HsaALTA1000285-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000004939 | SLC4A1
Description
solute carrier family 4 member 1 (Diego blood group) [Source:HGNC Symbol;Acc:HGNC:11027]
Coordinates
chr17:44257986-44258623:-
Coord C1 exon
chr17:44258413-44258623
Coord A exon
chr17:44258063-44258180
Coord C2 exon
chr17:44257986-44258062
Length
118 bp
Sequences
Splice sites
5' ss Seq
TAGGTACCT
5' ss Score
4.67
3' ss Seq
GCTCTTATCCTCCACCACAGACT
3' ss Score
7.04
Exon sequences
Seq C1 exon
GTGTTCCGCATAGATGCCTACATGGCTCAGAGCCGAGGGGAGCTGCTGCACTCCCTAGAGGGCTTCCTGGACTGCAGCCTAGTGCTGCCTCCCACCGATGCCCCCTCCGAGCAGGCACTGCTCAGTCTGGTGCCTGTGCAGAGGGAGCTACTTCGAAGGCGCTATCAGTCCAGCCCTGCCAAGCCAGACTCCAGCTTCTACAAGGGCCTAG
Seq A exon
ACTTAAATGGGGGCCCAGATGACCCTCTGCAGCAGACAGGCCAGCTCTTCGGGGGCCTGGTGCGTGATATCCGGCGCCGCTACCCCTATTACCTGAGTGACATCACAGATGCATTCAG
Seq C2 exon
CCCCCAGGTCCTGGCTGCCGTCATCTTCATCTACTTTGCTGCACTGTCACCCGCCATCACCTTCGGCGGCCTCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000004939-17-19,17-18-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(14.8=50.7)
A:
NA
C2:
PF0095516=HCO3_cotransp=PU(29.1=86.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
CTCAGAGCCGAGGGGAGC
R:
GTGATGGCGGGTGACAGTG
Band lengths:
246-364
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains