GgaINT1025756 @ galGal4
Intron Retention
Gene
ENSGALG00000008423 | SLC4A8
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 8 [Source:HGNC Symbol;Acc:HGNC:11034]
Coordinates
chrLGE22C19W28_E50C23:864620-864994:-
Coord C1 exon
chrLGE22C19W28_E50C23:864906-864994
Coord A exon
chrLGE22C19W28_E50C23:864778-864905
Coord C2 exon
chrLGE22C19W28_E50C23:864620-864777
Length
128 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CCTTTATTTGTTGTGCACAGGCA
3' ss Score
8.91
Exon sequences
Seq C1 exon
CCCAAACACTCATCCCCCATCCTTCTCCCACCACCATAGAAGCTAAAAATGGGGTGAGCCATGACACCAGCCCCATGGATTTAAGCAAG
Seq A exon
GTGAGATCCTGTAGCTTTCTTAGGCCTTTAGGGCTGGTTTTGCTCTTACAAAATGCATCTACAGCAGAGTGCTGTGGGCTTTCACTCTGGGGTAAGAGCCTGAAAATCCCTTTATTTGTTGTGCACAG
Seq C2 exon
GCAGAGCTGCACTTCATGAAGAAAATTCCCACCGGGGCTGAAGCAGCAAATGTGCTGGTGGGAGAGTTGGATTTCCTTCAGCAGCCCATCATGGCCTTTGCCCGCCTCAGCCCGGCCGTCCTCCTCTCGGGCATGACAGAAGTCCCCATCCCAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008423:ENSGALT00000013720:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.633 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(11.7=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(21.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAAACACTCATCCCCCATCC
R:
TTGGGATGGGGACTTCTGTCA
Band lengths:
242-370
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]