DreALTD0018964-2/3 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000013730 | slc4a4a
Description
solute carrier family 4 (sodium bicarbonate cotransporter), member 4a [Source:ZFIN;Acc:ZDB-GENE-060526-274]
Coordinates
chr5:45205847-45211334:-
Coord C1 exon
chr5:45211182-45211334
Coord A exon
chr5:45211155-45211181
Coord C2 exon
chr5:45205847-45205923
Length
27 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATA
5' ss Score
5.05
3' ss Seq
TTTTCACAAATTTTGCTCAGGCA
3' ss Score
4.62
Exon sequences
Seq C1 exon
AAATGATCACTGACAGTCAGATTGAGAGCGGCCTCTTGAAAGCTGACCTGAAAGAAAAGGTCATGTACACCTTGCTGAGGAAGCATCGCCACCAGACCAAGAAGTCCAATCTTCGCTCCTTAGCTGACATTGGCAAAACGGTCTCCAGTGCAA
Seq A exon
GTAGGCTGTTTTCCACCCCGGATAATG
Seq C2 exon
GCAGCCCAACCACTGCACATCGCAACCTGACATCAAGCAGCCTGAACGATATCTCAGACAAGCCAGAGAAAGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013730-7-6,8-6,9-6-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.205 A=NA C2=0.904
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(23.8=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(9.9=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCGCCACCAGACCAAGAAG
R:
TCGTTCAGGCTGCTTGATGTC
Band lengths:
119-146
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]