GgaINT0117859 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:79272782-79273242:+
Coord C1 exon
chr1:79272782-79272850
Coord A exon
chr1:79272851-79273139
Coord C2 exon
chr1:79273140-79273242
Length
289 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
GTGTCTGTTCTTCCCTCTAGCTG
3' ss Score
11.55
Exon sequences
Seq C1 exon
TTGGAGAATGTATTCTTGGTGAAAAAAGCAGAGATAAAACCAGACAAAGTCACAGTCTACTTGGAAGAG
Seq A exon
GTAAGAGGAAGATCATAGAGATCTGCTCAGTCAAGTAGTACTAAATTAGTTGCTGCACAACAGAAGTACTTTGTTTTAAGAATCCCATAATAACAATAGCAGTATTTTGTGTTGGGACTTTAGAGATCAGAAAACACAAATCTCTAGGCTAGTCATACAACTCAAATTTGGCAAAAGAGAAAGAGAATGAAAGAACCTGGAAAAGTGGAGGAAGAAATCTTTGATGCAGAGGGAATAAAGTTGGAATGCAGATTACTTTGAGATAGCCAGTGTCTGTTCTTCCCTCTAG
Seq C2 exon
CTGGATAAGACTTCTCTGAATCTTAACATATCAGTGGAGCAAGATAATGAAGTACAGATCCTGAAACCAGCCACAGTGCATGTCTATGACTACTATAAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014252:ENSGALT00000023051:38
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF076779=A2M_recep=FE(25.0=100)
A:
NA
C2:
PF076779=A2M_recep=FE(38.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
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:
TTGGAGAATGTATTCTTGGTGAAAA
R:
CTGGTTTATAGTAGTCATAGACATGC
Band lengths:
172-461
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]