RnoINT0076405 @ rn6
Intron Retention
Gene
ENSRNOG00000005580 | Itgb4
Description
integrin subunit beta 4 [Source:RGD Symbol;Acc:2928]
Coordinates
chr10:104529951-104533484:+
Coord C1 exon
chr10:104529951-104530122
Coord A exon
chr10:104530123-104533220
Coord C2 exon
chr10:104533221-104533484
Length
3098 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
CTGCCCTCCTTGCCTTGCAGAGG
3' ss Score
10.91
Exon sequences
Seq C1 exon
GCTGAAGGAGCCGTGGCCCAACAGCGACCCCCCATTCTCCTTCAAGAATGTTATCAGCTTAACAGAGAATGTGGAGGAATTCTGGGACAAACTGCAAGGAGAACGCATCTCAGGCAACCTGGACGCTCCTGAAGGAGGCTTCGACGCCATCCTGCAGACAGCCGTGTGCACA
Seq A exon
GTGAGTGCCCAGGCACCACCCTGCCAGCCTAGGCCAGGGCTGCAGGGGAAGGACACGAACTGTTGCTGGCCTGTTCCACTACTGTTAAGCTCAGAATCCCTTAAGGGGGTCCCCAGAGCCTTGGACCCCATTCCTTAAGATCATCAGATCCATCAGCCCCTAATTCTAATCCTAGTTTTGACATGCTGGGAATCCAGCTTCGTGCCTGCATTGTCACAACCAGTGTTTATATCGGCCAGCGAGGCAGACATGGGTCTAGTAGTCCTTGAATATTCAAGGCCCTGACACTGACCTACCCAACTGTCTCTCAGTCTACAAGCTGCCCAGTTTCCAACTGTGCTGGTAGCTATTTTTTTTTAAATTTATTTATCTATTATATATGAGTACACTGTAACTGTCCTCAGACACACCAGAAGAGGGCATCAGATCCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCAGGACCTCTGGAAGAGCAGTCTGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCTATTTATTTATTTATTTATTTATTTATTTATTTATTTATTTTTGTATTTATGTGTGTGTTAGAGGTCAGGGGATAACTTGTGGATGTCAGTTCTTTTCTTCCCCCATGCCTGGGGGGTCTAACTCAGATTATCAGGCATGAAGACAAGGACCATTGTCTGCCGAGCCGAATCTCTGGCCCAGGACTGGCAGTTAAAATGGCCACTTCTTTTTATGCCCACACCAATTTGTTTTCATTTTGAAAATTATCTATCTATAACTGCAGATAAAATAGAAAACAAAGAATGAAAATTGCCTGTAATTCCAAAAACAACAAATAGCCATCCCTTTGATAGCCTGCCGACATATTTTGTTCTTTTTCCTACATTTTATATAGTGGAATTGTTTTTCCTATAGTTCTGAAACTTCACACACGCACACACACACACCCCCCGCCTATTTTTTCCTTCACTCGATGCTGTCGCAAGCACTTCTGTGTAATGCACAGTTTTTGAAATCACTCTCTATAAAGCCAGGCGGGGAGATACAGATACACATCCAAAATCCCAGCACTTGGGGAGTGGATGTAGGGGGAACAGGGGTCTAAGAGCATCCTCAGCCACACACAGAGTTCAAGGCCAGCATGGGCTCCATGAGACCCTGTCTAAAAGACAAACCAGGCTGCAGGTTGGGGGGCTATGCCTTTAATCTCAGCACTTGGCAGGCAGAGGCACAGGGATCTCTGAGTTCAAGGCCAGGCTGGTGTGCAAGGTGAGTTTACAGAGACGTCAGGAGCTGCGTACTGAGCTTCTGTCTCAATAAACAAAGCAAACAAACAAACAAACAAACAAACGAATAAAGCACAACAGTGTGCAGGAGAGACGGTTCGGCAGTCAGGAGAACTGACTGCTCTTCCAGAGGACCCAGGTTCAATTCCAGCACCCACACGCCGGTGGCTTAAACCATCTTTAGCTCCAGTTCCAGGGAATCTGGCCCACTCTTCTGGTTTCTGCAGACATCATGCATACATGGGTACAGACAGACAGACATTCAGGCAAACATCCAAAATTATGAAATAAAATATATAGACCAACCTGGTCTATCTAATGAGTTCTAGGACAGCTAGGGACCTTGTCTCAAGATAAATAAATAAAAATAAGATAGATGTATAAAATCACTGGCTAGAGAAATTGGTCAACATTTATGAGCACGTGCTGCGCTTCCAGAGGACCAAAGTTTGATTCCTAGCATCTACATCAGACAGCTCGCAACTGGGGGGCGGGGGGGACGACCTGACACCCTCTTTTGGCCTCCTCGGACATCTATACACATGAGGCATACAAAAACACAAGTGTATACATAAACAAATAAAACATATTTAAAAAAATCACCCCAAGCCAGGTGTGGTGGCACATGACTTTAATCCCAGCTTTTGAGAGGCAGAGGTAGGAGGATCTCTGTGAGTTCAACCCCAACCTGGTCTATATAATGAGTTCTAGGACAGCTAGGGCTACATAGAGAGACCCTGTCTCAAAATAAATAAATAAAAATAAAACAAACAAACAAAGTCCTCCCAAACAGTGCCAGATGTGGTCTGTGCCAACAACCCCAGCATTCAAGAGGCTAAGGCAGAAAGATCTCAAATCAGCCTAGATTACGGGGCAAGGCCCTATCTTAAAAACAAAGACACCCAATGTAATTTTCAAATTATTTGCTGTCTTAGCCAGTGTTCTATTGCTGTGAAGAGACACTATGATCATAGCAACTCTTTTGTTTTTTAAGATTTATTTTATTATATATAAGTGCACTGTCGCTGTCTTCAGACACACCAGAAGAGGGCATCAGATCCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCAGGACCTCTGGAAGAGCAGTCAATGCTCTTAACCGCTGAGCCATCTCTCCAGCCTGATCATAGCAACTCTTATAAAATAAAGCATTTCGTTGGGGCTGGCTTACAGTTTCAGAGGTTTAGTCCAGCATCATGGCGGGAAGCATGGTGGCATGCAGGGAAACATGGTTTTTCGTCCACATCCACAGGCAGCAGGAAGAGACACTAGGCTAGGAATAAGCTTCTGAAACCCCAAAGCCTCCAACAAGCCACGCCTCCTAATCCCTCTCAAGTAGTGCCACTCCCCATGACCAAGCATTCGAATGTATGAGCCTGGGGGGGGGGGGGGGCTGTCCTGTGGAAACCACCATAACCACTCCATCTCTTTCAACCTGCGCATTTACTTAACATGGTGCTGTGAACATTTTCCTCTGCTTCTAAACTATCCTTACAGTGCGACTGAGGGCTTGGACTCTCTCGTGATGCCCATGCTGGGCACACATTCTGCCATGGTGCCCGTGCTGGGCACACTCTGCACATCATCTCTTCCCGGTCTTCTCTGTCATTCGCATGCTGTGTGATAGCACGTACTGTTAATCCTGTGGCTTCAGTCCAGCCCCCTTGGGGGTACTGTTTCCCTTTTCCTACATCATGAAAGGATTCCAGTCCTCAGCAAGCAGCCTGCTTAGTGGGCCTGCCCTCCTTGCCTTGCAG
Seq C2 exon
AGGGACATTGGCTGGAGAGCGGACAGCACCCACCTGCTGGTGTTCTCCACCGAGTCTGCCTTCCACTATGAGGCTGATGGTGCCAACGTGCTGGCCGGCATCATGAACCGCAATGATGAGAAGTGCCACCTGGATGCCACAGGCGCCTACACCCAGTATAAGACCCAGGACTACCCATCTGTGCCCACACTGGTTCGCCTGCTTGCCAAACACAACATTATCCCCATCTTTGCCGTCACCAACTACTCTTACAGTTACTACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005580:ENSRNOT00000065339:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.138 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(13.6=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(20.7=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]