HsaINT0145236 @ hg38
Intron Retention
Gene
ENSG00000139697 | SBNO1
Description
strawberry notch homolog 1 [Source:HGNC Symbol;Acc:HGNC:22973]
Coordinates
chr12:123334053-123336491:-
Coord C1 exon
chr12:123336395-123336491
Coord A exon
chr12:123334214-123336394
Coord C2 exon
chr12:123334053-123334213
Length
2181 bp
Sequences
Splice sites
5' ss Seq
AATGTATGT
5' ss Score
5.87
3' ss Seq
GTTTTTACATTTTTGTTTAGTAA
3' ss Score
5.31
Exon sequences
Seq C1 exon
AAGGTTCCTGTTGTAAAAGAAGATGATGAACCAGAGGAAGAAGATGAAGAAGAAATGGGTCATGCAGAAACCTATGCAGAATACATGCCAATAAAAT
Seq A exon
GTATGTCTTCGGGATTTGTCAGATATTTACATCAAAGTTTTCCTGTGGTTTCTTTGGTTCTTTTTGTTTTGTTTTTTTCCATATAAATTTAGAATCTTGCTTTAGGTCAAAGTCTTTTAAAACCAAAACTAAAGAAGCTTGGATTTTATTTTAATTTTGTTCATAGGAGTAGTGATTATAAAAATCAAAGGTAATTGTAAAGATATATAAAGCTAAGATATTTAATACAACTTGTCTAAAATTGTAAAAACATTGAAATTATAAAAATAATTGTGCTATTTGAATTCCATAGTTTTTGTTTCTCCCTTTTGTATAACATGGTTCTTTTTTTAGCAGCCACTGTATGAAGTCGAAAATTAGGTTTTTAATATTTGCATAAAATTTTCACTTTTTCATTACAGGAAACAAATCTATGTCTAGAATTTGTCTTTCATGTAGTCTTGGTTTCTATAAAAAACCACTAATAATACCATTTGAATTGAACTACAATTCTCTTTTTATCAACTACTGATAGACTCAAGATTCCATCCTTTTCTGCTCACCTACAATGAATTTTAGAAGTCCTATCTGAAATTCTGTTTTTCTTATTCCAATAATCATTTTGCAAAAGGATTGAAAGAGTTTATGGCCCTTTAAACCAGAGGACAGCAAACTAAATCTGGACCACTCGCTTTTTTATAGTAAATAAGGTTTTATTGGAACATAGACATGTTTATTGGTTTACTTATTATCTATGGCTGCGTTGACACTACAGCAGCAATGTTAAGTAGTTGTACAAGAGACAGGATGGCCTAAAACGGCAAAATCATTCTCTGACCCTTTACAGAAAAAGCTTCCAGATCATTATTTTAATGTATTCATGTTGTACATTTTGGGGACTTGGTTGTTAAATTTTATAGCCAAGTTGTCTTTCGAATACTTTTCAAAGTAAAATATGTTCTTTTTAAGACGGGGTCTGGCTCTTTACTCAGTCTGGAGTGCAGTGGCATGCTCTTGCCTCACTGCAACCTCCACCTCCCAGGATCCCTCCTGGATTCTAGCAATTCTCGTGCTTCAGCCTCTTGAGTAGCTAGGATTACAGGTGTGCACCATCATGCCTGGCTGATTTTTGTATTTTTAGTAGAGATGGGGTTTCACCGTGTTGGCCAGGCTGGTCTCGAATGCCTGACCTCAGGAGATCCACCCACCTTGGCCTCCCAGCTGCTGAGATTACAGGCGTGAGCCACCATGCCCAGCCAGGCAGTGGCGCAATCTTAGCTCACTGCAGCCTTAGCCTACAAGGCTCAAGCAATCCTCCTGTCTCAGACTCCTGAATAGCTCGGACCACAGGTCCCACCACCATGCCCAGCTAATTTTTGGATTTTAATTGTAGAGATGAGGGTCTCACTATATTGCCAAGGCTGGTCTTGAACTCTTGGCCTCAAATGATACTCCTGCTTTGGCCTCCCAAAGTGCTGAGATTACAAGCATGAACCTTCATGCCTAGCCTCAAAATAAAATTGTATTGCAAACTTTTGTTTTACTGAATGAATGCTTGAAGTAACTGAACTCCTTAATCTGGCATTATGTTCTGTTACTACTAGAGAACCTGCTGTTATGAACCAAGTGGTGTTTTTTTAGATCTTTTTTTTATCAGCAAATCTCTATTTTATTTTATTTATTATTTAATTTTATTTATTTATTTTTTGAGACAGAGTCTCACTGCATCACTCAGGCTGGAGTGCAGTGGCACAGTCTCGGCTCCCTGCAACCTCCGTCTCCTGGGTTCAAGCAATTCTCGTTCCTCAGCCTCCTGAGTAGCTGGAATTACAGGCGCGTGCCAACATGCCCAGCTAATTTTTGTATTTTTAGTAGAGACAGGGATTTGCTGTGTTGGCCAGGCTGGTCTTGAACGCCTGACCTCAAGTGATCCCTCCACCTTGGCCCCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCCACCTGGCCCAAATCTCTGTTTTAACCATATGTAGTTGATAAATCATTTTAGTCAAATATAGATAGTACTTTGTCATCAGTTACTTTTTATGGAAGCTCAGAGTGAATACTTTTTAATTATTTTTCTATGTTATAAGAAAAACATTGAAATATCTTATAATGAAACTGGAAATGTTATTACTTAGAATAATTAAAATAAAATGTTTTTACATTTTTGTTTAG
Seq C2 exon
TAAAAATTGGCCTACGTCATCCAGATGCTGTAGTGGAAACCAGCTCTTTATCCAGTGTTACTCCTCCTGATGTTTGGTACAAAACATCCATTTCTGAGGAAACCATTGATAATGGCTGGTTATCAGCATTGCAGCTTGAGGCAATTACATATGCAGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000139697:ENST00000267176:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.727 A=NA C2=0.052
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138721=AAA_34=PU(16.2=92.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
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