GgaINT0046558 @ galGal4
Intron Retention
Gene
ENSGALG00000012513 | STAM2
Description
signal transducing adapter molecule 2 [Source:RefSeq peptide;Acc:NP_001012940]
Coordinates
chr7:34911623-34913468:-
Coord C1 exon
chr7:34913322-34913468
Coord A exon
chr7:34911693-34913321
Coord C2 exon
chr7:34911623-34911692
Length
1629 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAA
5' ss Score
5.07
3' ss Seq
TATTGTTAATACATTTGCAGGCT
3' ss Score
5.62
Exon sequences
Seq C1 exon
GCTCATCCAAAAGTAAGTGAGAAGCTGAAAACTCTAATGGTGGAGTGGTCAGAAGAATTTCAGAAAGACCCACAATGTAGCTTAATATCTGCAACTATTAAATCTTTAAAAGAAGAAGGTGTCACTTTTCCTGCTGCTGGATCACAG
Seq A exon
GTGAAAGCTCAATTAGGAATACACAGTACCTCTCCTGTTAGACTTCTGTCAGTGAACGGCAGGAAAAAGCCGTGCACAGATCTTTTGATCAGAGGGAAGTAGGACCCTTGTTATAGTTTGGTTGCCTCCTGACACCGAGGTTCATTTCATTCTGCTTTTTAATTTCCTTGCCCACTGAGGAAAAGTGAGAACAGACTAAAGGTTATTTCTTACTGTCTTTGAGTTGTTTCATTTTAGATCTGTCTTTCCTTCAGATCATTTTTTTAGAGTTTCATCAACCTGTCATACCTTAAAAACCTAAGCAATCCTACACCCACGCCTTGTACTTGGTGTTTCATGGTTTTAATTGCTGACTTGGAGCACGTTTCTTCGTTATTTTTCCCTTCCAGAGCCTCACAAAACAATTGGCAGTATCTGAAACTGAGACATTTTTTGAAAATGATGTGCTATGCTTTCCTTTTCTAAGTCCCCTTTTCTTGTTCATGTTTTTTTGTCCATGTCAAGAGCTGTCCATCTCTGCAATGCTGCGGTGATGGATGCTCCAGTCCCTAACCTCACTTGCTCTTTTTATTTTACTTGTGGTGGTATTCTATGCCTGATCATCTAGCTGGTAGATATGGTGACAAGTTTTTTTTTAATGCTTTATTATTTATGCTTCTAAATATTCTTATGTTCAAAATGAGTTAGGTGAAGAACAGTCCTTAAACTTAGAAACATATTTTCTGTTATGTATCCCTTCCATGAAGTTCACTTTTCTCTGTATTAAACACAGGTGGTGGGTTTTTGTGTGTATTTTTTTTAAGTTCTACAGTCTTTCCTTCCTCCACCAAGATGTTTTCACCTCTAAATCTAGGATAAGTGTTAAAACATATGGCAGAAACATGGAAGATGGAGAGTGCTGGCAACCAGTTATGCTTTCTTCCTACAGATGCATATAAAAATGACATCTTGATGTCTCTGCATCATACGCTTCACTGCAAAAAAACAAAGCTGAAGTTTATTAGTATACTTGCACAGAATTGTTTCCTAGAACCATTGATAATTCCAGTATCTGAAACTGGTTTGTTTGTTCCTACAAGAAGACTTCCCTGTTGAAGTGAAGGTTTTCATTATGCTCTTGGGGAGACTCAAATTATTCAAATCAGAAGCTCCCAACTTGATATACCAAAAAACAGAGGAGGAGGGTAGCTATTAGCTGTCATGTGGAGAGAAATCTCCTTTTAGCAAGTCCAACTCCCAGTTAATAACTTCACAAACGTAGGACTCCAAAGAGCTTTTCTTCCCTTTTGAGAGGTGAGGTGGAGGACAAAGGTGGGAAGAGTAGTCTTTTAAATGCGAGTTGTTTCATCTAAGTAATGCTACTAGCATCATGATTTAAATGAAATCCTTAAATAAATGAGATCTGATTATTTATTTTACTTTGTTCCTTTCTGAAAACTAAATGTGGATGAGATTCCAGAGTGAAGTAATTTTTCTTTTCTAAAAGATCATCCTGGGCCAGTTCTGAAATGCTCAAAATAGGCAGCTAGCAGGGAACAGCTTCTTATTAATTTTTTTAAAGTATGTAATTATAGAGCTTTCTTCTTCCTTTGTTAGCATGAAGTTATTCTATTGTTAATACATTTGCAG
Seq C2 exon
GCTACCACAAATGCTGCTAAGAATGGTTCTTCATTAAGCAAAAACAAAGAGGATGAAGATATAGCTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012513:ENSGALT00000037757:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.082 A=NA C2=0.667
Domain overlap (PFAM):
C1:
PF0079014=VHS=PD(28.9=79.6)
A:
NA
C2:
PF0280915=UIM=PU(50.0=37.5)
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:
GCTCATCCAAAAGTAAGTGAGAAGC
R:
TCTTCATCCTCTTTGTTTTTGCTT
Band lengths:
206-1835
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]