Pasd1 (PAS domain containing repressor 1) - Rat Genome Database

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Gene: Pasd1 (PAS domain containing repressor 1) Rattus norvegicus
Analyze
Symbol: Pasd1
Name: PAS domain containing repressor 1
RGD ID: 7496877
Description: Predicted to enable DNA-binding transcription factor binding activity and transcription regulator inhibitor activity. Predicted to be involved in negative regulation of DNA-templated transcription and negative regulation of circadian rhythm. Predicted to be located in nuclear speck. Predicted to be part of Cry-Per complex. Orthologous to human PASD1 (PAS domain containing repressor 1); INTERACTS WITH methoxychlor; benzo[a]pyrene (ortholog); benzo[e]pyrene (ortholog).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: circadian clock protein PASD1; LOC102554647; LOC103693618; PAS domain containing 1; uncharacterized LOC102554647; uncharacterized LOC103693618; uncharacterized protein Pasd1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
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
GRCr8X154,662,718 - 154,684,001 (+)NCBIGRCr8
mRatBN7.2X149,617,933 - 149,639,214 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX149,620,972 - 149,638,675 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01670,001,708 - 70,006,009 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.01670,011,911 - 70,027,313 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1670,002,883 - 70,006,016 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl1670,011,886 - 70,021,237 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01669,682,024 - 69,691,307 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01669,671,801 - 69,676,081 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Cytogenetic MapXq37NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:25936801  


Genomics

Comparative Map Data
Pasd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X154,662,718 - 154,684,001 (+)NCBIGRCr8
mRatBN7.2X149,617,933 - 149,639,214 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX149,620,972 - 149,638,675 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01670,001,708 - 70,006,009 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.01670,011,911 - 70,027,313 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1670,002,883 - 70,006,016 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl1670,011,886 - 70,021,237 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01669,682,024 - 69,691,307 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01669,671,801 - 69,676,081 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Cytogenetic MapXq37NCBI
PASD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X151,563,675 - 151,676,739 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX151,563,675 - 151,676,739 (+)EnsemblGRCh38hg38GRCh38
GRCh37X150,732,147 - 150,845,211 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X150,482,663 - 150,595,867 (+)NCBINCBI36Build 36hg18NCBI36
Build 34X150,402,661 - 150,515,777NCBI
CeleraX150,980,699 - 151,093,569 (+)NCBICelera
Cytogenetic MapXq28NCBI
HuRefX139,588,945 - 139,702,086 (+)NCBIHuRef
CHM1_1X150,606,474 - 150,720,157 (+)NCBICHM1_1
T2T-CHM13v2.0X149,831,967 - 149,945,045 (+)NCBIT2T-CHM13v2.0
Pasd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X70,976,044 - 70,984,477 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX70,964,553 - 70,984,476 (+)EnsemblGRCm39 Ensembl
GRCm38X71,932,438 - 71,940,871 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX71,920,947 - 71,940,870 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X69,177,777 - 69,186,210 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X68,185,158 - 68,193,589 (+)NCBIMGSCv36mm8
CeleraX62,910,537 - 62,918,969 (+)NCBICelera
Cytogenetic MapXA7.3NCBI
cM MapX37.14NCBI
Pasd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554987,127,978 - 7,194,359 (+)NCBIChiLan1.0ChiLan1.0
PASD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X151,629,609 - 151,743,545 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X151,633,214 - 151,747,150 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X141,180,256 - 141,255,777 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X151,099,674 - 151,212,970 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX151,137,752 - 151,213,277 (+)Ensemblpanpan1.1panPan2
PASD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X119,536,333 - 119,629,452 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX119,536,268 - 119,629,451 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX104,919,486 - 105,012,600 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X121,757,069 - 121,850,397 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX121,791,664 - 121,850,396 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X118,477,290 - 118,570,412 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X120,960,499 - 121,053,616 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X120,843,098 - 120,936,196 (+)NCBIUU_Cfam_GSD_1.0
Pasd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X117,087,246 - 117,159,898 (+)NCBIHiC_Itri_2
PASD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X126,154,328 - 126,221,997 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX126,157,638 - 126,221,988 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606563,919,715 - 63,984,424 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pasd1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248832,976,237 - 2,980,477 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pasd1
18 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX100567703150256146Rat
10059603Bw174Body weight QTL 1743.40.025body mass (VT:0001259)body weight (CMO:0000012)X113937816152453651Rat
634346Insul4Insulin level QTL 40blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)X126975089152453651Rat


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 22
Low 2 5 5 5 13 17
Below cutoff 1 34 13 9 8 9 3 6 29 4 12 5 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000081550
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1670,011,886 - 70,021,237 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092030   ⟹   ENSRNOP00000069547
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX149,620,972 - 149,638,675 (+)Ensembl
Rnor_6.0 Ensembl1670,002,883 - 70,006,016 (-)Ensembl
RefSeq Acc Id: XM_039100341   ⟹   XP_038956269
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X154,662,718 - 154,684,001 (+)NCBI
mRatBN7.2X149,617,933 - 149,639,214 (+)NCBI
RefSeq Acc Id: XM_039100342   ⟹   XP_038956270
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X154,662,718 - 154,684,001 (+)NCBI
mRatBN7.2X149,617,933 - 149,639,214 (+)NCBI
RefSeq Acc Id: XM_039100343   ⟹   XP_038956271
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X154,665,798 - 154,684,001 (+)NCBI
mRatBN7.2X149,621,020 - 149,639,214 (+)NCBI
Protein Sequences
Protein RefSeqs XP_038956269 (Get FASTA)   NCBI Sequence Viewer  
  XP_038956270 (Get FASTA)   NCBI Sequence Viewer  
  XP_038956271 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000069547
  ENSRNOP00000069547.2
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000069547   ⟸   ENSRNOT00000092030
RefSeq Acc Id: XP_038956269   ⟸   XM_039100341
- Peptide Label: isoform X1
- UniProtKB: A0A0G2JVM9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038956270   ⟸   XM_039100342
- Peptide Label: isoform X2
- UniProtKB: A0A0G2JVM9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038956271   ⟸   XM_039100343
- Peptide Label: isoform X3
- UniProtKB: A0A0G2JVM9 (UniProtKB/TrEMBL)
Protein Domains
PAS

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JVM9-F1-model_v2 AlphaFold A0A0G2JVM9 1-370 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:7496877 AgrOrtholog
BioCyc Gene G2FUF-717 BioCyc
Ensembl Genes ENSRNOG00000061428 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000061651 Ensembl
Ensembl Transcript ENSRNOT00000092030.2 UniProtKB/TrEMBL
Gene3D-CATH PAS domain UniProtKB/TrEMBL
InterPro CLOCK-like UniProtKB/TrEMBL
  PAS UniProtKB/TrEMBL
  PAS-like_dom_sf UniProtKB/TrEMBL
NCBI Gene LOC102554647 ENTREZGENE
PANTHER CIRCADIAN CLOCK PROTEIN PASD1 UniProtKB/TrEMBL
  CIRCADIAN LOCOMOTER OUTPUT CYCLES PROTEIN KAPUT UniProtKB/TrEMBL
PhenoGen Pasd1 PhenoGen
PROSITE PAS UniProtKB/TrEMBL
RatGTEx ENSRNOG00000061428 RatGTEx
  ENSRNOG00000061651 RatGTEx
SMART PAS UniProtKB/TrEMBL
Superfamily-SCOP SSF55785 UniProtKB/TrEMBL
UniProt A0A0G2JVM9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Pasd1  PAS domain containing repressor 1  LOC103693618  uncharacterized LOC103693618  Data merged from RGD:9312109 737654 PROVISIONAL
2017-02-02 Pasd1  PAS domain containing repressor 1  Pasd1  PAS domain containing 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-01-11 Pasd1  PAS domain containing 1  LOC102554647  uncharacterized LOC102554647  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2014-08-25 LOC103693618  uncharacterized LOC103693618      Symbol and Name status set to provisional 70820 PROVISIONAL
2013-12-17 LOC102554647  uncharacterized LOC102554647      Symbol and Name status set to provisional 70820 PROVISIONAL