HsaINT0149197 @ hg19
Intron Retention
Gene
ENSG00000095370 | SH2D3C
Description
SH2 domain containing 3C [Source:HGNC Symbol;Acc:16884]
Coordinates
chr9:130511490-130513579:-
Coord C1 exon
chr9:130513451-130513579
Coord A exon
chr9:130511945-130513450
Coord C2 exon
chr9:130511490-130511944
Length
1506 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CCTAACCATGCCTTCTGCAGGTC
3' ss Score
8.58
Exon sequences
Seq C1 exon
TTCTCCAAGGAGAAGTACATCCTGGACTCATCGCCAGAGAAACTCCACAAGGAATTGGAGGAGGAGCTCAAACTCAGCAGCACGGATCTCCGCAGCCATGCCTGGTACCATGGCCGCATCCCCCGAGAG
Seq A exon
GTGAGTAGGCCCCGAGCTGGACTTCAACCCGGGACCCTCCCACCCACTGCCTTGGCCAGCCCCAGCCCTGGCTGCAGCCACCTGGGAGGCTCTGACCTGTTGCTTGGTGGATTCAATCAGAATGGACTGGGATGAGGTCTAGCTCTGCCCTTTACTGACTGTGTGACCTTGAACAAGTTGCTTCACCTCTCCGAGCCTCAGTATCTACTGCAAAGGGGTGTTGTGAAAATTAAACGAAATAATGCAGGTAAAATGTTTAACATGATGCTTGACACCATGAATGTTGGCCTTTGTTCTTATTATTATGCTGTTATTGTTACTGGTCTACATATCTGCCTTTTGTATGTTTGCTTAGTGAGTACCAATCTTTGGGCTACTTAGTTTTGGCAAAGTTGAGTTTCTTGGCTGAGGTGACTTTATAAGCCACAGAATTAAGTTGATAGATCACTTGTTCCTTCTTTCATTTATGCTATGATCTTTGCCAAACACCAACTCTGCCAGGACCTGTGCTAAGCACCAAGGGTGCAGAGGTAGAAAAGGTGGTGGCTTCTCTTGATGGCTAATGGCCCAGGGTGGGGGACTGACAGGCAGGATGACAGTCAGAGCCTAGTGGAAGAAGTACAAGAATAGAGTGCCTGGTAAGAATATGGGCGAGTCCCGAGGAGGGGACACTGAGGATGGAAGCCTTTGTGAGGTGGATAGGAGTTCACCAGGTGGGGCCAGGTGCGATGGCTCATGCCTGTAATCTCACCACTTTGGGAGGCTGAGGTGGGCAGATCACCTGAGGTCAGGAGTTTCAGACCAGCCTGGCCCACATGGTGAAACCTCGTCTCTACTAAAAATACGAAAATTAGCCAGGCATGGTGGCATGCACCTGTAATGCCAGCTACTCAGGAGGCTGAGGCAGGAGAATCACTTGAACCAAGGAGGCGGAGGTTGCAGTGAGTGTGCCACCTCACTCCAGCCTGGGTGACAGTGAGACTCCATCTTAATAATAATAATAATAATAATAACAATAATAATAATAATAAAGAAGTTCATCAGATGGACAAGGCAGGAAGGGTGTTCCAGGACAAAAAAGCAGCTTGAGGGTGCAAGGGCCAGAGGCATGCCAGAGCACTGGGTGGTTGGAAGAATGAGGATTAGGAATTCACTCTGCCCAACCGGAACCCTGAGAAGGGATGGGTCTGAGACCTGGGTCTCAGGTCACAGCCATTCTCACTCCTCCAGACCCTGGGCCTCTGTGCCTCCCATTCCAAGGTGTTGGGTCCTCCCATTCCTGAGCCTCTGTGCTGCAGACTCAGGGCCTCTGGCTGAGGTGCCCCCTGTGAACCTGGGTCATTGCATCCCCGCTCTCAGATGTCAGATGTCTCTGTTCATTGGGTCCTCTATGCCCTGGGTCTGGTCTTGCTGTGCCCCCTAATCCTGGGTTGCTCTGTCCCCCAGATCCTGGGTCTGACCCTCTCCTGGCCCCACCCTACTCCAGCCTAACCATGCCTTCTGCAG
Seq C2 exon
GTCTCGGAGACCTTGGTACAACGCAACGGCGACTTCCTCATCCGGGACTCACTCACCAGCCTGGGCGACTATGTGCTCACGTGCCGCTGGCGCAACCAGGCCTTGCACTTCAAGATCAACAAGGTGGTGGTGAAGGCAGGCGAGAGCTACACACACATCCAGTACCTGTTTGAGCAGGAGAGCTTTGACCACGTGCCCGCCCTCGTGCGCTATCATGTGGGCAGCCGCAAGGCTGTGTCAGAGCAGAGTGGTGCCATCATCTACTGCCCGGTGAACCGCACCTTCCCACTGCGCTACCTCGAGGCCAGCTATGGCCTGGGACAGGGGAGTAGCAAGCCTGCTAGCCCCGTCAGCCCCTCAGGCCCCAAGGGCAGCCACATGAAGCGGCGCAGCGTCACCATGACCGATGGGCTCACTGCTGACAAGGTCACCCGCAGCGATGGCTGCCCCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000095370-SH2D3C:NM_001142531:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.033 A=NA C2=0.319
Domain overlap (PFAM):
C1:
PF0001719=SH2=PU(9.9=18.6)
A:
NA
C2:
PF0001719=SH2=PD(87.7=46.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCCAGAGAAACTCCACAAGG
R:
CTCTGCTCTGACACAGCCTTG
Band lengths:
346-1852
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)