GgaINT0002211 @ galGal3
Intron Retention
Description
NA
Coordinates
chrUn_random:20437846-20438129:-
Coord C1 exon
chrUn_random:20438046-20438129
Coord A exon
chrUn_random:20437972-20438045
Coord C2 exon
chrUn_random:20437846-20437971
Length
74 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGG
5' ss Score
5.06
3' ss Seq
ACCGGTGCTGCCATCACCAGATC
3' ss Score
7.39
Exon sequences
Seq C1 exon
ACCTCGGTGGTTCTGACTGTGCGCGCCAGCGTCTCGGTGACCTCTTCCATCAAGAACCTGGTGCTGAAGGATGCTTCCACGCAG
Seq A exon
GTCTGGCCCTGTGCCCCCCATTCCTGTCCCCTACCCCCTCCCTGCAGCCCTCTGACCGGTGCTGCCATCACCAG
Seq C2 exon
ATCCCTGTCACCATCTACCTGGACCCCGGCGTGGCGGTGGCTGGTGGTGTGCCCTGGTGGGTCATCCTGCTGGCTGTGCTGGCCGGCATCCTGGTCCTGGCACTGCTGATCTTTATCCTCTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012016:ENSGALT00000019607:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF151761=LRR19-TM=PU(60.7=81.0),PF0035715=Integrin_alpha=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTCTCGGTGACCTCTTCCAT
R:
AAAGATCAGCAGTGCCAGGAC
Band lengths:
169-243
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]