Sf3b4 (splicing factor 3B subunit 4) - Rat Genome Database

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Gene: Sf3b4 (splicing factor 3B subunit 4) Rattus norvegicus
Analyze
Symbol: Sf3b4
Name: splicing factor 3B subunit 4
RGD ID: 1309667
Description: Predicted to enable RNA binding activity and splicing factor binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be located in nucleus. Predicted to be part of U12-type spliceosomal complex; U2 snRNP; and U2-type precatalytic spliceosome. Biomarker of hepatocellular carcinoma. Human ortholog(s) of this gene implicated in Nager acrofacial dysostosis; cervical cancer; and hepatocellular carcinoma. Orthologous to human SF3B4 (splicing factor 3b subunit 4); PARTICIPATES IN spliceosome pathway; INTERACTS WITH (+)-schisandrin B; 2,4-dinitrotoluene; 4-amino-2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC295270
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82186,421,667 - 186,426,419 (+)NCBIGRCr8
mRatBN7.22183,732,791 - 183,737,545 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2183,732,754 - 183,737,959 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2191,396,404 - 191,401,180 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02189,200,725 - 189,205,496 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02184,028,938 - 184,033,714 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02198,312,428 - 198,317,180 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2198,312,428 - 198,317,180 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02217,799,411 - 217,804,163 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42190,976,681 - 190,981,433 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12190,939,434 - 190,944,187 (+)NCBI
Celera2176,260,078 - 176,264,830 (+)NCBICelera
Cytogenetic Map2q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4,6-tribromophenol  (ISO)
2,4-dinitrotoluene  (EXP)
3',5'-cyclic UMP  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4-amino-2,6-dinitrotoluene  (EXP)
4-hydroxyphenyl retinamide  (ISO)
4-tert-Octylphenol  (EXP)
acrolein  (ISO)
alpha-pinene  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
CGP 52608  (ISO)
chloropicrin  (ISO)
chlorpyrifos  (ISO)
chromium(6+)  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
dibutyl phthalate  (ISO)
dicrotophos  (ISO)
diethylstilbestrol  (EXP)
disulfiram  (ISO)
elemental selenium  (ISO)
enzyme inhibitor  (ISO)
flutamide  (EXP)
folic acid  (ISO)
haloperidol  (ISO)
ionomycin  (ISO)
isoflurane  (ISO)
ivermectin  (ISO)
leflunomide  (ISO)
nefazodone  (EXP)
ozone  (ISO)
p-tert-Amylphenol  (EXP)
paracetamol  (ISO)
pentachlorophenol  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
potassium chromate  (ISO)
pyrrolidine dithiocarbamate  (ISO)
quercetin  (ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
sunitinib  (ISO)
tetrachloromethane  (EXP)
thimerosal  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
triphenyl phosphate  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function
protein binding  (ISO)
RNA binding  (IBA,IEA)
splicing factor binding  (IEA,ISO,ISS)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Haploinsufficiency of SF3B4, a component of the pre-mRNA spliceosomal complex, causes Nager syndrome. Bernier FP, etal., Am J Hum Genet. 2012 May 4;90(5):925-33. doi: 10.1016/j.ajhg.2012.04.004. Epub 2012 Apr 26.
2. Proteomic analysis of in vivo-assembled pre-mRNA splicing complexes expands the catalog of participating factors. Chen YI, etal., Nucleic Acids Res. 2007;35(12):3928-44. Epub 2007 May 30.
3. Clinical and mutation data in 12 patients with the clinical diagnosis of Nager syndrome. Czeschik JC, etal., Hum Genet. 2013 Aug;132(8):885-98. doi: 10.1007/s00439-013-1295-2. Epub 2013 Apr 9.
4. 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.
5. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
6. The splicing factor SF3B4 drives proliferation and invasion in cervical cancer by regulating SPAG5. Li Y, etal., Cell Death Discov. 2022 Jul 19;8(1):326. doi: 10.1038/s41420-022-01120-3.
7. SF3B4 is regulated by microRNA-133b and promotes cell proliferation and metastasis in hepatocellular carcinoma. Liu Z, etal., EBioMedicine. 2018 Dec;38:57-68. doi: 10.1016/j.ebiom.2018.10.067. Epub 2018 Nov 1.
8. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
9. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
10. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
11. GOA pipeline RGD automated data pipeline
12. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
14. Comprehensive gene review and curation RGD comprehensive gene curation
15. Barrier to autointegration factor 1, procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3, and splicing factor 3b subunit 4 as early-stage cancer decision markers and drivers of hepatocellular carcinoma. Shen Q, etal., Hepatology. 2018 Apr;67(4):1360-1377. doi: 10.1002/hep.29606. Epub 2018 Feb 20.
16. SF3B4 is decreased in pancreatic cancer and inhibits the growth and migration of cancer cells. Zhou W, etal., Tumour Biol. 2017 Mar;39(3):1010428317695913. doi: 10.1177/1010428317695913.
Additional References at PubMed
PMID:9731529   PMID:12477932   PMID:15146077   PMID:22658674   PMID:22681889   PMID:23636947   PMID:27720643   PMID:28541300   PMID:29360106  


Genomics

Comparative Map Data
Sf3b4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82186,421,667 - 186,426,419 (+)NCBIGRCr8
mRatBN7.22183,732,791 - 183,737,545 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2183,732,754 - 183,737,959 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2191,396,404 - 191,401,180 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02189,200,725 - 189,205,496 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02184,028,938 - 184,033,714 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02198,312,428 - 198,317,180 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2198,312,428 - 198,317,180 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02217,799,411 - 217,804,163 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42190,976,681 - 190,981,433 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12190,939,434 - 190,944,187 (+)NCBI
Celera2176,260,078 - 176,264,830 (+)NCBICelera
Cytogenetic Map2q34NCBI
SF3B4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381149,923,317 - 149,927,803 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1149,923,317 - 149,927,803 (-)EnsemblGRCh38hg38GRCh38
GRCh371149,895,209 - 149,899,695 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361148,161,835 - 148,166,326 (-)NCBINCBI36Build 36hg18NCBI36
Build 341146,708,283 - 146,712,775NCBI
Celera1123,011,181 - 123,015,672 (-)NCBICelera
Cytogenetic Map1q21.2NCBI
HuRef1121,275,693 - 121,280,628 (-)NCBIHuRef
CHM1_11151,291,443 - 151,296,378 (-)NCBICHM1_1
T2T-CHM13v2.01149,047,800 - 149,055,723 (-)NCBIT2T-CHM13v2.0
Sf3b4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39396,079,822 - 96,084,880 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl396,079,648 - 96,084,880 (+)EnsemblGRCm39 Ensembl
GRCm38396,172,506 - 96,177,564 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl396,172,332 - 96,177,564 (+)EnsemblGRCm38mm10GRCm38
MGSCv37395,976,473 - 95,981,487 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36396,257,955 - 96,262,969 (+)NCBIMGSCv36mm8
Celera397,608,698 - 97,613,377 (+)NCBICelera
Cytogenetic Map3F2.1NCBI
cM Map341.65NCBI
Sf3b4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955413826,190 - 832,496 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955413826,190 - 830,502 (+)NCBIChiLan1.0ChiLan1.0
SF3B4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2199,909,044 - 99,915,823 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1199,665,027 - 99,670,781 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01125,268,113 - 125,273,405 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11128,924,317 - 128,929,610 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1128,924,317 - 128,929,610 (-)Ensemblpanpan1.1panPan2
SF3B4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11759,208,989 - 59,214,643 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1759,208,990 - 59,213,991 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1758,656,507 - 58,661,447 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01760,205,440 - 60,210,382 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1760,205,444 - 60,210,309 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11759,054,911 - 59,059,850 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01759,138,641 - 59,143,584 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01759,865,732 - 59,870,673 (-)NCBIUU_Cfam_GSD_1.0
Sf3b4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505821,230,367 - 21,234,846 (-)NCBIHiC_Itri_2
SpeTri2.0NW_004936580260,013 - 265,057 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SF3B4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl499,123,585 - 99,129,218 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1499,123,564 - 99,129,218 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24108,590,400 - 108,596,048 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SF3B4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Vero_WHO_p1.0NW_02366603813,378,934 - 13,383,927 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sf3b4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477217,701,341 - 17,706,550 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477217,701,930 - 17,706,613 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Sf3b4
18 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:41
Count of miRNA genes:36
Interacting mature miRNAs:40
Transcripts:ENSRNOT00000028758
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2114837527211674221Rat
1358356Srcrt1Stress Responsive Cort QTL13.66blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)2161699179222436696Rat
1331734Bp204Blood pressure QTL 2043.61192arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2168358098223265385Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)281754530227146641Rat
10755499Bp389Blood pressure QTL 3892.61arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)218960362228801039Rat
1298076Bp166Blood pressure QTL 1660.0009arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2136445150202447032Rat
152025245Scl81Serum cholesterol level QTL 813.49blood cholesterol amount (VT:0000180)2122609194206936711Rat
70162Bp63Blood pressure QTL 635.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2169745596214745596Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2114837675212549332Rat
12879836Kidm61Kidney mass QTL 610.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2152413072185122374Rat
1581569Uae32Urinary albumin excretion QTL 320.0001urine protein amount (VT:0005160)urine albumin excretion rate (CMO:0000757)278665619219826953Rat
10043136Iddm54Insulin dependent diabetes mellitus QTL 543.40.0001blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2143657411190602963Rat
12879837Am2Aortic mass QTL 20.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2152413072185122374Rat
12879838Cm86Cardiac mass QTL 860.002heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2152413072185122374Rat
1302793Bw16Body weight QTL 1650.0001body mass (VT:0001259)body weight (CMO:0000012)2157142209202446871Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243154682202446871Rat
12879839Cm85Cardiac mass QTL 850.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2152413072185122374Rat
61469Bp16Blood pressure QTL 165.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2169745596214745596Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)2135552573202446871Rat
1549833Bp257Blood pressure QTL 2570.003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2168354880185122374Rat
1358900Bw48Body weight QTL 484.88body mass (VT:0001259)body weight (CMO:0000012)2157142078211086598Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2114837527185876470Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)256043031202447032Rat
12879840Bw179Body weight QTL 1790.005body mass (VT:0001259)body weight (CMO:0000012)2152413072185122374Rat
1581502Esta3Estrogen-induced thymic atrophy QTL 3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2136916935189599348Rat
9589044Scfw1Subcutaneous fat weight QTL 15.80.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)2182171407227171407Rat
8694435Bw166Body weight QTL 16614.080.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)2182171407227171407Rat
1359032Hrtrt18Heart rate QTL 18heart pumping trait (VT:2000009)heart rate (CMO:0000002)2157142078192625452Rat
2301966Bp322Blood pressure QTL 3223.58arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2150540301202447032Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118275202447032Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)281689826221035911Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
8694194Abfw1Abdominal fat weight QTL 111.70.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)2182171407227171407Rat
1359022Ppulsi1Prepulse inhibition QTL 13.63prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)2136916935213594495Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561249053267Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
61374Edpm2Estrogen-dependent pituitary mass QTL 24.420.86pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)276539322202447032Rat
2300189Bmd48Bone mineral density QTL 485.80.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)2179335906224335906Rat
8662843Vetf9Vascular elastic tissue fragility QTL 92.05thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2157142078226277316Rat
631501Bp101Blood pressure QTL 1012.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2150341684202446871Rat
2307174Activ3Activity QTL 34.830.000058locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2168594495213594495Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2141194931223265385Rat
71113Cari2Carrageenan-induced inflammation QTL 22.70.009hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)2141596551202447032Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2141194931223265385Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2112456140212696837Rat
1598805Memor8Memory QTL 83exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)2150341585189039377Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
724568Uae13Urinary albumin excretion QTL 134.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)2143157029210020885Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1300165Rf9Renal function QTL 93.28kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)2133914684202447032Rat
61401Niddm2Non-insulin dependent diabetes mellitus QTL 24.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2144599348189599348Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2112456140212696837Rat
1641925Alcrsp2Alcohol response QTL 2response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561221167075Rat
1354609Niddm62Non-insulin dependent diabetes mellitus QTL 624.720.000006insulin secretion trait (VT:0003564)plasma insulin level (CMO:0000342)2150540301202447032Rat
1598833Bp295Blood pressure QTL 2953.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2147798556192798556Rat
61417Cia10Collagen induced arthritis QTL 103.4joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)2179946951224946951Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)281754530222436696Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)246123260202447032Rat
631522Bp74Blood pressure QTL 740.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2172710921184114403Rat
8694383Bw158Body weight QTL 1587.690.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)2182171407227171407Rat
7488927Bp365Blood pressure QTL 3650.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2162765032207765032Rat
1598838Bp290Blood pressure QTL 2901.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2166539266211539266Rat
7488925Bp364Blood pressure QTL 3640.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2160564068205564068Rat
2306901Bp337Blood pressure QTL 3370.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2164073756227146641Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)274786664206665859Rat
6903312Bw112Body weight QTL 1123.20.0013body mass (VT:0001259)body weight (CMO:0000012)2143657569184114274Rat
1354601Slep1Serum leptin concentration QTL 15.39blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)243171017184114403Rat
2293084Iddm26Insulin dependent diabetes mellitus QTL 262.9blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2174930955213594495Rat


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
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000028758   ⟹   ENSRNOP00000028758
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2183,732,754 - 183,737,959 (+)Ensembl
Rnor_6.0 Ensembl2198,312,428 - 198,317,180 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000113402   ⟹   ENSRNOP00000079825
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2183,732,791 - 183,737,765 (+)Ensembl
RefSeq Acc Id: NM_001011951   ⟹   NP_001011951
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82186,421,667 - 186,426,419 (+)NCBI
mRatBN7.22183,732,791 - 183,737,545 (+)NCBI
Rnor_6.02198,312,428 - 198,317,180 (+)NCBI
Rnor_5.02217,799,411 - 217,804,163 (+)NCBI
RGSC_v3.42190,976,681 - 190,981,433 (+)RGD
Celera2176,260,078 - 176,264,830 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001011951 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH78997 (Get FASTA)   NCBI Sequence Viewer  
  EDL85647 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000028758.5
  ENSRNOP00000079825.1
  ENSRNOP00055045943
  ENSRNOP00060018971
  ENSRNOP00065043898
GenBank Protein Q6AYL5 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001011951   ⟸   NM_001011951
- UniProtKB: Q6AYL5 (UniProtKB/Swiss-Prot),   A6K353 (UniProtKB/TrEMBL),   A0A8L2QI40 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000028758   ⟸   ENSRNOT00000028758
Ensembl Acc Id: ENSRNOP00000079825   ⟸   ENSRNOT00000113402
Protein Domains
RRM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6AYL5-F1-model_v2 AlphaFold Q6AYL5 1-424 view protein structure

Transcriptome

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

Promoters
RGD ID:13691567
Promoter ID:EPDNEW_R2091
Type:initiation region
Name:Sf3b4_2
Description:splicing factor 3b, subunit 4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R2092  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02198,312,415 - 198,312,475EPDNEW
RGD ID:13691568
Promoter ID:EPDNEW_R2092
Type:multiple initiation site
Name:Sf3b4_1
Description:splicing factor 3b, subunit 4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R2091  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02198,312,641 - 198,312,701EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309667 AgrOrtholog
BioCyc Gene G2FUF-52051 BioCyc
Ensembl Genes ENSRNOG00000021181 Ensembl, UniProtKB/TrEMBL
  ENSRNOG00055032295 UniProtKB/Swiss-Prot
  ENSRNOG00060013946 UniProtKB/Swiss-Prot
  ENSRNOG00065030977 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000028758.6 UniProtKB/TrEMBL
  ENSRNOT00000113402.1 UniProtKB/TrEMBL
  ENSRNOT00055055760 UniProtKB/Swiss-Prot
  ENSRNOT00060023844 UniProtKB/Swiss-Prot
  ENSRNOT00065053409 UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.70.330 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7112738 IMAGE-MGC_LOAD
InterPro Nucleotide-bd_a/b_plait_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RRM_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SF3B4_RRM1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SF3B4_RRM2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SF3B4_spliceosome_assoc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:295270 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:93901 IMAGE-MGC_LOAD
NCBI Gene 295270 ENTREZGENE
PANTHER SPLICING FACTOR 3B SUBUNIT 4 UniProtKB/Swiss-Prot
  SPLICING FACTOR 3B SUBUNIT 4 UniProtKB/Swiss-Prot
  SPLICING FACTOR 3B SUBUNIT 4 UniProtKB/TrEMBL
  SPLICING FACTOR 3B SUBUNIT 4 UniProtKB/TrEMBL
Pfam RRM_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Sf3b4 PhenoGen
PRINTS PRICHEXTENSN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE RRM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000021181 RatGTEx
  ENSRNOG00055032295 RatGTEx
  ENSRNOG00060013946 RatGTEx
  ENSRNOG00065030977 RatGTEx
SMART RRM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF54928 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5ZNJ0_RAT UniProtKB/TrEMBL
  A0A8L2QI40 ENTREZGENE, UniProtKB/TrEMBL
  A6K353 ENTREZGENE, UniProtKB/TrEMBL
  Q6AYL5 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-05-13 Sf3b4  splicing factor 3B subunit 4  Sf3b4  splicing factor 3b, subunit 4  Name changed 629549 APPROVED
2005-12-06 Sf3b4  splicing factor 3b, subunit 4  Sf3b4_predicted  splicing factor 3b, subunit 4 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Sf3b4_predicted  splicing factor 3b, subunit 4 (predicted)      Symbol and Name status set to approved 70820 APPROVED