GgaINT0005588 @ galGal3
Intron Retention
Gene
ENSGALG00000005824 | SUSD2
Description
NA
Coordinates
chr15:8082048-8082637:-
Coord C1 exon
chr15:8082470-8082637
Coord A exon
chr15:8082223-8082469
Coord C2 exon
chr15:8082048-8082222
Length
247 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
TTTCTTCCTCCATATGACAGGTG
3' ss Score
8.92
Exon sequences
Seq C1 exon
TACATCACAGCAAGGTTTCGGGTGGAGAAAAATGCACGTTGGTCAATGAGACCAAATGGCAGTACTATGGCACTCCTGGCACGGGTGGGAACTTAACTCTGACCTGGACACACCAGGCACTTGCAGCATCCCATATCAACATAGAAGTCTGGGGGTACCAGGAAACAG
Seq A exon
GTAAAGTGACTCTCCTCCTACCTGTGCACAAGCAGCCACAACTGTAATGTTAGCACAGAGCTCTATGTGTCTTGCATTCACCTTCACTGAAGCTACAGGAATTGATCTGCAAGTACAGATAAGCCATGCTTGTAATGGCAGCTTTGCTCTTCAGTTCCACATGGGTGGAGGCATCTAATTTCAGTCGTGTTGTTACTTAACTCTTCTTTCACAGCATCTAAATGGATTTTCTTCCTCCATATGACAG
Seq C2 exon
GTGACAGTTACTCAGAAAACTGGCTTGCTGAATGGAAATATCTTTATACTTTGGCAAGAGAAGCTCCCAATACAGGGACATTTTCTTTCATTCCTGTACCTGCTGAAGCAAATTACAATACATGGGACTTTGGAATTTTGAGAATTACCCCCAGCACCTATTCTGATGGGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005824:ENSGALT00000009356:4
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGGAGAAAAATGCACGTTGG
R:
AGGTGCTGGGGGTAATTCTCA
Band lengths:
307-554
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]