U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Celf3 CUGBP, Elav-like family member 3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 499669, updated on 2-Nov-2024

Summary

Go to the top of the page Help
Official Symbol
Celf3provided by RGD
Official Full Name
CUGBP, Elav-like family member 3provided by RGD
Primary source
RGD:1563168
See related
EnsemblRapid:ENSRNOG00000020875 AllianceGenome:RGD:1563168
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
Tnrc4; RGD1563168
Summary
Predicted to enable 7SK snRNA binding activity and mRNA binding activity. Predicted to be involved in mRNA splice site recognition; positive regulation of mRNA splicing, via spliceosome; and regulation of alternative mRNA splicing, via spliceosome. Predicted to act upstream of or within several processes, including flagellated sperm motility; lncRNA transcription; and nuclear body organization. Predicted to be located in nuclear body. Predicted to be part of ribonucleoprotein complex. Predicted to be active in cytoplasm and nucleus. Orthologous to human CELF3 (CUGBP Elav-like family member 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Brain (RPKM 32.8), Adrenal (RPKM 20.3) and 8 other tissues See more
Orthologs
human mouse all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See Celf3 in Genome Data Viewer
Location:
2q34
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (184805078..184819189)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (182116034..182130163)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (195716373..195732872)

Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102556390 Neighboring gene mitochondrial ribosomal protein L9 Neighboring gene regulatory subunit of type II PKA R-subunit domain containing 1 Neighboring gene sorting nexin 27 Neighboring gene uncharacterized LOC134485647 Neighboring gene nuclear receptor binding factor 2 like 1

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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

Go to the top of the pageHelp

Related articles in PubMed

  1. Expression, localization and tau exon 10 splicing activity of the brain RNA-binding protein TNRC4. Chapple JP, et al. Hum Mol Genet, 2007 Nov 15. PMID 17725984
  2. Mice deficient for RNA-binding protein brunol1 show reduction of spermatogenesis but are fertile. Dev A, et al. Mol Reprod Dev, 2007 Nov. PMID 17393433
  3. The CELF family of RNA binding proteins is implicated in cell-specific and developmentally regulated alternative splicing. Ladd AN, et al. Mol Cell Biol, 2001 Feb. PMID 11158314, Free PMC Article
  4. Tau exon 10, whose missplicing causes frontotemporal dementia, is regulated by an intricate interplay of cis elements and trans factors. Wang J, et al. J Neurochem, 2004 Mar. PMID 15009664
  5. Formation of nuclear bodies by the lncRNA Gomafu-associating proteins Celf3 and SF1. Ishizuka A, et al. Genes Cells, 2014 Sep. PMID 25145264, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

Go to the top of the page Help

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables 7SK snRNA binding ISO
Inferred from Sequence Orthology
more info
  
enables RNA binding ISO
Inferred from Sequence Orthology
more info
  
enables mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in RNA splicing ISO
Inferred from Sequence Orthology
more info
  
involved_in biological_process ND
No biological Data available
more info
  
acts_upstream_of_or_within flagellated sperm motility ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within lncRNA transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in mRNA splice site recognition IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within nuclear body organization ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of alternative mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of alternative mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within spermatogenesis ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear body ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
part_of ribonucleoprotein complex IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

Go to the top of the page Help
Preferred Names
CUGBP Elav-like family member 3
Names
CUG-BP- and ETR-3-like factor 3
trinucleotide repeat containing 4

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)

  1. NM_001109190.2 → NP_001102660.1  CUGBP Elav-like family member 3

    See identical proteins and their annotated locations for NP_001102660.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000002
    UniProtKB/TrEMBL
    A6K2R6
    Conserved Domains (4) summary
    PRK12323
    Location:214 → 351
    PRK12323; DNA polymerase III subunit gamma/tau
    cd12639
    Location:384 → 462
    RRM3_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
    cd12632
    Location:2 → 88
    RRM1_CELF3_4_5_6; RNA recognition motif 1 (RRM1) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
    cd12635
    Location:94 → 174
    RRM2_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins

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

  1. NC_086020.1 Reference GRCr8

    Range
    184805078..184819189
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063282393.1 → XP_063138463.1  CUGBP Elav-like family member 3 isoform X21

  2. XM_063282398.1 → XP_063138468.1  CUGBP Elav-like family member 3 isoform X25

  3. XM_063282388.1 → XP_063138458.1  CUGBP Elav-like family member 3 isoform X19

  4. XM_063282399.1 → XP_063138469.1  CUGBP Elav-like family member 3 isoform X26

  5. XM_063282390.1 → XP_063138460.1  CUGBP Elav-like family member 3 isoform X20

  6. XM_008761322.4 → XP_008759544.1  CUGBP Elav-like family member 3 isoform X1

    See identical proteins and their annotated locations for XP_008759544.1

    UniProtKB/TrEMBL
    A0A8I6AGJ7
    Related
    ENSRNOP00000092441.1, ENSRNOT00000115671.2
    Conserved Domains (4) summary
    TIGR01645
    Location:8 → 491
    half-pint; poly-U binding splicing factor, half-pint family
    cd12639
    Location:412 → 490
    RRM3_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
    cd12632
    Location:2 → 88
    RRM1_CELF3_4_5_6; RNA recognition motif 1 (RRM1) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
    cd12635
    Location:94 → 174
    RRM2_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins

  7. XM_006232904.5 → XP_006232966.1  CUGBP Elav-like family member 3 isoform X8

    See identical proteins and their annotated locations for XP_006232966.1

    UniProtKB/TrEMBL
    D4A916
    Conserved Domains (4) summary
    TIGR01628
    Location:21 → 225
    PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
    PRK14951
    Location:174 → 300
    PRK14951; DNA polymerase III subunits gamma and tau; Provisional
    cd12639
    Location:336 → 414
    RRM3_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
    cd12635
    Location:18 → 98
    RRM2_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins

  8. XM_063282394.1 → XP_063138464.1  CUGBP Elav-like family member 3 isoform X22

  9. XM_039102932.2 → XP_038958860.1  CUGBP Elav-like family member 3 isoform X9

    UniProtKB/TrEMBL
    D4A916
    Conserved Domains (4) summary
    TIGR01628
    Location:30 → 224
    PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
    PRK14951
    Location:173 → 299
    PRK14951; DNA polymerase III subunits gamma and tau; Provisional
    cd12639
    Location:335 → 413
    RRM3_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
    cd12635
    Location:17 → 97
    RRM2_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins

  10. XM_063282401.1 → XP_063138471.1  CUGBP Elav-like family member 3 isoform X27

  11. XM_063282380.1 → XP_063138450.1  CUGBP Elav-like family member 3 isoform X11

    Related
    ENSRNOP00000028324.7, ENSRNOT00000028324.9

  12. XM_063282395.1 → XP_063138465.1  CUGBP Elav-like family member 3 isoform X23

  13. XM_063282383.1 → XP_063138453.1  CUGBP Elav-like family member 3 isoform X14

  14. XM_063282384.1 → XP_063138454.1  CUGBP Elav-like family member 3 isoform X15

  15. XM_063282387.1 → XP_063138457.1  CUGBP Elav-like family member 3 isoform X18

  16. XM_063282386.1 → XP_063138456.1  CUGBP Elav-like family member 3 isoform X17

  17. XM_063282376.1 → XP_063138446.1  CUGBP Elav-like family member 3 isoform X3

  18. XM_039102915.2 → XP_038958843.1  CUGBP Elav-like family member 3 isoform X5

  19. XM_063282377.1 → XP_063138447.1  CUGBP Elav-like family member 3 isoform X6

    Related
    ENSRNOP00000111046.1, ENSRNOT00000145844.1

  20. XM_063282381.1 → XP_063138451.1  CUGBP Elav-like family member 3 isoform X12

  21. XM_006232898.5 → XP_006232960.1  CUGBP Elav-like family member 3 isoform X2

    Conserved Domains (4) summary
    TIGR01645
    Location:8 → 490
    half-pint; poly-U binding splicing factor, half-pint family
    cd12639
    Location:411 → 489
    RRM3_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
    cd12632
    Location:2 → 88
    RRM1_CELF3_4_5_6; RNA recognition motif 1 (RRM1) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
    cd12635
    Location:93 → 173
    RRM2_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins

  22. XM_006232900.5 → XP_006232962.1  CUGBP Elav-like family member 3 isoform X4

    Conserved Domains (4) summary
    PRK12323
    Location:213 → 350
    PRK12323; DNA polymerase III subunit gamma/tau
    cd12639
    Location:383 → 461
    RRM3_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
    cd12632
    Location:2 → 88
    RRM1_CELF3_4_5_6; RNA recognition motif 1 (RRM1) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
    cd12635
    Location:93 → 173
    RRM2_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins

  23. XM_063282378.1 → XP_063138448.1  CUGBP Elav-like family member 3 isoform X7

  24. XM_063282382.1 → XP_063138452.1  CUGBP Elav-like family member 3 isoform X13

  25. XM_063282385.1 → XP_063138455.1  CUGBP Elav-like family member 3 isoform X16

  26. XM_006232908.5 → XP_006232970.1  CUGBP Elav-like family member 3 isoform X10

    See identical proteins and their annotated locations for XP_006232970.1

    Conserved Domains (3) summary
    cd12639
    Location:334 → 412
    RRM3_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
    cd12632
    Location:2 → 88
    RRM1_CELF3_4_5_6; RNA recognition motif 1 (RRM1) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins
    cd12635
    Location:94 → 174
    RRM2_CELF3_4_5_6; RNA recognition motif 2 (RRM2) found in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins

  27. XM_063282379.1 → XP_063138449.1  CUGBP Elav-like family member 3 isoform X8

  28. XM_063282389.1 → XP_063138459.1  CUGBP Elav-like family member 3 isoform X19

  29. XM_063282392.1 → XP_063138462.1  CUGBP Elav-like family member 3 isoform X21

  30. XM_063282397.1 → XP_063138467.1  CUGBP Elav-like family member 3 isoform X25

  31. XM_063282391.1 → XP_063138461.1  CUGBP Elav-like family member 3 isoform X20

  32. XM_063282396.1 → XP_063138466.1  CUGBP Elav-like family member 3 isoform X24

RNA

  1. XR_010063651.1 RNA Sequence

  2. XR_010063652.1 RNA Sequence

  3. XR_010063649.1 RNA Sequence

  4. XR_010063644.1 RNA Sequence

  5. XR_010063646.1 RNA Sequence

  6. XR_010063645.1 RNA Sequence

  7. XR_010063647.1 RNA Sequence

  8. XR_010063648.1 RNA Sequence

  9. XR_010063653.1 RNA Sequence

  10. XR_010063650.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
Tools