DreINT0156924 @ 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
chr2:31459893-31460215:+
Coord C1 exon
chr2:31459893-31459988
Coord A exon
chr2:31459989-31460068
Coord C2 exon
chr2:31460069-31460215
Length
80 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
CGAGGTACTTTCTTTTCAAGGGT
3' ss Score
6.26
Exon sequences
Seq C1 exon
CTACTCGGTGCATGTGTGTCAAACTGTGGAAAGATATTCCATTTAGAGGTCTGCTCCAGGGAATTTGCTAGTGAAGTTAGCAATGTGCTAAATAAG
Seq A exon
GTATGTAGTTTAGTTTGTTGAGTATATGATGCAATGTTTTGTCCAGCAGTAGGCTGATGTCGAGGTACTTTCTTTTCAAG
Seq C2 exon
GGTCACCCAAAAGTATGTGAGAAGCTAAAGGCTTTGATGGTGGAATGGGCCGAGGATTTCCGCAACGACCCTCAGCTCAGCCTGATCTCTGCAATGATTAAGAACCTCCGAGAGCAGGGCGTCATCTTCCCTGCCGTGGGCTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000002127:ENSDART00000141170:4
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(22.8=100),PF136461=HEAT_2=FE(28.4=100)
A:
NA
C2:
PF0079014=VHS=PD(28.7=79.6),PF136461=HEAT_2=PD(19.3=42.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGGTGCATGTGTGTCAAACT
R:
AGAGATCAGGCTGAGCTGAGG
Band lengths:
182-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]