RnoINT0076467 @ rn6
Intron Retention
Gene
ENSRNOG00000004516 | Itgbl1
Description
integrin subunit beta like 1 [Source:RGD Symbol;Acc:1560635]
Coordinates
chr15:110371789-110377066:+
Coord C1 exon
chr15:110371789-110371935
Coord A exon
chr15:110371936-110376952
Coord C2 exon
chr15:110376953-110377066
Length
5017 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
AACACCCTTTGTGATTTCAGGTT
3' ss Score
7.48
Exon sequences
Seq C1 exon
GCCGTGGCACGTGCTCCTGTGGTCGTTGTGTTTGTGAGAAAGGATGGTTTGGTAAGCTCTGCCAACACCCTCGGAAGTGTAATATGACCGAAGAACAAAGCAGGAGTCTGTGTGAGTCAGCAGATGGCACATTGTGCTCGGGGAAGG
Seq A exon
GTGAGTATCACTGCCACAGCCTGGACTGGATCTCTGCTCAGACTTGTGGTTCCTCAGAACAGCAGGTAGCAAACAGTTCCTCCAGAATAAACTTTGTCTGAGGAAAGGCACTCAGCTTGTGTGTGAACCCTGAAAGCTGAGCAGCAGCAGCAGGAGATATGGGAGCTGAGATTCTGTCCATGCAAAAGATGAAAGGAAATCTTCCCTGAGTTTACACAAATGCTTTACCAAATGAAGACTTCATTCATGCTAAAACACGGGTGTGGTTTTTAAAATATATTTTGTTTAGGACCTCATTGTGAATAGGCTTTTGCTGAGTCATGCCCAGTTGCAAATACGGTAAGAATGCACAAAGCTATATTCACCTGCACATGGAGTTACAGTTCATTTATTCCCTAACCTGACTTTTATGCAAAATTACTCCCTAAAAGCTATAAAGATTGAGTCCTCATTAGAGTTGCAGAATTTTCAGAATATAGGCAATTTGCATATAGAAAATGCAAAACAAAACAAAACAAAAAAATCAAAACAAAAAAACCCCCCGCAGTTGAGGGATTCTGGAGAGAGGACTCAGCAAATTAAGAGCATTTGCTGTCTCTAACACCCACATTGAGTGGCTCACAACTGCAACAGCTACACTAGATAGAGGGGATCAAATACTTTCTTCTTACTTGAGTGGCACTTGGTCTCCTGTGCACAGAATCTGCACGTACACAATACTTAATGAAATAAATCTTTCCTAAACAACTAAAAAGTGCAAAAATTGATTAAAAATTGACACAAATGTATTTCCTCATAACAAAAGCAAACACAAATTGCTATTTAATGTTTTCCCAGTTATCTGCTTTGGGTGGTGGGATTACAATGACAGACCAAAGAAGGTTGAAAATCTAAATTTTCTAAGGGGATAGAATGCTTGGGTATGGCTAAATTCAGGGAAATATAAAGGCTTCCCAAGGCTTTGCATTTTGAATTTCATAGCTTACATTAATGAAGGGCAGCAAGTGGTTGAAGATTATTTCTTTTCCTTTCTGGTGGCATCCATCCTGGTTTGTAGAAGAAAGGGTTGAGGCTGAGCTCTTGCAACTGTAATTTGTCTTCATTATAGAGGATAACAAGGATGCTATTCCTGGTCTCCATGGAGAGCATCATCCCACAGCTCACCCCAAGAACTACAATAAAAATGTAGCATGTAAGAGATTGGGGGATTTCAGCATGGTAAATGAGAAAGATGTTCTCACATGCTTCTACTCTGTATCCTTGATAAATCCCATGGACTTGCTGAATTTTGTATAATTTTTCTAAAATCTGTATAGGAAAACCATCATCCCAGTGATCTGAAAGTGTAGTGAGAATTTCCCCTCTTATCATGGAACAGATGTGAGTCAGAGATTGGTTTGTGACTGCATACCATGATACTTTGTAACCCACCCCCACTAAAATGACAAGTGTGAACTCTTCGCTTGCTAGGGACTGTGAATAAAGCCATCACTTCAGGAGACGATGAGGAAATAGCATTTTATTTCTTACAAATTTATAGCCAAGACAATAAATCACTCCATAGAAAAATTTAAAACAAGATACATTGTTGTGACCTTCATAACAGATGGTGTCATTAGTACAATAGTGAAAACTGCCTGCTGGGGTGTCAGGTTGCAGCATTTTGTCAGGCTTGATGTATGAAGAATAAAGTCAGTAATGGAATGGGGGCTTTAACCCCAGACAGAAATTGTTTTTGTAAATGACCAAGAGAGATATGCTTAGTGGCCATGTTGCCCCTAAGTTTAGCTACCATTGCAGAATATATGGTGAAACTTATATTGATTTATGTTTATTTGTTGACTTAGGGATTTATTTATTTATTTGTTTATTTAGCTCCGTGGTGACACAATAATGTGTTCATCTTAACAACGTTACCCTAGATCCAACTAGTCACTTCGTATTTTTAGAGATAGAATTATGGAACATATCTTTAAATGTATCTTTAAACTGTCACGTTAATATTGCTGCATCCATGTCATTAGTAAATTTATGGTACCCTCTTTCATTCATCTGTTTCTCAGCTACCTCCTTTTTGTCTGTTCAGAAAAGAGAATGGGAAAATGTTATACTTTTCAAGACCAACCTTAACCTAGTATTCTAATTGCCATTCCCAGACAGCTGTTAGCCAAATCTGTAGGCAAGAATTTCTCATTTATAAAACTATATTCGTGTTTTTGCTGTGACAGTCATCACAGATATATAGGTGAATAGGTGATGAATGAAGTCAGATTAAGATAGTCTGTTAGCTGTTTTTGGAAAGTGGTCTGAGGCAATTCTCCCATCCTCTCTGCTATTCCATTGTCATCTTCAAGGAAAGTTTTTGTTTGTTTCCTCCTCCTTAGATCTTTGGAATGTTCTTCAAATAGATGAAAAAAAGAATTGCCCAATAATAAAAGCCAGAGAAACAGAGATATTGTTAAAGGTCCTTTTGGAGAATGAAAACAAATGGATTAGTGACGTTGTTTTTCCAGGTGTTAACACTCTAGGGTTCTGACAGGATGGGCCAACTGCAGCCTATGGCTGGGCTGGTCCCCCATGGGAATGGGTGTGAGTCTGCTGAGTTGAATAGTTGCTCATTTCTAGTGTTCAGGAAGCTTACATTTGTTAGACAGAACTGTCTCTTCATGATTTTCCCTTTTCTAGAGAGGGATAATCCACCCCTGTTTTTGTAAGAACAGCCAGAGCTCTCTATAATAAAGGTCTATGATAGGTCCGAATGACTACATACACTGTGTTAGTACTACATGGTATACTGTTCCTATTTGTGTAGGAAGAAGAAAATTTTCCTATTTACCATCAACAAACAGAAAAACAACACACCCACTATTATGGTGACCATGAAGATTGCTTCCATGACATACCCAAATCAAATCTCACTTCCATTCTAACTGTTTCATGACATCTACTATATTTGGAGCTAGAACTCCAAAGTGTCAAATACTCAGTCCACATAAACCAAATTAACTTTAACTAATTTCAGGAAAATACTTTATTCTTTGCAGCTGAGTAGTCCAGAAACAAAAGAACTAATAAGAATCACTTCTAGGCAAGAGATAAGTTCAAAGATGAAGTGTAAACTCTTTATAAGAATTATGATAAACATAAAAAAGCATCCGAGATATGATATATTAATATCATTAGTATATAAAATCATTTATTTCTATTGTAGAAGTAACTTCATGATTTAAGATATACTATGTTAGAAACAAATAAAAACACTTAATTCTTCAAATAGTTAATCCTTCACTGATGGAAATCAGTCACAAATGTGATGTTCTTTGGGGAATATCTCTATGATAGACAATTAAGTTCCCATGTAGGTGTTTCATAAACCATTTGTTAAACAAGTAATCGATTGATAATATTTCTGTGCCTGGAAATTTTAAAGAAGATATTTAAATTTAGGAAAAAGTAAATTCTAAAATGAGGATACACTCTGTGTTGATGAGGATGCAAAGCACTTTTTATCTCTTTCTCACTAGACCAACAGTAAGGGCCTGAGTAACTACTAGGTTGTCAATTACATCTCAAAACTGAAAAGTCTCCATATATTGCCCTAAAGAGCCTGAAAGTACAGGCTATCAGTAAAACAAGATTAATTGAATGTGTGCTGCACTTAACAATTAAGTAAAACAAATATAATGCAGTTGTTATCTCTTAACTGGTTCTGACTACTTGCTTGCCTTGGGATATGTGATGAGAAATGACAAAAGTGAAATTTTGTTGTGGGAGATTCTTTTACCTAAAATAAATGTACCTGTTTCCATGGCATGAGCTTACAAATGCTTAAGACACTTTATCTTGAATTCTTTCATGATATACGTGACAGTATCATAGCCTTCCATTACCCAAAACTGAGGACTTCTGCTATATTCACACAAGTCGTTGATCATTTGTCAATCACCAGAAGTACTCAGAATTTATCCCTGACTCTACTGTATGTATTTAAAGTTTAATGAGTTTGGAGTTTTTCTAACTGCATTAAAAAGTTTATTATTTCATATTTTCTCAAGGTGATTGGTTACTTGAGTAGCTTAGCAATAACTACCAGCATCTTGTAGTAAAAGAAAATTGTGTCCAACAAAAAAGCCAAAGAAAGAAATGCAAGATTTCTTTTGAATTCTGTATTTGTTCTGTAGCAAAACTAGCTTATCCAGGTGATTTTTCAAGCCTGTCTTGAAAGGCATTTACATCAAGAGACATGATAAAAACTATTTTTTTATTTTAAGTGTGCCATTAGTAAGAGTCTCAGTTACCACAAAATATTTTAATTACTAAATAGTTTTTTAAATAAATTGGAGGGTAACCACAAAGGAAGTTTGTAAGGGGTGGGAAAATTACTAGACCCTCTTCAGGATTTTCTAGAACTCATGTTGATTATAGCTAATCCTAAAGGGCAAGACTGAGACAGCAATCAGACATAAGGGATTAAGTCTGCATTTTTAGCACTTCAACCTGCAACTCAGTTTGAAGTTTGTGTGTTCCTATTTCAAGAAAAGCATTTAAATAAAACTCTAAAATGATGAGCTCAATAATTTAGTAATTATTTAATTATAAAATGAATCTTTATTTGATATAATTTAGTAGTATGTTCCTTTAGAGAATAGGGACCTTAAAATGCAATTCAATTGAAAAGGAAAGAAACAAATAAAACATCTATTTTGAGTACTTTTGAAGAGAGCATCTCTAAGGATGAGCCACATCCTGTTTCATTGACATTTCAACCAGACTGGACCGAGGAACATTTGCTCAAGGCTAATTGCAACTGTCTAGATCTATAATGAAGGCTTTCCTGGATGACCTTTATGTATTACAGTAAGTAAAGCTCCCCTCTGAGAAGCAGCTATTCAATAAACTTTTTTCCTTTAGAAGATAGGTTATTACAAGTCTATTGTCAGCATGTCAATGATACTTTCTTCTTGATGGAAGCCTTTATTTCTCTGGTGACAGTGAATAACACCCTTTGTGATTTCAG
Seq C2 exon
GTTCTTGTCATTGTGGAAAGTGCATTTGTTCTGGAGAAGAGTGGTATATTTCAGGGGAGTTTTGTGACTGTGATGACAGAGACTGTGACAAACACGACGGTCTCATTTGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004516:ENSRNOT00000006264:9
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:
PF079748=EGF_2=PD(64.5=40.0)
A:
NA
C2:
PF079748=EGF_2=PU(32.3=25.6)
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:
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]