GgaINT1025719 @ galGal4
Intron Retention
Gene
ENSGALG00000013515 | SLC4A5
Description
solute carrier family 4 (sodium bicarbonate cotransporter), member 5 [Source:HGNC Symbol;Acc:HGNC:18168]
Coordinates
chr22:2849102-2849587:-
Coord C1 exon
chr22:2849444-2849587
Coord A exon
chr22:2849277-2849443
Coord C2 exon
chr22:2849102-2849276
Length
167 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCTTGGCTTTATCTCCACAGGTT
3' ss Score
11.11
Exon sequences
Seq C1 exon
GAAATCAGTTTTCTCTTTGAACGAAGTGGGGCAAATGAACGGCACAGCCGGCGGGGCAGGCGCTGGGAGCGGCGGAGGAGGCAGTGATGATGGGGAGATGCCTGAAGTGCATGAAATAGGGGAAGAGCTGGCATGGACTGGCAG
Seq A exon
GTGAGCATCACCCGGCCACCCAAAAAACCCCAGAGGGTGCTGGCAGCCATCAGCATCTCCTGCTGCTCACCCTTCCAGGGGCACAGAGGGGTGAATTCCTAATGGGAACGGGCTCTTGTGCGGTGCCGTGCACATTTTGGATCTCATCCTTGGCTTTATCTCCACAG
Seq C2 exon
GTTTTGTGGTGGCCTCTATTTGGATATCAAGAGGAAGCTGCCCTGGTTCCCAAGTGACTTCTATGAAGGCTTTCATATCCAGTCCATCTCTGCCATCTTGTTCATCTACCTGGGCTGCATCACCAACGCCATCACATTCGGGGGTTTGCTTGGCGATGCGACAGACAACTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013515:ENSGALT00000022007:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.449 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PU(1.3=12.2)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(12.9=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:
CTCTTTGAACGAAGTGGGGCA
R:
TGATGCAGCCCAGGTAGATGA
Band lengths:
254-421
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]