GgaINT0135991 @ galGal3
Intron Retention
Gene
ENSGALG00000003709 | E1C209_CHICK
Description
NA
Coordinates
chr22:2764059-2764889:-
Coord C1 exon
chr22:2764715-2764889
Coord A exon
chr22:2764151-2764714
Coord C2 exon
chr22:2764059-2764150
Length
564 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TAATGTTGTAACTCTTTCAGAAA
3' ss Score
6.67
Exon sequences
Seq C1 exon
ATACTGAAGTTAAGTGCTACAAAAATGCTGGAGTAACATACAGGGGTACATGGAGCATAACAGAGAGTGGAGCTGAATGCCTGAATTGGAATATCAATGGCTTGATGGACCATAAATACAGTGGCCAAAGAAAGGATGCTGCTGAGCTGGGATTGGGCAATCACAACTATTGCAG
Seq A exon
GTGAGGGACTCACAGCACACATTAGAGCTGTAAGAATCTGATTATTCCGGGAGCTTGGGGCAAAAAAGGCTATTTGCAACAGCCTGATACCAACTGTAGAACACTGTGAACAGGTGCAAACATGGTGCAGTCCAAGAGCAGCAACTGATAGATTTCTATTTCTGAACCATCTAAGAGTGGATGTTTGATAGACTACAAAATGCATGCCCTCTCTCACTCCACAGTCTTTCCCTTGTGCCCACTGTTGCCTTCTTACTGTTAAAAACTCCCTTTGCAAGCCAGTTTCCTATCATGTTTGCCTGCAGATCTAGACACTCCTTAGAACTCTACAATGTAGTACCTCCTGCACATGATCTAACCTGCACAAACAAGCTATCTACCCTTACTACTGGCCATCTCATCCCCACCTCCATGCTTTTATAATTAAAATAAGAATAAAAATGACTTCTGCTGGTTCAGTTCACCCCCTCACTGCTAAGCACAATCAAGTTACTGAACTAGATGGCACACTTGAGACTAGTAATTATAGCTTTAAAATGATGCATAATGTTGTAACTCTTTCAG
Seq C2 exon
AAACCCAGATGAGGACTCCAGACCTTGGTGCTATGTCTACAAAGGGGGGAAGTACACCTGGGAATACTGCAGTGTGCCCCCCTGTTCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003709:ENSGALT00000005886:5
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:
PF0005113=Kringle=PU(64.6=89.8)
A:
NA
C2:
PF0005113=Kringle=PD(34.1=87.5)
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:
AAGTTAAGTGCTACAAAAATGCTGGA
R:
GCACACTGCAGTATTCCCAGG
Band lengths:
246-810
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]