GgaINT0020602 @ galGal3
Intron Retention
Gene
ENSGALG00000001535 | STAB1
Description
NA
Coordinates
chr12:622462-623857:+
Coord C1 exon
chr12:622462-622548
Coord A exon
chr12:622549-623661
Coord C2 exon
chr12:623662-623857
Length
1113 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
CTGCTTTTGTTGGTTCCCAGAAG
3' ss Score
8.04
Exon sequences
Seq C1 exon
GAATTTCCAGGAAGCAAGAATCTCCCTCGCTGTGAACTGCGCTCTGGGGACACTGGTTGCCATTTCATCTGTGCAAAAGTTTCTCTG
Seq A exon
GTAAGAAAAACATTTGGTTTGGATTCACTGTGATAAAAGCGAGTAGGGCATTAGAAACACGGCTGTGGAGACACAGCCTGTGCTGAACCGACATCCTGGCTGAACGTGTGCCATTGCACAGCTGAGACCGGGCTCGTCTGGGCATTGCTCCTCATCCTGGAGATAGAGGGCACCGGAGGAAAAAACTAACGGAAATGTCTGCGCAGTGAGGGATTGTGGTCTGCTGCTCTGGCATTGTTACCTTGGGTTTTGCTGTAGAGGAAGAGAAGGAGTTGAATGTTTATAGTCAGATTTCCTAAGGAAATGAGGCATGACTGGTGGTATTTCACTTGTGCATGTGTGCTTCTGAACAACTGATGACTAATTGGAGCCAAACCAAAGTGAGGTCTCACCATCACTGTGCCCTCACCAGTTCTGTAAAAACACAGACTGGGAGAAAATTCCTAAAGAGGAAATGGTAAAAGAAAGGCTTGTGTGAATTTGACCCCTCTTGGCTGTTGAAACATCTCCCTGGGAAGTTTGGTGGGAATGGAAAACTGGGAAGGGACAGAGGCAGTTGGAAATACCATGCCCACAGGCTTCCCTTCAGTTATCCCAACCCCCTTTGGGCACTTCTGCCTCTCTTCCCTGAATTATGTTTCTCTTCACCTATATTATCCAACTAGGTCCCATCATGGTTGCTTCCCTCTGTGGGTGAATGCAGAGAGAAAGCAGTGAAATGAGGCTTCTGAACCAAAGCGCTCTCTGGCAGAGCCTCTCTCTGCTCAGTGGAGTATCACACTGACGGGACACAGGGGACGCAGGCAGGAGATAAGCTGGATGGGCATGGAGCGGAATGTTTGTGTCACCAAATGACCAGCACTGCTCAAGCAGCCGTACACATCCTTTACGTGAGGTCTGGGCAGCTGAGAGCCTTGTTCCAGGAGGGTGTCACTCTGACCTACCTACATACAGCTGCTCTTCTCACTTATTTGTCAGAACTGATGTCTGTTGCATAGTTAAAGGAGCAGAGTATCTTCCACAATAAAGCCATGAGCCTGGAGGACATGCTTTTGCTACTTCATCTGTGCTGCATCAGACAGCTCACCCCAACCTGCTTTTGTTGGTTCCCAG
Seq C2 exon
AAGTCTGTCTGCTGCCCCGGCTACTACGGACACATGTGTGAGATGTGCCCAGGAAAGCCAGGCCAGTGGTGCTCCGGGAATGGGGAATGCCTGGACGGCATCGAGGGCAGCGGAGAGTGCCAATGTCTGGAAGGTTTCCATGGCACTGCTTGTGAAATGTGTGAAGTGGGCCGGTATGGAGCTGACTGCAAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001535:ENSGALT00000002333:39
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:
NO
A:
NA
C2:
PF0000822=EGF=WD(100=51.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGGAAGCAAGAATCTCCCT
R:
CTGATTTGCAGTCAGCTCCAT
Band lengths:
278-1391
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]