DreINT0156918 @ danRer10
Intron Retention
Gene
ENSDARG00000002127 | stam
Description
signal transducing adaptor molecule (SH3 domain and ITAM motif) 1 [Source:ZFIN;Acc:ZDB-GENE-031118-123]
Coordinates
chr2:31465420-31465650:+
Coord C1 exon
chr2:31465420-31465507
Coord A exon
chr2:31465508-31465595
Coord C2 exon
chr2:31465596-31465650
Length
88 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
GTCATTCTACCCCCATTTAGCTG
3' ss Score
6.56
Exon sequences
Seq C1 exon
GAGAAAATGGACCAGCTGCTTCAGATGATCCAGAGTGCAGACCCGACAGATGACCAGTCAGACACCTGTGAGCTCCTACAGTTGGAGG
Seq A exon
GTAAGTGTAAAACCATATCCCTATGATCTGACAGGACATTTATTTTATCTTGTAGAGACTGATTCATAGTCATTCTACCCCCATTTAG
Seq C2 exon
CTGCTTGCAACCAGATGGGTCCTCTCATTGATCAGAAGCTGGAAGACACTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000002127:ENSDART00000141170:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.733 A=NA C2=0.632
Domain overlap (PFAM):
C1:
PF031279=GAT=FE(36.2=100)
A:
NA
C2:
PF031279=GAT=FE(22.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAAAATGGACCAGCTGCTTC
R:
CTGTCAGTGTCTTCCAGCTTCT
Band lengths:
143-231
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]