Human Gene SLC4A8 (uc001ryt.2)
  Description: Homo sapiens solute carrier family 4, sodium bicarbonate cotransporter, member 8 (SLC4A8), transcript variant 3, mRNA.
RefSeq Summary (NM_001258401): The protein encoded by this gene is a membrane protein that functions to transport sodium and bicarbonate ions across the cell membrane. The encoded protein is important for pH regulation in neurons. The activity of this protein can be inhibited by 4,4'-Di-isothiocyanatostilbene-2,2'-disulfonic acid (DIDS). Several transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Apr 2012].
Transcript (Including UTRs)
   Position: hg19 chr12:51,895,612-51,909,547 Size: 13,936 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chr12:51,899,699-51,901,688 Size: 1,990 Coding Exon Count: 2 

Page IndexSequence and LinksPrimersMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureOther SpeciesmRNA DescriptionsOther Names
Model InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:51,895,612-51,909,547)mRNA (may differ from genome)Protein (164 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
EnsemblExonPrimerGeneCardsH-INVHGNCLynx
MalacardsMGIPubMedWikipedia

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: SLC4A8
Diseases sorted by gene-association score: voyeurism (4), transvestism (3), fetishism (3), exhibitionism (2), suppurative cholangitis (1), usher syndrome, type 2c (1), paraphilia disorder (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 7.58 RPKM in Pituitary
Total median expression: 45.82 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -232.49723-0.322 Picture PostScript Text
3' UTR -2830.287859-0.360 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
      
      
      
      
      

-  Descriptions from all associated GenBank mRNAs
  EU637925 - Homo sapiens Na+-driven Cl-HCO3 exchanger (SLC4A8) mRNA, 3' UTR.
DQ975204 - Homo sapiens sodium-driven chloride bicarbonate exchanger (SLC4A8) mRNA, complete cds.
DQ063579 - Homo sapiens Na+-driven Cl-HCO3 exchanger (SLC4A8) mRNA, complete cds.
AK310017 - Homo sapiens cDNA, FLJ17059.
AK093357 - Homo sapiens cDNA FLJ36038 fis, clone TESTI2017305.
AX748074 - Sequence 1599 from Patent EP1308459.
DQ581909 - Homo sapiens piRNA piR-50021, complete sequence.
JD494884 - Sequence 475908 from Patent EP1572962.
JD206187 - Sequence 187211 from Patent EP1572962.
JD114346 - Sequence 95370 from Patent EP1572962.
JD362918 - Sequence 343942 from Patent EP1572962.
JD265102 - Sequence 246126 from Patent EP1572962.
JD183683 - Sequence 164707 from Patent EP1572962.
JD272056 - Sequence 253080 from Patent EP1572962.
JD198428 - Sequence 179452 from Patent EP1572962.
JD153207 - Sequence 134231 from Patent EP1572962.
JD161500 - Sequence 142524 from Patent EP1572962.
JD161502 - Sequence 142526 from Patent EP1572962.
JD045195 - Sequence 26219 from Patent EP1572962.
JD184351 - Sequence 165375 from Patent EP1572962.
JD093741 - Sequence 74765 from Patent EP1572962.
JD297095 - Sequence 278119 from Patent EP1572962.
JD514400 - Sequence 495424 from Patent EP1572962.
JD371230 - Sequence 352254 from Patent EP1572962.
JD337491 - Sequence 318515 from Patent EP1572962.
JD198218 - Sequence 179242 from Patent EP1572962.
JD322055 - Sequence 303079 from Patent EP1572962.
AK093005 - Homo sapiens cDNA FLJ35686 fis, clone SPLEN2019323.
AX747851 - Sequence 1376 from Patent EP1308459.
BC036413 - Homo sapiens cDNA clone IMAGE:4793730, **** WARNING: chimeric clone ****.
BC047623 - Homo sapiens hypothetical protein LOC283400, mRNA (cDNA clone IMAGE:4793680), **** WARNING: chimeric clone ****.
JD024892 - Sequence 5916 from Patent EP1572962.
JD449559 - Sequence 430583 from Patent EP1572962.
JD466715 - Sequence 447739 from Patent EP1572962.
JD024824 - Sequence 5848 from Patent EP1572962.
JD031984 - Sequence 13008 from Patent EP1572962.
JD527018 - Sequence 508042 from Patent EP1572962.
JD547738 - Sequence 528762 from Patent EP1572962.
JD171283 - Sequence 152307 from Patent EP1572962.
JD288816 - Sequence 269840 from Patent EP1572962.
JD363576 - Sequence 344600 from Patent EP1572962.
JD259877 - Sequence 240901 from Patent EP1572962.
JD122849 - Sequence 103873 from Patent EP1572962.
JD122584 - Sequence 103608 from Patent EP1572962.
JD323691 - Sequence 304715 from Patent EP1572962.
JD357407 - Sequence 338431 from Patent EP1572962.
JD047040 - Sequence 28064 from Patent EP1572962.
JD101869 - Sequence 82893 from Patent EP1572962.
JD101867 - Sequence 82891 from Patent EP1572962.
JD101868 - Sequence 82892 from Patent EP1572962.
JD481194 - Sequence 462218 from Patent EP1572962.
JD481195 - Sequence 462219 from Patent EP1572962.
JD376345 - Sequence 357369 from Patent EP1572962.
JD052762 - Sequence 33786 from Patent EP1572962.
JD378266 - Sequence 359290 from Patent EP1572962.
JD136242 - Sequence 117266 from Patent EP1572962.
JD243278 - Sequence 224302 from Patent EP1572962.
JD375194 - Sequence 356218 from Patent EP1572962.
AK124576 - Homo sapiens cDNA FLJ42585 fis, clone BRACE3009237.
DQ589458 - Homo sapiens piRNA piR-56570, complete sequence.
DQ590240 - Homo sapiens piRNA piR-57352, complete sequence.
JD566812 - Sequence 547836 from Patent EP1572962.
JD506218 - Sequence 487242 from Patent EP1572962.
JD506219 - Sequence 487243 from Patent EP1572962.
JD329987 - Sequence 311011 from Patent EP1572962.
JD058816 - Sequence 39840 from Patent EP1572962.
JD506220 - Sequence 487244 from Patent EP1572962.
AL137310 - Homo sapiens mRNA; cDNA DKFZp761E13121 (from clone DKFZp761E13121).
AK056222 - Homo sapiens cDNA FLJ31660 fis, clone NT2RI2004410.
JD074164 - Sequence 55188 from Patent EP1572962.
JD074163 - Sequence 55187 from Patent EP1572962.
JD488510 - Sequence 469534 from Patent EP1572962.
DQ573361 - Homo sapiens piRNA piR-41473, complete sequence.

-  Other Names for This Gene
  Alternate Gene Symbols: AX748074, uc001ryt.1
UCSC ID: uc001ryt.2
RefSeq Accession: NM_001258401

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: AX748074.1
exon count: 4CDS single in 3' UTR: no RNA size: 2510
ORF size: 495CDS single in intron: no Alignment % ID: 99.92
txCdsPredict score: 631.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.