GgaINT0000272 @ galGal3
Intron Retention
Description
NA
Coordinates
chr16_random:116306-116759:-
Coord C1 exon
chr16_random:116693-116759
Coord A exon
chr16_random:116567-116692
Coord C2 exon
chr16_random:116306-116566
Length
126 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
GACGCCGTCTGTCCCCGCAGGGT
3' ss Score
11.79
Exon sequences
Seq C1 exon
GCGATGGGTCCGAGCGAGGCGGTGGTGCTGGGGCTGCTGCTGGGCGCCCTGGGCGCGGCGGAGTGCG
Seq A exon
GTGAGTGCTGCGGGACCGGGCTGCCCCCGGCACCGGGACCCGCGGCTCCTCGCTCCTCCACGCCGGGGCTGCGTCCGCGGGACCCCCACCCGCGGCTCACCGCTCCGACGCCGTCTGTCCCCGCAG
Seq C2 exon
GGTCGCACTCCCTGCGCTACTTCATGACTGGGATGACGGATCCCGGCCCCGGGATGCCGCGGTTCGTGATCGTCGGGTACGTGGATGGCGAACTCTTCGGGAAGTACGACAGTAAGAGCCGGTGGGTGCACCCCATTGTGGAGAAGCTGCCGCAGGAGGACCGGGAGCACTGGGACGGGCAGTCCCAGAAGGCCCGGGATGGTGAGCTGGAGTTCTCCGAGGGGCTGCACAGGCTGCAGGTGCGCTACAACAGAAGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000180:ENSGALT00000000236:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.182
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(0.1=0.0)
A:
NA
C2:
PF0012913=MHC_I=PU(49.4=98.9)
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGATGGGTCCGAGCGAGG
R:
GTCCCAGTGCTCCCGGTC
Band lengths:
242-368
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]