HsaINT0149200 @ hg19
Intron Retention
Gene
ENSG00000095370 | SH2D3C
Description
SH2 domain containing 3C [Source:HGNC Symbol;Acc:16884]
Coordinates
chr9:130505128-130507378:-
Coord C1 exon
chr9:130506843-130507378
Coord A exon
chr9:130505244-130506842
Coord C2 exon
chr9:130505128-130505243
Length
1599 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
3' ss Seq
CCCTCTGGGCGTCTTTGCAGGTT
3' ss Score
9.66
Exon sequences
Seq C1 exon
TAACCCGTGTCCATGCCGCCCCTGCAGCCCCTTCTGCCACAGCATTGCCTGCCTCCCCTGTCGCCCGCCGTTCCAGTGAGCCCCAGCTGTGTCCCGGAAGTGCCCCAAAGACCCATGGGGAGTCAGACAAGGGCCCCCACACCAGCCCCTCCCACACCCTTGGCAAGGCCTCCCCGTCACCATCACTCAGCAGCTACAGTGACCCGGACTCTGGCCACTACTGCCAGCTCCAGCCTCCCGTGCGTGGCAGCCGAGAGTGGGCAGCGACTGAGACCTCCAGCCAGCAGGCCAGGAGCTATGGGGAGAGGCTAAAGGAACTGTCAGAAAATGGGGCCCCTGAAGGGGACTGGGGCAAGACCTTCACAGTCCCCATCGTGGAAGTCACTTCTTCCTTCAACCCGGCCACCTTCCAGTCACTACTGATCCCCAGGGATAACCGGCCACTGGAGGTGGGCCTTCTGCGCAAGGTCAAGGAGCTGCTGGCAGAAGTGGATGCCCGGACGCTGGCCCGGCATGTCACCAAGGTGGACTGCCTG
Seq A exon
GTAGGTGCTGGCTGTGCACTGGGGTGGAGGGAGCATCTCTGTTCTGTGGGGCAGGGCAGTGAGAAGCTGGCTCCCAGATTCCCCAAGTACAGCAGGTGGGCCTGGATTCTAGCTCCATGGCTGTCCTTTGCCTGCTCTGTGACTCTGGGCTGGTCATTTAGCCTCACTGGGCCTCCAGTTTCTCCTTTTAAAAAGGCCGGGGGTGGTAGCTCACACCTGAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACCTGAGGTCAGGAGTTCAAGACCAGCCTGGGCAACATGGCGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCTAGGCGTCGTGGTGGGCGCCTGTAATCCCAGCTACTTGGAAGGCTGAGGCAGGAGAATCACTTGAACCTTGGAGGCGGAGGTTGCAGTGAGCTGAGATCACACCACTGCACTCCAGCCTGGGCAACAGAACGACACTATTCAAAAAAAAAAAAAAAAAAAGCACATAAGATATCCTTGCTTCCTCCAGATGTCAGTTTGGCACTAAAACTGGGCAGCCCTGAAACCCAGTGGTCTCTGGCTCCCTGAGGCAGTTGGGGACACTTCTCTAGTGTGCCATAGAGCCTCTTGAGGGTTAGCCAGCTTGTCCTGGGACTAGAAAAGGCCTGACTCTCTGCCCCCACCGCCCCCCCGCCACTGGACAAATAAGCAGAAATCATTACCTCCTCGGCCCATAAATTGTCAATGCCTGGGCCTTAGCTTTGTTAAATCTTTGAACATCTAAAGACCCCAGTTCTCTCTGTGCTTCAGTTTCTCCTTTCACAGTTTGGGAGAAACTGATTATTGGGTTATACTGGTCTCAGAGCGCGGGAAGCAAGAAAAGAAACAAGGCAAAGATGTCACTCCATGAAGAGTCCAGGGTGGCAGGGAGGACCCAGGTTCTAGGCCCAGTGTGTGACCTTGGGCAAGCCCATTCCCTGCCCGGGCTTCAGGGTTTCCCTCTGCAATGAACAAGTATCCAGCTCTTAACCTTAACTGAATATTTATTTATTTATTTTATTTTTATTTTTTGAGATGGAGTCTCACTCTGTCACCGAGGCTGGAGTGCAGTGGCGTGATATCGGCTCACTGCAACCTCTGCCTCCTGGGTTCAAGCGATTCTCCTGCCCCAACCTCCCGAGTAGCTGGGACTACAGGCACGCGCCACTATACCCGGCTGATTTTTGAATTTTTGGTAGAGATGGGGTTTCGCCATGTTGGCCAGGCTGGTCTCGAACTCCTGACCTCAGGCGATCCGCCCACCTTGGCCTCCCAAAGTGCTGGCATTACAGGCGTGAGCCACCCCGCCCGGCCGACCGTAACTGAATATTTAATTGCCAGGCACCTCTGGACATTTTCCTATTAATTCCTACTTCACAGATGGGGAAACTGAGGCTCGCTGAGAAAGGCAGAGTCACTTGCTCCATATCAGAGGGTTAGCGGTGGAGCTGGAATTCAAACCCCGCCTCCCAACCAGGCTACCTACCCCCTTAGATAAAGCTCTCTGACTCCCAGATGGCTGGGGCCAGCCCTGACAGGATATTAATCAGCCCTCTGGGCGTCTTTGCAG
Seq C2 exon
GTTGCTAGGATACTGGGCGTTACCAAGGAGATGCAGACCCTAATGGGAGTCCGCTGGGGCATGGAACTGCTCACCCTCCCCCATGGCCGGCAGCTACGCCTAGACCTGCTGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000095370-SH2D3C:NM_001142531:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.649 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=PU(11.3=9.5)
A:
NA
C2:
PF0061714=RasGEF=FE(25.3=100)
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:
GCTATGGGGAGAGGCTAAAGGA
R:
TTTCCAGCAGGTCTAGGCGTA
Band lengths:
357-1956
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)