GgaINT0004081 @ galGal3
Intron Retention
Description
NA
Coordinates
chrUn_random:62829607-62830402:-
Coord C1 exon
chrUn_random:62830138-62830402
Coord A exon
chrUn_random:62829883-62830137
Coord C2 exon
chrUn_random:62829607-62829882
Length
255 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CCACCCCTGCTGTGCCTCAGGGT
3' ss Score
7.35
Exon sequences
Seq C1 exon
GCAGGGTCGCACTCCCTGCGCTACTTCAAGACCAGGATGACGGATCCCGGCCCCGGGATGCCGCAGTTCGTGATCGTCGGGTACGTAGATGGCGAACTCCTCTGGAACTACAACAGCCTGTGCCGGACGGTGCGGCCCATCATGGGCTGGCTGCCGCAGGAGGACCAGGAGCACTGGGATGCAGAGACCAAGAAGGCCCGGGACGTTGAGCTGGATTTCTACGAGTTCCTGGGCAGGCTGCAGGTGCACTACAATAAAAGTGGAG
Seq A exon
GTGAGTGCGGCGGCAGCTGCGTTGTGATGGGGCTGGGATGGTGACTCCGTGCAGTGAGGGATCCATGAGGCGTCCGCCAACCCCACTGAAGTCTGGCCTTGCCCCACACCCGGCTGTGCTGGGCTGTCCATGTGTGGTGGCACTGTCCCTGGGTTCCTCCGATCCTGAGCCCACCCACCCCATCCCAGCCACACAGCACTCGTGGTGCCCCACAGCCCATGAAGCCCCTCACCCCCCACCCCTGCTGTGCCTCAG
Seq C2 exon
GGTCTCACACACTGCAGAAGATGATCGGCTGTGACATCCTGGAGGACGGCAGCATCCGAGGGTACGTTCAGTATGCATTTGATGGGAGGGACTTCCTCGCCTTTGATATGGACAAGATGACGTTCACCGCAGCCGATGCGGTGGCAGAAATCAGCAAGAGGAGATGGGAGGAGGAAGGGATATATACTGAGGGATGCAAGCATGAGCTGGGGACCATCTGCGTCCAGAACTTGAGGAGATACCTGGAGCACGGAAAGGCAGTGCTGAAAAGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012967:ENSGALT00000021154:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(49.4=97.8)
A:
NA
C2:
PF0012913=MHC_I=PD(50.0=94.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
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:
ATGGCGAACTCCTCTGGAACT
R:
TGCGGTGAACGTCATCTTGTC
Band lengths:
308-563
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]