GgaINT1025754 @ galGal4
Intron Retention
Gene
ENSGALG00000008423 | SLC4A8
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 8 [Source:HGNC Symbol;Acc:HGNC:11034]
Coordinates
chrLGE22C19W28_E50C23:865158-866357:-
Coord C1 exon
chrLGE22C19W28_E50C23:866197-866357
Coord A exon
chrLGE22C19W28_E50C23:865311-866196
Coord C2 exon
chrLGE22C19W28_E50C23:865158-865310
Length
886 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCG
5' ss Score
10.05
3' ss Seq
CATCCCTTTACCACCCTCAGATA
3' ss Score
7.64
Exon sequences
Seq C1 exon
GTGGCTGAAGTTCGAGGAGGACGTGGAAGATGGCGGCGAGCGCTGGAGCAAACCCTACGTGGCCACGCTCTCCTTGCACAGCCTCTTTGAGCTGAGGAACTGCATCATCAAAGGCACAGTGCTGCTGGATATGTGTGCCAACAGCACCGAGGAGATCGCAG
Seq A exon
GTACCGCTTGGTGTTGGGGTAGGACCTTGCGCTGCAAACCTTACCCCCAGCACATCCTATCTTCCAGAAATCCCATTGCATTTTTGTGTTTCAAAGATTTGTTGGGGTTTGCTTTGGCCTGGCAGCAGGCTGAACGTTTTCTTGCAACACTTCTGAGAGCCATTTGTGGGGCTGGAGAAACAACTTAGAGAATATTTTCCATCCAAAAAAGGCGTTTGCAATCAGGGCTGAGCAGTCTGCTTGTGGAAACATGGAGCTTGCATAGAGCTGAACCTCTTAGAAATGAACACAGCCTGCAAAAGGGCTGAGCCTCGTTAAATAAATTAGTTATTACCAGCTATTTCCTCGCATTCTTTTTTTCCCTTTTGCCTTAACACTCAGGATTTGGGAGCTTTGAAGGCAGAGTTTATCTGGCAGATGACCAGGCAGTGCGTTTCGGGGTGAGGGAAGGGGGAAGATAATAGAAGTTAATTGGAAAAGTAGCTTTGGAGGAATGGTGGTTGACTGGTGGTCTCCATTCAGCCCTTTCAGGAGGCGGTGGAGTCACAGCCATTCTCAGCAAATTGCAGTCATTTGGTGGAGGGAACTCACGGAAGGTCTGTGCTGTGGGTTGCTTATAATTTGATTAGATACGTGGAGTAATACTGAAAGACCAGACCAGGCGAGGAAATTGCATTATTTAGAAGGAGAAATAATTATCATAGTTGAGCAATGAATGAGCACTTTGATGCTGTTTTCTTCAGCAAAAGAAAATTCTTGCTTTTGTTGCAAAAGCTCAATTGCATTAAAATGTCTCATGGAGTAAAGCTGTACCCGTGCTGAGCTGTGCTGCATTCCTCTTGGGTTCTGCAGGGGTTCTCCTCTCACATCCCTTTACCACCCTCAG
Seq C2 exon
ATATGATCCTGGACCAGCAGAACCACTCCAGTGAGTTTGATCAGAGCACGCGGGAGAAGGTCCGGGAGGTCCTTCTCAAGAAGCACCACCACCAGAATGAGAAGAAGAGAAACAACCTCCTCCCCATCGTCCTCTCCTTCGCTGACAAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008423:ENSGALT00000013720:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.036 A=NA C2=0.442
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PU(19.0=85.5)
A:
NA
C2:
PF075658=Band_3_cyto=FE(20.6=100)
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:
GTGGCTGAAGTTCGAGGAGGA
R:
CTTGTCAGCGAAGGAGAGGAC
Band lengths:
310-1196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]