DreINT0151397 @ danRer10
Intron Retention
Gene
ENSDARG00000063133 | slc4a10a
Description
solute carrier family 4, sodium bicarbonate transporter, member 10a [Source:ZFIN;Acc:ZDB-GENE-100215-3]
Coordinates
chr11:10725511-10725882:-
Coord C1 exon
chr11:10725782-10725882
Coord A exon
chr11:10725686-10725781
Coord C2 exon
chr11:10725511-10725685
Length
96 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGA
5' ss Score
5.24
3' ss Seq
ATGTTCTGTTAATTGTACAGGAT
3' ss Score
7.79
Exon sequences
Seq C1 exon
GAGAAGCGTAAAGTTCCTCCTCTGGCTAATGGTGGTGCAGATCTTGGGGAGGAAGAGGAACATGGAGGCCATGGTGGACCAGAGCTACAACGCACTGGGAG
Seq A exon
GTCAGAAATCTGTCCATATCTACTGTTTATTTTATGTTTGATAAATCCCCATATTTGAGACCGACCTGGATCTCAGATGTTCTGTTAATTGTACAG
Seq C2 exon
GATTTTTGGTGGCCTTTTCCTGGACATCAAGCGCAAGGCTCCTCACTATCTGTCAGACTACACAGACGCCCTCAGCCTGCAGTGTCTGGCCTCCTTCCTCTTCCTCTACTGCGCCTGCATGTCTCCGGTCATCACCTTCGGAGGTCTGCTGGGAGAAGCTACTGAAGGACGCATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000063133:ENSDART00000167112:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.853 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PU(1.2=17.6)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(11.3=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:
GCGTAAAGTTCCTCCTCTGGC
R:
GAGGGCGTCTGTGTAGTCTGA
Band lengths:
169-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]