GgaINT0123650 @ galGal3
Intron Retention
Description
NA
Coordinates
chr16:23365-24350:+
Coord C1 exon
chr16:23365-24183
Coord A exon
chr16:24184-24260
Coord C2 exon
chr16:24261-24350
Length
77 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
CACTGCTCTTTGGGTTGCAGGGC
3' ss Score
7.75
Exon sequences
Seq C1 exon
TGCTTGCCCAGTCTCTGCCCAACCATGGGGGGCCACGGGGGACCCCTACATTTCTGGCATCTCCAGTGGCCCCAGCATCACCATCAGCCCGACAGTCTCCAGCATCCCCATGGTCCCCAGTGTCACTGGGGTCCTTGGGGTCACCAGCATCCCTGAGGTCTCCAGTGTCACCAGAGTCCTCAGCAGCACCAGCTTCCATGGAATCCCCATGGTCCCCAGCATCCCCACACTCCCCAGAGTCCCCAGCATCCCCAGTGTCCCCGAGGTCACCTACATCTCCATGGTCCCCAGCATCCCCACAGTCCCCACTATCTCCAGCATCCCCTATATCCCCAGTGCTCCCAAATGTCCCATCCCTGCATGAGCTGGGGGTCAAGCTTTCTTCCTACAATGGGTCCTTGCTGCAGCGCCTGGAAAGCCACCTCCGGGCCACCAATTTCCCACTCCGAGGCAACCAAACAGTGCCTGCAGTGGCCCGTGCCATCCTCTCCTACCTGCTTCGCCGCAGCCCAGCCTCACTGCGTTATCAGTTCCTCCGCCACCTCCAGCAGAACCCCCACCCCAAACCCCAGGTGTTGCCAGGGGCTGCTGGTGAAGCCCTGGTGGACTTGGATGGGCTGAGGGGTCACGCGGAGACAGTAGTGATCCGCTACCGGCTGCTGGAGGAGCCGGAGGGGGATGAGGGGGAGGTGAGGGTGCCAGGGGACACCACAGTGGCCCGGGTGCCAGGGCTGGTGCCAGGGGCCACATACCGGGTGGAGGTGCACGGTGTGGTGCGGGGACGTGTCTCCAAGTCCTACACTTCCCTGGTGACTGCAG
Seq A exon
GTAGGTGACAGGAACAGGGATGGGGACGGTGTTGCTTGGTGGCATCTGATAACCCCTCACTGCTCTTTGGGTTGCAG
Seq C2 exon
GGCTGGGTGACACCAGTGAGCCTCCACTAGAATGGGGGAACCTGTATGACATGGAGGTGACTGAGCCCCAGGGGGCCATGGCCAAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000182:ENSGALT00000000238:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.609 A=NA C2=0.742
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=24.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGAGGGGGAGGTGAGGG
R:
CCCCATTCTAGTGGAGGCTCA
Band lengths:
179-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]