BtaINT0105548 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009348 | OIT3
Description
oncoprotein induced transcript 3 [Source:HGNC Symbol;Acc:HGNC:29953]
Coordinates
chr28:29102738-29105086:+
Coord C1 exon
chr28:29102738-29102837
Coord A exon
chr28:29102838-29104290
Coord C2 exon
chr28:29104291-29105086
Length
1453 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
TATCATTGTGATCTTTCCAGGAA
3' ss Score
9.55
Exon sequences
Seq C1 exon
CTGTGTTTCAGATGACTCAGTGAAGCAGTACACATCCCGGGATCACCTCGCAAAGCACTTTCAGGTCCCCGTCTTCAAGTTTGTGGGCAAAGACCACAAG
Seq A exon
GTGAGCCGAACACCTTTACCTTACAGAGCTGCCTGCCCTCTCCCTCCATGAACCTGAGCCTTCCTACTGTCCCAATTGGTTCACATTCTAAAGCCTACCATTGGGATCTGCGTGACCTTATGAAAAATACTATAAAACTGGCCATCTAGAATCTTACCACCTCCGTGAATGTCAGAATCATCTGCCCCCTCCCAATAAATTAACTAGGCTTGTTCAAAGAAAATATGATGTGATTATAATACAAAATCCTTGTGAGCAGGTGTGATTGAAAAAGCCTGTGTAGTGGTCACATGGCAAACTATATGGAGAGAATATTTGCAAAAAAGACAAATAGTGAAATGTTCAGTGAAAACAGTATTTCACTGTTTTACATGCCAATTCAAATAATTATAAGACTATTTTATACATATGAAATTTTTAAAAATTATAAATCCCAACTTTCAAGGCTATAGGGAGATGTGTATAGTAGCAATATAAGTTGATATACCTTCTAGAAAGTTGTGTAATAATCTGACAATTAATTAATAGTCTGACAATGTGTAATAACCATAAAATTATCAGTCTAAAAATTTCAATTCTGACAGCTTCTCAGAAACAAAAATAAAAACATGGTTTGTTGAATGTGCTTATAGAGTACTGTCATGAGAGAGGCATTAAACCAGTGCATCAATTAATGCAATATTAAGCAGTTAATGTACAATGAAATATAGAAAAAGGAGATATGAAAAAACTCTTGTCATAAAAAATTTAAATGCAAATTGAATATGAAACAGTTTTTTAATGTATATAAGTAAATAGAGGTTATAAGAGGCCATATATTGATATACTGTGTTAAGGTGGAAGGTTTTTTATTTTAGTAGAATTGTTGAAACAACTTAAACAAAGGAAAGTTTGAGGTCAACAGTTTTTTCCATATCGCGTCTAAGTGTATTCATGTGCTGTCCAGCTTCATCATTGTTCGGAAATAACTGCTAACCATGATGGCTAACCCTGACCTTCCTCTTCAACTCGGCAGCATGCATTGGGAAGTTACTTATAGGAAGAAGCTTGGAGAAAGAACTTGTTACTTTACACAGATGTGGATGGGACCCCATGTTATGCCCAGACCTTGATGTGATGAATCAAGATGTTAATGTTATTAGACATTGTCCTCCCAAGGTTCTCTTGTGTCCAGGCACGGAGGCAGAAGTTGTGGATGTCAGGTTTTAAATCACCCATGTGATTGAGTATGTTTGCCACATTGCTAAATGTGTGAATCTGGACAAGATCCTTAACCTTCTTAGTTTCCTGATCTGTAAAATTGGGATGACATCTGTCTCAAAGGGCGGTTGTTTAGATGAAATGAGATAAAACATATGAAGTATTTGGTAGTGTCTGGCTTCTAGTAGGCACCCCCCCCCAAACTGGCAGCTGTCTTCACTGTTTTTGTTCTTTATCATTGTGATCTTTCCAG
Seq C2 exon
GAAGTGTTCCTGCACTGCCGGGTCCTGGTCTGCGGGATGCTAGACGAGCGTTCTCGCTGCGCTCAGGGCTGCCACCGGCGGGTGCGTCGTGAGGCTTCTACTGAAGGAGAGGACGCCAGTGGTCCACGGAGCCAGATGCTGACAGGCGGGCCAATCAGCATCGACTGGGAGGACTAGGACAACCCACCACCCGCGTCCTCCTGCAGGCTGCCTGTCTCTATGGAATTCTCCCCTTGTCTTCTGAGAACATCAGTTGACACTCTAGAACACCATGCTGCTTTAAACCTTACACTTTGGGTTTAGACAAACCCCCCAGAACCGACTCACTCTGACTCCAGCCACTGGGTCAGGGGTTAGCCACCTCACTGCTGACCAGCCTATTCCAGATGGAGCTTCATCCTCCTAAAGTGGAAAGCTGTGCCATGCACCCCAAAAACAGCTCACCCCCATGCTCCCCCATTTCTTTCCTGCAATAAAACACCTAGAGTAGGACACGGTAGCACCACCACTAAAATCAGAAGTTGGGTATATTATTCCAAATTAGGAATTTAAAAAATGAAATAGTGGCTTGAAATTATGGCTTAAATACACACTGAGTCCTTAAATATGTAAATAATAATTATACCCTAAAATTTCCATTCAAATACAGAATAGTTATAGGGGATTTGGAAGTCTATCACTGTAAGTATGTACTAAAAATAAACTATTTGGATTTTCTCCTGCATAATATTTTCCTCTGGGGTTTTTATGTTGTCTTAAGTAAACTATTTTCAATTAATAAATGTTTATAATTCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009348:ENSBTAT00000063296:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.247
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAAGTTTGTGGGCAAAGACCA
R:
TCAGAGTGAGTCGGTTCTGGG
Band lengths:
358-1811
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]