GgaINT0058512 @ galGal3
Intron Retention
Description
NA
Coordinates
chr5:16018369-16018890:-
Coord C1 exon
chr5:16018707-16018890
Coord A exon
chr5:16018574-16018706
Coord C2 exon
chr5:16018369-16018573
Length
133 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGG
5' ss Score
8.37
3' ss Seq
TTTCCTCTTACCCATTTTAGGCA
3' ss Score
10.55
Exon sequences
Seq C1 exon
GTGACTGTAAACAAACAGCCTGTGGCTTTGCCTTATAAGAAATTTGGCTTGAGCGTCTATGAGTCAGGCATAAATCGTGTAGTGGAAATTCCTGAACTTAAAATGAATGTGTCCTTCAATGGCTTGTCATTTTCTATCAGAATGCCCTACAGCCTGTTTGGAAACAACACTCAAGGACAGTGTG
Seq A exon
GTAAGGCTTATTCTTAAGGTTTTTTTGTACTTTCAGAAAAGTGCAAACAGGTAAATCGCAGCCCTGCCACAAAGATGAATGGCATTTGATAATGAATCTGTGAGTGAATTCTTTTTCCTCTTACCCATTTTAG
Seq C2 exon
GCATTTGCAATAACAACACGGCAGATGACTGCAGGTTGCCAAATGGAAATATTGCAGAAAACTGTGAAACTATGGCAGATTACTGGCAAGTTGTTGATCCCTCCAAACCACAGTGTTCTCCAGGTCTAGTTCCTACAAAAGCACCTAGCACAACGACAGGAAAGCCTTGCAAAGAATCTTCCCTCTGTGAGCTTCTTTGGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006744:ENSGALT00000010869:9
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=0.014
Domain overlap (PFAM):
C1:
PF0009420=VWD=FE(38.4=100)
A:
NA
C2:
PF0009420=VWD=PD(10.1=23.2),PF087426=C8=PU(17.6=18.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGCCCTACAGCCTGTTTGG
R:
CCCAAAGAAGCTCACAGAGGG
Band lengths:
245-378
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]