HsaINT0145217 @ hg38
Intron Retention
Gene
ENSG00000139697 | SBNO1
Description
strawberry notch homolog 1 [Source:HGNC Symbol;Acc:HGNC:22973]
Coordinates
chr12:123323680-123325599:-
Coord C1 exon
chr12:123325502-123325599
Coord A exon
chr12:123323832-123325501
Coord C2 exon
chr12:123323680-123323831
Length
1670 bp
Sequences
Splice sites
5' ss Seq
CAAGTAATG
5' ss Score
2.09
3' ss Seq
TCACTGTTTCTCTCCTACAGAGG
3' ss Score
11.53
Exon sequences
Seq C1 exon
TGTGTTGTAATTGGTCTGCAGTCTACAGGAGAAGCTAGAACATTAGAAGCTTTGGAAGAGGGCGGGGGAGAATTGAATGATTTTGTTTCAACTGCCAA
Seq A exon
GTAATGTTTTTGTTCTTTTAATGTTTTTGTTTCTTTTTGAGTTCTTCCTTACCTTAGTTCCAATGTGGGCATTTCCTGGAGACAAAACTTTTGTTTCACCTGCATCATCTTTAAGTTTTCTTGATCTGAGTTTTCTGCTTTTCTGTAACAGTGTATCTATTGGAAAACAATAACAGAAATCTCATAATCCTAAAATGTTAAGCATTTTGCTAATATTACACAGAGTATGTGAACTAACAGAAGGGCTAGACTTTGTTTATCTTGTACATCTTGGAAATCTGTGACAGCTTGGCTTAGATTCAGTTTTAGTGTACTGTATTTGAAATTACCGTTATCCACAGGAACAGTAACTATAGTTTGTCCTAATATAACGAAGTCTACTTTATAAGTTGGCTGAGCATGGTGGCTCACAGCTGTAATCTCAGCACTTTGGGAGGCCAACATGGGCACATCACTTGAGGTCAGTAGTTTGAGACCAGCCTGGCCAAAATGGTGAAACCCCATCTCAACTAAAAATAAAAAAAATTAGTTGGGCATGGTGGCACACGTCCTGTAGTCCCACCTACCTGGGAGGCTGAGGCAGGAGAATCCATTGAACCCGTGAGGTGGAGGTTGCAGTGAGCCAAGATCGCACCACTCCACTCCACTCCCCTCTGGGCGGCAGAGTGAGACCCTGTCTCAAAAAAAAATAAAATAAAATAAAGTCTACTTTAAAAGTTGAAAATAAGCATGAGATCTTCAGAAATAGATTTTAAAATGTTTTAGGCATTGTTTTTAGTTTGCCTAACCTCCACATTCAAACTCTGGTAGTAAACTGAGCAAAATAAACTTGCTGCTCTACTATTTTGTGCCTCGGGATGCATTCAGATGCTCCTTTCAAAAGCAATACATGGGGCTCACGCCTGTAATCCAGGCACTTTGGGAGGCTGAGTCTGGTGGATCACGAGAGCTCAGGAGTTTGAGACCAGCCTGGCCAACACGGTGAAACCTCGTCTCTACTAAAAATACAAAAACTAGCCAGGCGTGGTGGCGGGCACCTGTAATCCCAGCTACTGGAGAGGCTGAGGCAGGAGAATTGCTTGAACCCAGGCGGCGGAGGTTGCAGTGAGCTGAGATGGCACCATTGCACTCCAGCCTGGGTGACAGAGAGACTCGGTCTCAAAAAAAAAAAAAAAAAGAAAAAAGCAAGACATACACCTGCTAATCTATATTTTTCTGTACATAATTGCCTAGAACTACCGTGTCCAGAATGGCAGCCGCTTGTCACATGTGGCTATTGAGCAGTTGAAATGACTGGTCCATATTGAGATGTTATTATATGTGTACTGAGCCAGGTTTCAAAGACTCCTTAAGAGAAAATAACATAAAACATATGTGTTGACATGGTATATTGAGTTAAAATGTATTATTAAAATTAGTTCCACCAGTTTTATTTATTTTTTACTTTTTTAATTTAAGCTACCAGAAAATACAATAATTGTGTATGTGGTTTGGCTTGCATTCTTATTATTTAGTTGGACAGCTTTGGGCTAGAAAATTAAAATTTATTTGAGCTCGTTTATCAGTATTTTGTAAAACTGAACAAAGTATATTTCAATATATTTAATAATACTTTACATATAATTATTTTGTCAACTGAAGCAGTAATTGTCACTGTTTCTCTCCTACAG
Seq C2 exon
AGGTGTGTTGCAGTCACTCATTGAAAAACATTTTCCTGCTCCAGACAGGAAAAAACTTTATAGTTTACTAGGAATCGATTTGACAGCTCCAAGTAACAACAGTTCGCCAAGAGATAGTCCTTGTAAAGAAAATAAAATAAAGAAGCGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000139697:ENST00000267176:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.030 A=NA C2=0.423
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGTTGTAATTGGTCTGCAGTCT
R:
TTTTCTTTACAAGGACTATCTCTTGG
Band lengths:
230-1900
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