DreINT0018597 @ danRer10
Intron Retention
Gene
ENSDARG00000016188 | SBNO2 (1 of 2)
Description
strawberry notch homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:29158]
Coordinates
chr22:17667203-17670973:-
Coord C1 exon
chr22:17670783-17670973
Coord A exon
chr22:17670455-17670782
Coord C2 exon
chr22:17667203-17670454
Length
328 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
ATGTTCCCTGTTTTACTTAGGTA
3' ss Score
8.96
Exon sequences
Seq C1 exon
GTATGGGAGGTGCAAGAGGATAGACGATGGTCAGGAGTGTACAATGGGCACTCGATTGCGTCAGTACCACATGTTATGTGGCGCTCTGCTTCGTGTGTGGAAACGTGTGTCTGATATTGTTGCTGATATCACCAGCTCAAGTATCCTCCAGATTGTCCGTCTAAAGACCAAAGACAGTAACAAACAAGTTG
Seq A exon
GTGAGTAAACCAGTTGATATTACAGTTTTGTTTTTGCAGTTTTTACCTTTATAAGGACAGGACTATATTTAGACAAGAAGCAAAGCTGGAATTAGACAAAAGTCCACAACCCAGGAGTCAAAGTCACGACTCCCAAAGTGCAGTGGCACTATTTGTTGGAGCACTGTCCACAAGGCTATTCGCGCCAACATGTTGACTTGACTTTAGGTCTTCCTGACTAGTGGAATATTATCCTCTTTACAGACAACTAAAAGGTTATAGGTTCTTTTACCAGAAACTGTGCAAAGGAATTCAGCATCTCCTAATCGATGTTCCCTGTTTTACTTAG
Seq C2 exon
GTATAAAAATCCCAGAGACCTGCATAACAAAAGTGCGTCAGGAGTTGTTGAGAATGGACTCTGAGGTGAAGCAGCGACGTAGAGAGAAGGAGCAGAAAGCGCTGGAGCAGCAAGCGCTGGAGCAGCAAGCGTTGGAGCAGCGTCAGGCTGAGGAGCATCAGAGGCTCATGGCGCAGCAACAGCATCAAGAGCTTTTCTCGAATTTGTTCAACCAGTCTTTAGCAGCTACCAGCCTGACAACTCCGTACATCTCCTTCCCCTCGTTCCCTTCTGTACCAAACCCTTTGGAAGAAATCCTGGACCTGACGATTCGCAATTCTTCACCCTCCTCCTCCCAAGCTGCTCTGGATGTAGACAACTTCTCCAGGCCAACCGAACCTTTAGTGGATAACTTTAACTTTGAAGAATTTATTCAAGAGCAACCGCGGCAGGAGAGCCAGCCCGTAGAGGGAAGCACCTCAGTGCAACACAATGACCTGTTAGACATATTGCTGCCTTTTAACTCATTCATAACAACAACACCTACCCAGACTGTCCCTGCATCTCCCTCCTCAGATGCATCTTCATCTGTACCCATGGTTGTGTCAAGTTCCTTCTCTTCCTCCTTGTCCCACTTCACTCCCTCAATCACCCCATCCTCATCGTCTTCCTTATTATCGCAAGTCTCTCTCCCCCCTACAGACCAGCAGATGCTCTCATTACCCAACGGACACAGCCGCTCTGAAGCCAATATAAATGCACGGGAGGTGTTGAACAGCATGCTGCGAGGTGGACCAGAAGTACGCCAATCCGTCATTCAGTACCAACAACCAGAATGAGACACCTCAAGTCAAGACTCTCCTGTAAATGCACACACTCAGGGCCATAGTCGGACCACTTGCCGGCGTCCTGCTCCACCACTGGCTTCACAAGGTGGAGGAAGTTCAATCCCTACAAAGTTTTGTCTCCATACACCCTGACAGAAGCTCTCAGTTTTAGCATCATCAGTTTTATACACCATCGCTTTAAATAGTATTAATTTACCAAAGATCATTTAAGTTATATCAATCCATCAGACAGTATATTGTGCGTAAGCTCCTTAAGATTGAGTGTGTAGGAATTATAAGACGCTTGAGGTAACACTTTTGTTCCTCGCTGGAGGAACCCTTTGGAGAACCTGGCACATCTTTAAAGGTGCCTCTGAGATATTCAATGTGTATTTTAAATGCCTCAAAGACTTTCTTTTATAATGAGTTCACTGGAGAAACTGTTTTAGAGTCAGACAGGACATATTTGTAGGTTCCTCAGAGAACATTCCTGGCTTTCTTCATTGTGTAGTGTGCCTAAAGGTTCTTTAAAGGATTCTGCCAATTGGACGTCCTGAGGAATCCCAAATGAAGCCTCGAGTGTCTTACTTTCTATACCAAAGGTTTTTAGGTCACAGATTCACACATATTCCTAAATTTGACTTCAGATATGCTAGACATACTACAACGTGCATTTCGGTGATGAGTTTAAACTCAGACAATCATCAGCTTTACATTTCCATGACAAACTTCTATTAGACAAAACACTTTTCCTGAGGAGCAAGAGAACAGGCTACTGTCGAAATGTGCCTTCGGAATATAAAAGTGGAATGTAGACATACTCACATTGTTCACGTGCAGATGTTTTTAATGTATTTATTGCCTTTATTTATCAGGCCTTGAAACAATTGTGCTAGTAGGAGAGCTTAACTACCTACAGATCACTTACCTGTGCAGCTGTCTCTCTTTTGTTCTGAAACAGAACTGTCTAATCCTGCTGTGCCCCCTCTCGCAATGTAAAAAGACAAAGCGGTAACATCTATTAGCTGACTTCATCCTCGATTTTTTTTTTTTCCTTTGGAATCCAATGTGTAAAACTAAAACATTCGAATAGAGCATTCGATACAATGTGAAATGCATCCAGGGTACAGTCAAGAAAGGGCAATACATTTTGATCTAGTTGAATTCAAGCCCTTTATTTAATAGGTTAAAAATAATAATAATATATATATTGTATTTTAAATCCGTCTAACGTGTATACGAATTACTTGATTATTTGTATTTAATTTTAAAGGGACATGTTTATTATTTGTTTCTGTTTTATGTTATTGATGCAGTAATCATTTTAACAGTTCCAAACAAAACTAAATTTGACGAAATGATATCGCTGTTATCTTTCTGCTGCACTGAGTCGTTGAATATTTAGTTGTTTTTTTCCTATTCCTTATGCAATTATACAATCCTAAAGATGTCCACTGCAATATCCAGAACTGAAAGTCAAATATTCATGCTTTAAGGTGTCAAAACCACTCCCTATCTCAGGATGAAATTTATGAACAATTCAAAATGTTTGTTTATTATGAATACAAATATATATATCATTTTAAATCAGATGTATGCCATGTTTAACGTATGCGTTAAAGGAAGGTTCTTCTATGTAAAATCCTGTCAGTGACACAGATCAAATATTATTTATTTATCCATCGTTGCTTATCGTCTGCACAGACTTCTTTCATTCTGTTCATCAAGGGAAAATCTTTGACACATTTGCACTTGAAAACATTTGCGTGATATCAGTAGTTTTTTCCTCCACACTCAGTGTGTGTAGTTCCCATTGTGTTGAATGAAATTCAAGCGTTTGGTTATTTTAGAGAATCTAATAGTTGTGTGTTCCAGGTATCTCAGTGCCTCTCATAGAAAAGACTTGCATTTTAAGCACTATACAATGAGGCCATTTAAATTGGGCAAAGTCGAAGTTAACCTCTGTTACTAACTAGAAATGCATTCGTCTTGCTCTGTGTGTGATTTGCACTAAAATGTGCATAACTGTGTTTCTGTCTGGTGTGTGATCCAGTTCTGCTACGTTTGTTCGCTCAAGGCTCTTTTTGGGAATGTAAACATCTATTCATTGGCTTGGCTTTTATATCAGTATGGCTTTTATGTAATTTATTGCTATGGAAAGAAAACGTGCTACTGAGTGTATGTATCTCCAAACGTTTTATTCCCGTGTTCTTATTGGTTATGCTTTTGTTATGCTTTTCTATAGGCTTATTTATGATTAAGATCCTGTTGTAAATATTGCAAAAGCAAACTGTGCCTTTCGACTGTTTCTTAAAGAAATTGTTTTCTACACATATCTAAAGAAAGGAACTTATTACAGTTTGTTGTTAACAAAAAAATAAAATGTTCAGATTCCTGATTTTGTGTTGTGCTTTTGATGATTTTTTGTTGTGTTTAGATGTTTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016188:ENSDART00000137984:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.599
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCGTGTGTGGAAACGTGTGT
R:
TTGTCAGGCTGGTAGCTGCTA
Band lengths:
342-670
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]