GgaINT0098823 @ galGal3
Intron Retention
Gene
ENSGALG00000008654 | STAM
Description
NA
Coordinates
chr2:19583104-19583357:-
Coord C1 exon
chr2:19583282-19583357
Coord A exon
chr2:19583200-19583281
Coord C2 exon
chr2:19583104-19583199
Length
82 bp
Sequences
Splice sites
5' ss Seq
ACAGTAGGT
5' ss Score
5.67
3' ss Seq
TTTAATCTTTCTTTCTTTAGCTT
3' ss Score
9.58
Exon sequences
Seq C1 exon
GCCTAAGGATTGTCTTCGTTCCATTATGAAGAGAGTGAACCATAAGGATCCCCATGTTGCTATGCAGGCTTTAACA
Seq A exon
GTAGGTTACTTTTAATGTAGTCCTTTCCTAAAAAGCAATATTACATGAAATCTTCTCTGAGTTTTAATCTTTCTTTCTTTAG
Seq C2 exon
CTTCTAGGAGCATGTGTATCAAACTGTGGCAAAATCTTTCATTTAGAGGTCTGTTCAAGAGACTTTGCCAGTGAAGTAAGCAATGTGTTGAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008654:ENSGALT00000014097:3
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:
PF0079014=VHS=FE(18.5=100)
A:
NA
C2:
PF0079014=VHS=FE(23.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTAAGGATTGTCTTCGTTCCA
R:
TCAACACATTGCTTACTTCACTGG
Band lengths:
167-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]