GgaINT0000274 @ galGal3
Intron Retention
Description
NA
Coordinates
chr16_random:115417-116060:-
Coord C1 exon
chr16_random:115785-116060
Coord A exon
chr16_random:115690-115784
Coord C2 exon
chr16_random:115417-115689
Length
95 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGG
5' ss Score
7.93
3' ss Seq
ACAGCATCATCCATCTGCAGTGC
3' ss Score
4.85
Exon sequences
Seq C1 exon
GGTCTCACACGCTGCAGAAGATGTTTGGCTGTGACATCCTGGAGGACGGCAGCATCCGAGGGTACGATCAGGATGCATTTGATGGGAGGGACTACATTGCCTTTGATATGGACACGATGACGTTCACCGCGGCAGATCCAGTGGCAGAAATCTCCAAGAGGAGACGGGAGGAGGAAGGGACGTATGCTGAGAGATGGAAGCATGAGCTGGGGACTGTCTGTGTTCAGAACTTGAGGAGATACCTGGAGCACGGGAAGGCGACACTGAAAAGGAGCG
Seq A exon
GTGAGGATGGGAGGGGAACGTGGGGCTGGGCTGGGTGTGGGGCAGGGGTTCAGTGTGGAGAGCTCAGCCCGGCTTACAGCATCATCCATCTGCAG
Seq C2 exon
TGCAGCCCGAGGTGCGAGTGTGGGGGAAGGAGGCGGATGGGATCCTGACTTTGTCCTGCCGCGCTTATGGCTTCTACCCTTGGCCCATCAGCATCAGCTGGATGAAGGACGGCATGGTCCGGGACCAGGAGACCCACTGGGGGGGCGTCGTGCCCAACAGCGATGGCACCTACCACGCCTCGGCTGCCATTGATGTGCTGCCAGGGGATGGGGACAAGTACCGGTGCCACGTGGAGCACGCCAGCCTGCCCCAGCCCGGCCTCTTCTCATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000180:ENSGALT00000000236:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.097 A=NA C2=0.054
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(50.0=94.6)
A:
NA
C2:
PF0765410=C1-set=WD(100=87.0),PF049018=RAMP=PU(23.5=13.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
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:
GAGGAGGAAGGGACGTATGCT
R:
CGGCAGGACAAAGTCAGGATC
Band lengths:
170-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]