GgaINT0031313 @ galGal3
Intron Retention
Description
NA
Coordinates
chr9:21874751-21875472:-
Coord C1 exon
chr9:21875347-21875472
Coord A exon
chr9:21874880-21875346
Coord C2 exon
chr9:21874751-21874879
Length
467 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
ACTTTGTTAATTCTCTGTAGTGT
3' ss Score
6.49
Exon sequences
Seq C1 exon
CTTGCCCAGAAAATCGATACGGGAAGGACTGCGCCCTGTTCTGTGCATGCGGTAAAGGTCATTGTGACCCACGGACTGGCAGCTGTACCTGTCCTCCTGGCCAAATGGGACCTGGCTGTCAGCAAG
Seq A exon
GTAACAAAGTGGGACCAGAGCTCAGCTCGTCAGCTGGGCTCATAGTTGCAAATAAAACTCAGTGCCAAGCATTGTTTATGGCTGTGTTTCTCATTGCGTTTGAAGCCAATGTTTGCTTGATAATGCTTGCTGCACTTTGCAGGATCTTAGCCTTGTCCATCTGTTCAATTGCCCTGCCTTTCTCCTACCCATCTCTTCCCGTATCTCACCACTTTGCTCCTCCACCCGATCCATAGCACTCCTTTCTGTGCAAAGATAAAGTCACTGCTTTCAGATATCGCAGCTCAAACAGCATGAACCTAAAGATGGGGAAACTGTTCTTACCACACAGTGAAGGCAGTATGAATGGATGTTACTTGGGATACTCACTGGGAAGCGCGTGTTTGTATTTGCTCCCTGTCACTTTCATCGTTTGGGGGGATGCTAAATTTATTATTTTTTTTCCAAACTTTGTTAATTCTCTGTAG
Seq C2 exon
TGTGTCCCCAGGGACGGTTCGGCCCCAGCTGCCGCCTGACATGCAGCTGTCAGAACGGTGCTATCTGTGACCACGTGGATGGCAGCTGCACTTGTGGACTTGGCTGGACAGGAAAATCGTGTGAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009458:ENSGALT00000015394:31
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:
NO
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
Human
(hg19)
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:
TTGCCCAGAAAATCGATACGGG
R:
CTTTCTCACACGATTTTCCTGTCC
Band lengths:
254-721
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]