:1075 → 1099

zf-H2C2_5; C2H2-type zinc-finger domain
XM_063283171.1 → XP_063139241.1 zinc finger protein 335 isoform X1
XM_063283172.1 → XP_063139242.1 zinc finger protein 335 isoform X1
XM_039104393.2 → XP_038960321.1 zinc finger protein 335 isoform X3

Conserved Domains (4) summary

PHA03307
Location:185 → 517

PHA03307; transcriptional regulator ICP4; Provisional

sd00017
Location:520 → 540

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam13465
Location:560 → 585

zf-H2C2_2; Zinc-finger double domain

pfam13909
Location:546 → 570

zf-H2C2_5; C2H2-type zinc-finger domain