GgaINT0000187 @ galGal3
Intron Retention
Gene
ENSGALG00000013515 | SLC4A5
Description
NA
Coordinates
chr22_random:29054-29438:-
Coord C1 exon
chr22_random:29284-29438
Coord A exon
chr22_random:29146-29283
Coord C2 exon
chr22_random:29054-29145
Length
138 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
AATAATAATAATTCCCACAGGAA
3' ss Score
6.18
Exon sequences
Seq C1 exon
CTCTTCAGCGATGTTGCTTACAAAGCCCGAGATAGAGAAGATCTGATTGCTGGCATAGATGAATTTCTGGATGAAGTCATTGTCCTGCCACCTGGCGAGTGGGACCCCAACATTAGAATCGAGCCACCCAAAAAAGTGCCCTCAGCTGAGAAGAG
Seq A exon
GTGAGCGGGAGACGTGGGGTTGGCCCCAGCCCTGTGGTTGTCCCCATCTCTCTCGTTTTGGAGGTGCTGGAGGAGGGCAGCTGCTTTGCGCATCCTCATCCCCGTGTGTAACCTCTGCAATAATAATAATTCCCACAG
Seq C2 exon
GAAATCAGTTTTCTCTTTGAACGAAGTGGGGCAAATGAACGGCACAGCCGGCGGGGCAGGCGCTGGGAGCGGCGGAGGAGGCAGTGATGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013515:ENSGALT00000022007:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.154 A=NA C2=0.531
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(13.4=69.2)
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:
CTCTTCAGCGATGTTGCTTACA
R:
CATCATCACTGCCTCCTCCG
Band lengths:
247-385
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]