GgaINT0054947 @ galGal3
Intron Retention
Description
NA
Coordinates
chr5:15877734-15878120:-
Coord C1 exon
chr5:15877983-15878120
Coord A exon
chr5:15877899-15877982
Coord C2 exon
chr5:15877734-15877898
Length
84 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
GCCTATCTACTTCCCTTTAGGTC
3' ss Score
10.84
Exon sequences
Seq C1 exon
CAAATGTCACCATCTTCAGACCATCATCCTTCTTCATCATTTTACAAACAACTTTTGGTCTTCAGCTGCAGATTCAAATTGTACCTCTCATGCAACTTTTTATAAACTTAGATCCATCACAGAAAGGGCAGACCTGTG
Seq A exon
GTAAGTGATCTTATTCTAACAACTGCCTTCATCAGCATGCTTGATTTTGTAGGAGACTTTCACAGCCTATCTACTTCCCTTTAG
Seq C2 exon
GTCTCTGTGGAAACTTCAATGACATTCAGACAGATGACTTCAAAACCACAAGTGGCGTAATAGAGGGCACTTCAGCTGCCTTTGGCAATACTTGGAAAACTCGGGCTGATTGTCCTGATGCCAAAATTACCTTTGAGAACCCCTGCACCCTCAGCATAGAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006740:ENSGALT00000010867:14
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:
PF0009420=VWD=FE(29.7=100)
A:
NA
C2:
PF0009420=VWD=PD(12.3=33.9),PF087426=C8=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCATCACAGAAAGGGCAGACC
R:
GTGCAGGGGTTCTCAAAGGTA
Band lengths:
173-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]