HsaINT0155817 @ hg19
Intron Retention
Gene
ENSG00000165684 | SNAPC4
Description
small nuclear RNA activating complex, polypeptide 4, 190kDa [Source:HGNC Symbol;Acc:11137]
Coordinates
chr9:139271995-139274316:-
Coord C1 exon
chr9:139274289-139274316
Coord A exon
chr9:139273752-139274288
Coord C2 exon
chr9:139271995-139273751
Length
537 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
TGGGTCTTTCCTCCCCACAGGCC
3' ss Score
12.27
Exon sequences
Seq C1 exon
GCATCCTCAAGTGCCCAGAGCACCCCAG
Seq A exon
GTAACTCTGCTTCTCTGCCCTGGTGGGGAAGAGACCTAACCTGGCCCTGGCGGGGAAGAGGCCTAACCTGGCCCTGGCTTTCACCCACAGCCCCCAAGCAGCACAGCCTGTGGCCCCTGGTGACAGAGCTCCCTCGAGTCCCACCACAGGGATGAGAGTCCGGCTGGGCCAGCTTGGAGCTCCCTGGGCTCCCCTTGCAGCCCTAAGGCTTCCCCAGCATGGGGCCCAGAGGCAGGGGTCGTCTGGAGCGAGCGTCCGCCCATGCCCAACACCGGCAAGCTGGGCTGCCGGCTGATCTCAGCCAGCATTAAATGGGCTGGGTTTCCCAGAGTGCCCACTGCCCTGGCTTTGGCCGGAGCATTGCCATCTGGGGTAGCCACTGTGACTTGGGAGACCCAGGATGTGCCGCTTGACCCTCTCTTGGCTCAAGACCCCAGGCTCCCCACATGGTCCCTCCTGATGAGGGGATGGCAGCGAGGGGCTGTCCCTGGGCCAGATGCCTGGGGCTTATCAAGTGTGGGTCTTTCCTCCCCACAG
Seq C2 exon
GCCACCTCTTCCCAAACGTGCCGGCTCAAGAAGCCTCAAAGAGTGCCAGCCACAAAGGGAGCCGAAGACTGGCGTCCAGCCGGGTGGAGCGCACCCTACCCCAGGCGTCCCTGCTGGCTTCAACCGGCCCCCGGCCCAAGCCCAAGACTGTGTCGGAGCTGCTTCAGGAGAAGCGGCTTCAGGAGGCCCGTGCCAGGGAGGCCACCCGGGGCCCGGTGGTGCTCCCGTCCCAGCTGCTGGTCTCCTCGTCTGTGATCCTCCAGCCCCCTCTACCACACACCCCACACGGCCGCCCAGCCCCGGGTCCCACCGTCTTAAATGTACCGCTCTCTGGGCCTGGGGCCCCCGCGGCAGCCAAACCTGGCACTTCTGGCTCCTGGCAGGAGGCTGGGACTTCAGCCAAGGACAAGAGACTCTCCACCATGCAAGCCCTGCCCCTCGCTCCTGTCTTCTCAGAGGCCGAGGGCACAGCCCCTGCTGCTTCCCAAGCCCCTGCCCTGGGCCCCGGCCAGATCTCTGTGAGCTGCCCCGAGAGTGGTCTCGGACAGTCTCAGGCCCCCGCTGCATCCCGGAAGCAGGGCCTGCCTGAGGCGCCACCCTTTCTCCCCGCAGCCCCCAGCCCCACCCCACTGCCCGTCCAGCCCCTCAGCCTGACGCACATAGGAGGGCCACATGTGGCGACCAGTGTCCCCCTGCCTGTCACCTGGGTGCTCACAGCCCAGGGGCTTCTCCCTGTTCCTGTACCAGCTGTGGTGAGCCTTCCCAGGCCAGCAGGGACCCCTGGCCCCGCAGGGCTGCTGGCCACTCTGCTGCCTCCCCTGACTGAGACTCGGGCGGCCCAGGGCCCCAGGGCCCCAGCGTTGAGCAGCTCTTGGCAGCCCCCAGCCAATATGAACAGGGAACCGGAGCCTTCCTGCAGGACAGACACCCCAGCTCCTCCCACACACGCCCTCTCCCAAAGTCCTGCAGAAGCGGATGGCAGTGTGGCCTTTGTCCCTGGAGAGGCCCAGGTGGCCAGGGAGATACCTGAGCCCAGGACGTCCTCCCACGCTGACCCTCCTGAAGCAGAACCCCCTTGGTCCGGGAGGCTGCCAGCCTTCGGTGGTGTCATCCCAGCAACTGAGCCAAGGGGGACGCCGGGGTCCCCCTCAGGGACACAGGAGCCCAGGGGGCCTCTGGGCCTGGAGAAGCTGCCCCTGCGCCAGCCTGGGCCTGAGAAGGGGGCCCTGGACCTGGAGAAGCCGCCCCTACCCCAGCCTGGGCCTGAGAAGGGGGCCCTGGACCTGGGCCTGCTGTCCCAGGAGGGCGAGGCGGCCACACAGCAGTGGCTGGGGGGCCAGCGGGGGGTGCGTGTGCCTCTTCTGGGCAGCAGACTGCCCTATCAGCCCCCAGCCCTGTGCAGCCTGCGAGCTCTGTCCGGTCTCCTACTCCACAAGAAGGCCCTGGAGCACAAGGCCACCTCCCTGGTGGTGGGGGGCGAGGCTGAGCGGCCGGCCGGAGCACTGCAAGCCTCACTGGGGCTGGTGCGGGGGCAGCTCCAGGACAACCCGGCCTACCTCCTGTTGCGGGCGCGGTTCCTGGCAGCCTTCACCCTCCCTGCGCTCCTGGCCACCCTGGCCCCCCAAGGCGTCCGCACCACCCTCTCAGTACCTTCGAGGGTGGGCTCTGAGAGTGAGGATGAAGACCTCCTGAGTGAGCTGGAACTTGCAGACAGGGACGGGCAGCCGGGCTGCACGACAGCCACATGCCCCATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165684-SNAPC4:NM_003086:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.900 A=NA C2=0.766
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCCTCAAGTGCCCAGAGC
R:
CATTTAAGACGGTGGGACCCG
Band lengths:
348-885
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)