HsaINT0155818 @ hg38
Intron Retention
Gene
ENSG00000165684 | SNAPC4
Description
small nuclear RNA activating complex polypeptide 4 [Source:HGNC Symbol;Acc:HGNC:11137]
Coordinates
chr9:136376349-136379299:-
Coord C1 exon
chr9:136377543-136379299
Coord A exon
chr9:136376482-136377542
Coord C2 exon
chr9:136376349-136376481
Length
1061 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
CTGCCTGGATTTTCTTTCAGGGA
3' ss Score
9.51
Exon sequences
Seq C1 exon
GCCACCTCTTCCCAAACGTGCCGGCTCAAGAAGCCTCAAAGAGTGCCAGCCACAAAGGGAGCCGAAGACTGGCGTCCAGCCGGGTGGAGCGCACCCTACCCCAGGCGTCCCTGCTGGCTTCAACCGGCCCCCGGCCCAAGCCCAAGACTGTGTCGGAGCTGCTTCAGGAGAAGCGGCTTCAGGAGGCCCGTGCCAGGGAGGCCACCCGGGGCCCGGTGGTGCTCCCGTCCCAGCTGCTGGTCTCCTCGTCTGTGATCCTCCAGCCCCCTCTACCACACACCCCACACGGCCGCCCAGCCCCGGGTCCCACCGTCTTAAATGTACCGCTCTCTGGGCCTGGGGCCCCCGCGGCAGCCAAACCTGGCACTTCTGGCTCCTGGCAGGAGGCTGGGACTTCAGCCAAGGACAAGAGACTCTCCACCATGCAAGCCCTGCCCCTCGCTCCTGTCTTCTCAGAGGCCGAGGGCACAGCCCCTGCTGCTTCCCAAGCCCCTGCCCTGGGCCCCGGCCAGATCTCTGTGAGCTGCCCCGAGAGTGGTCTCGGACAGTCTCAGGCCCCCGCTGCATCCCGGAAGCAGGGCCTGCCTGAGGCGCCACCCTTTCTCCCCGCAGCCCCCAGCCCCACCCCACTGCCCGTCCAGCCCCTCAGCCTGACGCACATAGGAGGGCCACATGTGGCGACCAGTGTCCCCCTGCCTGTCACCTGGGTGCTCACAGCCCAGGGGCTTCTCCCTGTTCCTGTACCAGCTGTGGTGAGCCTTCCCAGGCCAGCAGGGACCCCTGGCCCCGCAGGGCTGCTGGCCACTCTGCTGCCTCCCCTGACTGAGACTCGGGCGGCCCAGGGCCCCAGGGCCCCAGCGTTGAGCAGCTCTTGGCAGCCCCCAGCCAATATGAACAGGGAACCGGAGCCTTCCTGCAGGACAGACACCCCAGCTCCTCCCACACACGCCCTCTCCCAAAGTCCTGCAGAAGCGGATGGCAGTGTGGCCTTTGTCCCTGGAGAGGCCCAGGTGGCCAGGGAGATACCTGAGCCCAGGACGTCCTCCCACGCTGACCCTCCTGAAGCAGAACCCCCTTGGTCCGGGAGGCTGCCAGCCTTCGGTGGTGTCATCCCAGCAACTGAGCCAAGGGGGACGCCGGGGTCCCCCTCAGGGACACAGGAGCCCAGGGGGCCTCTGGGCCTGGAGAAGCTGCCCCTGCGCCAGCCTGGGCCTGAGAAGGGGGCCCTGGACCTGGAGAAGCCGCCCCTACCCCAGCCTGGGCCTGAGAAGGGGGCCCTGGACCTGGGCCTGCTGTCCCAGGAGGGCGAGGCGGCCACACAGCAGTGGCTGGGGGGCCAGCGGGGGGTGCGTGTGCCTCTTCTGGGCAGCAGACTGCCCTATCAGCCCCCAGCCCTGTGCAGCCTGCGAGCTCTGTCCGGTCTCCTACTCCACAAGAAGGCCCTGGAGCACAAGGCCACCTCCCTGGTGGTGGGGGGCGAGGCTGAGCGGCCGGCCGGAGCACTGCAAGCCTCACTGGGGCTGGTGCGGGGGCAGCTCCAGGACAACCCGGCCTACCTCCTGTTGCGGGCGCGGTTCCTGGCAGCCTTCACCCTCCCTGCGCTCCTGGCCACCCTGGCCCCCCAAGGCGTCCGCACCACCCTCTCAGTACCTTCGAGGGTGGGCTCTGAGAGTGAGGATGAAGACCTCCTGAGTGAGCTGGAACTTGCAGACAGGGACGGGCAGCCGGGCTGCACGACAGCCACATGCCCCATTCAG
Seq A exon
GTAGGGTGGGCGCCCAGCCCCACTTCCCCATGGCAGGCGGCGGTCCCTGGGGTGCCCTCGCCTGCCTGGAGCAGTGGGGTGGGGGCTGGTGGAAGTTGCGGGCAGGAAGGCTGGCTGCTGGGTGTCTTAGGAGGAGGAAGCTGGTTCCTGGCCTGCCCAGTTGCGTGTAGATTCTGCAGAAGTGGCCTCCCTTTGGGGCAGTGTGGAAAAGGGGAGAAGAGAGGCCTCATTCTCGTGCAGGAGCCTCCGGCCATCCTGATGCTGCCCAGCCAGGTGGCCTTGTCTGAGCGAGAAGCTCTGGGATGGACGCTGACCCGGCTCTGAGCCGCACACGCCACACACACGTGTGCTCCCAGGGTGGGCCATGGGCACAGTGGAGGGTGGTGGCTGTGTTTGTCTCTGGATTTCTGGGGTCCCAAAGGTCCCTCTCTGCTGTCACCTCTCTGAGTGTCCTTGGGGAGAGTTTTCCAATCTCTGTAGGTGAAACCATGTTTGGAACCCTGGAAAGCATGTGGAGCTGGGGCCCCCAGAGAGGCCTCCTCCCCTGGTGCCAGGGTGCCCACTTGCAGCAGCTGGGAGGCTGGCCTCCCTGAGAAACCACCAGAAGCAGGCAGCCTCAGCTGGACCTGTGGGCCTGTCATAGGGAGTGTGGCAGAGGGCCTTCCATCTCTCCCCAGGGTTGTGTCTCGCAAGTCCCTGGGCTGAAGTGTGGGAGGAAGCAATGTCCAAGAGTTGGGGAGGACCCCGGCCAGCCAGGGGAAGAGGCCCTCTGTGCCCCATCCATGTACAGCCTCCTGCCCTGCCTGGGTGTGATGGCTGTCCCATGGGGGAGTGGGAGGCCCACCAGAGGGATGGCTTGGATGGGGTCAGAGCCCCCGAGGGAGGGAGTGCACAGTCACGTGTGGCCCCAGGAGTGCCTGGAGCAGCTCCCGCCTGAGCTGAGGGTGCCCTGTCCCAAGTGGGACACTCACCCACAGGGCCCCTCCTCACTCCCGTCCCTTCCCCGTCCATCATGGCTCGGGGGTGTCACTCTTGTCCCCACTGCCTGGATTTTCTTTCAG
Seq C2 exon
GGAGCCCCAGACTCTGGTAAATGCTCTGCTTCCTCCTGCCTGGATACTTCTAATGACCCTGACGACCTGGACGTGCTCAGAACCCGGCATGCCAGGCACACCCGGAAGCGGAGGCGGCTGGTGTGAGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165684:ENST00000298532:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.766 A=NA C2=0.488
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
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCACTGCAAGCCTCACTG
R:
GTTCTGAGCACGTCCAGGTC
Band lengths:
343-1404
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains