RnoINT0076426 @ rn6
Intron Retention
Gene
ENSRNOG00000008346 | Itgb6
Description
integrin beta 6 [Source:RGD Symbol;Acc:1303119]
Coordinates
chr3:46722379-46726050:-
Coord C1 exon
chr3:46725971-46726050
Coord A exon
chr3:46722584-46725970
Coord C2 exon
chr3:46722379-46722583
Length
3387 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
TCACTGTTTCCCCCCTTTAGAAT
3' ss Score
11.2
Exon sequences
Seq C1 exon
GTGGCTGTGCCTGGAGTGGTGCAGAAACCTGCTCAGACTGCCTGCTCACAGGACCTCACTGCGCCTGGTGCTCCCAGGAG
Seq A exon
GTAAATCCCTGGCTATTGCCCTGTTTCTAACACTGTTTCCACATCCATTAACGTCCTCAGTGAAAGCGCTTCTCTCTGTGGGGTTGAATGACTAACTAGATCGAGAATGGAATGTGGGAGTCAGTGGATCAAAGTTTGTTTTCATCTATACCTTGGAAACGACTCACTGAGGGAACGGATGTCACACTGTCCTTTAAAAACTTAACATCCTTTATTAAATCTAGGCAATTCTCTTATTTAATATAGTCACTTTACTTACTTTTGATTTTTATTTTAGAGACAGGGTCTCACGACATAGCACTGGCTGGCCTGGAACTCACAGAGATGTGGCTGCCTCTGCCTGGCCAGTGGTGCCAGCCTTCCCTTACTATAAAGTCTTTCTAGCTGTTTGCTGGTGTAACATTCTGTCTGGATAATTGGTGGCCATGGAGATATTGTCCAAAGTGACGCAGACATTGAATGCTGATATAATGTAGTTGTGCTCCCTCTGGGACCTGAGAGCCATTGTAAGTCTCTGCTAGGTACTTCAAGAAGGGAAAACTATGATTCAGGCATCAGCCAATTCTTTTGCATAGTCCTGAACAGAGTGAGCACAGCACAGTTCAAAAGCAGTGCAGTGGTTCTCAACCTGTAGGTCACAATCCCTGACTGGGTTGAATGACCCTTTCAAAGGAGTCGCCCGAGATCATTGAAAAACACATAGATTTACATGACGACTCCTAACAGTAGCAAAATCACAGTTATGCAGTATCAACGGAAGTAATTTTGTGGTTGGGAAGGTCACCACAACATGAGGAACTGTATTAAAGGGGTTGCAGCATTTGGAATGTTGAGAACTACTGCTCTAAAGAAACGGTCCTTGTCTGGACAGAGTGAAACTTGTGTGAAGAAGTATGGAGACTGTGAGGACTGAATAACAAGATAGACCAAGTCACAGCCCGTGTCGTGATGCGGAGAGCACGGTGTAGTGTAAAGGATTCACACTAAGAAAAAGCAGCCTTTGGCTTTCTGGATTTTAAGTCCCACCCATTGGAAAGAATCTAAGTGCCAATCAAGGCTTGCAAATGCCAACAGCAGGAGCCAGGTAGCATGCAAAGGGAAAGGAATCTAGATGCCTGGATTAGAACTGGGCTGTAACTGTTAGCACCCAAATCCCCTGTTCATTATGGATCTGTGGAGGGTTGCCTCACATGCAGAAAGTCTCCCCACCCCTGTGCCTCTACACACACACACACACACACACTGCCTTAACTGCTTAGGCAACAAATAACATTCAAGGCAATTATTTTCTTTTAAGGTCAAATATCAAATGCAAGGTTGAGAATATTCAACAAGGAACGAACCCATACACTCTTGTCTAGAAGACAGTATTCGTTTCATAGCAGAGACAAAACATATTGTATCTATCTAGAGTGTATGTTTACTGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTGTGTGTGTGTGTGTGTGTGTGTGCGCGCGCGCATGGAGGCCAGAAGAGGGAATCAGAACGCCTGAATTACACTTACAGGCAGTTGCAAGTTTCTTGACATGGGTGCCGGGATTTGAACTTGGGTCCTCTAGAAGAGCAATATGCACTCTTAGCCATTGACCTATCTCTTCAGTTCACTAGAATTTATAACTAAATTCATTTTTTAGCATAAATAAGTGTTTCCTAAGGTGTCACTGAGAGTTTGAGTTATAGCTGGTCAGGTGATCATCAAGTATTGGGGCCAAACCATTTTAGAGGCCTCTCCAATAACGAAAGCAGTCACGAGCACGTCAACTGTGGCCATTAGAGCGAAGAATGAGCCAAACGGAGAGTATACACAAACTGCTCCTGCCAACTTTATTTTTTTTAAAGATTTATATGAGTACACTGTGTTTTCAGACACACTAGAAGAGGGCATCAGATCCCATTACCGACGATTGTGAGCTACCATGTGGTTGCTGGAAATTGAACTCAGGACCTTTGGAAGAGCAGTCAGTGTTCTTTACCACTGAGCCATCTCTCCAGCCCCAGCCCCACCCCCAACTTTATTCTTTTGGGAAAGGCTGAGCAGAGCTGATAGCCATTCATACTGTGTTAGGAAGCATTCTGAGGCCCTGTGCAGCCACTGTATGCCTTTATTACGTCATGGGAAGTTGTGGTTTGCCAGACCCAGATTATAGCTATAAATCTGTATAGGTCTGATGGGCAGGTAACAAGTCGTATTTGAAAGTCAATTGCAGAAGAAGTGTAGCTTTCCTGGTCGGTGAAAATAGCAGCAATGGCTTAGAATCCTAAGGGGCAAGAAAAGCCATGAGCATTAGTCTGATTCTCAGTAGGCACCAAAATGGGCTTCCATGAGCACATCACACACACACACACACACACACACACACACACACACACACACACCACACACACACACACACACGCACACACACACCACACACCACACACACCACACACACCACACACACCACACACACACACACACACACCACACACACACACACACACACACACACACACACACACACCACACACACCACACACACCACACACACACACACACACACACACACCAGAGTCCAAGGACCTCAGGTCAATTCCGCTCAGACCAGCTTTGCCTGTCAGTAGCACCTGTTCTGTCCATGCCTTGGCCGCATCTCCCTGCTCTGGGTCCTGCAAGATCAGAGTGGCCACATCTCTGTTGAGCCGCCTTCTGCCTTCTCTATGGATGGACATGAAGGGCTGGGTCTTTCTGAAATCCCAGACAGAAGGCACACCTTTAAACCACCTTCTCTTTCAGCCTCTAAACATGGGTGGTGGAGGGGGCTCTAAAAGACCTTGAACTAGAATCCTTAAGACACTGAATTTAAAGTCCTTGAGAGGTCAGTTCGAGTGCAGGGATGCTGTAGCTGAAGGGAACACATCATCCAATAAAAGCAGCAGAGCGCCAGACAGGGAGATGTCAGGTGCTCTGTCCTTTAGGAATCCACAGGAAACATCTCTCTGGGTTTGTTGACAGACACACAAAGCTTCAACAGTCCTAGGCTAGTCCAGAAGCCAGCCATTCATTCGGAACAAATTCTCAGGAAAATATCAACTTTGGAGACTCAGACATTTAAAAGATCCACTCAGATTACTGAAGAAATTTTACGACATGGGTTTGGCGGGGGGGGGGGGGAGCCCAGGTTTATTCTTAAAAATTGCTGGGTAAATTCTCTGGTTATTCAGCTATCACAGAACTCCATCTGCCAATCGCCACCAGTGGCGTAGGGGATGTGATGTTCCTAGCATGTACTTATTCCTCTAAGCACAAACAAATTTAATGTCTGGAATTTTACAAAGAAATGATGACTTGTCTTCTTCTCACTGTTTCCCCCCTTTAG
Seq C2 exon
AATTTCACCCACCTGTCCGGAGCTGGCGAAAGGTGCGACACCCCCGAGAATCTTTTAGCCAAAGGATGTCAGTTACCCTTCATCGAAAACCCTGTCTCCCAAGTAGAAATACTTCAAAATAAGCCTCTCAGCGTAGGTCGACAGAAAAACAGTTCTGACATTGTTCAGATTGCTCCTCAAAGCTTGGTTCTTAAGTTGAGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008346:ENSRNOT00000011030:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=PU(4.0=63.0)
A:
NA
C2:
PF0036213=Integrin_beta=FE(16.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
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]