GgaINT0000339 @ galGal3
Intron Retention
Description
NA
Coordinates
chr16_random:12178-12959:+
Coord C1 exon
chr16_random:12178-12438
Coord A exon
chr16_random:12439-12683
Coord C2 exon
chr16_random:12684-12959
Length
245 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CTGCCCTGGCTGTGTCTCAGGGT
3' ss Score
7.65
Exon sequences
Seq C1 exon
GGTCGCACTCCCTGCGCTACTTCCTGACCGGGATGACGGATCCCGGCCCCGGGATGCCGCGGTTCGTGATCGTCGGGTACGTGGATGGCGACCTCTTTGGGAAGTACGACAGTAAGAGCCGGTGGGTGCACCCCATTGTGGAGAAGCTGCCGCAGGAGGACCGGGAGCACTGGGCTGCGCAGACCGAGAAGGCCCGGGGCGGTGAGCGGGATTTTGACAGGGGCCTGGGCAGTCTGCCGGAACGCTACAACAAAAGTGGAG
Seq A exon
GTGAGTGTGGGGGAAGCTGCAGCGCGATGCGTCTGGGACAGGAGCTCTGTGTGCCGAGGGTGTCCGCCAGCCCCACTGAGGTCTGGCCGTGCCCCACGCCCAGCTGTGCTGGGCCGTCCATGTGTGGTGGCACTGTCCCTGGGCTGCCCTGCTCCTGCGCCCACCCACCCCACCCCAGACCCATGGCACTCATGGTGCCCCACAGCCCAAGAAGCCCTTCACCCCCTGCCCTGGCTGTGTCTCAG
Seq C2 exon
GGTCTCACACACTGCAGAAGATGTTTGGCTGTGACATCCTGGAGGACGGCAGCATCCGAGGGTACGATCAGTATGCATTTGATGGGAGGGACTTCCTCGCCTTTGATATGGACACGATGATGTTCACCGCGGCGGATCCAGTGGCTGAAATCACCAAGAGGCAATGGGAGACAGAAGGGACGTATGCTGAGAGATGGAAGCATGAGCTGGGGACTGTCTGTGTTCAGAACTTGAGGAGATACCTGGAGCATGGGAAGGCAGCGCTGAAAAGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011014:ENSGALT00000041340:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.193 A=NA C2=0.011
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(49.4=98.9)
A:
NA
C2:
PF0012913=MHC_I=PD(50.0=94.6)
Main Inclusion Isoform:
NA
Other Inclusion 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:
CACCCCATTGTGGAGAAGCTG
R:
GTCTCCCATTGCCTCTTGGTG
Band lengths:
305-550
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]