GgaINT0129138 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:7934071-7934547:-
Coord C1 exon
chr18:7934362-7934547
Coord A exon
chr18:7934219-7934361
Coord C2 exon
chr18:7934071-7934218
Length
143 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGG
5' ss Score
10.26
3' ss Seq
TGCTTTGCCCTTTGTTTCAGATT
3' ss Score
11.38
Exon sequences
Seq C1 exon
GTCCACCTGGTCTTCATGCTCTGCTCCCTCCTGAGAACATCCAAACTTGTGGGCTCCCTGGGATTCCTCATCACCTTTCTCTTTGGCTGCCTGAGCCTCTCAGTGCTGATAGAAAAGCTTCCAGAACCTTTGCAGTGGTTTCTCAGCCTCTTTTGTCCTTTTGCATTCAATGTTGGCATTGCGAAG
Seq A exon
GTACGGGGCATCATCCCAACAGAATCAGTGGGGTCAATGGAATAGAAGGTTTTGGGATTAACAAAGTTAACAGCATCCATGATTTGATGCCACCTGCATAATTTTTCAGCATGAAAATCCTTCTGCTTTGCCCTTTGTTTCAG
Seq C2 exon
ATTTTCAGTTTGGAAAGATATGGAATAGGTTTCTCTTTTTCTAACATTATGGAGGAATCATACTTTTTACTTTCGACCTACATTATGCTGACCTTTGACTCGGTCTTGTACATGCTGTTAGCTATCTACTTCGACAAAGTTCTGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021399:ENSGALT00000006909:7
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:
PF126982=ABC2_membrane_3=FE(15.9=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PD(10.9=84.0)
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:
CCCTGGGATTCCTCATCACCT
R:
ACAGCATGTACAAGACCGAGT
Band lengths:
249-392
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]