DreINT0151531 @ danRer10
Intron Retention
Gene
ENSDARG00000013730 | slc4a4a
Description
solute carrier family 4 (sodium bicarbonate cotransporter), member 4a [Source:ZFIN;Acc:ZDB-GENE-060526-274]
Coordinates
chr5:45162544-45162775:-
Coord C1 exon
chr5:45162703-45162775
Coord A exon
chr5:45162613-45162702
Coord C2 exon
chr5:45162544-45162612
Length
90 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TGAATGTTGCTTTCTCATAGTTC
3' ss Score
6.94
Exon sequences
Seq C1 exon
GGAACAAAGAGTCACTGGTGTCATGGTCTTCATTCTTACTGGCATTTCTGTCTTCATGTCTCCAGTTCTCAAG
Seq A exon
GTAAGATACATTTGTTAAAAACACTGCTGCATCTTTGTCTGTTCTGAATCTCACAATGGCTTTGAATGACTGAATGTTGCTTTCTCATAG
Seq C2 exon
TTCATACCCATGCCAGTGCTGTACGGAGTCTTCCTTTACATGGGTGTTGCATCACTTAATGGCGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013730:ENSDART00000124336:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(4.6=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(4.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGTCACTGGTGTCATGGTCT
R:
CTGCACGCCATTAAGTGATGC
Band lengths:
135-225
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]