fmr1 fragile X messenger ribonucleoprotein 1 [Xenopus tropicalis (tropical clawed frog)] - Gene

Summary

Official Symbol: fmr1provided by Xenbase
Official Full Name: fragile X messenger ribonucleoprotein 1provided by Xenbase
Primary source: Xenbase:XB-GENE-977113
See related: Ensembl:ENSXETG00000019647
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Xenopus tropicalis
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Silurana
Also known as: fmrp; fmr-1; fraxa; fmr1-a; fmr1-b
Orthologs: human mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: chromosome: 8

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
104	current	UCB_Xtro_10.0 (GCF_000004195.4)	8	NC_030684.2 (56990711..57010718)
103	previous assembly	Xenopus_tropicalis_v9.1 (GCF_000004195.3)	8	NC_030684.1 (35799345..35819775)

Chromosome 8 - NC_030684.2 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Bibliography

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Fmr1 is expressed ubiquitously throughout the embryo during embryonic development.
Title: Two members of the Fxr gene family, Fmr1 and Fxr1, are differentially expressed in Xenopus tropicalis.

Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Gene Ontology Provided by Xenbase

Function	Evidence Code	Pubs
enables G-quadruplex RNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables N6-methyladenosine-containing RNA reader activity	ISS Inferred from Sequence or Structural Similarity more info
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables RNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables RNA stem-loop binding	ISS Inferred from Sequence or Structural Similarity more info
enables RNA strand annealing activity	ISS Inferred from Sequence or Structural Similarity more info
enables chromatin binding	ISS Inferred from Sequence or Structural Similarity more info
enables dynein complex binding	ISS Inferred from Sequence or Structural Similarity more info
enables mRNA 3'-UTR binding	IBA Inferred from Biological aspect of Ancestor more info
enables mRNA 3'-UTR binding	ISS Inferred from Sequence or Structural Similarity more info
enables mRNA 5'-UTR binding	ISS Inferred from Sequence or Structural Similarity more info
enables mRNA binding	IEA Inferred from Electronic Annotation more info
enables mRNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables methylated histone binding	ISS Inferred from Sequence or Structural Similarity more info
enables miRNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables microtubule binding	ISS Inferred from Sequence or Structural Similarity more info
enables molecular condensate scaffold activity	ISS Inferred from Sequence or Structural Similarity more info
enables poly(G) binding	ISS Inferred from Sequence or Structural Similarity more info
enables poly(U) RNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein heterodimerization activity	ISS Inferred from Sequence or Structural Similarity more info
enables protein homodimerization activity	ISS Inferred from Sequence or Structural Similarity more info
enables sequence-specific mRNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables siRNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables translation regulator activity	IBA Inferred from Biological aspect of Ancestor more info
enables translation repressor activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA repair	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within RNA splicing	IEA Inferred from Electronic Annotation more info
involved_in animal organ development	IBA Inferred from Biological aspect of Ancestor more info
involved_in biological_process	ND No biological Data available more info
acts_upstream_of_or_within glutamate receptor signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within mRNA export from nucleus	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in mRNA transport	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within mRNA transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mRNA transport	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within_positive_effect miRNA-mediated post-transcriptional gene silencing	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within negative regulation of cytoplasmic translation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within negative regulation of gene expression	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within negative regulation of long-term synaptic depression	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within negative regulation of miRNA-mediated gene silencing	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within negative regulation of synaptic vesicle exocytosis	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within negative regulation of translation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within negative regulation of translational initiation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within negative regulation of voltage-gated calcium channel activity	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within nervous system development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within non-membrane-bounded organelle assembly	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within positive regulation of dendritic spine development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within positive regulation of filopodium assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of long-term neuronal synaptic plasticity	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within positive regulation of miRNA-mediated gene silencing	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within positive regulation of proteasomal protein catabolic process	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within positive regulation of receptor internalization	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of translation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within positive regulation of translation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within regulation of alternative mRNA splicing, via spliceosome	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within regulation of dendritic spine development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within regulation of filopodium assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of mRNA stability	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of mRNA stability	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within regulation of neuronal action potential	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within regulation of neurotransmitter secretion	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within regulation of translation	IEA Inferred from Electronic Annotation more info
involved_in regulation of translation at presynapse, modulating synaptic transmission	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within skeletal muscle organ development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within stress granule assembly	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
part_of SMN complex	ISS Inferred from Sequence or Structural Similarity more info
located_in axon	IEA Inferred from Electronic Annotation more info
located_in axon	ISS Inferred from Sequence or Structural Similarity more info
located_in axon terminus	ISS Inferred from Sequence or Structural Similarity more info
located_in cell projection	ISS Inferred from Sequence or Structural Similarity more info
located_in chromocenter	ISS Inferred from Sequence or Structural Similarity more info
located_in chromosome	IEA Inferred from Electronic Annotation more info
located_in chromosome	ISS Inferred from Sequence or Structural Similarity more info
located_in chromosome, centromeric region	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasmic ribonucleoprotein granule	ISS Inferred from Sequence or Structural Similarity more info
is_active_in cytoplasmic stress granule	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasmic stress granule	IEA Inferred from Electronic Annotation more info
is_active_in cytoplasmic stress granule	ISS Inferred from Sequence or Structural Similarity more info
located_in dendrite	IEA Inferred from Electronic Annotation more info
located_in dendrite	ISS Inferred from Sequence or Structural Similarity more info
located_in dendritic filopodium	ISS Inferred from Sequence or Structural Similarity more info
located_in dendritic spine	IEA Inferred from Electronic Annotation more info
located_in dendritic spine	ISS Inferred from Sequence or Structural Similarity more info
located_in filopodium tip	IEA Inferred from Electronic Annotation more info
located_in filopodium tip	ISS Inferred from Sequence or Structural Similarity more info
located_in glial cell projection	ISS Inferred from Sequence or Structural Similarity more info
located_in growth cone	IEA Inferred from Electronic Annotation more info
located_in growth cone	ISS Inferred from Sequence or Structural Similarity more info
located_in growth cone filopodium	ISS Inferred from Sequence or Structural Similarity more info
is_active_in intracellular non-membrane-bounded organelle	ISS Inferred from Sequence or Structural Similarity more info
is_active_in neuron projection	IBA Inferred from Biological aspect of Ancestor more info
located_in neuron projection	IEA Inferred from Electronic Annotation more info
located_in neuron projection	ISS Inferred from Sequence or Structural Similarity more info
is_active_in neuronal ribonucleoprotein granule	ISS Inferred from Sequence or Structural Similarity more info
located_in neuronal ribonucleoprotein granule	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleolus	IEA Inferred from Electronic Annotation more info
located_in nucleolus	ISS Inferred from Sequence or Structural Similarity 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	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in perikaryon	IEA Inferred from Electronic Annotation more info
located_in perikaryon	ISS Inferred from Sequence or Structural Similarity more info
located_in perinuclear region of cytoplasm	IEA Inferred from Electronic Annotation more info
located_in perinuclear region of cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in postsynapse	ISS Inferred from Sequence or Structural Similarity more info
located_in postsynaptic density	ISS Inferred from Sequence or Structural Similarity more info
located_in postsynaptic membrane	IEA Inferred from Electronic Annotation more info
located_in presynapse	ISS Inferred from Sequence or Structural Similarity more info
located_in presynaptic membrane	IEA Inferred from Electronic Annotation more info
part_of ribonucleoprotein complex	IEA Inferred from Electronic Annotation more info
located_in synapse	IEA Inferred from Electronic Annotation more info
located_in synapse	ISS Inferred from Sequence or Structural Similarity more info

General protein information

Go to the top of the page Help

Preferred Names: fragile X messenger ribonucleoprotein 1 homolog; synaptic functional regulator FMR1

Names: FMRP translational regulator 1; protein FMR-1; xtFmrp

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001005454.1 → NP_001005454.1 fragile X messenger ribonucleoprotein 1 homolog

See identical proteins and their annotated locations for NP_001005454.1

Status: PROVISIONAL

Source sequence(s)

BC074570

UniProtKB/Swiss-Prot

Q6GLC9

UniProtKB/TrEMBL

A0A5S6KZS2, A0A5S6N515

Related

ENSXETP00000042153.5, ENSXETT00000042153.5

Conserved Domains (6) summary

smart00322
Location:221 → 280

KH; K homology RNA-binding domain

pfam00013
Location:285 → 351

KH_1; KH domain

pfam12235
Location:354 → 485

FXMRP1_C_core; Fragile X-related 1 protein core C terminal

pfam16098
Location:508 → 590

FXMR_C2; Fragile X-related mental retardation protein C-terminal region 2

pfam17904
Location:123 → 207

KH_9; FMRP KH0 domain

pfam18336
Location:4 → 52

Tudor_FRX1; Fragile X mental retardation Tudor domain

RefSeqs of Annotated Genomes: Xenopus tropicalis Annotation Release 104 details...

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

Reference UCB_Xtro_10.0 Primary Assembly

Genomic

NC_030684.2 Reference UCB_Xtro_10.0 Primary Assembly

Range

56990711..57010718

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_012968194.3 → XP_012823648.2 synaptic functional regulator FMR1 isoform X1

UniProtKB/TrEMBL

A0A5S6N7H5, A0A8J0SSP7

Related

ENSXETP00000042520.5, ENSXETT00000042520.5

Conserved Domains (5) summary

pfam12235
Location:354 → 458

FXMRP1_C_core; Fragile X-related 1 protein core C terminal

pfam16098
Location:482 → 564

FXMR_C2; Fragile X-related mental retardation protein C-terminal region 2

cd20471
Location:1 → 55

Tudor_Agenet_FMR1_rpt1; first Tudor-like Agenet domain found in synaptic functional regulator FMR1 and similar proteins

cd20474
Location:58 → 120

Tudor_Agenet_FMR1_rpt2; second Tudor-like Agenet domain found in synaptic functional regulator FMR1 and similar proteins

cl00098
Location:123 → 199

KH-I; K homology (KH) RNA-binding domain, type I