HsaINT0155805 @ hg38
Intron Retention
Gene
ENSG00000165684 | SNAPC4
Description
small nuclear RNA activating complex polypeptide 4 [Source:HGNC Symbol;Acc:HGNC:11137]
Coordinates
chr9:136396977-136398797:-
Coord C1 exon
chr9:136398299-136398797
Coord A exon
chr9:136397024-136398298
Coord C2 exon
chr9:136396977-136397023
Length
1275 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
GTTGCTTGTGTTTCTGACAGATT
3' ss Score
8.79
Exon sequences
Seq C1 exon
ACACCTTCTACGCTGGGTGGCCAGTTTCCATGTGGCTTGGTGTGGGAGCAGAGACGGGACAGTGGGGCCTGTCCTTGTTCATCCACTCCCTGCCTGTGCTGGTTGCAGCCTCAGAGCAGGCGGGAGATGTTCTTGGGGCTTAGGCTCCTGGCAGAGCACATAGCAGGAGTTTGTGGGGTCTGAGGTTCCTGTCCCAGGGTTCCCCGATTCTGTGCCTGGCCTATTAATCTTTCTCTGGGGAGCCCAGTGCCCACTGCCGAGCAGGCTCCTGCCATCCCCCATGGGCGGGTGTGTCTGAAGGAGAATGGGATCCCGGCACGGTCTTGGTTTCTAACATCTCGGGGTGTGTTTTGGAGGCAGGCGGGAGTCATGGATGTAGATGCTGAAAGAGAGAAGATAACACAGGAGATCAAGGAGCTGGAAAGGATTTTGGATCCCGGCTCCTCGGGCTCCCACGTGGAGATCTCAGAATCAAGTCTCGAGTCAGATTCTGAAGCAG
Seq A exon
GTAAGCCCCTTGTACCTAGCCTCCTGGGGTCCTGGTAAGAACAGCTGGTCTGCCTCCTGGGTTCCTCTCAGGCACATTAGGGAGTGATGGTAGCCGGGTGTGGTTTCTCAGGCCTGTAAACCCAGGGACTCCTGAGGCTGAGGTGAGAGCATTGTTTGATCCCAGGAGTTCATGTCCAGCCTGGACAACGCAGCAAGACCCTGTCTCTAAAAATAATAATAATAATAATAAACGATGGCTGGTGCTGCTTGGACCAGACCCAATTTTTTGCCAACACTGGTGTCTTTCTGTACTCCAGCCAGAGAGCTTCTGACAATTCCTCCTTTGCTAGCCCCTGAACCAGCTGGCTGTGTGTGTACACTGGGCTCTAGGCATCCCAGGGTCTGGGCCTGGCCTCCTTGGGCCTGTGCAGGGCTTCTGGAGTGGACCATCCTGGGAGGAGGGGGCAGGCCTGAACCTCACCAGATGGCAGTCTGGACAGTCCATGCCTGGATGGTCAACACAGCTCACACCCCTAGGATCTCTTCTTCTCACATGTGCCCCTCCCCACGTGCTCCCCACCCCAAGTGCTCTCCTCCCCACGTGCTCCCCACCCCACGTGCTCCCCACCCCACGTGCTCCCCTCCCCACGTGCTCCCCTCCCCACGTGCTCCCCTCCCCACGTGCTCCCCACCCCACGTGCTCCCCTCCCCATGTGCTCCCCACCCCATAGGCTCCCCACCCCACAGCCTCTCCTCCCAACATGCTCCCCTCCCCACATGCTCTCCTCCATGCTCCCTTTAGCTTCTGAGCCTACCCCAACCCCACCAGCTGCTGCCCTGACAGGAGACCCCCCCAGCCTTGCTTCCCACCTCTCCCAGACCCAGGGCCTGCCTCTGAGGCAACCTGCTATCTTTCTCCTGTGGTGAGGGCCTCTACATCCGTGCCTCCCATCTGACCGGCTAAGCTCCTGAAGGAGAGGTCCGTTTTCTGCTAAACTTTCCCTGTCTCTCCAGTAAAGATAGCTTGTGCCATCCAGTGAACCCTGTGTAGCTTTGTCCTGTGTGCCTGGAGGTCCCCAGTGTGTGGTCAGAGTTTTCTCTATCTGGCTAACCCGGCCTTGGTCCAGTGCCCACCCCGCTGTCAGGGAGGGAAGGTCCGCTCACCGCCAGCCTCAGCCTGAGGCGCTGTCACTACCTCACAACCCCAGGTCTGCCCAAGAAGCAGTGGTGAGCTGCGCCCCCACCCTGCCCAAGACGCTGGTTACCAACACGGTGTTGCTTGTGTTTCTGACAG
Seq C2 exon
ATTCACTGCCTTCTGAGGACTTGGATCCTGCCGATCCCCCGATCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165684:ENST00000298532:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGTGGGGTCTGAGGTTCCT
R:
TCCAAGTCCTCAGAAGGCAGT
Band lengths:
355-1630
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains