HsaINT0155905 @ hg38
Intron Retention
Gene
ENSG00000162804 | SNED1
Description
sushi, nidogen and EGF like domains 1 [Source:HGNC Symbol;Acc:HGNC:24696]
Coordinates
chr2:241087392-241088402:+
Coord C1 exon
chr2:241087392-241087475
Coord A exon
chr2:241087476-241088364
Coord C2 exon
chr2:241088365-241088402
Length
889 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCCT
5' ss Score
5.4
3' ss Seq
CTTTTCTCTAATTATTTCAGGAA
3' ss Score
10.12
Exon sequences
Seq C1 exon
GTATAAAAGAGTCTACCGAGTTCACCAAGACATCTGCTTCAAAGAGAGCTGTGAAAGCACAAGCCTCAAGAAGACCCCAAACAG
Seq A exon
GTGCCTCTGGGGAGCAGGCCCATGCCGTGTCCTGCATGTAGCCCACAGGGTGATGGGGCAAGGGCGGGGTGCTATGGGATGCTGCAGGCCTGTGGGCTGAGCCAGGCGGTCTACTCGCCCAGATAGGCAGCCCCTGGGCAGCCACGTTCTGCTACGAAACTGTATGTCCATATATGTGCATGTGAGCATACCCAGAGGGGCACAGCCGGGCATGCTGGGTGCTGGGGGGGGTCACTCTGGTTATGCATATTCACACAGAACATGGTGCTACAATTGGGAAGCACAGGGTGTTACGGACAGCCCCGAGTATTTAATGGCCGATATAGCGCGTCGCTCTTTACTTTTTATTCACTCACACCCAGGTTCTTTCCACAAAGGGTTCAAGGTAGTTACAAGAATTACTACTGTTTGGCGTTTGCTGAAAGAAGTACGTGAGAATATTATATGCTTTAGAAACCACAGAGTCGAAGCCTGTCATCGTCCTCATAGACCAATGAGTAGCCACACGTACTTGTTTGGCATTACCAAGTGTCCGGGCAAGGCCGCAGCCTGCAGCTCACCAGCCGTGCTGCTCGGCCTGTGCACGTCACCGGCTCTTCCCTAGGGTAGCTTTTGCTTGCTTTCTCCCACGTCCATCCTCTCTCTCTCTGACTCACAGCCAGCCAGGTTTCTAGCCTTGTCATTCCTAAACTACTGCCTCAAGCCAGGCGGGCGCACACAAACTAAAATGCTAATCTCCACAGCGGTGTCTGGACTAATGGTGTCCCCCACCGTGGAATGTATGTGAGCTAAAGACAGGATCTCAGCAGGCAGCCTGGACTGAGGTAGCTGTAGAATTCAAGGTACACAGTCTCTTTTTCATTAAACGACTTTTCTCTAATTATTTCAG
Seq C2 exon
GAAACAAAGTAAGAGTCAGACACTGGAGAAATCTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162804:ENST00000310397:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.778
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion 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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains