GgaINT0059795 @ galGal3
Intron Retention
Gene
ENSGALG00000008332 | F1NXV6_CHICK
Description
NA
Coordinates
chr5:25591518-25592184:-
Coord C1 exon
chr5:25592017-25592184
Coord A exon
chr5:25591692-25592016
Coord C2 exon
chr5:25591518-25591691
Length
325 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGA
5' ss Score
6.91
3' ss Seq
TTCCTTTACAATTATTTCAGATA
3' ss Score
8.23
Exon sequences
Seq C1 exon
GCAGGTGATGCTCTACAAAAAGAGTCCTCAAGAGCTGCTGTGTGGTGCCAGCCTCATCAGTAACAGCTGGATCCTGACTGCTGCTCATTGCCTTCTTTATCCACCCTGGGACAAGAACTTAACTACAAATGACATCTTGGTGCGGATTGGCAAGCATTTCAGGGCAAA
Seq A exon
GTAAGAGCCTAGACTAAGCGAGAGTGAACTACTTTGCCCTTGAAGTGGTGAGATATAATGAGGTTTGGATAAAAATCAGCATCCAAGGAAGTATACAGAAATATGCAAACTAATGGCAAAGGCCTCCCAACAGTGGGGTTTAATGGAGCTGTATTTGCTGTGCTTGCTGATCCCAAAGGTTGAAGTGAGGGAGAGCAGAACCATGGAAAGTTTAAAAGGTGCACTCCATTGTCAAGAGGGGACAAAACACCTGAGGAAGTCATCAGCCCCCAGAGACTCTCACTTGCTACCGTACAGTGAGTTCTTTCCTTTACAATTATTTCAG
Seq C2 exon
ATACGAAAGGAATAAAGAGAAAATTGTTCTGTTGGATAAAGTCATCATCCATCCTAAGTACAACTGGAAAGAGAACATGGACCGAGATATTGCACTCCTGCACCTGAAGCGACCGGTCATCTTCAGCGACTACATCCATCCTGTCTGCTTGCCTACCAAGGAGCTTGTGCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008332:ENSGALT00000013559:10
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:
PF0008921=Trypsin=FE(22.5=100)
A:
NA
C2:
PF0008921=Trypsin=FE(23.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGATGCTCTACAAAAAGAGTCCT
R:
CTGCACAAGCTCCTTGGTAGG
Band lengths:
337-662
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]