GgaINT1025751 @ galGal4
Intron Retention
Gene
ENSGALG00000008423 | SLC4A8
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 8 [Source:HGNC Symbol;Acc:HGNC:11034]
Coordinates
chrLGE22C19W28_E50C23:854844-855508:-
Coord C1 exon
chrLGE22C19W28_E50C23:855371-855508
Coord A exon
chrLGE22C19W28_E50C23:854945-855370
Coord C2 exon
chrLGE22C19W28_E50C23:854844-854944
Length
426 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACA
5' ss Score
8.1
3' ss Seq
GATCTGTCCCTCTGCTGCAGGAG
3' ss Score
9.27
Exon sequences
Seq C1 exon
GTTTTGGCTCTCGTTTTTGTTCGGAAAGTCCTGGATGTCTGCTTCTCGAAGCGAGAGCTCAGCTGGCTGGATGACCTCATGCCGGAAAGCAAGAAGAAGAAGTTGGACGATGCCAAAAATGAAGCCAAAGAAGAAGAG
Seq A exon
GTAACACTACTGGGTGCCTGACTGTGGGGCTGTGGAATTTCTACCACAGCCAGTCATTAAATGGTGTGGGGAGGCTGGGACTAGGCAGAAGGAGATCCCAATGGCCTGGATCCCACATCACAACCATTTTTTTTTTACCCTAAATTATCACTCGAACAGACATACAATATGCTTAACTGTTGAACAATCATACAATTTTAGAATGCCTTCTAAAAGAAAGTTGTTTTATTATTGTTGTTATTTTTATCATTGTGATTGGAAAGATTTGCTCATGATGGGTCTTTAAACCCCCAAAATGTTTGGAGTGAAAGGTTTTCTTCCTGCTCCATCAGTGCTAAAGCTGCCAACGACCAGGAGGGGCAGCATGCAATGGCTGTGTGGGGTTTTTGCTCAAAGACAGGGAGTTGATCTGTCCCTCTGCTGCAG
Seq C2 exon
GAGTCTCAGCAGATGATGGAAGCTGCTGCTGCAAACTCAGTCCAGCTGAGCCTGGGGAAGACGAGCTACGTGGGTGTCCCCAAGCAGAACAGCAAGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008423:ENSGALT00000013720:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.283 A=NA C2=0.353
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTTGGCTCTCGTTTTTGTTCG
R:
TGTCCTTGCTGTTCTGCTTGG
Band lengths:
238-664
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]