HsaALTA1017031-4/5 @ hg38
Alternative 3'ss
Gene
ENSG00000113073 | SLC4A9
Description
solute carrier family 4 member 9 [Source:HGNC Symbol;Acc:HGNC:11035]
Coordinates
chr5:140363439-140363902:+
Coord C1 exon
chr5:140363439-140363555
Coord A exon
chr5:140363728-140363809
Coord C2 exon
chr5:140363810-140363902
Length
82 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGACGACCCTCGGGCGGGAGGCT
3' ss Score
-5.99
Exon sequences
Seq C1 exon
GCTTCCCTCGCAACAGCGGGAGATCAGAGGTCCCGCCGTCCCGCGCCTGACCTCGGCTGAGGACAGGCACCGCCATGGGCCACACGCACACAGCCCGGAGTTGCAGCGGACCGGCAG
Seq A exon
GCTGTTTGGGGGCCTTATCCAGGACGTGCGCAGGAAGGTCCCGTGGTACCCCAGCGATTTCTTGGACGCCCTGCATCTCCAG
Seq C2 exon
TGCTTCTCGGCCGTACTCTACATTTACCTGGCCACTGTCACTAATGCCATCACTTTTGGGGGTCTGCTGGGAGATGCCACTGATGGTGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000113073-10-13,10-12,10-11,10-10,10-9-4/5
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.844 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PU(1.0=12.5)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(9.4=100)
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACAGCGGGAGATCAGAGGTC
R:
GACCCCCAAAAGTGATGGCAT
Band lengths:
170-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains