AFF4 (ALF transcription elongation factor 4) - Rat Genome Database

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Gene: AFF4 (ALF transcription elongation factor 4) Pan paniscus
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Symbol: AFF4
Name: ALF transcription elongation factor 4
RGD ID: 11697349
Description: INVOLVED IN response to endoplasmic reticulum stress (ortholog); spermatid development (ortholog); PARTICIPATES IN RNA polymerase II transcription elongation pathway; ASSOCIATED WITH Acute Lung Injury (ortholog); autism spectrum disorder (ortholog); bone development disease (ortholog); FOUND IN euchromatin (inferred); fibrillar center (inferred); nucleoplasm (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: AF4/FMR2 family member 4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly
Position:
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24128,187,965 - 128,270,350 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15126,327,517 - 126,409,615 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05128,292,700 - 128,374,511 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15134,451,740 - 134,532,517 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5134,457,398 - 134,532,625 (-)Ensemblpanpan1.1panPan2
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
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
AFF4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24128,187,965 - 128,270,350 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15126,327,517 - 126,409,615 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05128,292,700 - 128,374,511 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15134,451,740 - 134,532,517 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5134,457,398 - 134,532,625 (-)Ensemblpanpan1.1panPan2
AFF4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385132,875,395 - 132,963,634 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5132,875,395 - 132,963,634 (-)EnsemblGRCh38hg38GRCh38
GRCh375132,211,087 - 132,299,326 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365132,238,970 - 132,327,253 (-)NCBINCBI36Build 36hg18NCBI36
Celera5128,341,097 - 128,429,374 (-)NCBICelera
Cytogenetic Map5q31.1NCBI
HuRef5127,403,706 - 127,491,391 (-)NCBIHuRef
CHM1_15131,644,358 - 131,732,653 (-)NCBICHM1_1
T2T-CHM13v2.05133,395,153 - 133,483,382 (-)NCBIT2T-CHM13v2.0
Aff4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391153,240,807 - 53,312,657 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1153,241,660 - 53,312,657 (+)EnsemblGRCm39 Ensembl
GRCm381153,350,640 - 53,421,830 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1153,350,833 - 53,421,830 (+)EnsemblGRCm38mm10GRCm38
MGSCv371153,164,269 - 53,235,332 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361153,194,256 - 53,265,263 (+)NCBIMGSCv36mm8
Celera1157,930,485 - 58,001,550 (+)NCBICelera
Cytogenetic Map11B1.3NCBI
cM Map1131.93NCBI
Aff4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81037,998,319 - 38,080,580 (+)NCBIGRCr8
mRatBN7.21037,498,825 - 37,579,751 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1037,498,825 - 37,579,751 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1042,191,881 - 42,272,554 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01041,681,915 - 41,762,603 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01037,185,635 - 37,266,323 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01038,692,167 - 38,773,021 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1038,692,211 - 38,773,021 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01038,473,786 - 38,555,300 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41038,798,873 - 38,883,154 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11038,805,468 - 38,883,565 (+)NCBI
Celera1036,846,104 - 36,927,272 (+)NCBICelera
Cytogenetic Map10q22NCBI
Aff4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554084,248,563 - 4,305,194 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554084,247,730 - 4,305,194 (-)NCBIChiLan1.0ChiLan1.0
AFF4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11121,157,790 - 21,218,750 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1121,163,398 - 21,218,190 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1119,960,642 - 20,053,417 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01121,945,075 - 22,033,184 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1121,947,331 - 22,033,241 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11120,663,430 - 20,751,443 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01120,511,144 - 20,599,256 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01121,153,663 - 21,241,674 (-)NCBIUU_Cfam_GSD_1.0
Aff4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213115,239,719 - 115,339,647 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366472,242,319 - 2,336,532 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366472,242,476 - 2,342,409 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
AFF4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2135,200,076 - 135,283,675 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12135,196,067 - 135,283,931 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22140,668,525 - 140,696,941 (-)NCBISscrofa10.2Sscrofa10.2susScr3
AFF4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12335,693,427 - 35,782,746 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2335,699,094 - 35,782,683 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603442,158,934 - 42,249,046 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Aff4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473339,123,575 - 39,221,424 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473339,126,483 - 39,226,969 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSPPAT00000064202   ⟹   ENSPPAP00000041278
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl5134,457,398 - 134,532,625 (-)Ensembl
Ensembl Acc Id: ENSPPAT00000064203   ⟹   ENSPPAP00000041279
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl5134,457,404 - 134,473,131 (-)Ensembl
RefSeq Acc Id: XM_003829291   ⟹   XP_003829339
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v24128,187,965 - 128,270,350 (-)NCBI
NHGRI_mPanPan15126,327,517 - 126,409,615 (-)NCBI
Mhudiblu_PPA_v05128,292,700 - 128,374,511 (-)NCBI
PanPan1.15134,451,740 - 134,532,491 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008954658   ⟹   XP_008952906
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v24128,187,965 - 128,270,046 (-)NCBI
NHGRI_mPanPan15126,327,517 - 126,409,291 (-)NCBI
Mhudiblu_PPA_v05128,292,700 - 128,374,467 (-)NCBI
PanPan1.15134,451,746 - 134,532,513 (-)NCBI
Sequence:
RefSeq Acc Id: XM_034960498   ⟹   XP_034816389
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v24128,187,965 - 128,269,321 (-)NCBI
NHGRI_mPanPan15126,327,517 - 126,408,885 (-)NCBI
Mhudiblu_PPA_v05128,292,700 - 128,354,249 (-)NCBI
RefSeq Acc Id: XM_055112640   ⟹   XP_054968615
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v24128,187,965 - 128,261,886 (-)NCBI
NHGRI_mPanPan15126,327,517 - 126,400,337 (-)NCBI
RefSeq Acc Id: XM_055112641   ⟹   XP_054968616
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v24128,187,965 - 128,261,886 (-)NCBI
NHGRI_mPanPan15126,327,517 - 126,400,337 (-)NCBI
RefSeq Acc Id: XM_055112643   ⟹   XP_054968618
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v24128,187,965 - 128,239,391 (-)NCBI
NHGRI_mPanPan15126,327,517 - 126,378,955 (-)NCBI
RefSeq Acc Id: XM_063604619   ⟹   XP_063460689
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v24128,187,965 - 128,270,037 (-)NCBI
RefSeq Acc Id: XM_063604620   ⟹   XP_063460690
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v24128,187,965 - 128,270,025 (-)NCBI
RefSeq Acc Id: XP_003829339   ⟸   XM_003829291
- Peptide Label: isoform X1
- UniProtKB: A0A2R9CJU9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008952906   ⟸   XM_008954658
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_034816389   ⟸   XM_034960498
- Peptide Label: isoform X1
- UniProtKB: A0A2R9CJU9 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSPPAP00000041279   ⟸   ENSPPAT00000064203
Ensembl Acc Id: ENSPPAP00000041278   ⟸   ENSPPAT00000064202
RefSeq Acc Id: XP_054968615   ⟸   XM_055112640
- Peptide Label: isoform X1
- UniProtKB: A0A2R9CJU9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_054968616   ⟸   XM_055112641
- Peptide Label: isoform X1
- UniProtKB: A0A2R9CJU9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_054968618   ⟸   XM_055112643
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063460689   ⟸   XM_063604619
- Peptide Label: isoform X1
- UniProtKB: A0A2R9CJU9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063460690   ⟸   XM_063604620
- Peptide Label: isoform X2
Protein Domains
AF4/FMR2 C-terminal homology


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSPPAG00000043255 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSPPAT00000064202.1 UniProtKB/TrEMBL
  ENSPPAT00000064203.1 UniProtKB/TrEMBL
Gene3D-CATH 6.10.250.2670 UniProtKB/TrEMBL
InterPro AF4/FMR2 UniProtKB/TrEMBL
  AF4/FMR2_CHD UniProtKB/TrEMBL
  AF4_int UniProtKB/TrEMBL
KEGG Report pps:100986081 UniProtKB/TrEMBL
NCBI Gene AFF4 ENTREZGENE
PANTHER AF4/FMR2 FAMILY MEMBER 4 UniProtKB/TrEMBL
  PTHR10528 UniProtKB/TrEMBL
Pfam AF-4 UniProtKB/TrEMBL
  AF-4_C UniProtKB/TrEMBL
  AF4_int UniProtKB/TrEMBL
UniProt A0A2R9CH86_PANPA UniProtKB/TrEMBL
  A0A2R9CJU9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-21 AFF4  ALF transcription elongation factor 4  AFF4  AF4/FMR2 family member 4  Symbol and/or name change 5135510 APPROVED