HsaINT0155819 @ hg38
Intron Retention
Gene
ENSG00000165684 | SNAPC4
Description
small nuclear RNA activating complex polypeptide 4 [Source:HGNC Symbol;Acc:HGNC:11137]
Coordinates
chr9:136375577-136376481:-
Coord C1 exon
chr9:136376349-136376481
Coord A exon
chr9:136375801-136376348
Coord C2 exon
chr9:136375577-136375800
Length
548 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CTGGTGTTCCTGTGTTCCAGGAC
3' ss Score
10.97
Exon sequences
Seq C1 exon
GGAGCCCCAGACTCTGGTAAATGCTCTGCTTCCTCCTGCCTGGATACTTCTAATGACCCTGACGACCTGGACGTGCTCAGAACCCGGCATGCCAGGCACACCCGGAAGCGGAGGCGGCTGGTGTGAGCAGCAG
Seq A exon
GTGAGTCCTGAGTGGGGAGGCCACTGCCCTACAACCCAGGGGACAGAGTGGTGTCCAGATGGCAGGGGGCCTTGGCCTCTGCTCGGCTCTTTGGCGCTCACAGCAGGTGTGCTGGGTTAGGTGGGCAGGTCCAGGGTCATGGAGGCCCTCCAGGGGGAGAAGCATTTAACCCACATCCTTCCTGCTGGCCACCCATGCCTCGGGCCTTGGCACCACTGTGCCCCTGACCATAGGCTCATTCCCTGCCTTTGGGGTCTGGGCTCCTCCCTGGCCGCTGTGCTCTGGTGGTGCCCTGTTCCCGTGCATTGCTGCGTCGTCTCCCAGCTTGTAAAACGATCACCATCCCCAACCGCAGCCACCAGGCTGGCTCTTCACTGCTGGAGCCCTGGTGCCCTGGCCTGGCCCTTGGCGCATGTGGGTCAGGTTTACCAAGCAGACTGGGCGTGGCCGGCGCTGGGGTGGTCTTGGTTCCTGTTTGTCTGTCCCAGCCCTGCTTGGGGTCTGGCTGGGGTCAAGGGCACCCCCCACCTGGTGTTCCTGTGTTCCAG
Seq C2 exon
GACAAGCACTTTCTCAGAAGCCCGTGGCCCTGCTGACGAGAGACAGCCCACCCCCAGCCTGCAAGAGAGGCAGCCAGAGGCCAGGTATCTGCTGGCCGCTGACTGACCAGGTCCGCAGTGAACAGAGGCGGGCCTGCCGACTGACTGTGTGGCATGGAGCATGGCTGTTCCCCAAGTGCACACCTGAACACTTGGAGGAATAAAGTTCTGTTTTTAATTGTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165684:ENST00000298532:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.488 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion 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:
CCAGACTCTGGTAAATGCTCTGC
R:
AAAAACAGAACTTTATTCCTCCAAGT
Band lengths:
342-890
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains