Yaf2 (YY1 associated factor 2) - Rat Genome Database

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Gene: Yaf2 (YY1 associated factor 2) Rattus norvegicus
Analyze
Symbol: Yaf2
Name: YY1 associated factor 2
RGD ID: 1582851
Description: Predicted to enable DNA binding activity; transcription coactivator activity; and transcription corepressor activity. Predicted to be involved in negative regulation of DNA-templated transcription and positive regulation of DNA-templated transcription. Predicted to be active in nucleus. Orthologous to human YAF2 (YY1 associated factor 2); INTERACTS WITH 6-propyl-2-thiouracil; amitrole; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC690262; similar to YY1-associated factor 2; YY1-associated factor 2
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
GRCr87126,323,604 - 126,379,061 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl7126,323,604 - 126,379,260 (-)EnsemblGRCr8
mRatBN7.27124,444,152 - 124,499,688 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7124,444,152 - 124,499,928 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx7126,218,353 - 126,274,001 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07128,444,204 - 128,499,870 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07128,366,016 - 128,421,115 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.07134,505,352 - 134,560,713 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7134,505,737 - 134,560,713 (-)Ensemblrn6Rnor6.0
Rnor_5.07134,175,947 - 134,230,702 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47131,771,036 - 131,825,986 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7120,842,232 - 120,897,579 (-)NCBICelera
Cytogenetic Map7q35NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleoplasm  (ISO)
nucleus  (IBA,IEA,ISO)

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:11593398   PMID:12706874   PMID:14557078   PMID:35963157  


Genomics

Comparative Map Data
Yaf2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87126,323,604 - 126,379,061 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl7126,323,604 - 126,379,260 (-)EnsemblGRCr8
mRatBN7.27124,444,152 - 124,499,688 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7124,444,152 - 124,499,928 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx7126,218,353 - 126,274,001 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07128,444,204 - 128,499,870 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07128,366,016 - 128,421,115 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.07134,505,352 - 134,560,713 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7134,505,737 - 134,560,713 (-)Ensemblrn6Rnor6.0
Rnor_5.07134,175,947 - 134,230,702 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47131,771,036 - 131,825,986 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7120,842,232 - 120,897,579 (-)NCBICelera
Cytogenetic Map7q35NCBI
YAF2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381242,157,104 - 42,238,248 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1242,157,104 - 42,238,349 (-)Ensemblhg38GRCh38
GRCh371242,550,906 - 42,632,050 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361240,837,173 - 40,918,317 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341240,837,175 - 40,918,317NCBI
Celera1241,352,740 - 41,433,972 (-)NCBICelera
Cytogenetic Map12q12NCBI
HuRef1239,578,266 - 39,658,535 (-)NCBIHuRef
CHM1_11242,516,314 - 42,598,716 (-)NCBICHM1_1
T2T-CHM13v2.01242,115,009 - 42,196,195 (-)NCBIT2T-CHM13v2.0
Yaf2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391593,181,714 - 93,234,816 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1593,182,159 - 93,234,816 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381593,283,833 - 93,336,935 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1593,284,278 - 93,336,935 (-)Ensemblmm10GRCm38
MGSCv371593,114,264 - 93,167,366 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361593,112,078 - 93,165,087 (-)NCBIMGSCv36mm8
Celera1595,427,934 - 95,480,526 (-)NCBICelera
Cytogenetic Map15E3NCBI
cM Map1547.39NCBI
Yaf2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555001,531,884 - 1,559,892 (-)Ensembl
ChiLan1.0NW_0049555001,531,884 - 1,626,335 (-)NCBIChiLan1.0ChiLan1.0
YAF2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21051,921,778 - 51,998,654 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11251,918,589 - 51,995,404 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01246,479,251 - 46,558,030 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11247,343,211 - 47,420,286 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1247,343,211 - 47,420,286 (+)EnsemblpanPan2panpan1.1
YAF2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12711,676,243 - 11,746,118 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2711,675,909 - 11,744,683 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2734,557,231 - 34,627,360 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02711,872,512 - 11,942,648 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2711,872,436 - 11,949,313 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12711,690,377 - 11,760,588 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02711,720,972 - 11,791,255 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02734,803,552 - 34,873,633 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Yaf2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494572,163,301 - 72,243,516 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936512928,893 - 1,002,061 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936512927,751 - 1,001,515 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
YAF2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl573,411,038 - 73,497,180 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1573,411,029 - 73,497,347 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
YAF2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11138,391,203 - 38,469,679 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666037208,102,162 - 208,183,396 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Yaf2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249171,978,168 - 2,074,149 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046249171,975,472 - 2,074,305 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Yaf2
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11266,217,465 - 266,271,712 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Yaf2
521 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:168
Count of miRNA genes:124
Interacting mature miRNAs:149
Transcripts:ENSRNOT00000006621
Prediction methods:Miranda, Rnahybrid, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631529Tls2T-lymphoma susceptibility QTL 200.001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)782111382132099989Rat
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7121393075137014596Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)798549867137014596Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7119280025135560836Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7104186212135371468Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)793302009131686183Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7110725024135371468Rat
61428Scl3Serum cholesterol level QTL 33.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)7100548246137014596Rat
61397Bw17Body weight QTL 176.3body mass (VT:0001259)body weight (CMO:0000012)795485047137014596Rat
1331746Kidm9Kidney mass QTL 93.934kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)782111245134948181Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7115313999136544683Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)7116269196132020414Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)746307490127866166Rat
634322Bw12Body weight QTL 120body mass (VT:0001259)body weight (CMO:0000012)785043242130043242Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)785497398130497398Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)792362341137014596Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)771827901136544683Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)783626689128626689Rat

Markers in Region
D7Got115  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr87126,332,491 - 126,332,634 (+)Marker Load Pipeline
mRatBN7.27124,453,039 - 124,453,182 (+)MAPPERmRatBN7.2
Rnor_6.07134,514,240 - 134,514,382NCBIRnor6.0
Rnor_5.07134,184,450 - 134,184,592UniSTSRnor5.0
RGSC_v3.47131,779,539 - 131,779,682RGDRGSC3.4
RGSC_v3.47131,779,540 - 131,779,682UniSTSRGSC3.4
Celera7120,851,118 - 120,851,253UniSTS
RGSC_v3.17131,855,977 - 131,856,119RGD
RH 3.4 Map71022.4RGD
RH 3.4 Map71022.4UniSTS
RH 2.0 Map7753.5RGD
Cytogenetic Map7q35UniSTS
RH143357  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr87126,325,254 - 126,325,976 (+)Marker Load Pipeline
mRatBN7.27124,445,802 - 124,446,524 (+)MAPPERmRatBN7.2
Rnor_6.07134,507,003 - 134,507,724NCBIRnor6.0
Rnor_5.07134,177,213 - 134,177,934UniSTSRnor5.0
RGSC_v3.47131,772,302 - 131,773,023UniSTSRGSC3.4
Celera7120,843,883 - 120,844,604UniSTS
RH 3.4 Map71008.8UniSTS
Cytogenetic Map7q35UniSTS


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 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000006621   ⟹   ENSRNOP00000006621
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl7126,323,604 - 126,379,260 (-)Ensembl
mRatBN7.2 Ensembl7124,444,152 - 124,499,928 (-)Ensembl
Rnor_6.0 Ensembl7134,505,737 - 134,560,713 (-)Ensembl
RefSeq Acc Id: NM_001134871   ⟹   NP_001128343
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87126,323,604 - 126,378,784 (-)NCBI
mRatBN7.27124,444,152 - 124,499,336 (-)NCBI
Rnor_6.07134,505,352 - 134,560,713 (-)NCBI
Rnor_5.07134,175,947 - 134,230,702 (-)NCBI
RGSC_v3.47131,771,036 - 131,825,986 (-)RGD
Celera7120,842,232 - 120,897,579 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039079923   ⟹   XP_038935851
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87126,323,989 - 126,336,616 (-)NCBI
mRatBN7.27124,444,537 - 124,456,451 (-)NCBI
RefSeq Acc Id: XM_063264281   ⟹   XP_063120351
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87126,359,118 - 126,379,061 (-)NCBI
RefSeq Acc Id: XM_063264282   ⟹   XP_063120352
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87126,323,989 - 126,378,838 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001128343 (Get FASTA)   NCBI Sequence Viewer  
  XP_038935851 (Get FASTA)   NCBI Sequence Viewer  
  XP_063120351 (Get FASTA)   NCBI Sequence Viewer  
  XP_063120352 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL76622 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000006621.7
RefSeq Acc Id: NP_001128343   ⟸   NM_001134871
- UniProtKB: A6K7S8 (UniProtKB/TrEMBL),   A6K7S7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000006621   ⟸   ENSRNOT00000006621
RefSeq Acc Id: XP_038935851   ⟸   XM_039079923
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063120352   ⟸   XM_063264282
- Peptide Label: isoform X3
- UniProtKB: A6K7S7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063120351   ⟸   XM_063264281
- Peptide Label: isoform X1
Protein Domains
RanBP2-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZII7-F1-model_v2 AlphaFold D3ZII7 1-179 view protein structure

Transcriptome

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

Promoters
RGD ID:13695601
Promoter ID:EPDNEW_R6126
Type:multiple initiation site
Name:Yaf2_1
Description:YY1 associated factor 2
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_6.07134,560,624 - 134,560,684EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1582851 AgrOrtholog
BioCyc Gene G2FUF-32339 BioCyc
Ensembl Genes ENSRNOG00000004773 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000006621.8 UniProtKB/TrEMBL
Gene3D-CATH Zinc finger, RanBP2-type UniProtKB/TrEMBL
InterPro RYBP/YAF2 UniProtKB/TrEMBL
  YAF2_RYBP UniProtKB/TrEMBL
  Znf_RanBP2 UniProtKB/TrEMBL
  Znf_RanBP2_sf UniProtKB/TrEMBL
KEGG Report rno:690262 UniProtKB/TrEMBL
NCBI Gene 690262 ENTREZGENE
PANTHER PTHR12920 UniProtKB/TrEMBL
  PTHR12920:SF2 UniProtKB/TrEMBL
Pfam YAF2_RYBP UniProtKB/TrEMBL
  zf-RanBP UniProtKB/TrEMBL
PhenoGen Yaf2 PhenoGen
PROSITE ZF_RANBP2_1 UniProtKB/TrEMBL
  ZF_RANBP2_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000004773 RatGTEx
SMART ZnF_RBZ UniProtKB/TrEMBL
Superfamily-SCOP SSF90209 UniProtKB/TrEMBL
UniProt A6K7S7 ENTREZGENE, UniProtKB/TrEMBL
  A6K7S8 ENTREZGENE, UniProtKB/TrEMBL
  D3ZII7_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-06 Yaf2  YY1 associated factor 2  LOC690262  similar to YY1-associated factor 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC690262  similar to YY1-associated factor 2      Symbol and Name status set to provisional 70820 PROVISIONAL