HsaALTA1017032-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000113073 | SLC4A9
Description
solute carrier family 4 member 9 [Source:HGNC Symbol;Acc:HGNC:11035]
Coordinates
chr5:140365520-140366022:+
Coord C1 exon
chr5:140365520-140365578
Coord A exon
chr5:140365834-140365989
Coord C2 exon
chr5:140365990-140366022
Length
156 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
3' ss Seq
CCTGACCCTCCTGTGTACAGGAC
3' ss Score
8.51
Exon sequences
Seq C1 exon
GAAATGAGTCTCAATGGATAAGGACAAGGCCAAAAGACAGAGACGACATTGTAAGCATG
Seq A exon
GACTTAGGCCTGATCAATGCATCCTTGCTGCCGCCACCTGAGTGCACCCGGCAGGGAGGCCACCCTCGTGGCCCTGGCTGTCATACAGTCCCAGACATTGCCTTCTTCTCCCTTCTCCTCTTCCTTACTTCTTTCTTCTTTGCTATGGCCCTCAAG
Seq C2 exon
TGTGTAAAGACCAGCCGCTTCTTCCCCTCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000113073-16-19,16-17-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.157 A=NA C2=0.063
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PD(4.3=45.0),PF0095516=HCO3_cotransp=PU(4.1=50.0)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(12.4=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGAGTCTCAATGGATAAGGACA
R:
CACAGAGGGGAAGAAGCGG
Band lengths:
90-246
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains