Slc26a4 (solute carrier family 26, member 4) - Rat Genome Database

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Gene: Slc26a4 (solute carrier family 26, member 4) Mus musculus
Analyze
Symbol: Slc26a4
Name: solute carrier family 26, member 4
RGD ID: 736429
MGI Page MGI
Description: Enables chloride:bicarbonate antiporter activity. Involved in regulation of pH and regulation of protein localization. Located in apical plasma membrane and brush border membrane. Is expressed in central nervous system; inner ear; and metanephros. Used to study Pendred Syndrome. Human ortholog(s) of this gene implicated in Pendred Syndrome; autosomal recessive nonsyndromic deafness 4; and goiter. Orthologous to human SLC26A4 (solute carrier family 26 member 4).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: P; Pds; pe; Pendred syndrome homolog; Pendred's syndrome; pendrin; sodium-independent chloride/iodide transporter; solute carrier family 26 member 4
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391231,569,813 - 31,610,054 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1231,569,826 - 31,609,968 (-)EnsemblGRCm39 Ensembl
GRCm381231,519,814 - 31,560,055 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1231,519,827 - 31,559,969 (-)EnsemblGRCm38mm10GRCm38
MGSCv371232,204,684 - 32,244,834 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361232,105,578 - 32,145,728 (-)NCBIMGSCv36mm8
Celera1232,968,822 - 33,008,973 (-)NCBICelera
Cytogenetic Map12A2NCBI
cM Map1213.53NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,1-bis(2-aminoethyl)-2-hydroxy-3-oxotriazane  (EXP)
1,1-dichloroethene  (EXP)
1,2-dimethylhydrazine  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
2-palmitoylglycerol  (ISO)
6-propyl-2-thiouracil  (ISO)
8-Br-cAMP  (EXP)
aflatoxin B1  (ISO)
amiloride  (ISO)
amiodarone  (ISO)
ammonium chloride  (ISO)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[b]fluoranthene  (EXP)
Benzo[ghi]perylene  (EXP)
bisphenol A  (ISO)
bisphenol F  (ISO)
buta-1,3-diene  (EXP)
butanal  (ISO)
C60 fullerene  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
carbon nanotube  (EXP,ISO)
ceric oxide  (EXP,ISO)
chloroprene  (EXP)
chrysene  (EXP)
ciguatoxin CTX1B  (EXP)
cocaine  (ISO)
colforsin daropate hydrochloride  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
Cuprizon  (ISO)
dibenzo[a,l]pyrene  (EXP)
diiodine  (ISO)
formic acid  (ISO)
fulvestrant  (ISO)
furosemide  (ISO)
gentamycin  (ISO)
graphene oxide  (EXP)
iodide salt  (ISO)
manganese(II) chloride  (ISO)
monosodium L-glutamate  (EXP)
N-methyl-4-phenylpyridinium  (ISO)
N-methyl-N-nitrosourea  (ISO)
nickel atom  (ISO)
omega-6 fatty acid  (ISO)
ozone  (EXP)
paracetamol  (EXP,ISO)
paraquat  (ISO)
perchlorate  (ISO)
phenobarbital  (EXP,ISO)
potassium bromate  (ISO)
probenecid  (ISO)
progesterone  (EXP)
quartz  (ISO)
rifampicin  (ISO)
silicon dioxide  (EXP,ISO)
sodium arsenite  (EXP)
sodium fluoride  (ISO)
sodium nitrate  (ISO)
testosterone  (ISO)
tetraphene  (EXP)
titanium dioxide  (EXP,ISO)
trimellitic anhydride  (EXP)
vancomycin  (EXP)
vinclozolin  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abnormal behavior  (IAGP)
abnormal calcium ion homeostasis  (IAGP)
abnormal cochlea morphology  (IAGP)
abnormal cochlear endolymph ionic homeostasis  (IAGP)
abnormal cochlear hair cell stereociliary bundle morphology  (IAGP)
abnormal cochlear sensory epithelium morphology  (IAGP)
abnormal crista ampullaris morphology  (IAGP)
abnormal endolymphatic duct morphology  (IAGP)
abnormal gait  (IAGP)
abnormal hair cell morphology  (IAGP)
abnormal inner ear morphology  (IAGP)
abnormal inner ear vestibule morphology  (IAGP)
abnormal organ of Corti morphology  (IEA)
abnormal otolith morphology  (IAGP)
abnormal otolithic membrane morphology  (IAGP)
abnormal placing response  (IAGP)
abnormal scala media morphology  (IEA)
abnormal semicircular canal morphology  (IAGP)
abnormal spiral limbus morphology  (IAGP)
abnormal stria vascularis morphology  (IAGP)
abnormal strial basal cell morphology  (IAGP)
abnormal strial intermediate cell morphology  (IAGP)
abnormal strial marginal cell morphology  (IAGP)
abnormal tectorial membrane morphology  (IAGP)
abnormal thyroid follicle morphology  (IAGP)
abnormal thyroid gland morphology  (IAGP)
abnormal utricle morphology  (IAGP)
abnormal vestibular aqueduct morphology  (IAGP)
abnormal vestibular endolymph ionic homeostasis  (IAGP)
abnormal vestibular endolymph physiology  (IAGP)
abnormal vestibular saccule morphology  (IAGP)
abnormal vestibular system physiology  (IAGP)
absent cochlear ganglion  (IEA)
absent cochlear hair cells  (IEA)
absent endocochlear potential  (IAGP)
absent otoliths  (IAGP)
absent pinna reflex  (IAGP)
asthenozoospermia  (IEA)
bidirectional circling  (IEA)
circling  (IAGP)
cochlear hair cell degeneration  (IAGP)
cochlear inner hair cell degeneration  (IAGP)
cochlear outer hair cell degeneration  (IAGP)
deafness  (IAGP)
decreased body weight  (IAGP)
decreased cochlea coiling  (IEA)
decreased cochlear hair cell number  (IEA)
decreased endocochlear potential  (IAGP)
decreased grip strength  (IAGP)
decreased otolith number  (IAGP)
decreased urine pH  (IAGP)
decreased vestibular hair cell number  (IAGP)
detached otolithic membrane  (IAGP)
dilated cochlea  (IAGP)
dilated endolymphatic duct  (IAGP)
dilated endolymphatic sac  (IAGP)
dilated scala media  (IAGP)
distended Reissner membrane  (IAGP)
enlarged otoliths  (IAGP)
enlarged tectorial membrane  (IAGP)
enlarged vestibular saccule  (IAGP)
fused inner hair cell stereocilia  (IAGP)
head bobbing  (IAGP)
head tilt  (IAGP)
head tossing  (IEA)
impaired balance  (IAGP)
impaired coordination  (IAGP)
impaired hearing  (IAGP)
impaired swimming  (IAGP)
increased circulating bicarbonate level  (IAGP)
increased or absent threshold for auditory brainstem response  (IAGP)
increased susceptibility to induced colitis  (IEA)
increased urine ammonia level  (IAGP)
nonsyndromic hearing loss  (IAGP)
oligozoospermia  (IEA)
organ of Corti degeneration  (IAGP)
sensorineural hearing loss  (IAGP)
small scala tympani  (IAGP)
stria vascularis degeneration  (IAGP)
testicular atrophy  (IEA)
thin spiral ligament  (IAGP)
thin stria vascularis  (IAGP)
torticollis  (IAGP)
type I spiral ligament fibrocyte degeneration  (IAGP)
type II spiral ligament fibrocyte degeneration  (IAGP)
utricular macular degeneration  (IAGP)
vestibular hair cell degeneration  (IAGP)
vestibular saccular macula degeneration  (IAGP)
References

References - curated
# Reference Title Reference Citation
1. SLC26A4 gene is frequently involved in nonsyndromic hearing impairment with enlarged vestibular aqueduct in Caucasian populations. Albert S, etal., Eur J Hum Genet. 2006 Jun;14(6):773-9.
2. Screening of SLC26A4 (PDS) gene in Pendred's syndrome: a large spectrum of mutations in France and phenotypic heterogeneity. Blons H, etal., Clin Genet. 2004 Oct;66(4):333-40.
3. Pendred syndrome, DFNB4, and PDS/SLC26A4 identification of eight novel mutations and possible genotype-phenotype correlations. Campbell C, etal., Hum Mutat. 2001 May;17(5):403-11.
4. [Screening of SLC26A4 (PDS) gene mutation in cochlear implant recipients with inner ear malformation]. Chen DY, etal., Zhonghua Yi Xue Za Zhi. 2007 Oct 30;87(40):2820-4.
5. Efficient molecular genetic diagnosis of enlarged vestibular aqueducts in East Asians. Choi BY, etal., Genet Test Mol Biomarkers. 2009 Oct;13(5):679-87. doi: 10.1089/gtmb.2009.0054.
6. Mouse model of enlarged vestibular aqueducts defines temporal requirement of Slc26a4 expression for hearing acquisition. Choi BY, etal., J Clin Invest. 2011 Nov;121(11):4516-25. doi: 10.1172/JCI59353. Epub 2011 Oct 3.
7. Distinct and novel SLC26A4/Pendrin mutations in Chinese and U.S. patients with nonsyndromic hearing loss. Dai P, etal., Physiol Genomics. 2009 Aug 7;38(3):281-90. doi: 10.1152/physiolgenomics.00047.2009. Epub 2009 Jun 9.
8. Targeted disruption of mouse Pds provides insight about the inner-ear defects encountered in Pendred syndrome. Everett LA, etal., Hum Mol Genet. 2001 Jan 15;10(2):153-61.
9. Expression pattern of the mouse ortholog of the Pendred's syndrome gene (Pds) suggests a key role for pendrin in the inner ear. Everett LA, etal., Proc Natl Acad Sci U S A 1999 Aug 17;96(17):9727-32.
10. SLC26A4 targeted to the endolymphatic sac rescues hearing and balance in Slc26a4 mutant mice. Li X, etal., PLoS Genet. 2013 Jul;9(7):e1003641. doi: 10.1371/journal.pgen.1003641. Epub 2013 Jul 11.
11. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
12. MGDs mouse GO annotations MGD data from the GO Consortium
13. MGD IEA MGD IEA
14. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
15. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
16. Origins and frequencies of SLC26A4 (PDS) mutations in east and south Asians: global implications for the epidemiology of deafness. Park HJ, etal., J Med Genet. 2003 Apr;40(4):242-8.
17. Regulation of the apical Cl-/HCO-3 exchanger pendrin in rat cortical collecting duct in metabolic acidosis. Petrovic S, etal., Am J Physiol Renal Physiol 2003 Jan;284(1):F103-12.
18. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
19. Two missense mutations in SLC26A4 gene: a molecular and functional study. Rebeh IB, etal., Clin Genet. 2010 Jul;78(1):74-80. doi: 10.1111/j.1399-0004.2009.01360.x. Epub 2009 Dec 2.
20. Mouse MP Annotation Import Pipeline RGD automated import pipeline
21. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
22. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
23. Screening the SLC26A4 gene in probands with deafness and goiter (Pendred syndrome) ascertained from a large group of students of the schools for the deaf in Turkey. Tekin M, etal., Clin Genet. 2003 Oct;64(4):371-4.
24. Distribution and frequencies of PDS (SLC26A4) mutations in Pendred syndrome and nonsyndromic hearing loss associated with enlarged vestibular aqueduct: a unique spectrum of mutations in Japanese. Tsukamoto K, etal., Eur J Hum Genet. 2003 Dec;11(12):916-22.
25. The renal physiology of pendrin (SLC26A4) and its role in hypertension. Wall SM Novartis Found Symp. 2006;273:231-9; discussion 239-43, 261-4.
26. Loss of cochlear HCO3- secretion causes deafness via endolymphatic acidification and inhibition of Ca2+ reabsorption in a Pendred syndrome mouse model. Wangemann P, etal., Am J Physiol Renal Physiol. 2007 May;292(5):F1345-53. Epub 2007 Feb 13.
Additional References at PubMed
PMID:10932192   PMID:11274445   PMID:11459928   PMID:12217866   PMID:12372770   PMID:12388412   PMID:12388426   PMID:12427135   PMID:12477932   PMID:12642503   PMID:12925556   PMID:12943377  
PMID:14610273   PMID:14690057   PMID:15173882   PMID:15242798   PMID:15320950   PMID:15350275   PMID:15385584   PMID:15477386   PMID:16144965   PMID:16177003   PMID:16325169   PMID:16670435  
PMID:16825334   PMID:17079272   PMID:17120770   PMID:17200157   PMID:17409310   PMID:17503324   PMID:17686956   PMID:17855646   PMID:17959752   PMID:18209476   PMID:18322141   PMID:18562324  
PMID:18565999   PMID:18641360   PMID:18971389   PMID:19426954   PMID:19521566   PMID:19605545   PMID:19692489   PMID:19855135   PMID:20346939   PMID:20375274   PMID:20442411   PMID:20966128  
PMID:21073444   PMID:21103348   PMID:21267068   PMID:21423764   PMID:21677750   PMID:21811566   PMID:21873623   PMID:21873635   PMID:21921024   PMID:22129966   PMID:22243245   PMID:22262479  
PMID:22811483   PMID:22847418   PMID:22872862   PMID:23233153   PMID:23235354   PMID:23383138   PMID:23515718   PMID:23610411   PMID:23684652   PMID:23741519   PMID:23755160   PMID:24238962  
PMID:24429822   PMID:24429825   PMID:24429827   PMID:24561068   PMID:24583262   PMID:24727668   PMID:24752462   PMID:24760582   PMID:24904084   PMID:25057208   PMID:25069981   PMID:25148130  
PMID:25624266   PMID:25972513   PMID:26017972   PMID:26173457   PMID:26363152   PMID:26963391   PMID:27155149   PMID:27442254   PMID:27582101   PMID:27599561   PMID:28064162   PMID:28289181  
PMID:28577314   PMID:28719636   PMID:28750403   PMID:28994389   PMID:29021385   PMID:29158444   PMID:29212817   PMID:29237740   PMID:29412702   PMID:29773687   PMID:30146013   PMID:30418981  
PMID:31001720   PMID:31155292   PMID:31695761   PMID:31784581   PMID:31898392   PMID:31909090   PMID:33500475   PMID:33801843   PMID:34101619   PMID:34667084   PMID:34697379   PMID:35173044  
PMID:35318267   PMID:35601831   PMID:35788623   PMID:36343245   PMID:36977894   PMID:37036298   PMID:37098982   PMID:37279265   PMID:37322474   PMID:37498547   PMID:38059296   PMID:38110744  
PMID:38281222   PMID:39383236  


Genomics

Comparative Map Data
Slc26a4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391231,569,813 - 31,610,054 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1231,569,826 - 31,609,968 (-)EnsemblGRCm39 Ensembl
GRCm381231,519,814 - 31,560,055 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1231,519,827 - 31,559,969 (-)EnsemblGRCm38mm10GRCm38
MGSCv371232,204,684 - 32,244,834 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361232,105,578 - 32,145,728 (-)NCBIMGSCv36mm8
Celera1232,968,822 - 33,008,973 (-)NCBICelera
Cytogenetic Map12A2NCBI
cM Map1213.53NCBI
SLC26A4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387107,660,828 - 107,717,809 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl7107,660,828 - 107,717,809 (+)EnsemblGRCh38hg38GRCh38
GRCh377107,301,273 - 107,358,254 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 367107,088,316 - 107,145,490 (+)NCBINCBI36Build 36hg18NCBI36
Build 347106,895,030 - 106,952,201NCBI
Celera7102,106,401 - 102,163,591 (+)NCBICelera
Cytogenetic Map7q22.3NCBI
HuRef7101,661,478 - 101,718,643 (+)NCBIHuRef
CHM1_17107,235,048 - 107,292,246 (+)NCBICHM1_1
T2T-CHM13v2.07108,976,971 - 109,033,936 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v27106,662,192 - 106,719,369 (+)NCBI
Slc26a4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8653,835,102 - 53,873,968 (-)NCBIGRCr8
mRatBN7.2648,107,575 - 48,153,762 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl648,107,588 - 48,145,703 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx648,413,592 - 48,453,234 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0648,728,513 - 48,768,155 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0648,168,792 - 48,208,193 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0650,809,103 - 50,848,443 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl650,808,923 - 50,846,965 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0659,479,842 - 59,520,531 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4649,389,212 - 49,427,000 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1649,392,337 - 49,430,126 (-)NCBI
Celera647,310,126 - 47,347,924 (-)NCBICelera
Cytogenetic Map6q16NCBI
Slc26a4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541012,009,102 - 12,059,637 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541012,008,067 - 12,057,147 (+)NCBIChiLan1.0ChiLan1.0
SLC26A4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v26144,504,830 - 144,562,226 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan17192,774,798 - 192,832,194 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0799,640,703 - 99,698,109 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.17112,363,119 - 112,418,633 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7112,364,126 - 112,415,637 (+)Ensemblpanpan1.1panPan2
SLC26A4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11812,894,347 - 12,941,669 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1812,894,669 - 12,943,212 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1812,536,263 - 12,586,953 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01813,163,396 - 13,214,301 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1813,165,741 - 13,213,145 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11812,980,322 - 13,030,889 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01812,900,588 - 12,950,775 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01813,129,256 - 13,179,537 (-)NCBIUU_Cfam_GSD_1.0
Slc26a4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511855,311,980 - 55,358,504 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647916,435,739 - 16,481,332 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647916,435,779 - 16,483,139 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC26A4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9107,365,814 - 107,431,062 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19107,365,121 - 107,431,065 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29118,119,384 - 118,183,897 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SLC26A4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12176,578,035 - 76,631,725 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2176,578,665 - 76,633,165 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604227,231,539 - 27,289,239 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc26a4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473922,047,704 - 22,100,154 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473922,047,771 - 22,100,130 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Slc26a4
1308 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:158
Count of miRNA genes:148
Interacting mature miRNAs:152
Transcripts:ENSMUST00000001253
Prediction methods:Miranda, Rnahybrid
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301207Circp1_mcircadian photosensitivity 1 (mouse)Not determined12133430339Mouse
1301723Fcsa7_mfemoral cross-sectional area 7 (mouse)Not determined12949100443491112Mouse
15039339Nmrs29_mNAFLD-associated magnetic resonance shift 29 (mouse)121782585251825852Mouse
1302172Skts5_mskin tumor susceptibility 5 (mouse)Not determined122214886656149016Mouse
1300636Gct2_mgranulosa cell tumorigenesis 2 (mouse)Not determined122916068563160884Mouse
10043977Obq34_mobesity QTL 34 (mouse)Not determined121514733149147331Mouse
10043848Hdlq90_mHDL QTL 90 (mouse)Not determined121783993951840081Mouse
1558978Cplaq10_mcircadian period of locomotor activity 10 (mouse)Not determined121534102679040364Mouse
1301574Lmblgq5_mlimb length QTL 5 (mouse)Not determined121759644780956883Mouse
1300870Ath18_matherosclerosis 18 (mouse)Not determined121825996652260067Mouse
13207568Tcq14_mtotal cholesterol QTL 14 (mouse)121166000197176774Mouse
27226753Femd7_mfemur midshaft diameter 7, 10 week (mouse)12955000084146774Mouse
14747008Mancz10_mmandible centroid size 10 (mouse)122986352263863522Mouse
4141660Nbwa1_mNZB and NZW autoimmunity 1 (mouse)Not determined1234013434340302Mouse
4142234Tmc1m3_mTmc1 modifier 3 (mouse)Not determined12541844077031203Mouse
13524843Ppiq8_mprepulse inhibition QTL 8 (mouse)121104319450945796Mouse
26884413Bzwq9_mbi-zygomatic width QTL 9, 10 week (mouse)121615000147746783Mouse
13524839Ppiq10_mprepulse inhibition QTL 10 (mouse)121304319554945798Mouse
4141843Moen3_mmodifier of engrailed QTL 3 (mouse)Not determined122980158463801733Mouse
13208568Bmiq11_mbody mass index QTL 11 (mouse)12805000040049999Mouse
4141516slwr_mslowlearner (mouse)Not determined1239247546392614Mouse
1301925Ath6_matherosclerosis 6 (mouse)Not determined12132758756Mouse
1301989Hdlq18_mHDL QTL 18 (mouse)Not determined122916068563160884Mouse
1301163Eae16_msusceptibility to experimental allergic encephalomyelitis 16 (mouse)Not determined12772315841723301Mouse
12904956Edlmmq10_mextensor digitorum longus muscle mass QTL 10 (mouse)121973983353739833Mouse
14746972Manh72_mmandible shape 72 (mouse)121061528144615281Mouse
1301037Cd4ts5_mCD4 T cell subset 5 (mouse)Not determined12835244442352581Mouse
10401249Bglu15_mblood glucose level 15 (mouse)Not determined121062064244620809Mouse

Markers in Region
D12Mit59  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381231,542,527 - 31,542,677UniSTSGRCm38
MGSCv371232,227,392 - 32,227,542UniSTSGRCm37
Celera1232,991,551 - 32,991,701UniSTS
Cytogenetic Map12B1UniSTS
cM Map1213.0UniSTS
Whitehead Genetic129.8UniSTS
Whitehead_YAC12 UniSTS
Slc26a4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381231,547,107 - 31,547,260UniSTSGRCm38
MGSCv371232,231,972 - 32,232,125UniSTSGRCm37
Celera1232,996,133 - 32,996,286UniSTS
Cytogenetic Map12B1UniSTS
cM Map1215.0UniSTS
Slc26a4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map12B1UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000001253   ⟹   ENSMUSP00000001253
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1231,569,826 - 31,609,968 (-)Ensembl
GRCm38.p6 Ensembl1231,519,827 - 31,559,969 (-)Ensembl
Ensembl Acc Id: ENSMUST00000218992
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1231,583,144 - 31,586,572 (-)Ensembl
GRCm38.p6 Ensembl1231,533,145 - 31,536,573 (-)Ensembl
RefSeq Acc Id: NM_011867   ⟹   NP_035997
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391231,569,813 - 31,609,983 (-)NCBI
GRCm381231,519,814 - 31,559,984 (-)NCBI
MGSCv371232,204,684 - 32,244,834 (-)RGD
Celera1232,968,822 - 33,008,973 (-)RGD
cM Map12 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006515091   ⟹   XP_006515154
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391231,569,813 - 31,609,939 (-)NCBI
GRCm381231,519,814 - 31,559,940 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006515092   ⟹   XP_006515155
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391231,569,813 - 31,610,027 (-)NCBI
GRCm381231,519,814 - 31,560,025 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011243870   ⟹   XP_011242172
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391231,585,889 - 31,610,054 (-)NCBI
GRCm381231,535,893 - 31,560,055 (-)NCBI
Sequence:
RefSeq Acc Id: XR_003950047
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391231,569,813 - 31,610,054 (-)NCBI
GRCm381231,519,814 - 31,560,055 (-)NCBI
Sequence:
RefSeq Acc Id: NP_035997   ⟸   NM_011867
- UniProtKB: Q9R155 (UniProtKB/Swiss-Prot),   B2RU71 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006515155   ⟸   XM_006515092
- Peptide Label: isoform X1
- UniProtKB: Q9R155 (UniProtKB/Swiss-Prot),   B2RU71 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006515154   ⟸   XM_006515091
- Peptide Label: isoform X1
- UniProtKB: Q9R155 (UniProtKB/Swiss-Prot),   B2RU71 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011242172   ⟸   XM_011243870
- Peptide Label: isoform X2
- Sequence:
Ensembl Acc Id: ENSMUSP00000001253   ⟸   ENSMUST00000001253
Protein Domains
STAS

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9R155-F1-model_v2 AlphaFold Q9R155 1-780 view protein structure

Promoters
RGD ID:8678090
Promoter ID:EPDNEW_M17076
Type:single initiation site
Name:Slc26a4_1
Description:Mus musculus solute carrier family 26, member 4 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381231,559,984 - 31,560,044EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1346029 AgrOrtholog
Ensembl Genes ENSMUSG00000020651 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000001253 ENTREZGENE
  ENSMUST00000001253.8 UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.750.24 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro S04_transporter_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SLC26A/SulP_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SLC26A/SulP_fam UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  STAS_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  STAS_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:23985 UniProtKB/Swiss-Prot
MGD MGI:1346029 ENTREZGENE
NCBI Gene 23985 ENTREZGENE
PANTHER PTHR11814 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR11814:SF33 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam STAS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sulfate_transp UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Slc26a4 PhenoGen
PROSITE SLC26A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  STAS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF52091 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt B2RU71 ENTREZGENE, UniProtKB/TrEMBL
  Q9R155 ENTREZGENE, UniProtKB/Swiss-Prot