Aff4 (ALF transcription elongation factor 4) - Rat Genome Database

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Gene: Aff4 (ALF transcription elongation factor 4) Rattus norvegicus
Analyze
Symbol: Aff4
Name: ALF transcription elongation factor 4
RGD ID: 1311694
Description: Predicted to enable transcription coregulator activity. Involved in response to endoplasmic reticulum stress. Predicted to be located in euchromatin; fibrillar center; and nuclear body. Predicted to be part of super elongation complex. Orthologous to human AFF4 (ALF transcription elongation factor 4); PARTICIPATES IN RNA polymerase II transcription elongation pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: AF4/FMR2 family member 4; AF4/FMR2 family, member 4; Laf4l; LOC303132; lymphoid nuclear protein related to AF4-like
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
GRCr81037,998,319 - 38,080,580 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1037,999,579 - 38,080,580 (+)EnsemblGRCr8
mRatBN7.21037,498,825 - 37,579,751 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1037,498,825 - 37,579,751 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1042,191,881 - 42,272,554 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01041,681,915 - 41,762,603 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01037,185,635 - 37,266,323 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd1040,911,939 - 40,992,656 (+)NCBIDahl_SR_JrHsd
Lyon_Normotensive1041,576,174 - 41,656,889 (+)NCBILyon_Normotensive
Lyon_Hypertensive1043,270,562 - 43,349,626 (+)NCBILyon_Hypertensive
F344_StmMcwi1043,173,150 - 43,253,137 (+)NCBIF344_StmMcwi
Rnor_6.01038,692,167 - 38,773,021 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1038,692,211 - 38,773,021 (+)Ensemblrn6Rnor6.0
Rnor_5.01038,473,786 - 38,555,300 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41038,798,873 - 38,883,154 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1036,846,104 - 36,927,272 (+)NCBICelera
RGSC_v3.11038,805,468 - 38,883,565 (+)NCBI
Cytogenetic Map10q22NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
(1->4)-beta-D-glucan  (ISO)
1,2-dimethylhydrazine  (ISO)
1-nitropyrene  (ISO)
17beta-estradiol  (EXP)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
3,4-methylenedioxymethamphetamine  (EXP,ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
acrolein  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
alpha-pinene  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bortezomib  (ISO)
C60 fullerene  (EXP)
cadmium atom  (EXP,ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (ISO)
CGP 52608  (ISO)
chloroprene  (EXP)
cobalt dichloride  (ISO)
cocaine  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
coumarin  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
DDE  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (EXP,ISO)
dimethyl sulfoxide  (ISO)
dimethylarsinous acid  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (ISO)
Enterolactone  (ISO)
ethyl methanesulfonate  (ISO)
fenthion  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
FR900359  (ISO)
geldanamycin  (ISO)
gentamycin  (EXP)
geraniol  (ISO)
hydrogen peroxide  (ISO)
indometacin  (ISO)
lead(0)  (ISO)
leflunomide  (ISO)
mercury dichloride  (ISO)
methapyrilene  (EXP)
methidathion  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
okadaic acid  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (EXP,ISO)
parathion  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
resveratrol  (EXP,ISO)
SB 431542  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
theophylline  (ISO)
thimerosal  (ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
trichostatin A  (ISO)
triphenyl phosphate  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
urethane  (ISO)
valproic acid  (EXP,ISO)
vinclozolin  (EXP)
vorinostat  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. AFF4 Predicts the Prognosis of Colorectal Cancer Patients and Suppresses Colorectal Cancer Metastasis via Promoting CDH1 Expression. Fang Y, etal., Front Oncol. 2022 Feb 9;12:797392. doi: 10.3389/fonc.2022.797392. eCollection 2022.
2. 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.
3. AFF4 facilitates melanoma cell progression by regulating c-Jun activity. Hu H, etal., Exp Cell Res. 2021 Feb 15;399(2):112445. doi: 10.1016/j.yexcr.2020.112445. Epub 2021 Jan 5.
4. Genipin attenuates mitochondrial-dependent apoptosis, endoplasmic reticulum stress, and inflammation via the PI3K/AKT pathway in acute lung injury. Luo X, etal., Int Immunopharmacol. 2019 Nov;76:105842. doi: 10.1016/j.intimp.2019.105842. Epub 2019 Aug 26.
5. The super elongation complex (SEC) family in transcriptional control. Luo Z, etal., Nat Rev Mol Cell Biol. 2012 Sep;13(9):543-7. doi: 10.1038/nrm3417. Epub 2012 Aug 16.
6. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:16024815   PMID:22195968  


Genomics

Comparative Map Data
Aff4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81037,998,319 - 38,080,580 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1037,999,579 - 38,080,580 (+)EnsemblGRCr8
mRatBN7.21037,498,825 - 37,579,751 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1037,498,825 - 37,579,751 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1042,191,881 - 42,272,554 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01041,681,915 - 41,762,603 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01037,185,635 - 37,266,323 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd1040,911,939 - 40,992,656 (+)NCBIDahl_SR_JrHsd
Lyon_Normotensive1041,576,174 - 41,656,889 (+)NCBILyon_Normotensive
Lyon_Hypertensive1043,270,562 - 43,349,626 (+)NCBILyon_Hypertensive
F344_StmMcwi1043,173,150 - 43,253,137 (+)NCBIF344_StmMcwi
Rnor_6.01038,692,167 - 38,773,021 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1038,692,211 - 38,773,021 (+)Ensemblrn6Rnor6.0
Rnor_5.01038,473,786 - 38,555,300 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41038,798,873 - 38,883,154 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1036,846,104 - 36,927,272 (+)NCBICelera
RGSC_v3.11038,805,468 - 38,883,565 (+)NCBI
Cytogenetic Map10q22NCBI
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 (-)Ensemblhg38GRCh38
GRCh375132,211,087 - 132,299,326 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365132,238,970 - 132,327,253 (-)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm381153,350,640 - 53,421,830 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1153,350,833 - 53,421,830 (+)Ensemblmm10GRCm38
MGSCv371153,164,269 - 53,235,332 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361153,194,256 - 53,265,263 (+)NCBIMGSCv36mm8
Celera1157,930,485 - 58,001,550 (+)NCBICelera
Cytogenetic Map11B1.3NCBI
cM Map1131.93NCBI
Aff4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554084,248,563 - 4,305,194 (-)Ensembl
ChiLan1.0NW_0049554084,247,730 - 4,305,194 (-)NCBIChiLan1.0ChiLan1.0
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 (-)EnsemblpanPan2panpan1.1
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 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1119,960,642 - 20,053,417 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01121,945,075 - 22,033,184 (-)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (+)EnsemblSpeTri2.0 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 (-)EnsemblsusScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473339,126,483 - 39,226,969 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Aff4
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1935,832,796 - 35,912,743 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Aff4
613 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:899
Count of miRNA genes:325
Interacting mature miRNAs:453
Transcripts:ENSRNOT00000009440
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61441Btemp1Thermal response to stress QTL 14body temperature trait (VT:0005535)core body temperature (CMO:0001036)103589345164140567Rat
152025229Scl83Serum cholesterol level QTL 834.33blood cholesterol amount (VT:0000180)103621155669161158Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103179628176796281Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101577675460776754Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102702353598502431Rat
2293669Bmd33Bone mineral density QTL 334.50.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)102744378772443787Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)103550938391417879Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10125055464349221Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
2293679Bmd30Bone mineral density QTL 303.50.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)102744378772443787Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10687714251877142Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)101993920764939207Rat
61332Eau3Experimental allergic uveoretinitis QTL 30.004uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)101803578263035782Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1092219745922197Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)10210370847103708Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101866841963668419Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102183375861843633Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102895035373950353Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
1358897Stresp6Stress response QTL 64.170.022blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)103589326364653589Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102980091064653589Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102744378772443787Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101499153586964295Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
2293652Bmd22Bone mineral density QTL 224.90.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)102744378772443787Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014991535107556066Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102293137391127454Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10666092373950353Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10589381150893811Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10589381150893811Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)101465354159653541Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101553301273695498Rat
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)102466212373695339Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102702353561843633Rat
2298480Eau7Experimental allergic uveoretinitis QTL 70.0049uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)103550938380509383Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10589381150893811Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)102980091091417879Rat
2298495Eae23Experimental allergic encephalomyelitis QTL 2316.93nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis duration (CMO:0001424)101617552561175525Rat
2313087Bmd80Bone mineral density QTL 803.20.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)102011061465110614Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138832698Rat
1354614Hpcl1Hepatic cholesterol level QTL 13.3liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)103589326352293000Rat
2289985Bp305Blood pressure QTL 305arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102907697874076978Rat
631530Tls3T-lymphoma susceptibility QTL 300.0001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)102758722696099902Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101803578263035782Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
1600371Mcs21Mammary carcinoma susceptibility QTL 213mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)102937704652699134Rat
2293705Bmd25Bone mineral density QTL 257.10.0001femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)102744378772443787Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014991535107713808Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103112911376129113Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10686461896620484Rat
6893342Cm78Cardiac mass QTL 780.10.88heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)103550938388177745Rat
2313055Bw96Body weight QTL 963.60.0001body mass (VT:0001259)body weight (CMO:0000012)102011061465110614Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102702353599451848Rat

Markers in Region
SGC32016  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21037,578,868 - 37,579,002 (+)MAPPERmRatBN7.2
Rnor_6.01038,772,139 - 38,772,272NCBIRnor6.0
Rnor_5.01038,554,418 - 38,554,551UniSTSRnor5.0
RGSC_v3.41038,882,272 - 38,882,405UniSTSRGSC3.4
Celera1036,926,390 - 36,926,523UniSTS
Cytogenetic Map10q22UniSTS
RH142595  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21037,573,390 - 37,573,508 (+)MAPPERmRatBN7.2
Rnor_6.01038,766,661 - 38,766,778NCBIRnor6.0
Rnor_5.01038,548,940 - 38,549,057UniSTSRnor5.0
RGSC_v3.41038,876,794 - 38,876,911UniSTSRGSC3.4
Celera1036,920,911 - 36,921,028UniSTS
RH 3.4 Map10402.5UniSTS
Cytogenetic Map10q22UniSTS
AU047273  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21037,569,393 - 37,569,548 (+)MAPPERmRatBN7.2
Rnor_6.01038,762,662 - 38,762,818NCBIRnor6.0
Rnor_5.01038,544,557 - 38,544,713UniSTSRnor5.0
RGSC_v3.41038,872,795 - 38,872,951UniSTSRGSC3.4
Celera1036,916,912 - 36,917,068UniSTS
Cytogenetic Map10q22UniSTS
stSG601610  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21037,552,129 - 37,553,740 (+)MAPPERmRatBN7.2
Rnor_6.01038,745,401 - 38,747,011NCBIRnor6.0
Rnor_5.01038,527,155 - 38,528,765UniSTSRnor5.0
RGSC_v3.41038,854,988 - 38,856,598UniSTSRGSC3.4
Celera1036,899,569 - 36,901,181UniSTS
Cytogenetic Map10q22UniSTS
MARC_16763-16764:1020874272:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81038,024,346 - 38,024,841 (+)Marker Load Pipeline
mRatBN7.21037,523,517 - 37,524,011 (+)MAPPERmRatBN7.2
Rnor_6.01038,716,720 - 38,717,213NCBIRnor6.0
Rnor_5.01038,498,582 - 38,499,075UniSTSRnor5.0
RGSC_v3.41038,824,744 - 38,825,237UniSTSRGSC3.4
Celera1036,870,605 - 36,871,098UniSTS
Cytogenetic Map10q22UniSTS
REN72054  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21037,578,697 - 37,578,929 (+)MAPPERmRatBN7.2
Rnor_6.01038,771,968 - 38,772,199NCBIRnor6.0
Rnor_5.01038,554,247 - 38,554,478UniSTSRnor5.0
RGSC_v3.41038,882,101 - 38,882,332UniSTSRGSC3.4
Celera1036,926,219 - 36,926,450UniSTS
Cytogenetic Map10q22UniSTS


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: ENSRNOT00000009440   ⟹   ENSRNOP00000009440
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1037,999,654 - 38,080,580 (+)Ensembl
mRatBN7.2 Ensembl1037,498,825 - 37,579,751 (+)Ensembl
Rnor_6.0 Ensembl1038,692,211 - 38,773,021 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000114150   ⟹   ENSRNOP00000088228
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1038,001,993 - 38,075,393 (+)Ensembl
mRatBN7.2 Ensembl1037,498,825 - 37,579,751 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000117466   ⟹   ENSRNOP00000086504
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1037,999,579 - 38,075,393 (+)Ensembl
mRatBN7.2 Ensembl1037,498,825 - 37,579,751 (+)Ensembl
RefSeq Acc Id: NM_001107001   ⟹   NP_001100471
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81037,999,654 - 38,080,580 (+)NCBI
mRatBN7.21037,498,825 - 37,579,751 (+)NCBI
Dahl_SR_JrHsd1040,911,939 - 40,992,656 (+)NCBI
Lyon_Normotensive1041,576,174 - 41,656,889 (+)NCBI
Lyon_Hypertensive1043,270,562 - 43,349,626 (+)NCBI
F344_StmMcwi1043,173,150 - 43,253,137 (+)NCBI
Rnor_6.01038,692,211 - 38,773,021 (+)NCBI
Rnor_5.01038,473,786 - 38,555,300 (+)NCBI
RGSC_v3.41038,798,873 - 38,883,154 (+)RGD
Celera1036,846,104 - 36,927,272 (+)RGD
Sequence:
RefSeq Acc Id: XM_006246263   ⟹   XP_006246325
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81037,998,319 - 38,079,873 (+)NCBI
mRatBN7.21037,498,825 - 37,579,044 (+)NCBI
Rnor_6.01038,692,167 - 38,772,314 (+)NCBI
Rnor_5.01038,473,786 - 38,555,300 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006246264   ⟹   XP_006246326
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81037,998,319 - 38,079,873 (+)NCBI
mRatBN7.21037,498,998 - 37,579,044 (+)NCBI
Rnor_6.01038,692,232 - 38,772,314 (+)NCBI
Rnor_5.01038,473,786 - 38,555,300 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008767684   ⟹   XP_008765906
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81038,010,545 - 38,079,873 (+)NCBI
mRatBN7.21037,511,407 - 37,579,044 (+)NCBI
Rnor_6.01038,704,315 - 38,772,314 (+)NCBI
Sequence:
RefSeq Acc Id: NP_001100471   ⟸   NM_001107001
- UniProtKB: A6HEC4 (UniProtKB/TrEMBL),   A0A8I6GGV9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006246325   ⟸   XM_006246263
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006246326   ⟸   XM_006246264
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008765906   ⟸   XM_008767684
- Peptide Label: isoform X1
- UniProtKB: D3ZSX2 (UniProtKB/TrEMBL),   A0A8I6GGV9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000009440   ⟸   ENSRNOT00000009440
Ensembl Acc Id: ENSRNOP00000086504   ⟸   ENSRNOT00000117466
Ensembl Acc Id: ENSRNOP00000088228   ⟸   ENSRNOT00000114150
Protein Domains
AF4/FMR2 C-terminal homology

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZSX2-F1-model_v2 AlphaFold D3ZSX2 1-1150 view protein structure

Transcriptome

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

Promoters
RGD ID:13697174
Promoter ID:EPDNEW_R7699
Type:multiple initiation site
Name:Aff4_1
Description:AF4/FMR2 family, member 4
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_6.01038,692,268 - 38,692,328EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311694 AgrOrtholog
BioCyc Gene G2FUF-25145 BioCyc
Ensembl Genes ENSRNOG00000006965 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000009440 ENTREZGENE
  ENSRNOT00000009440.8 UniProtKB/TrEMBL
  ENSRNOT00000114150 ENTREZGENE
  ENSRNOT00000114150.2 UniProtKB/TrEMBL
  ENSRNOT00000117466 ENTREZGENE
  ENSRNOT00000117466.2 UniProtKB/TrEMBL
Gene3D-CATH 6.10.250.2670 UniProtKB/TrEMBL
InterPro AF-4 UniProtKB/TrEMBL
  AF4/FMR2_C UniProtKB/TrEMBL
  AF4_int UniProtKB/TrEMBL
KEGG Report rno:303132 UniProtKB/TrEMBL
NCBI Gene 303132 ENTREZGENE
PANTHER AF-4 UniProtKB/TrEMBL
  AF4/FMR2 FAMILY MEMBER 4 UniProtKB/TrEMBL
Pfam AF-4 UniProtKB/TrEMBL
  AF-4_C UniProtKB/TrEMBL
  AF4_int UniProtKB/TrEMBL
PhenoGen Aff4 PhenoGen
RatGTEx ENSRNOG00000006965 RatGTEx
UniProt A0A8I6GE44 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6GGV9 ENTREZGENE, UniProtKB/TrEMBL
  A6HEC4 ENTREZGENE, UniProtKB/TrEMBL
  D3ZSX2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-07-05 Aff4  ALF transcription elongation factor 4  Aff4  AF4/FMR2 family, member 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Aff4  AF4/FMR2 family, member 4   Aff4_predicted  AF4/FMR2 family, member 4 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Aff4_predicted  AF4/FMR2 family, member 4 (predicted)  Laf4l_predicted  lymphoid nuclear protein related to AF4-like (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-12 Laf4l_predicted  lymphoid nuclear protein related to AF4-like (predicted)      Symbol and Name status set to approved 70820 APPROVED