Terb1 (telomere repeat binding bouquet formation protein 1) - Rat Genome Database

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Gene: Terb1 (telomere repeat binding bouquet formation protein 1) Rattus norvegicus
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Symbol: Terb1
Name: telomere repeat binding bouquet formation protein 1
RGD ID: 1310400
Description: Predicted to be involved in homologous chromosome pairing at meiosis and meiotic attachment of telomere to nuclear envelope. Predicted to act upstream of or within double-strand break repair involved in meiotic recombination. Predicted to be located in chromosome, telomeric region and nuclear inner membrane. Predicted to be part of shelterin complex. Human ortholog(s) of this gene implicated in spermatogenic failure 60. Orthologous to human TERB1 (telomere repeat binding bouquet formation protein 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; 4,4'-sulfonyldiphenol (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Ccdc79; coiled-coil domain containing 79; LOC307615; RGD1310400; similar to hypothetical protein FLJ35894; telomere repeats-binding bouquet formation protein 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr819480,160 - 534,534 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl19479,714 - 534,528 (+)EnsemblGRCr8
mRatBN7.219473,720 - 528,069 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl19473,218 - 528,084 (+)EnsemblmRatBN7.2
Rnor_6.019682,013 - 736,358 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl19682,065 - 736,315 (+)Ensemblrn6Rnor6.0
Rnor_5.019675,382 - 735,280 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.419411,789 - 469,013 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera19469,255 - 523,591 (+)NCBICelera
RGSC_v3.119409,308 - 459,600 (+)NCBI
Cytogenetic Map19p14NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:24413433   PMID:24885367   PMID:26548954  


Genomics

Comparative Map Data
Terb1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr819480,160 - 534,534 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl19479,714 - 534,528 (+)EnsemblGRCr8
mRatBN7.219473,720 - 528,069 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl19473,218 - 528,084 (+)EnsemblmRatBN7.2
Rnor_6.019682,013 - 736,358 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl19682,065 - 736,315 (+)Ensemblrn6Rnor6.0
Rnor_5.019675,382 - 735,280 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.419411,789 - 469,013 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera19469,255 - 523,591 (+)NCBICelera
RGSC_v3.119409,308 - 459,600 (+)NCBI
Cytogenetic Map19p14NCBI
TERB1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381666,754,640 - 66,802,025 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1666,754,640 - 66,801,620 (-)Ensemblhg38GRCh38
GRCh371666,788,543 - 66,835,487 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361665,346,380 - 65,393,024 (-)NCBIBuild 36Build 36hg18NCBI36
Celera1651,297,518 - 51,343,833 (-)NCBICelera
Cytogenetic Map16q22.1NCBI
HuRef1652,664,033 - 52,709,669 (-)NCBIHuRef
CHM1_11668,195,958 - 68,242,606 (-)NCBICHM1_1
T2T-CHM13v2.01672,548,930 - 72,596,319 (-)NCBIT2T-CHM13v2.0
Terb1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398105,173,350 - 105,236,692 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8105,173,351 - 105,236,542 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm388104,446,718 - 104,509,887 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8104,446,719 - 104,509,910 (-)Ensemblmm10GRCm38
MGSCv378106,970,619 - 107,033,787 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv368107,335,848 - 107,399,016 (-)NCBIMGSCv36mm8
Celera8108,678,003 - 108,741,295 (-)NCBICelera
Cytogenetic Map8D3NCBI
cM Map853.04NCBI
Terb1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543323,288,825 - 23,333,151 (-)Ensembl
ChiLan1.0NW_00495543323,290,030 - 23,332,886 (-)NCBIChiLan1.0ChiLan1.0
TERB1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21876,256,009 - 76,302,781 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11682,166,876 - 82,215,286 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01647,071,709 - 47,118,205 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11666,175,529 - 66,220,511 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1666,175,538 - 66,220,511 (-)EnsemblpanPan2panpan1.1
TERB1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1582,486,920 - 82,537,347 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl582,487,597 - 82,534,561 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha582,475,616 - 82,525,800 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0582,923,558 - 82,973,994 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl582,924,233 - 82,971,410 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1582,746,705 - 82,797,122 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0582,433,927 - 82,483,979 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0583,072,705 - 83,122,533 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Terb1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934942,511,197 - 42,550,662 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647517,038,956 - 17,072,162 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493647517,038,956 - 17,077,887 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TERB1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl627,450,632 - 27,503,893 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1627,450,923 - 27,509,969 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
TERB1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1552,451,929 - 52,502,628 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl552,452,079 - 52,500,948 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604723,409,154 - 23,460,414 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Terb1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474619,697,909 - 19,720,724 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462474619,689,127 - 19,726,972 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Terb1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11712,727,139 - 12,780,665 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Terb1
357 total Variants

QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1549847Bss8Bone structure and strength QTL 84lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)19131969901Rat
7411590Foco7Food consumption QTL 76.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)19124694445Rat
10054132Srcrt9Stress Responsive Cort QTL 92.870.0017blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19127361636Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)193628974246245Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 11 62 157 91 90 59 73 59 6 321 166 10 137 72 92 31 15 15

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001431307 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001431308 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001431309 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001431310 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001431311 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001431312 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006222655 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008772251 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008772252 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008772253 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008772255 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008772256 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008772257 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008774185 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008774186 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008774187 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008774188 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008774189 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008774190 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098321 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063278877 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063278878 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063278879 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC111422 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000019 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000087469   ⟹   ENSRNOP00000075491
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl19479,714 - 534,528 (+)Ensembl
mRatBN7.2 Ensembl19473,218 - 528,084 (+)Ensembl
Rnor_6.0 Ensembl19682,065 - 736,315 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000090332   ⟹   ENSRNOP00000075402
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl19683,484 - 735,902 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000150865   ⟹   ENSRNOP00000110188
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl19479,714 - 534,528 (+)Ensembl
RefSeq Acc Id: XM_008772251   ⟹   XP_008770473
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819480,160 - 534,534 (+)NCBI
mRatBN7.219473,720 - 528,069 (+)NCBI
Rnor_6.019682,013 - 736,358 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008772252   ⟹   XP_008770474
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819481,592 - 534,534 (+)NCBI
mRatBN7.219475,146 - 528,069 (+)NCBI
Rnor_6.019683,178 - 736,358 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008772255   ⟹   XP_008770477
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819481,592 - 534,534 (+)NCBI
mRatBN7.219475,146 - 528,069 (+)NCBI
Rnor_6.019683,178 - 736,358 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008772256   ⟹   XP_008770478
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819481,592 - 534,534 (+)NCBI
mRatBN7.219475,146 - 528,069 (+)NCBI
Rnor_6.019683,178 - 736,358 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039098321   ⟹   XP_038954249
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819481,592 - 514,204 (+)NCBI
mRatBN7.219475,146 - 507,767 (+)NCBI
RefSeq Acc Id: XM_063278877   ⟹   XP_063134947
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819480,160 - 534,534 (+)NCBI
RefSeq Acc Id: XM_063278878   ⟹   XP_063134948
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819480,160 - 534,534 (+)NCBI
RefSeq Acc Id: XM_063278879   ⟹   XP_063134949
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819481,592 - 533,651 (+)NCBI
RefSeq Acc Id: XP_008770473   ⟸   XM_008772251
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008770474   ⟸   XM_008772252
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008770477   ⟸   XM_008772255
- Peptide Label: isoform X4
- UniProtKB: A0A0G2KAQ9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008770478   ⟸   XM_008772256
- Peptide Label: isoform X5
- UniProtKB: A0A0G2KAQ9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000075402   ⟸   ENSRNOT00000090332
Ensembl Acc Id: ENSRNOP00000075491   ⟸   ENSRNOT00000087469
RefSeq Acc Id: XP_038954249   ⟸   XM_039098321
- Peptide Label: isoform X7
RefSeq Acc Id: XP_063134948   ⟸   XM_063278878
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063134947   ⟸   XM_063278877
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063134949   ⟸   XM_063278879
- Peptide Label: isoform X6
- UniProtKB: A0A0G2KAQ9 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000110188   ⟸   ENSRNOT00000150865

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2KAQ9-F1-model_v2 AlphaFold A0A0G2KAQ9 1-774 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310400 AgrOrtholog
BioCyc Gene G2FUF-6646 BioCyc
Ensembl Genes ENSRNOG00000055097 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000087469 ENTREZGENE
  ENSRNOT00000087469.3 UniProtKB/TrEMBL
  ENSRNOT00000150865 ENTREZGENE
  ENSRNOT00000150865.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.10.10 UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
InterPro ARM-like UniProtKB/TrEMBL
  ARM-type_fold UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
  SANT/Myb UniProtKB/TrEMBL
  TERB1 UniProtKB/TrEMBL
NCBI Gene 307615 ENTREZGENE
PANTHER PTHR14014 UniProtKB/TrEMBL
  TELOMERE REPEATS-BINDING BOUQUET FORMATION PROTEIN 1 UniProtKB/TrEMBL
PhenoGen Terb1 PhenoGen
RatGTEx ENSRNOG00000055097 RatGTEx
SMART SANT UniProtKB/TrEMBL
Superfamily-SCOP SSF46689 UniProtKB/TrEMBL
  SSF48371 UniProtKB/TrEMBL
UniProt A0A0G2KAQ9 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0LZW5_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-05-26 Terb1  telomere repeat binding bouquet formation protein 1  Ccdc79  coiled-coil domain containing 79  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-27 Ccdc79  coiled-coil domain containing 79  RGD1310400_predicted  similar to hypothetical protein FLJ35894 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1310400_predicted  similar to hypothetical protein FLJ35894 (predicted)  LOC307615_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC307615_predicted  similar to hypothetical protein FLJ35894 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL