HsaINT1042525 @ hg38
Intron Retention
Gene
ENSG00000162804 | SNED1
Description
sushi, nidogen and EGF like domains 1 [Source:HGNC Symbol;Acc:HGNC:24696]
Coordinates
chr2:241082277-241087475:+
Coord C1 exon
chr2:241082277-241082364
Coord A exon
chr2:241082365-241087391
Coord C2 exon
chr2:241087392-241087475
Length
5027 bp
Sequences
Splice sites
5' ss Seq
CGTGTAAGT
5' ss Score
8.58
3' ss Seq
AAGCTTTCTTGTGACAACAGGTA
3' ss Score
3.46
Exon sequences
Seq C1 exon
CCTGTATAAAGGTGTCCCGCCCCTGCACAAGGCTGTTCTCCGAGACAAAGGCCTTTCCAGTCTGGGAGGGAGGCGTCTGTCACCACGT
Seq A exon
GTAAGTTGGTTTCTGTCCTCCGCCTTACCGCATTTGTCGTGTGTTCTTGACTCCTCAAAGTGCTGTCTCAAAGCTACCCAGCTAACCCTGAGGAGGGACGATGGCTGCAGTCACAGAAGGGACTTGCTTTGACCATCGATTCCCTCCATGTCACAAATTAGGCAGCTGAGGCAGAAAAACCGAATAACTGCCCCAAGTCCATGCAGCTCAGGAGCAGGGGCTGAGAAGAACGCAGGCTCCTGGTCCCCAGGCCCCCAGGCCTTCCTTCCCACACATCAGCCCAGTCCCCACTGGATGGCAGAGCCAACTGATGTGACCTTCCTCTCTTCTCTTCCTCAGAGCCCCCTGGAAAAACAAACAGCTCATGAGAATGCCGGCCCCAGTTCTGCCATTAACTCATGATGTGGCCTTAGGCCCCCCATCTCCAAAATGGGCTGTGGAGGGAGAGATGCCCAGCCCATCTCTTAGGTCCTTTCTTGCTAACACTCTATGACTCTGTCGGTCACACAGTCCATTTAGTCAACAGATGACTTACTGAGCACCTGCTGTGTGCCGGGCACTGTCCATTTAGTCAACAGATGACTTACTGAGTACCTGCTGTGTGCCGGGCACTGTTCTAGATACTCAGCACACATCAGAACAGAGCAGACCAAAGCCCTGCCTTCAGGACCCGTTCATTGCAGATGAGGGGACAGACAACAGACAGCAGTGAGAGTGTGGTGTGTGGTGTGGCAGGTGGTGAGTGCAAAGGGAAAAAGGACGAGATGACAGGACGAGACCAGGAGAGCCTGCTGGGGATGGGCAGGGCTGGTGCAGCAAGAGGGCAGCCTCCTGGGGAGGGCGATGCTGAACAGACATGGAGGAGGGATGGACATTCCAGAGCCAGAGGACAGTTACCAGGGCCCCAAGTCAGGAGTGTCCCTGGCATGTTGGGGGAGAAGTGGAGAGTGGTGAGAGGTGAGGGACAGGGAACCCTCGGGGCCATGGAGACCCACAGAAGGACTCTGGTGTTTGTCCGGCATGAAATGGGGAGGAGCTACTGAAGGGTTCTGAGCAGAAGAGTGACATGTTCGATTACACTACTTTGGATGCTCTGTGGAGAATGGGATGTAGACGGGCAAGGGTAGAAGCTTCATTAGAGCTTGGACATGAAGCCAGGTGTAATATGTAGCAGGAACACATATGAGATACTAATCTGTGTTGGGATTTGGGAAGCCGTGTTGACAGCCCACTGAATTCGGATTCTATGCAGTGAGAGTCCGAATCCACAGTATCTGCCATCTTCCCGCTGTGCTTAGTTACACCAGTGCCTGCTGGTGACCACCAAGTATCCAACAAGAAGACCCTTCACTTCCTGAAAGCATTCTATCCTTTCACTTTTAACCTATCTGCATATTTCAAGTGACTTTCTAGTATTTAACATAGAGGTGGGTCTTGCTGGATATCTAGTCTGACAGTCTGGTTTTTATTGGAGTATTTAGACCATTTACTACCTTCCACATAATGGCTGATGTGGTTGGATTTAAACTGCCATATTACTATTTGTTTTCTATTTTTCCCACCTGCTTTTTGTTCCTTTTTTCTTTTTTCCTGCCTAATTTTGGATTACTTTTTAGGATTCCATTTTGTCTCCACTATGGGCTTACTGGTTATACTTCTTAGGTTTATTGTTTAGAGGTTGCTCTGGGATTTGCCATACACATCTTCACCTTAACACAATGTACCCTTAATTACTATTGTACGAGTTCAATATGATGGCAGCGTCTAGGATTTTTTTTTTTTTTTTTTTGAGACAAAGTCTCCCTCTTGTCCCCCAGGCTGGAGTGCGATGGTGCGATCTTGGCTCATCGCAACCTCTGCCTCCTGGGTTCAAGCAATTCTCCTGCCTCAGCCCCCCGAGTAGCTGGGATTACAGGCGCCTGCCACCACACCCTGCTAATTTTTGTATTTTTAGTAGAGACAAAGTTTACGTAGAGACAGGGTTTCACCATGTTGGCCAGGCTGGTCTCAAACTCATGACCTCAGGTGATCCACCCACCTTGCCCTCCCAAAGTGCTGGGATTACAGGCGTGAGTGACTGTGCCCGGCCAGCAGTGTCTAGGATTTACCATACACATCTTCAACTTCACGCCGCATACCTTTAATCACTAGTAGACAACTTCAGTATCCATGGCAGCGGCTGACATCAAGCTTCCACTTCCCTCCCATCCTTTGAATTATTATCAGACTTTTTCCTTCCACATATGCTGTGAACTGCACTATACGTTATTTTTGCACTCAAAAATTATCTTGTTTTAGATATTGAAAGTAAAGTATTTTGTATTTATTGTACATCTGCCTGCCGACTCCAGCACTCTTCATTCCTTTTTGTAGATCTAGGATTCCATCTGGTATCATTTCTCTTTGCCATAAGAACTTAACTCTAACATCTCCTATAGCACAGGTCTGCAGGAGATGAATTCTCTCTGCTTTTGTCTGAAACTATTTTTTTTTCACCTTCATTTTTGAAGAATATATTTGCTGAATATAGACTTCTTGATTGACAGTTATATTTTTTTCTTTCATGACTTAAAAGTTGTCATGGCTTTGTCTTCTGGCTTGCATAGTTCCAGACAAGAAGACTGCAGTCATTCTTACCTGTGTTACACTGTATGGAATGTGTCTTCCTGCCCCTTTTATGTTTTCCCTTTATGACTGTTTTTGGACAATTTAATTATGATGTGCTTCTCGGTATGGCTACGTTTTGATTCTCTGGAGTTTAAGCTTCTTGTATTTCTGGGTTTTAATTTTGTCAAACTTCGTAAAATTTTTGCCATTATTTCTTCATATATTTTTCCTGTCCCTCCATTTCTTCTACTTCTGGGACTCCAGTTATGCGTGTATTAGACTGATATTGTCCCACAGGTCACTGCAGCTCTTCTCAACTTTTTCAGTCTTTTCATTTTGGACAGATTCTATTGCTATGCACTCAAGGTCATTGATCTTTTCTTCTGCAGCATCTACCATTAATCCTGTTCAACAAAAGTTTTATTAATACTGTGTTTTATCATCTCCAGAAGTTTCATTTAGTTGTTTCTTAGATGCTCCAATTTCTATCTTCATTATCTTTATATTTTCCTTTAGCTCACTGAACATGTGGAACAAATTTATAATAGATATTTTAAGGTCCTCATCTGCTATTTCTGTCATCACTCTCATGTCTGGGTCTTATTCTATTTGATTATTTTTCTCTAGGTTATGGGTCACTTTTTTGATTATTCAAATGATTCTTGAATGTCTTATAGTTTTTTATTGGATGCTGGGCATTGTAAGTTTTATGTTACTGACGCTGGATTTGTTTGTTTGTTTGTTTTCTTTTCAAGAATGTTTTTTCTCTGCAAGGCATTATCTGAGTATAGTTTGATCCTTCTGAGGCTTGTTTTAGGTGGCTTTGGAGTAGCCTTTATTCTGGGGTTAATTTTGCCCTAGTTCTATGGCATGGCCTTTCTGCGGTTTCTTTTTTTTTTTTTTTTTTTTTTTTGAGACAGTGTCTTGCTCTGTCGCCCAGGCTGGAGTGCAGTGGAGCGATCTCAGCTCACTACAACCTCCGCCCTCCTGGGTTCAAGCTATTCTCCTGCCTCAGACTCCCAAGTAGCTGGGATTACAGGCACTCACCACCATGCCCAGCTAATTTTTGTATTTTAGTAGAGACAGGGTTTCACCATGTTGGCCAGGCTGGCCTCAAACTCCTGACCTCAAGTGATCGGCCCGCCTTGGCCTCCCAAAGTGCTGGTATTACAGGAGTGAGCCACCGCACCTGGCCCTGTCTGGGGTTTCTATGGATGGCCTAATAAACAAGATCTCTCTACTCTGGCTCTGGAAATCGTTCAACTCCTCAGTAGTTCTTCTTTGCCTTGTGGGGATTCACCCTATGCATGCACAGCTTTATTTCCAACCACAGGCCCAAGGGGACCCTACACAGATTCTGGAGTTCCTCCTCTGCATAGTTCCCTCCTCTTCAGTACTGCCCCACAAATTCCAGCTGCCTCTGTCTCCCCAACTTCAATCTCTGTTTCCTCAACTCAGTGTGACCACTGCTTGGATCCCCTTTCTCTGTGATGCCATCCAAAAACTTCTCTAGGCTGAATTCCAGGCTGACCACAGGACTCATCTCATCTGTTTCTCCTCTCTCAGGGATTACAGTCTCGTGTTGTCTGTTTTCTAACATCTGACATACAGTTACTTACTATATTTTGTCCAGTTCTCTGGTTGTTCACATTGGGAGGTTAATTCCAGATTCTGTTACTCTTTCATGTCCAGAAATGGAAGTCTTACCACAGGTTTTCGATCCTAAAGGTTCTATGAGACTTAGCATATGAGTTGGAGCTTTGCCTGCTGAACTCCTTGGATTTCCCTTTTAAACAGCTCTGACATTTGAGAACTTTAACAAAAGACAAAACGCCTTCCCATCCATTATTATCTACAAACTTGTAAGAGAGATGGTATGAGTAGGTCCCATTTTTACCTGCAACCGAGGCTTAAAACTTGAAGAGACTTGCTCAAAGTAGCCTGGTTAATAAATGGAAGAGGCAGGAGATGAAATCGGGTCTCCTGTTCTACAATGCCTACATCCGAATCCCGAATCCCCAACACTCCTCAAACTTCTCTGTGAAATACCCAGAAAAACAGAAAAGCGAGGCCATACCTTCCCCAGGCCTCCGGCCAGGTGGCTGCCTCTAGCACTGACATGTCTTTGACATTTCACATTTTATTTTTAGTACCATATCCTTTGTCAGTGCTCATCAGAATGCACATTAAAATGGGTTTATTTTATGCATATTACTGTACCACAATAAATTTATTACAAATCACATGACCTTTATGTTAGACATTTTAATACATCAATAGGAGGTCACGTTTCATTCAGAAAATAGCAGTTTTTCCCTCAAACACCTTCAGGTTTACTGTGGGTTCACATAGCCTAGGTTAAGCAGTTGGCAACATTTTGCTTCACTGTCTGGTTTTACAAAGCTTTCTTGTGACAACAG
Seq C2 exon
GTATAAAAGAGTCTACCGAGTTCACCAAGACATCTGCTTCAAAGAGAGCTGTGAAAGCACAAGCCTCAAGAAGACCCCAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162804:ENST00000310397:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.091
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
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