HsaINT0155908 @ hg38
Intron Retention
Gene
ENSG00000162804 | SNED1
Description
sushi, nidogen and EGF like domains 1 [Source:HGNC Symbol;Acc:HGNC:24696]
Coordinates
chr2:241037240-241040188:+
Coord C1 exon
chr2:241037240-241037353
Coord A exon
chr2:241037354-241040074
Coord C2 exon
chr2:241040075-241040188
Length
2721 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TCTACACCTCCTCACTCTAGCCC
3' ss Score
6.79
Exon sequences
Seq C1 exon
ACGTGAACGAATGTGCCTCCCAGCCCTGTCAGAATGGTGGGACCTGTACTCACGGCATCAACAGTTTCCGCTGCCAGTGCCCGGCTGGCTTTGGGGGACCCACCTGTGAGACAG
Seq A exon
GTAAGAGGAACCCACCGGGGCCCACGGGGCCCTGCTGGGGGCAGGATAGCGGGAGACACAGCTGGACAAGGCTGAGGTCTTGGAAGGTCCAGCAGCTGTGCATGCTGCAAGGTAGACAGCCCAGAGAAGCCACCCTCGAGGAGTGGAGGAGCCCAGATGCCCAGGGAAAGGCCCATATCTGGGTAGGGGGCAGGAGCCATGACCAGTCACACAGGCTTCCTAGACCATGGCATTCGGACCAGGGATGGGGCCTCAGAACAGGCCAGTGCCCAGGTCCCAAACCAGGCCAGGATCAGGGTCAGACAGGCACCAGAGCCCGGATGGGAGCCCGCTGGGGATGTGGTGGGGCCGTCAGACCCCCTCTCAGCCCAGGACCAGCTTGAGGGGAACGTGAAGTGCTTCTGGGGTCAGATGGGCTGGCTGTGGGGCAGGAAGGGCACAGCCACACGGTCCCTGCCGCTCCCTGCGGCTGCTCCTGGACGCTGTTTCTCTCCTGCCCCTGCCTTCAGGGAAAGGGGGTCTCACAGCCTAGGTGGGGCCTGGAGTCCCTCTCCATCCTCACTGCTGCTACCAAACCTCAGCTTGCCCTCCCAGTTCAGAGCCCAGCTCTTTCGAAGCAGTTGTCATCAGAGTCAGCCTCTACTTACTGCCCTTCCCCCGGCACCTCTTTAGGCCCCTCACCCATGCCCTTCACCCACCTGGTAAAGAAAGGTGGACCCCCCCCCAATTCCTGCTCTCCATCTCACCATAGGGCTCTGCTCAGGGAGCTTTGCAAAGGGAGCCCCTAAAATCAAAGCACCGTGACCTGCTGCTCCCCACCCAGCTCAGCCAGGTGTGCGTGTCCTGTGTGACAGTCGCTTACAAAAACATGTAATAGATTGTTTAGATCAATGCATTCAAATAGTGACTATATCAATATCTCAATCTAGAAAAAAACAATTCTTATCAGATATTTATGGTCATGGGAGGTTTTTTAAAGTACTTCCTTCCTGTGTTTACACATATTGGTATTGGAGAGAGCTATAGTTGAATGGCAGTAAGGGACTTTTGCACCTGAAAGTACATTAGAATGAAGTTCTGCAGGAATGCAATGGAAATGTGACTTCAAGGTCCAAAGCAGTGAAGCACAATTCCCACCTGGCGAGATGGGCTTGCCAGTGTGTTTACAGATCACACATAGGTGACAGCACAGTGACCCCAGTTATCCCTTGCTCCCCGAGCCCTGCCACTGTCTTCCCACAGCCAGTGTCGGAGCAAGCTCCATTCATAGGAGCCTTTCTTCATCCAGAAACTCCTGCCCTGCTTGCCCACGTGCTCTCAACGTGAGACGGGTGGGAGTCGGGCTTCTGTGGCATTGGTGCCGTGGCAGACTCAGCCCTGCAGGCGTCTGTCCCTTGGTAAAGGCCAGGGAGGCTGGCAGGATCTCCTTCCTCTTGCTCAGTGCTCTCCCTGTGCGGTGCTGGCCAGGGGCCTGGCTGCGGGAGGACCCAGGCCTATGATGAGGGTCCCCAAGGGTGACTGGGCAGAGCTTCCCAGGAATGGGCTGCTCCTCGGCTATGCCCCAGGCTCCAGGAGCCCCTCTGTGATGTGCAGCCTGGTGAGGTCCCCTAAGAGGGCTTGAGGCTTGGCGCCAGGAGGCTGGTTCAGGTCTTGGGTCTGCAGCATGTCAGTTGTACGTGTGGCCTCGGACCGTGAGCCTTCACTTTCTCAGTGCAGCTGTGGCACAAGCCTTGGGTACAAGCCTTCCCGCCTCGACCCCCCACAGGGGCTCCCTGATCTTGGAAGCCACCTTGGCCCCCAGAACCCATAACAGCAGGGGCGCCCGCAACTAAAGGCTAGGGTGTGCATGCTCCTCCACCTAGCGGAGTTGGGGTCAGGGAGACAGGGATCACCATGTCCCATCAGCCACCAAAGGGCTTTCACACCTCCTGGGGGAGTAGTCAGGCCCTCCTGTCTCCTTCCTATGCCAAAGAGAGGGCCCCACCATTCCCCCATGACTCCAGGGAGGGACACACGCTTTGGCTATCACTCTTGTTTCTGAGTTTGTTCTGGGTATGAGCTGTCAGTAAGACAGGGGATGTGGTTCTCCTCTGCGTCTGGCTCTGCTGGCCAGGGCAAAGGAGAGACCTGGGATGTGTGGGCCAGGTGCTCTGGACTCAAGGAGGGCCAGCATCCGGTGAGGAGGGAGGGCAGAGGGTGGGCTCCCCTAGCTCACTCCCACTCAGTAACTGGGGGCCAGAGTCCCTTTGCCCTGGCCGTTCCTGCACAGGCCACTGCCTGCCCCACCCAGCCTCTCGCCCCAGGGGCCACTCCTACACCCTGGGTGCTGCACACCCTTCCAGGCTCAGTCACAGCCTGCATCCTTGACCACAGCTCTTCTCACAGTCCACTTGGAATAAGAGCCACCTAGGGAGGGACCATCCCCCAAGAGTGGGAGTGATTTCCATGCACCCCCATTTGCCCCTGCCCAGCATACACACCCATCCCTCCATCCCAGGTTTGCTGAATTAGACCCAGTTCAGACAGAGCTTCGGGTGGCCAGTCAGGACTGCCTGGCCAGGCCTCTTTCTTGCCTGTCGCCCGCTCAGAAACCTGCCTGCCAGGCCCCCCTGCAATGTAAGCCAGTTGGGGGTGGGGCTCAGTGTACGTCCCAGGGGTTTCTGTCCCCTCAGGTAACCATAACTGGGAGTCCATCGTCCTGTCTACACCTCCTCACTCTAG
Seq C2 exon
CCCAATCCCCCTGTGACACCAAAGAGTGTCAACATGGTGGCCAGTGCCAGGTGGAGAATGGCTCTGCGGTGTGTGTGTGCCAGGCCGGATACACCGGAGCAGCCTGCGAGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162804:ENST00000310397:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.001 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=79.5)
A:
NA
C2:
PF0000822=EGF=WD(100=76.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
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