PAF1 (PAF1 homolog, Paf1/RNA polymerase II complex component) - Rat Genome Database

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Gene: PAF1 (PAF1 homolog, Paf1/RNA polymerase II complex component) Canis lupus familiaris
Analyze
Symbol: PAF1
Name: PAF1 homolog, Paf1/RNA polymerase II complex component
RGD ID: 12155760
Description: ENCODES a protein that exhibits chromatin binding (inferred); RNA polymerase II complex binding (inferred); INVOLVED IN cellular response to lipopolysaccharide (inferred); endodermal cell fate commitment (inferred); mRNA 3'-end processing (inferred); PARTICIPATES IN RNA polymerase I transcription pathway; RNA polymerase II transcription elongation pathway; ASSOCIATED WITH genetic disease (ortholog); maturity-onset diabetes of the young type 1 (ortholog); type 2 diabetes mellitus (ortholog); FOUND IN cytoplasm (ortholog); membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: Paf1, RNA polymerase II associated factor, homolog; RNA polymerase II-associated factor 1 homolog
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11113,828,219 - 113,832,747 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1113,828,007 - 113,832,735 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1113,231,301 - 113,236,124 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01114,428,562 - 114,433,392 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1114,428,574 - 114,433,389 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11113,987,276 - 113,992,103 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01113,620,056 - 113,624,882 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01114,615,153 - 114,619,983 (+)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
PAF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11113,828,219 - 113,832,747 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1113,828,007 - 113,832,735 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1113,231,301 - 113,236,124 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01114,428,562 - 114,433,392 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1114,428,574 - 114,433,389 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11113,987,276 - 113,992,103 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01113,620,056 - 113,624,882 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01114,615,153 - 114,619,983 (+)NCBIUU_Cfam_GSD_1.0
PAF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381939,385,629 - 39,391,106 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1939,385,629 - 39,391,154 (-)EnsemblGRCh38hg38GRCh38
GRCh371939,876,269 - 39,881,746 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361944,568,109 - 44,573,519 (-)NCBINCBI36Build 36hg18NCBI36
Celera1936,677,951 - 36,683,361 (-)NCBICelera
Cytogenetic Map19q13.2NCBI
HuRef1936,322,971 - 36,328,537 (-)NCBIHuRef
CHM1_11939,877,001 - 39,882,567 (-)NCBICHM1_1
T2T-CHM13v2.01942,189,906 - 42,213,952 (-)NCBIT2T-CHM13v2.0
Paf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39728,074,998 - 28,098,813 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl728,092,376 - 28,098,813 (+)EnsemblGRCm39 Ensembl
GRCm38728,392,996 - 28,399,383 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl728,392,951 - 28,399,388 (+)EnsemblGRCm38mm10GRCm38
MGSCv37729,178,015 - 29,184,402 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36728,101,756 - 28,108,143 (+)NCBIMGSCv36mm8
Celera722,954,577 - 22,960,972 (+)NCBICelera
Cytogenetic Map7A3NCBI
cM Map716.73NCBI
Paf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8192,811,197 - 92,816,775 (+)NCBIGRCr8
mRatBN7.2183,683,654 - 83,689,233 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl183,668,813 - 83,689,237 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx189,093,657 - 89,099,230 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0197,552,164 - 97,557,744 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0190,849,527 - 90,855,100 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0185,362,421 - 85,367,999 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl185,362,268 - 85,368,031 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0186,577,751 - 86,583,329 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4183,501,213 - 83,506,791 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1183,579,323 - 83,584,901 (+)NCBI
Celera178,079,922 - 78,085,501 (+)NCBICelera
Cytogenetic Map1q21NCBI
Paf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955468166,477 - 172,200 (+)NCBIChiLan1.0ChiLan1.0
PAF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22045,681,285 - 45,705,229 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11947,551,856 - 47,575,775 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01936,484,099 - 36,489,364 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11945,031,819 - 45,037,169 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1945,031,819 - 45,037,169 (-)Ensemblpanpan1.1panPan2
Paf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934913,808,252 - 13,812,872 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366612,232,484 - 2,241,629 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366612,236,121 - 2,241,086 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PAF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl648,046,502 - 48,052,038 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1648,046,487 - 48,053,631 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.214143,692,096 - 143,697,337 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PAF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1633,990,552 - 33,996,673 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl633,986,916 - 33,996,347 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607312,010,917 - 12,017,074 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Paf1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462479412,719,861 - 12,725,122 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462479412,719,819 - 12,725,109 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in PAF1
37 total Variants

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 reproductive system respiratory system adipose tissue
High
Medium 5 5 16 6 6 6 12 8 10 6
Low 6 6 6
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000008953   ⟹   ENSCAFP00000008305
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1113,828,007 - 113,832,735 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000069459   ⟹   ENSCAFP00000060456
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1113,828,007 - 113,832,664 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845008379   ⟹   ENSCAFP00845006593
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1114,428,574 - 114,433,389 (+)Ensembl
RefSeq Acc Id: XM_038468181   ⟹   XP_038324109
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11113,987,276 - 113,992,103 (+)NCBI
RefSeq Acc Id: XM_038528922   ⟹   XP_038384850
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01114,615,153 - 114,619,983 (+)NCBI
RefSeq Acc Id: XM_038593198   ⟹   XP_038449126
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01113,620,056 - 113,624,882 (+)NCBI
RefSeq Acc Id: XM_038657020   ⟹   XP_038512948
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01114,428,562 - 114,433,392 (+)NCBI
RefSeq Acc Id: XM_533675   ⟹   XP_533675
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11113,828,219 - 113,832,747 (+)NCBI
Dog10K_Boxer_Tasha1113,231,301 - 113,236,124 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_533675   ⟸   XM_533675
- Peptide Label: isoform X1
- UniProtKB: A0A8I3MY63 (UniProtKB/TrEMBL),   A0A8P0N865 (UniProtKB/TrEMBL),   A0A8C0YY27 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000060456   ⟸   ENSCAFT00000069459
RefSeq Acc Id: ENSCAFP00000008305   ⟸   ENSCAFT00000008953
RefSeq Acc Id: XP_038324109   ⟸   XM_038468181
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038449126   ⟸   XM_038593198
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038512948   ⟸   XM_038657020
- Peptide Label: isoform X1
- UniProtKB: A0A8I3MY63 (UniProtKB/TrEMBL),   A0A8P0N865 (UniProtKB/TrEMBL),   A0A8C0YY27 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038384850   ⟸   XM_038528922
- Peptide Label: isoform X1
- UniProtKB: A0A8C0YY27 (UniProtKB/TrEMBL),   A0A8I3MY63 (UniProtKB/TrEMBL),   A0A8P0N865 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845006593   ⟸   ENSCAFT00845008379


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000005550 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00040014113 UniProtKB/TrEMBL
  ENSCAFG00845004690 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000008953.6 UniProtKB/TrEMBL
  ENSCAFT00040026055.1 UniProtKB/TrEMBL
  ENSCAFT00040026112.1 UniProtKB/TrEMBL
  ENSCAFT00845008379 ENTREZGENE
  ENSCAFT00845008379.1 UniProtKB/TrEMBL
InterPro RNA_pol_II-assoc_Paf1 UniProtKB/TrEMBL
KEGG Report cfa:476464 UniProtKB/TrEMBL
NCBI Gene PAF1 ENTREZGENE
PANTHER PTHR23188 UniProtKB/TrEMBL
  RNA POLYMERASE II-ASSOCIATED FACTOR 1 HOMOLOG UniProtKB/TrEMBL
Pfam Paf1 UniProtKB/TrEMBL
UniProt A0A8C0SM47_CANLF UniProtKB/TrEMBL
  A0A8C0YY27 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3MY63 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0N865 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:111617 ENTREZGENE