DreINT0151409 @ danRer10
Intron Retention
Gene
ENSDARG00000063133 | slc4a10a
Description
solute carrier family 4, sodium bicarbonate transporter, member 10a [Source:ZFIN;Acc:ZDB-GENE-100215-3]
Coordinates
chr11:10703284-10703565:-
Coord C1 exon
chr11:10703443-10703565
Coord A exon
chr11:10703349-10703442
Coord C2 exon
chr11:10703284-10703348
Length
94 bp
Sequences
Splice sites
5' ss Seq
GAGGTATTA
5' ss Score
6.46
3' ss Seq
TGTTCTTCTCTCACTTTTAGGAG
3' ss Score
12.62
Exon sequences
Seq C1 exon
GTATTGGCTCTCGTCTTCATCCGTAAGCTGCTGGATTTTGTCTTTTCTAAGCGAGATCTCAGCTGGCTCGATGACCTCATGCCCGAGAGCAAGAAGAAAAAGATGGAAGATGCACAGCAGGAG
Seq A exon
GTATTAACAACACCACCCTAACACACACTGGTCAATCAGTAAAAATAGTGTTCTAAAACAACAGATGACTAGTGTGTTCTTCTCTCACTTTTAG
Seq C2 exon
GAGAATCAGTGTGTCTTGATTGAGGATGAAGGGATTGTACAAGTACCCCTAGAAGGACATTATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000063133:ENSDART00000167112:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.171 A=NA C2=0.023
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCTCTCGTCTTCATCCGTA
R:
AGGGGTACTTGTACAATCCCTTCA
Band lengths:
169-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]