HsaINT0160262 @ hg19
Intron Retention
Gene
ENSG00000115145 | STAM2
Description
signal transducing adaptor molecule (SH3 domain and ITAM motif) 2 [Source:HGNC Symbol;Acc:11358]
Coordinates
chr2:153004739-153006743:-
Coord C1 exon
chr2:153006659-153006743
Coord A exon
chr2:153004815-153006658
Coord C2 exon
chr2:153004739-153004814
Length
1844 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
CTCTCTCTTTTTTTTTTTAGAGC
3' ss Score
11.48
Exon sequences
Seq C1 exon
AAAAAGCCACGAATGAGTACAACACTACAGAAGATTGGAGTCTTATTATGGACATATGTGACAAAGTTGGAAGTACTCCTAATGG
Seq A exon
GTAAGATGTCCAGTCATGCTCAGTGAATGTCTAGGAACTTGATAACCAGTGTCTCTTTTTGTGATGTAACTTTGAGAGGAAAATGAGACTTTATCACAGTTGACCCTTGAACAACACAGATTTAAACTGCGAGGGTTCACTTATACATAGGTTTTCTTCCACCTCTGCTACCTCTAAGACAGCAAGACCAACCCCTCTTCCTCCAACTCATGATTTCCTTAACAACATTTTTTTTTCTCTAGCTTACCTTATTGTAAGAATACAGTATATTATGTATATACAAAATATATGTCCATCTACTGTTTATGGTATTGGTGAGGCTTCTGGTCAAGAGTAGGCTGTTAGTTGGCTGGGCGCAGTGGCTCACGCCTATAATCCCAGAACTTTGAGAGGCCGAGGCGAGCAGATCACTTGAGGTCAGGAGTTCGAAACCAGCCTGGCCAACATGGTGAAACCCCATCTCTACTAGAAATACAAAACTTAGCTGGACATAATGGTGTGCGCCTGTAATCCCAGCTACTTGAGATGCTGAGACAGGAAAATCGCTTGAACCCAGGAGGCAGAGCTTGCAGTGAGCCGAGATGGCACCACTGCACTCCAGCCTGGACGGTAGAGCGAGACTCTGTCTCAAAAAAAAAAAAAAAAAAAGAGTAGACTATTAATAGTGAAGTTTTTGGGGAATCAAAAGTTATACACAGATTTTCGGCTGCGTGGGGTGTTGGTGTCCTTAACTTTCATGTAGTTAAAGGGTCAGTTGTTTTACTTTTGGGACATAAAAGTTAAAAAAGCCTGAATGCTGGATTTATGGGATTAATTTACATGAAAAAGAGTTCAACTGAAAATCTGCTATAGTAACACACATAATTAAAGCCTTGACACAATAGGATACATGATAACAATGTATAGGTGAGTTATTTAAGGAATTCCTCTGGGACTTCTATATGTATGGGAACTTTTAAATAATGAAGTAGATAACACAGTAGATAATATAACAAAAAAGTCTTCAAATAATATACATATAAATATAATAGATTAACAATGAAAAAAGTGAATATAAAAAAGTGCTTTTGGGGAGATGTGGCAATTAGCTGAACTATATGTTAGAAATTTAGAAGAGTGATGAAAGCATTTGTTTTAACATTAAAGCTTTTCATAGTACATTCACATGTTTATACTTGAACCTCTTAAAATTGTATATCATGTTAGATTTTTTTCAAGATAAGCTTTTGCTGTTTGAAAGCTAAACCTGTCTTGAAGAAATAGAAAGATCTGGTATACGTCTCTTGTGTTGACAGATCTTTTGTGAAATGGTTTGTCTCTTAATTTTGGAATACACAACATTTGCAACATGCTTTTTTTTTTTAAAGTTCTATGAGCCTATAAACAAAATATTGTGTAAAATCATTTTATAGATTTATTCCTTTAACAATATGAAATTTCCAGGATTTTAGTTTAGTTTATTTTTATTTTATACTTTCTTTATTTTGAGACACGGTCTCTGTCATCCAGGCTGGAGTATAGTGGCATGACACAGCTCACAGCAGCTTCCTGGGCTCAAGCAGTCCTCTTGCCTCAGCCTCCTGAGTAGCTAGGAGTACAGACACATGCCACCATGCCCAGCTAATTTTTAAGTTTTTTATAGAGATGAGATCTTACTTTGTTTTCCAGGCTGGTCTCAAATTCATGGGCTCAAGTGATCCTCCCGCCTTGGCTTCCCGAAGTGTTGGAATTACAGGCATGAGCCATTAAATATAAAATTATTTGGTAATAGAATAATACCTTAATGTTTGAATTAAATTTATCAGTAAATACTTAACTGTCTCTCTCTCTCTTTTTTTTTTTAG
Seq C2 exon
AGCGAAAGATTGCCTAAAAGCCATAATGAAAAGGGTAAATCATAAGGTTCCACATGTTGCTCTGCAAGCACTAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000115145-STAM2:NM_005843:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.138 A=NA C2=0.325
Domain overlap (PFAM):
C1:
PF0079014=VHS=FE(20.4=100)
A:
NA
C2:
PF0079014=VHS=FE(18.2=100)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)