GgaINT1025723 @ galGal4
Intron Retention
Gene
ENSGALG00000013515 | SLC4A5
Description
solute carrier family 4 (sodium bicarbonate cotransporter), member 5 [Source:HGNC Symbol;Acc:HGNC:18168]
Coordinates
chr22:2844790-2845341:-
Coord C1 exon
chr22:2845280-2845341
Coord A exon
chr22:2844991-2845279
Coord C2 exon
chr22:2844790-2844990
Length
289 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGC
5' ss Score
8.69
3' ss Seq
GGGGGGGGGGTTCTCCCCAGTAC
3' ss Score
1.58
Exon sequences
Seq C1 exon
CCAACATGACATTGTTCGATGCTTCAGTTCCAGTAGCACCAAACACCACTAACGCGTCTCTG
Seq A exon
GTAAGCGGGGTTGTGTGCTCCCATGGGGGGGGGGAGGTGTGGCATGGCTGCATCTGAGCAACGGCACCTGGGTTGAGGTTTGGGGGAACGCTTTGCAACGATTTGGGCTCATGGTTTGGCTCAGCAGCACCAAATCCCCACCTTTTTGCTGAAATTAGTAGCATCTCTGGGGTCTTCCCATGGATACGGGGTTGGAGCAGCTCCCATTGGAGATGGCCCTTCCTTGCACGCTACCATTGCTTAACGCTAACTTTGATTTCTCTTTTTTTGGGGGGGGGGTTCTCCCCAG
Seq C2 exon
TACAATGCTATTAACCTCACAGCTCTGGATTGGACTCAGCTGAGTAAGAAGGAGTGTCTCAAGTACGGCGGCAGCTTAGTGGGGAAATCCTGTAAGTTCGTGCCCGATTTGGCCCTCATGTCCTTCATCCTCTTCTTTGGGACCTACTCCATGACGCTCACCTTGAAGAAGTTCAAATTCAGCCGCTACTTCCCCACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013515:ENSGALT00000022007:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(4.5=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(14.7=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:
CCAACATGACATTGTTCGATGCT
R:
CTTGGTGGGGAAGTAGCGG
Band lengths:
263-552
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]