BtaINT0142039 @ bosTau6
Intron Retention
Gene
ENSBTAG00000048306 | STAM2
Description
signal transducing adaptor molecule (SH3 domain and ITAM motif) 2 [Source:HGNC Symbol;Acc:HGNC:11358]
Coordinates
chr2:44143662-44143948:-
Coord C1 exon
chr2:44143873-44143948
Coord A exon
chr2:44143761-44143872
Coord C2 exon
chr2:44143662-44143760
Length
112 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
ATTTTTATTTTAATTAATAGCTT
3' ss Score
5.98
Exon sequences
Seq C1 exon
AGCAAAAGATTGCCTAAAAGCCATAATGAAAAGGGTAAATCATAAAGTTCCTCATGTTGCTCTGCAGGCATTAACT
Seq A exon
GTAAGTGAAAGTCATGTTATTATTTGGCCCAAATTTTAAATGTGTTTGTTTCAGTAAGTTAAGTAAAATTACATCTCAACATTTGTATATTGATTTTTATTTTAATTAATAG
Seq C2 exon
CTTCTTGGGGCTTGTGTGGCAAACTGTGGAAAGATATTTCATTTAGAAGTGTGTTCCCGTGATTTTGCAACAGAAGTACGTGCTGTGATAAAAAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000048306:ENSBTAT00000064047:2
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(19.5=100)
A:
NA
C2:
PF0079014=VHS=FE(25.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAAAGATTGCCTAAAAGCCATAATG
R:
TCACAGCACGTACTTCTGTTGC
Band lengths:
162-274
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]