BtaINT0128812 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020505 | SBNO1
Description
strawberry notch homolog 1 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:22973]
Coordinates
chr17:54515800-54517956:+
Coord C1 exon
chr17:54515800-54515897
Coord A exon
chr17:54515898-54517798
Coord C2 exon
chr17:54517799-54517956
Length
1901 bp
Sequences
Splice sites
5' ss Seq
CAAGTAATG
5' ss Score
2.09
3' ss Seq
CACTTTTTTATCTCTCGTACGAA
3' ss Score
1.53
Exon sequences
Seq C1 exon
TGTGTTGTAATTGGTCTGCAGTCTACGGGAGAAGCTAGAACATTAGAAGCCTTGGAAGAGGGCGGGGGAGAATTGAATGATTTTGTTTCAACTGCCAA
Seq A exon
GTAATGTTTATAGTTTTGAGTCTTTACTAAGATTAGTTTAAATGTTAGCATTTCCTGGAGACAAAATTTTTGCCTTTTAAATTTAAGTTTTTCTGATCTGAGTTTTCATAATCCTGTGTATCCATAGCAATATATCTATTGAAAAACAGTAACATAGAAATACTGAAATGTTAAGTATTTTAACATTGTATGTCCAGTGTTTGGACTAATGGAAGGGCTTGATTTCTGTTTTGTACATCTTGGAATTCTGACAGCTTGGTTTAAGTTTCAGTTTTGTCTTTGCTCTGTGTGTTTGAAAGCACAAATACACAAAGCTGTATAATAATGGTTTCGTTTGTCCCAGTTTATTATGCTTTCATGTCAGCATTGCAGATAATTCTTGAAAAGTCAAAAGAATTTTAAGAAAGGCTTTAGACGTTACTTTTTGCTTTGTGTAACCAAACAATTCCAACTCTGGGAGTAAAACTAGTAAAATAACTTTTGCCACCATGATATCTTTTGCCTTAGGGGATACATGCAAGTGGCTCCTTTTAAGACATAATTTAAAACTCCTTTAAATTCAGAGCATGCACCTGCTAATCTGTATCTTGCCTAGTACTGCCTCGGAGATGATAGGTACTACATGGCTAGTGCAGCAGTTGACATGGCTATTCCAGTATGAGATGACCGTCAAGTATGAAATATGCACCAAGTTTCAAAGACTTAAGGAAATAGAATGTAAAACATTTCATTGTGACATTTTATAGTGACAGGTTGTTTTCTGTAACTTTTTAATGTAGCTCCTGAAAGTGAAAGTCGCTCAGTCCTGTTCGACTCTTTGTGACCCCATGGACTGTACAGTCCATGGAATTCTCTAGACCGGAATACTGGAGTGGGTAGCCTTTCTGTTCTCCAGGGGATCTTCCCAACCCAGGGAACGAACCCAGATCTCCTGCAGTACAGGCATGCAGGCACATTCTTTGCCAGCTGAGCCAAGAAGGGAACCCACGAATACTGGAGTGGATAGCCTATCCCTTCTCCAGCGGATCTTCCTGACCCAGTAATCGAACTGGGGTCTCCTGCATTGCAGGCGGATTTTTTACCAACTGAGGTATCAGGGAAGCCCTAATGCAGCTTCTTTGCTAAGTCGCTTCAGTCGTGTCCGACTCTGTGCGACCCCATAGACGGCAGCCCACTAGGCTCCTCTGTCCCTGGGATCCTCCAGGCAAGAATACTGGAGTGGGTTGCCATTTCCTTCTCCAGTGCATAAAAGTGAAAAGTGAAGTCGCTCAGTCGTGCCAGACTCTTAGCAACCCCATGGACTGCAGCCTACCGGGCTCCTCTGTCCATGGGATTTTCCAGGCAAGAGTACTGGAGTGGGGTGCCATTGCCTTCTCCTAATGCAGCTTCTAGAAAGTGTAAAAGTTGTGCTTGGTTTGCATTACATTTCAGTTGGATAGTCTTGCCTAGAATACTGAAATTCTTCTGACCTGGATTATCAGTATCTTATAAGATTGAATAAACTATTTTTTTGTTTTTGTTTTTCAGTAAGACATAGATTTAATTATTTTAACTCTTTCACATACCTGAAAATGGAAATACATGTGAAATAAATTGGTTAAAGGATTGTTAAAGTCCTTTATATTCAGAGTCCAGCTGTTCTGAGTCACCTTTTGACTCAGTCCCTTATGTTCCGTTTTTCCACATGGAGTCCTCCTGTGCTGCAGCATTTCTGAAAAAGAAACCATTGGTGCTGAGTTCCTAAGCTGGCTTTATTATGTGAAGCTAACCAACTTGTGGTATCCAATTTGGAGATGCTGCTAATAAAGTGTACTTATTTTAAGCAAATACTTTCAGTAATATTTTATATATAATAATTTTGCATACTGAGCCACTGACTATCACTTTTTTATCTCTCGTAC
Seq C2 exon
GAACAGAGGAGTGTTACAGTCACTCATTGAAAAACACTTCCCTGCTCCGGATAGAAAAAAGCTTTATAGTTTGCTGGGAATTGATTTGACAGCTCCAAGTAACAGCAGTTCACCAAGAGATAGTCCTTGTAAGGAAAATAAAACAAAGAAGCGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020505:ENSBTAT00000027325:15
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=0.463
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGTTGTAATTGGTCTGCAGTCT
R:
TTCCGCTTCTTTGTTTTATTTTCCT
Band lengths:
254-2155
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development