GgaINT1025730 @ galGal4
Intron Retention
Gene
ENSGALG00000013515 | SLC4A5
Description
solute carrier family 4 (sodium bicarbonate cotransporter), member 5 [Source:HGNC Symbol;Acc:HGNC:18168]
Coordinates
chr22:2840989-2841478:-
Coord C1 exon
chr22:2841317-2841478
Coord A exon
chr22:2841057-2841316
Coord C2 exon
chr22:2840989-2841056
Length
260 bp
Sequences
Splice sites
5' ss Seq
GAGGTGTGC
5' ss Score
5.35
3' ss Seq
CACCTCCGTGTCCTCCCCAGGAA
3' ss Score
10.76
Exon sequences
Seq C1 exon
ATTTTAGCCCTGATTCTGGTGCGGCGGCTGCTGGACTTTGTCTTCTCCCAGCATGACCTGGCCTGGATCGACAACATCATCCCCGAGAAGGAGAAGAAGAAGGAAGATGACAAGAAGAAGAAGAAAAAGGGCAACAAAGGGGACAGCAGCAGTGATGAGGAG
Seq A exon
GTGTGCAGCTGAGGGGGTGGGGAAAGGTTGGGACAGCACAGGCACCGTGGGGAGGGGAAGGGTCCCACTGAAACCCCCAGGGCTGCAGCTGGGGGAGAAGAAGGTCTTTGGGTTTAAAAGGGCAGATGAGTGCAGTTTGGCCCCATCTCGTTCCAAAAGCAGCCTGGCACAATGCTGGGCTCAGCTGGGGCGGAGGGCAGTGGGTTTCTAGGGGGTCTCCTTCCTCAACTGGGAGTGTTTCACCTCCGTGTCCTCCCCAG
Seq C2 exon
GAAAGAGGTCCTCCGCCCGGAGCTTTGCGTTCTGACTCCTCCCCAAACGGTTCCGACATGGACCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013515:ENSGALT00000022007:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.407 A=NA C2=0.696
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:
TTTAGCCCTGATTCTGGTGCG
R:
TCCATGTCGGAACCGTTTGG
Band lengths:
222-482
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]