RnoINT0076309 @ rn6
Intron Retention
Gene
ENSRNOG00000010966 | Itgb1
Description
integrin subunit beta 1 [Source:RGD Symbol;Acc:2927]
Coordinates
chr19:61702233-61705374:+
Coord C1 exon
chr19:61702233-61702455
Coord A exon
chr19:61702456-61705203
Coord C2 exon
chr19:61705204-61705374
Length
2748 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCT
5' ss Score
8.16
3' ss Seq
TTTTGATTCTGGTTAATTAGGAG
3' ss Score
3.93
Exon sequences
Seq C1 exon
ACATTTTTACAAGAAGGAATGCCTACTTCTGCACGATGTGATGATTTAGAAGCTTTGAAAAAGAAGGGTTGCCAACCAAGTGACATAGAGAATCCCAGAGGCTCCCAAACTATAAAGAAGAATAAAAACGTCACCAATCGCAGCAAAGGGATGGCAGAGAAGCTCCGGCCAGAAGACATTACTCAGATCCAACCACAACAGCTGCTTCTAAAGTTGCGATCAG
Seq A exon
GTACCTCTATCCCTACTTGAGTTTTCCACAGCAAGCTTATACAAGCCTTTTCCCAGTCTTTTGGGGGTTCATTTGGGTAAACTGGTATCCAAAGATAGGGCATAAGTTAAATTTTAGTGGATATAACCTCTTTTTTGAAACAGGGTTTCTCTGTGTAGCCTTCGCTATGCTGGAACTTGCTCTGTAGACCAGGCTGGCTTCAAGCTCAGAGATCTGCCTGTCTCTGCTTCCCGATGCTGGAATTAAAGGTGTGAGCCACACCTTTGATTCCTGGCCATAATTTTTATAATGCATATTACTTTTAGTAATTTAAAATCTTCCCTTCTGTTAGAAGCAAATCCTGTTAAAGATTCAGAAAACTCTAATTAAACTCACTGAGTTTTAAAAATAATAGCATCTACCTGTTAGTATAATTTCATAATGTAGAAGCAAGGTTTTCATCCATGCATTTGTTTAGTGCCATTTAAATACTAACCTTTTTATGAGTGCTTATGGCTGTCCCACCCTTTAAATAGACAACGTGCTCTCTTTCTGCCTGTCATTTTCATCCTGTTACTGCTGCCTGGGTAAACTTGAGGAAGTGGGCATTGCTATACTTTGAATGTGGAATGTCCCACGTAAGCTCATCTGTGCGAACGTTTGTTCTTGGCTTGTGTCGTTCTGGGGGTCTGTGGAGCCTTCAGTTGGTGAGGCCTGGCTGGCATAGTGTGTACCTCTGGAGGTGGACCTTGAGCTTCCTGATTTGCCAGTATAGAGAGTGCTGCTCCCTCCTGGTCCTGCTGTTAAGGACGGACCTGCTCTAACTGCTGTGGCCTCCTTAAAACTGAGCCAAAGATAAATTTTCTTCTCCTAGGTTGCAGTGTTAGGAAAAGTACTTAGTACAGGCTTGCACATCTACTCTACATGAATACTACATCATCTTTGAGCTGCAGGTCTGCACCATCCCCATCAGGATCGTTATGTATTTGCCTAAATCACATTTTGTTTTAAACATAATTTTTAAAAAACATTTACTTATTTACTTAGGTTTACTTATTTTATATGCATGTTTTATCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCCTGGTGTCTGCAGAGATCGGAAGTTAGCAGATCCCCTGCATTGCAAGTATGGTTAACCTGGGTCCTCATGAGAGCAGCAAGTGCTCTTACCCTCTGAGGCAGCTCCAGCCCCTTGTCATTACTCTCACTGTGGGGAGCTTGTAAGAGACTCTCTTCTTGAACTTAGGGAGCCCACGTCACTGCTGGTTTTTCTTATTCCCTTCCATTGCTTCTGATTTCTTTTTTGTGTTTTTTTTCACTTCATCCCTTTGCATTTAGATTAAGACTTGGTTTTCCACTCACTGTCATTGGAGATCATTCATATTCTGCAATGACATAAACTTTCAGGTTAGCTCTGTCTGTACCCATTCTCCAGCTGCCTGCCAGAAAGTCATGTAGAAAAGATCATTTTTCATCCAAGCAAACCTTCCACCTTCTCCCATGTTTGTGCTTTATTTTGTGATCCTGGAGATTTAGGATCTCTCATGTGCTGGGCAAATGCTCTACCACTAAGCTGCCTTCCAGCTCTGTGCTTTGTAAGTAACAACATGCAACAACTTTTACTTCTCCCACCTTCCTCATTTTCAGTTCAGGCTTCATCTCCTATTATTGATTTTTTTTTTTGTAACTTCACCTCTGTAATTTCCTTTTACAACTCTAAAGTAAAACTAGACTGTTACTCACCTCCATGTAGCAGTGTCTTTTTACACAGAGAACATTTCACTCCTAACTTTAATCTCTACCTGTCTAGAATGTGCCTTGCTTTCATTCTGCCAAAACTTAACAGTATTCTGATTTCCTCATAAACTTATGTGTAAACCATCTTGTGATTACAATATCAACTGCTTGAAATATAACATGTAAAAAGAAAACTTATTTTGGGTCATAATTTGGAAGTTGCCATCTGATTGAATGGCCTGTTGCTCTGACCTGGTGGTAATGTGAAATGTCATAGTGGGGCATCTGGGAGATGATACGGAAAGGAGGTCCCATAGACTACAGGGCACATCGCTGGTAACCCAGACCTCCTGGGCCCTCACCTCTCCAACTTCTCACTTCCTTCTGATATGCCGACATGTGGGCAAATCCAAGCTATAGCAGCTATTTGTATCTTGTGGGTAGGGGGTTGCCTTTATCATTTTTGCCTCCCTAAGTCTTGATGTAAGTAGCTGGTTAAATGAATCAAGTGTGCGCCTCTTGAGACTCTCACAAAATTCTTAGGTTTTGTAAAAATTATACACTTAAGACTATCACATTGAGAAAGTGGACAACAGCTATCCTGGATTTGTGTGGTGATTGTAATTTCAGGTCTGTCACTCTTGTTACATTGTGTACATTCAAAAGGAAGAGAGAAATATATATAATAATCATTTCCACTTAACTAATTTTTACTTCTAGCAGGTAAATGTAGGTAGCAGTGCAGGGTGATCTCTGCTTCCTGTACCTTGACATGCAAAAGGCTCTCCTAATACTCCACATTCAAACTGAAGAGGAAATTGAAATCTCTGATGAAGCTGCTGTGTGTATTTATGAATATTAATGAATAAAAACTGCTTGGATGGTTTACCTAAAAAAAAAAAGACTATAACATTGAACATGTAAATTGAACTTACTATTTTTCTCATTTTATTTTGATTCTGGTTAATTAG
Seq C2 exon
GAGAACCACAGAAGTTTACATTAAAATTCAAGAGGGCTGAAGACTACCCTATTGATCTGTACTACCTTATGGATCTCTCCTACTCTATGAAAGATGATCTGGAGAATGTGAAGAGTCTTGGGACGGATCTGATGAATGAAATGAGGAGGATTACTTCAGACTTCCGCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010966:ENSRNOT00000014785:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.440 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(17.2=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(13.2=100)
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:
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]