GgaINT0058642 @ galGal3
Intron Retention
Description
NA
Coordinates
chr5:15815866-15816739:-
Coord C1 exon
chr5:15816613-15816739
Coord A exon
chr5:15815971-15816612
Coord C2 exon
chr5:15815866-15815970
Length
642 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
TTCCTTTTTACTCTCTCAAGCAA
3' ss Score
4.93
Exon sequences
Seq C1 exon
AACTGCATGTTTGACACGTGTAACTGTCAAAACAGTGAGGGCTGTCTTTGTGCAGCCCTTTCTTCCTATGTGAGAGCTTGTGCTGCAAGAGGAATCCAAATAAATGGATGGAGGACTAACGTCTGCT
Seq A exon
GTGAGTACTCTTCTTTATTTCCTTTCTTGTGCACCCATCAATAAAAACTGTTGGTGAAAAAAAAATTATATTGATTTCTAGACAGATATGGTAAGTGTCAAGGAAGGGATTTTGTTAAATGCACTCCTAGATGTAATTCTCTGCTGTTCCTTTAGATTCAATCCATTAATAGCAAGAATAAATATAAACAGATGAGGGAGAGCTTGCTGTTACAGACACATCTCCACCTGTTTCTCCACAACTTTGAATTTAACTATGGCTTTCTATATCACATAGCGTCATAGACATAAATATGACATATTAGAATAACAACATTAGTAATACTAACCAGAAAACTAGAACAACGTTCTAGAAAAAGAAAATAGCAGCAACAAATGGAGGTTTCTTTCCAAACTCTGATTTGAAAAATTGTATTCCTTATCGCATATATGACTTGACTTCTACATGTGCATGACATCTACCTGTACAGTAGCTTTCAGTTCTAACTCTGGAAATATTCAGAAAAACATTGATGTGAAAGATACAGCATAGGCAAAGGTATATATTATTGTTTACCTGTTATTGCTCCTACCGTTTCTTTCTTCCCAACAAAAAATACCATCTAGAATTAACGAACTCATTCTTCCTTTTTACTCTCTCAAG
Seq C2 exon
CAAAGTACACCACCTCATGTCCCAAATCCCTAAGTTACAGCTATACCATCAATTCATGTCAACCCACCTGTCGCTCTCTGAGTGAGCCTGATGTCACATGCAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023540:ENSGALT00000039116:11
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:
PF087426=C8=FE(56.0=100)
A:
NA
C2:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=PU(54.7=80.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACTGCATGTTTGACACGTGT
R:
TTGCATGTGACATCAGGCTCA
Band lengths:
230-872
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]