HsaINT0145807 @ hg38
Intron Retention
Gene
ENSG00000136531 | SCN2A
Description
sodium voltage-gated channel alpha subunit 2 [Source:HGNC Symbol;Acc:HGNC:10588]
Coordinates
chr2:165367217-165370299:+
Coord C1 exon
chr2:165367217-165367371
Coord A exon
chr2:165367372-165370125
Coord C2 exon
chr2:165370126-165370299
Length
2754 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
3' ss Seq
TAGAATTTTTTGACTTACAGGCC
3' ss Score
6.94
Exon sequences
Seq C1 exon
ACTGTGTACGGAAGTTCAAGTGTTGTCAGATAAGCATAGAAGAAGGCAAAGGGAAACTCTGGTGGAATTTGAGGAAAACATGCTATAAGATAGTGGAGCACAATTGGTTCGAAACCTTCATTGTCTTCATGATTCTGCTGAGCAGTGGGGCTCTG
Seq A exon
GTAGGTGATGCATGATCCACTCCTTCACCTTTCATCTGAAATCTTTTCCCTTTCCCTTCAATCAACTCATATTACCCACTTTTAAATTAAGGTGTTTGTAAGAATGAGAAGAAATATGTGTGACGTGTTTAGCACATATGAGAGGCTTAGTAAATAGCAATTTTTGTCACTCTGTCTGGAGTAGCCCTCGGGTGGAACCAAACTCAGATCATTATGGTTTCTTATAATGTTTAAAGAAGGATCTTTCTGACTTTCAGTCATCAGAGGCAGTTCTTATTAAGACTGGTTATGTAGACATGATGTAGGATTATCAGCTAAATATCAGACTGAAGCACGATATTTCCCTGACCCCTTTGCAGGTGAGAACTAGAGTGCATGGGTGCCGGTAGGAGCGAACTCCACTCACTCACTGCTCCACCCCTCACAGGAGGGGGAGCGCAGGTGACTGGGTGCAGGAGCCAAGGCAAATGCATTTGGGCACTGCAAGAGTGAACTCCATACCGGCCCCACAGGAGCGTCTAGGGGAGGGTGCCTGCGATCCTTGAAGCCCTAGAGGAAGTGTTACAGTGCCCTTTTAGCTTTGCCATCCATGGATGGCTTAAATGTTAACAGTTCAGTGGAGGGTCAGAGTGACAGCCTTTTGCACCCACACTTGTGGTACCCAAGTTCATGTCCGGCGTCCAGGAGGAATGAGTTTGTACAAATGACTTGAAGATGGTAAATACAGGGGATTTTATTGCCAGCGAAAGTGGCTCTCAGAGGGAAGAGGAGCTGAAAGGAGATGGAGCAGGAAGGTAATCTTCCCCTGGAGTCTGGCCATCCCCAGCCAGACTCCTCTCCGAAGCTATGCTGTCAAGCTGTCCCTCTGATGTCAAGCTACTTCTCTCTAATGTCCAACTGTAGTCTCTGATGTCCAGCTGTTCCTCCTGTCTGCCTGCTGAGTTCTGGGCTTTATATAGGCACAGGATGGGGGCAGGGTGCACCATGGGTGGTTTTGGAAAAGGCAACATTTAAGTGAGAAAACAGGGATGTATATTCTCACTTTGGGCCACGGTTCCAGGCTTGAGGGTGGAGCCCTCGCCAGGTACCCGTCCTCTTCTGCCCAGAATTTCTCTGCCTCTTGTTCCTGTCAAAATTGCTTAACATAAACTCCATGCTGCAGGGGACTCCTCTGTCTTCTTCACACTGATTCGCTATTGCCAACCACAGTGAATGATAAGAAGTAGACTCACTTAATTACTGACTAGCAAAAAAATGATGGCATTACAAACTTATGTCTGATTTCATTCAATGAAATGATCAACTGGATCAAAATATTAATATAATGAAAATGATATGACCTATTTTCTTAATTGGTGATACAAATGTGGTTGCATTCCTTTTACTGTTTCAATTTAATTAATAACTAGAGTGTTTGGTGAGTTGATTTCATTAGGAGAATTACTGCATTGGATCTGGAGGCCTCTAAGGCGAATTCTGATTTGACTAAGAATCCTGTGTCCTGCCATATACTCAGTTTAAAGAGGATCAGCCATGCTTTATTTTCTTTACCTTTATTATTATTATTATTATTTTTTAGACAGTCTTGCTGTTGCCCAGGCTGGAGTGCAGTGGTGTGATCTCGACTCACTGCAGCCTCCATCTCTTGGGTTCATGCCATTCTTGTGCCTTAACCTCGCAAGTAGCTGGGATTACAGGTGTGAGCTACCACACCTGGCTAATTTTTGTACTTTTAGTAATAGAGACTGGGTTTTGCCATCTTGGCCAGGCTGGTCTCGAACTCCTGGCCTCAAGAGATCTGCCCGTCTTGGCCTCTTAAAGTGCTGGAACGACGGGCGTGAACCACCGCACCTTGCCAGACATGCTTTCTAAAGCCAAGTAGAGAGAGAACTATGAAGTCTCATTAGTGACTAGTACCTTTGCTGTAGGAGCTCTTTGTTCTCAGTTACACCCAGTCAGTGCTCACCAAATTGCACAACGTGCTGGCACAGTGGCTGGCTCCTCAGGGGTTTACAGCTTCAGCTATAAGCAAAGCCCAGAAACCTTTAGGTCCTTGTATGGAGCTCTGGTTACAAGCCCTGATTCTTGTTATCTAAAAAAGAAAATGTTCCTTTGTCTTTAATCCAGGCTGCCAGGTTTTCCTGATAATTTTTCCGATAAGAAGATCAAGTTAGATAAATAGTCTTTTCATTCTGGAAGCCTCAGGAGTTCCTGCAAATGAGTTACCCACTCTTTCCCAAGGGCTCTGGAAAATTCTGTCAAAGGGAATTTCCAAACGTACACCCACCCGCCTCCACACACACACAGACACACAGAGAGAGGGAGAGAGACAAGAAAGTGAGCAATGACAATCCTTTCCTTTTTCTGTAGGCTGAGGGACCTCCCTGCTTTATATCTGCATTACTAGAGGATGCATTCCATTGAGTCTGCACTGAATGAGACCAATCTACTCCCAGGCGTTCCACTGCCTCCTGATGTAGAGAGAAGCAGCTGGCAGTCTCTCAAAAATTTTAAGCTCTTTGGGGGTACACTGAGACCAAAATTTAAAAATTACTGAAACCCTTGGTTGACTGAAATGCCCAGTCAGCAGTCATTTATGATCAGATAATGATAAAGTAAAATTCAGCCATGGGAAACATTAAACCTTCCAGCCTTAGGCACCTGATAAGAGCTTGCATCGTTTCCTTTTTTAAGAAATCATCAATTAGAGACTGTTTCTGATCATAAAATTTAATAGAATTTTTTGACTTACAG
Seq C2 exon
GCCTTTGAAGATATATACATTGAGCAGCGAAAAACCATTAAGACCATGTTAGAATATGCTGACAAGGTTTTCACTTACATATTCATTCTGGAAATGCTGCTAAAGTGGGTTGCATATGGTTTTCAAGTGTATTTTACCAATGCCTGGTGCTGGCTAGACTTCCTGATTGTTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136531:ENST00000283256:19
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=0.000
Domain overlap (PFAM):
C1:
PF065128=Na_trans_assoc=PD(19.8=84.6)
A:
NA
C2:
PF0052026=Ion_trans=PU(17.0=67.2)
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
- Pre-implantation embryo development