Eif1b (eukaryotic translation initiation factor 1B) - Rat Genome Database

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Gene: Eif1b (eukaryotic translation initiation factor 1B) Rattus norvegicus
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Symbol: Eif1b
Name: eukaryotic translation initiation factor 1B
RGD ID: 1309241
Description: Predicted to enable RNA binding activity; ribosomal small subunit binding activity; and translation initiation factor activity. Predicted to be involved in translational initiation. Predicted to be part of eukaryotic 43S preinitiation complex. Orthologous to human EIF1B (eukaryotic translation initiation factor 1B); PARTICIPATES IN RNA transport pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC301068; RGD1309241; similar to translation factor sui1 homolog
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28120,203,561 - 120,206,176 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8120,203,451 - 120,206,176 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8125,780,434 - 125,783,050 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.08123,979,447 - 123,982,063 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.08121,821,683 - 121,824,295 (+)NCBIRnor_WKY
Rnor_6.08129,158,112 - 129,160,726 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8129,158,103 - 129,160,757 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08128,356,696 - 128,359,310 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48125,499,378 - 125,501,992 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18125,519,015 - 125,521,753 (+)NCBI
Celera8119,345,651 - 119,348,265 (+)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
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. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:22681889   PMID:25943107  


Genomics

Comparative Map Data
Eif1b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28120,203,561 - 120,206,176 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8120,203,451 - 120,206,176 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8125,780,434 - 125,783,050 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.08123,979,447 - 123,982,063 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.08121,821,683 - 121,824,295 (+)NCBIRnor_WKY
Rnor_6.08129,158,112 - 129,160,726 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8129,158,103 - 129,160,757 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08128,356,696 - 128,359,310 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48125,499,378 - 125,501,992 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18125,519,015 - 125,521,753 (+)NCBI
Celera8119,345,651 - 119,348,265 (+)NCBICelera
Cytogenetic Map8q32NCBI
EIF1B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38340,309,707 - 40,312,424 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl340,309,707 - 40,312,424 (+)EnsemblGRCh38hg38GRCh38
GRCh37340,351,198 - 40,353,915 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36340,326,177 - 40,328,919 (+)NCBINCBI36Build 36hg18NCBI36
Celera340,293,858 - 40,296,600 (+)NCBICelera
Cytogenetic Map3p22.1NCBI
HuRef340,395,243 - 40,397,984 (+)NCBIHuRef
CHM1_1340,301,070 - 40,303,813 (+)NCBICHM1_1
T2T-CHM13v2.0340,324,755 - 40,327,472 (+)NCBIT2T-CHM13v2.0
Eif1b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399120,321,672 - 120,324,393 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9120,321,298 - 120,324,396 (+)EnsemblGRCm39 Ensembl
GRCm389120,492,606 - 120,495,327 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9120,492,232 - 120,495,330 (+)EnsemblGRCm38mm10GRCm38
MGSCv379120,401,724 - 120,404,445 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369120,341,339 - 120,344,025 (+)NCBIMGSCv36mm8
Celera9120,962,066 - 120,964,791 (+)NCBICelera
Cytogenetic Map9F4NCBI
Eif1b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542029,514,067 - 29,515,363 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542029,514,067 - 29,515,362 (-)NCBIChiLan1.0ChiLan1.0
EIF1B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1340,484,768 - 40,487,517 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl340,484,768 - 40,487,517 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0340,213,113 - 40,215,844 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
EIF1B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1239,798,141 - 9,800,976 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl239,798,232 - 9,800,700 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha239,830,732 - 9,834,558 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02310,083,552 - 10,087,361 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2310,084,513 - 10,087,198 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1239,893,821 - 9,897,619 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02310,031,452 - 10,035,258 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02310,019,063 - 10,022,873 (+)NCBIUU_Cfam_GSD_1.0
Eif1b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118196,151,887 - 196,154,340 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647329,290,460 - 29,292,968 (+)EnsemblSpeTri2.0
SpeTri2.0NW_00493647329,290,460 - 29,292,968 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
EIF1B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1324,574,910 - 24,577,616 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11324,575,183 - 24,577,486 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21326,926,936 - 26,932,666 (+)NCBISscrofa10.2Sscrofa10.2susScr3
EIF1B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1221,806,431 - 1,809,180 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl221,806,396 - 1,809,466 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041165,394,513 - 165,397,429 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Eif1b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473078,361,181 - 78,363,333 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Eif1b
5 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:36
Count of miRNA genes:32
Interacting mature miRNAs:34
Transcripts:ENSRNOT00000025615
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)876468691121468691Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)882460758122812818Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)893535351123900184Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)895718998123900184Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)895718998123900184Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8100149864120994388Rat

Markers in Region
RH131770  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28120,205,808 - 120,206,001 (+)MAPPERmRatBN7.2
Rnor_6.08129,160,359 - 129,160,551NCBIRnor6.0
Rnor_5.08128,358,943 - 128,359,135UniSTSRnor5.0
RGSC_v3.48125,501,625 - 125,501,817UniSTSRGSC3.4
Celera8119,347,898 - 119,348,090UniSTS
RH 3.4 Map81284.6UniSTS
Cytogenetic Map8q32UniSTS
AA849630  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28120,205,977 - 120,206,172 (+)MAPPERmRatBN7.2
Rnor_6.08129,160,528 - 129,160,722NCBIRnor6.0
Rnor_5.08128,359,112 - 128,359,306UniSTSRnor5.0
RGSC_v3.48125,501,794 - 125,501,988UniSTSRGSC3.4
Celera8119,348,067 - 119,348,261UniSTS
RH 3.4 Map81317.6UniSTS
Cytogenetic Map8q32UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 36 57 41 19 41 1 4 74 35 41 11 1
Low 7 7 7 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000025615   ⟹   ENSRNOP00000025615
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8120,203,451 - 120,205,694 (+)Ensembl
Rnor_6.0 Ensembl8129,158,103 - 129,160,757 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000109763   ⟹   ENSRNOP00000078643
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8120,204,439 - 120,206,176 (+)Ensembl
RefSeq Acc Id: NM_001106867   ⟹   NP_001100337
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.28120,203,561 - 120,206,176 (+)NCBI
Rnor_6.08129,158,112 - 129,160,726 (+)NCBI
Rnor_5.08128,356,696 - 128,359,310 (+)NCBI
RGSC_v3.48125,499,378 - 125,501,992 (+)RGD
Celera8119,345,651 - 119,348,265 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001100337 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI69125 (Get FASTA)   NCBI Sequence Viewer  
  EDL76864 (Get FASTA)   NCBI Sequence Viewer  
  EDL76865 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001100337   ⟸   NM_001106867
- UniProtKB: B5DFN1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000025615   ⟸   ENSRNOT00000025615
RefSeq Acc Id: ENSRNOP00000078643   ⟸   ENSRNOT00000109763
Protein Domains
SUI1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B5DFN1-F1-model_v2 AlphaFold B5DFN1 1-113 view protein structure

Transcriptome

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

Promoters
RGD ID:13696385
Promoter ID:EPDNEW_R6908
Type:multiple initiation site
Name:Eif1b_1
Description:eukaryotic translation initiation factor 1B
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08129,158,109 - 129,158,169EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309241 AgrOrtholog
BioCyc Gene G2FUF-28737 BioCyc
Ensembl Genes ENSRNOG00000018848 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000025615.5 UniProtKB/TrEMBL
  ENSRNOP00000078643.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000025615.8 UniProtKB/TrEMBL
  ENSRNOT00000109763.1 UniProtKB/TrEMBL
InterPro SUI1_dom_sf UniProtKB/TrEMBL
  SUI1_euk UniProtKB/TrEMBL
  TIF_SUI1 UniProtKB/TrEMBL
KEGG Report rno:301068 UniProtKB/TrEMBL
NCBI Gene 301068 ENTREZGENE
Pfam SUI1 UniProtKB/TrEMBL
PhenoGen Eif1b PhenoGen
PIRSF SUI1_euk UniProtKB/TrEMBL
PROSITE SUI1 UniProtKB/TrEMBL
Superfamily-SCOP TIF_SUI1 UniProtKB/TrEMBL
TIGRFAMs SUI1_MOF2 UniProtKB/TrEMBL
UniProt A0A8I5ZL75_RAT UniProtKB/TrEMBL
  B5DFN1 ENTREZGENE, UniProtKB/TrEMBL
  F7F4Q4_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Eif1b  eukaryotic translation initiation factor 1B   Eif1b_predicted  eukaryotic translation initiation factor 1B (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Eif1b_predicted  eukaryotic translation initiation factor 1B (predicted)  RGD1309241_predicted  similar to translation factor sui1 homolog (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-20 RGD1309241_predicted  similar to translation factor sui1 homolog (predicted)  LOC301068_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC301068_predicted  similar to translation factor sui1 homolog (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL