GgaINT0000340 @ galGal3
Intron Retention
Description
NA
Coordinates
chr16_random:12684-13327:+
Coord C1 exon
chr16_random:12684-12959
Coord A exon
chr16_random:12960-13054
Coord C2 exon
chr16_random:13055-13327
Length
95 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
ACAACGTCACCAATCTGCAGAGC
3' ss Score
4.86
Exon sequences
Seq C1 exon
GGTCTCACACACTGCAGAAGATGTTTGGCTGTGACATCCTGGAGGACGGCAGCATCCGAGGGTACGATCAGTATGCATTTGATGGGAGGGACTTCCTCGCCTTTGATATGGACACGATGATGTTCACCGCGGCGGATCCAGTGGCTGAAATCACCAAGAGGCAATGGGAGACAGAAGGGACGTATGCTGAGAGATGGAAGCATGAGCTGGGGACTGTCTGTGTTCAGAACTTGAGGAGATACCTGGAGCATGGGAAGGCAGCGCTGAAAAGGAGAG
Seq A exon
GTGAGGATGGGAGGGCGGCGTGGGGCTGGGCTGGGTGTGGGGCAGGGGCTCAGTGTGGGGTGCTCAGCCCGGCCCACAACGTCACCAATCTGCAG
Seq C2 exon
AGCGGCCCAAGGTGCGAGTGTGGGGGAAGGAGGCCGACGGGATCCTGACTTTGTCCTGCCATGCTCACGGCTTCTACCCGCGGCCCATCGCCATCAGCTGGATGAAGGACGGCATGGTCCGGGACCAGGAGACCCAGTGGGGGGGCGTCGTGCCCAACAGCGATGGCACCTACCACGCCTCGGCTGCCATTGATGTGCTGCCGGAGGATGGGGACAAGTATTGGTGCCGCGTGGAGCACGCCAGCCTGCCCCAGCCTGGCCTCTTCTCATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011014:ENSGALT00000041340:3
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=0.065
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(50.0=94.6)
A:
NA
C2:
PF0765410=C1-set=WD(100=87.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
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:
CACCAAGAGGCAATGGGAGAC
R:
AGGACAAAGTCAGGATCCCGT
Band lengths:
182-277
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]