Pof1b (POF1B, actin binding protein) - Rat Genome Database

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Gene: Pof1b (POF1B, actin binding protein) Rattus norvegicus
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Symbol: Pof1b
Name: POF1B, actin binding protein
RGD ID: 1560798
Description: Predicted to enable actin filament binding activity. Predicted to be involved in actin filament organization; bicellular tight junction assembly; and epithelial cell morphogenesis. Predicted to be located in desmosome. Predicted to be active in actin filament; adherens junction; and bicellular tight junction. Human ortholog(s) of this gene implicated in primary ovarian insufficiency 2B. Orthologous to human POF1B (POF1B actin binding protein); INTERACTS WITH 17beta-estradiol; 6-propyl-2-thiouracil; acrylamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC302328; premature ovarian failure 1B; RGD1560798; similar to premature ovarian failure 1B
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
mRatBN7.2X77,683,128 - 77,749,827 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX77,683,128 - 77,749,688 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX79,341,070 - 79,405,975 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0X82,771,162 - 82,836,183 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0X80,359,561 - 80,426,136 (-)NCBIRnor_WKY
Rnor_6.0X84,099,618 - 84,167,717 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX84,099,618 - 84,167,717 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X84,048,665 - 84,115,822 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X101,220,259 - 101,288,788 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX78,983,162 - 79,047,222 (-)NCBICelera
Cytogenetic MapXq31NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

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. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16773570   PMID:19182904   PMID:21940798  


Genomics

Comparative Map Data
Pof1b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X77,683,128 - 77,749,827 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX77,683,128 - 77,749,688 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX79,341,070 - 79,405,975 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0X82,771,162 - 82,836,183 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0X80,359,561 - 80,426,136 (-)NCBIRnor_WKY
Rnor_6.0X84,099,618 - 84,167,717 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX84,099,618 - 84,167,717 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X84,048,665 - 84,115,822 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X101,220,259 - 101,288,788 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX78,983,162 - 79,047,222 (-)NCBICelera
Cytogenetic MapXq31NCBI
POF1B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X85,277,396 - 85,379,665 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 EnsemblX85,277,396 - 85,379,717 (-)EnsemblGRCh38hg38GRCh38
GRCh37X84,532,402 - 84,634,670 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X84,419,058 - 84,521,404 (-)NCBINCBI36Build 36hg18NCBI36
Build 34X84,338,546 - 84,440,893NCBI
CeleraX84,771,759 - 84,874,115 (-)NCBICelera
Cytogenetic MapXq21.1NCBI
HuRefX78,105,395 - 78,207,259 (-)NCBIHuRef
CHM1_1X84,426,026 - 84,528,381 (-)NCBICHM1_1
T2T-CHM13v2.0X83,705,917 - 83,808,182 (-)NCBIT2T-CHM13v2.0
Pof1b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X111,548,124 - 111,608,408 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX111,548,128 - 111,608,348 (-)EnsemblGRCm39 Ensembl
GRCm38X112,638,427 - 112,698,711 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX112,638,431 - 112,698,651 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X109,752,036 - 109,812,260 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X108,755,371 - 108,815,595 (-)NCBIMGSCv36mm8
CeleraX99,259,694 - 99,319,351 (-)NCBICelera
Cytogenetic MapXE1NCBI
Pof1b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555294,136,480 - 4,224,537 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555294,137,746 - 4,224,542 (-)NCBIChiLan1.0ChiLan1.0
POF1B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1X84,457,716 - 84,554,569 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX84,457,716 - 84,554,627 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0X74,347,322 - 74,444,182 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
POF1B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X66,233,225 - 66,342,297 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX66,214,255 - 66,342,904 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX56,990,661 - 57,099,614 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X67,569,114 - 67,673,467 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX67,545,959 - 67,673,419 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X65,212,794 - 65,321,752 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X66,849,598 - 66,958,554 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X66,441,806 - 66,550,764 (-)NCBIUU_Cfam_GSD_1.0
Pof1b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X59,709,734 - 59,781,039 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365476,029,831 - 6,101,451 (-)EnsemblSpeTri2.0
SpeTri2.0NW_0049365476,031,281 - 6,101,451 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
POF1B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX68,503,179 - 68,579,893 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X68,503,170 - 68,579,917 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X78,325,924 - 78,402,665 (-)NCBISscrofa10.2Sscrofa10.2susScr3
POF1B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X74,126,425 - 74,234,330 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660676,604,398 - 6,711,359 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pof1b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248523,022,251 - 3,134,418 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248523,022,251 - 3,136,807 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pof1b
144 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:250
Count of miRNA genes:155
Interacting mature miRNAs:195
Transcripts:ENSRNOT00000006415
Prediction methods:Miranda, Targetscan
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
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX41304447112935181Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X65612192120568734Rat
724551Glom1Glomerulus QTL 12.80.0004kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)X75294106120294106Rat

Markers in Region
Pof1b  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X77,687,360 - 77,688,769 (+)MAPPERmRatBN7.2
Rnor_6.0X84,103,851 - 84,105,259NCBIRnor6.0
Rnor_5.0X84,052,898 - 84,054,306UniSTSRnor5.0
RGSC_v3.4X101,224,492 - 101,225,900UniSTSRGSC3.4
CeleraX78,987,395 - 78,988,803UniSTS
Cytogenetic MapXq32UniSTS


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 7
Low 2 3 3 1 1 3 25 18 4 1
Below cutoff 21 23 18 13 18 3 3 23 10 19 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000006415   ⟹   ENSRNOP00000006415
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX77,683,128 - 77,749,688 (-)Ensembl
Rnor_6.0 EnsemblX84,099,618 - 84,167,717 (-)Ensembl
RefSeq Acc Id: NM_001106934   ⟹   NP_001100404
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X77,683,128 - 77,749,688 (-)NCBI
Rnor_6.0X84,099,618 - 84,167,717 (-)NCBI
Rnor_5.0X84,048,665 - 84,115,822 (-)NCBI
RGSC_v3.4X101,220,259 - 101,288,788 (-)RGD
CeleraX78,983,162 - 79,047,222 (-)RGD
Sequence:
RefSeq Acc Id: XM_039099585   ⟹   XP_038955513
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X77,687,333 - 77,749,827 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001100404 (Get FASTA)   NCBI Sequence Viewer  
  XP_038955513 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM07076 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001100404   ⟸   NM_001106934
- UniProtKB: D3ZWE3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000006415   ⟸   ENSRNOT00000006415
RefSeq Acc Id: XP_038955513   ⟸   XM_039099585
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZWE3-F1-model_v2 AlphaFold D3ZWE3 1-587 view protein structure

Transcriptome

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

Promoters
RGD ID:13701916
Promoter ID:EPDNEW_R12440
Type:initiation region
Name:Pof1b_1
Description:POF1B, actin binding protein
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_6.0X84,167,712 - 84,167,772EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1560798 AgrOrtholog
BioCyc Gene G2FUF-1830 BioCyc
Ensembl Genes ENSRNOG00000004795 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000006415 ENTREZGENE
  ENSRNOP00000006415.5 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000006415 ENTREZGENE
  ENSRNOT00000006415.6 UniProtKB/TrEMBL
InterPro POF1B UniProtKB/TrEMBL
KEGG Report rno:302328 UniProtKB/TrEMBL
NCBI Gene 302328 ENTREZGENE
PANTHER PTHR22546 UniProtKB/TrEMBL
PhenoGen Pof1b PhenoGen
UniProt D3ZWE3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-08-22 Pof1b  POF1B, actin binding protein  Pof1b  premature ovarian failure 1B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Pof1b  premature ovarian failure 1B   Pof1b_predicted  premature ovarian failure 1B (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Pof1b_predicted  premature ovarian failure 1B (predicted)  RGD1560798_predicted  similar to premature ovarian failure 1B (predicted)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1560798_predicted  similar to premature ovarian failure 1B (predicted)  LOC302328  similar to premature ovarian failure 1B  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC302328  similar to premature ovarian failure 1B      Symbol and Name status set to provisional 70820 PROVISIONAL