GgaINT0039182 @ galGal3
Intron Retention
Gene
ENSGALG00000011413 | E1BVV4_CHICK
Description
NA
Coordinates
chr8:27487999-27488863:-
Coord C1 exon
chr8:27488722-27488863
Coord A exon
chr8:27488187-27488721
Coord C2 exon
chr8:27487999-27488186
Length
535 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGGG
5' ss Score
5.76
3' ss Seq
TGGATTTCTGGTTTCTGTAGAGA
3' ss Score
6.56
Exon sequences
Seq C1 exon
TGTAAGGGTGACACCAACTCCTATTTCCATGAGGAAAATCTGCTCTGCTCCACACTGGACCTCTTCTTGACTGGGACAGAGACAACAGCAACCGCCATCCGCTGGGCTCTGCTCTACATGGCCGCGTACCCCCACATTCAGG
Seq A exon
GTAGGGCCACTGATGGCTCCTCCATCACATAGCCCAAAACCAGATAAGTGAAACAGAAAACTGAGAAAATGAGTTGTTTCCAGGCTCACCACATAGGACATATGCAGTGGAAATGCTAAGTCACTTCTTGAACCACTGATTGAGCACCTGGTGGGAAGGCAGGGCCAACCCAGGGGAGCTCAGGTGCATGCAATGTGAGTGATTGGAAGGGGTGGAGCCAGGATCCACTCTTTCCCAGACATCATTTAAGGGTTGGCAGTGGAAGTGAGAATATCTTGTCTGAGATCTCTGCCTATTTGAGGGCTGTGTGAGCCTTCCTGAGGTAAGTGAATTCTTTTTGCTTTTTCTACACCTACTGCTATTATATCTGAGCAGCCCACCCCTCACCTTAGTACAAGACCTTGCTGCCTCTCCTTCTTGTAACAGATATGCTTGTGGCCTGTCTTCCTCATTCAGAACTTTTCTGAGCATAGGTTGTGTGTGTGTATATATATGTCTTTCTTTTCTTTTTAATATGGATTTCTGGTTTCTGTAG
Seq C2 exon
AGAAAGTGCAGCTTGAAATTGATGCTGTGATTGGCCAGTGCCGCCAGCCCACCATGGAGGACAAGGAGCACATGCCCTACACCAGCGCAGTGCTGAGCGAGGTGCTGCGAATGGGCAACATTGTGCCGTTGGGAGTGCCCAGGATGTCCACCAATGACACAACCCTGGCTGGCTTCCACGTGCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011413:ENSGALT00000018621:7
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:
PF0006717=p450=FE(10.2=100)
A:
NA
C2:
PF0006717=p450=FE(13.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTAAGGGTGACACCAACTCCT
R:
CTTGGGCACGTGGAAGCC
Band lengths:
330-865
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]