GgaINT0000344 @ galGal3
Intron Retention
Description
NA
Coordinates
chr16_random:48484-49185:+
Coord C1 exon
chr16_random:48484-48664
Coord A exon
chr16_random:48665-48909
Coord C2 exon
chr16_random:48910-49185
Length
245 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TCACCCTGGCTGTGCCTCAGGGT
3' ss Score
6.78
Exon sequences
Seq C1 exon
GTGGATGGCGACCTCTTTGGGAAGTACGACAGTAAGATCAAGAGTGCACAGCCCATCGTGGAGATGCTGCCGCAGGAGGACCAGGAGCACTGGGCTGTGCAGACCCAGAAGGCGCGGGGCGGTGAGCGGGATTTTGACTGGTTCCTGAGCAGGCTGCCGGAACGCTACAACAAAAGTGGAG
Seq A exon
GTGAGCGTGGGGGAAGATGCAGCGCGATGCGTCTGGGACAGGAGCTCTGTGTGCCGAGGGTGTCCGCCAGCCCCACTGATGTCTGGCCGTGCCCCCCACCCAGCTGTGCTGGGCCATCCATGTGTGGTGACACTGTCCCTGGGCTGCCCTGTTCCTGAGCCAACCCACCCCACCCCAGCCCCATGGCACTCGCAGTGCCCAAGAGCCCAAGAAGCCCCTCACCTCTCACCCTGGCTGTGCCTCAG
Seq C2 exon
GGTCTCACACACTGCAGAGGATGATCGGCTGTGACATCCTGGCGGACGGCAGCATCCGAGGGCACGATAAGTATGCATTTGATGGGAGGGACTACATTGCCTTTGATATGGACACAATGACGTTCACCGCTGCAGACCCAGTGGCAGAAATCACCAAGAGGAGATGGGAGACAGAAGGGACGTATGCTGAGAGATGGAAGCATGAGCTGGGGACTGTCTGTGTTCAGAACTTGAGGAGATACCTGGAGCATGGGAAGGCAGCGCTGAAAAGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005825:ENSGALT00000009357:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.230 A=NA C2=0.011
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(40.3=98.4)
A:
NA
C2:
PF0012913=MHC_I=PD(59.1=94.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
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:
GCGACCTCTTTGGGAAGTACG
R:
CGGTGAACGTCATTGTGTCCA
Band lengths:
303-548
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]