RnoINT0163616 @ rn6
Intron Retention
Gene
ENSRNOG00000001086 | Vps37b
Description
VPS37B, ESCRT-I subunit [Source:RGD Symbol;Acc:1304576]
Coordinates
chr12:38020311-38023368:+
Coord C1 exon
chr12:38020311-38020393
Coord A exon
chr12:38020394-38021255
Coord C2 exon
chr12:38021256-38023368
Length
862 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
GTTTCCCCTACCTCTTGTAGAAC
3' ss Score
8.49
Exon sequences
Seq C1 exon
ATAAACAATCTAACAGCGCTTCCTTGGAGACGCTGTTAGCGCTTCTTCAAGCAGAAGGGGCCAAGATTGAGGAAGACACTGAG
Seq A exon
GTAAGGCTAGACAGCTCCGTGGTCTCCAAAATGTCTGGACTCTTAAGTCACTGTTCAGTCCTTGTCCTCCAGGACATGGGGCCCCACAACTCCACAGCCCCCTGGTGCTACTGCCAAGACACATGGGTCTGGATGCAAGTGGGCACCTTGGCCCCTGGCTAGGGAACACGCTAGGTGGGGGTCCAGCGGTTCTGCGCTGGCCTGGGTGTACATGCTGCTCTGAACTAATGCCACACCCCTGGGTGCTAGTGTCTGAGGCATCTGCTGTGGTCATGAAGCAGCTTCCACCCGTGGTTGGCTGAATACAGGGCTGGAGCCTTGTGAGGGGAGGAAATGAATCAGGGTCAACCGTATGCCTTAGCAAATTGCCAGGTCTGGCTGTGCCTGTCTGACTAACCCGTTAGTTGGCGGGTGCTGATAGCCACAAGGAGGGTTCTTAGCTGCGTACTCTGTCCAGGGTGAGTCATTGGTCAGGTTGCAGCCAGGTGGAAACTAGAGGGCAGAGCCAGGGCAGTGGCCATCTCTCGGGAGCAAGCTGGCTGCGCGGACTGTCATAAGGCAAGACCTTGCCAGGCCCGTCATCTGTCTGTCATGGTTCTGCAGAGTAGAGCCAGCAGTGGGACCACCTGCCTTGTCTTCCTGTGGCTCTGCTTAGTGATGGCTCCTGACAGCATCACCCAGGCCCAGGCACACAGGTCAGCAGCTCTGAGCCTGTGGCAGCAGACAGGCACCAAGAAGTGTTCCCAGGAGAAGGGGTACTAGAGGGGGCCGAGAGCGTCTTTCCCTTTGCCTGGACTGTGAAGGGAGCCTTCTTCCCAACAGTTGGCCTGCCTTATAACCTGGTTTCCCCTACCTCTTGTAG
Seq C2 exon
AACATGGCAGAGAAGTTTCTGGATGGAGAGCTTCCTCTAGATGCCTTTATTGATGTCTACCAGAGCAAGCGGAAGCTGGCACACATACGACGTGTCAAAGTGGAGAAGCTCCAGGAGCTGGTGCTGAAGGGACAGAGACTCCCACAAGCCGGGGTCCCACTTCCACCCCGGGTGCCCGAGCCATCACCTGCCACCGCCCTTCCCTACCCACCTCTGGAGGCCACTGGGCTCCCTTCTGTTGTGCCTCGGCGCATCCCCCCACCTCCACCCCCGGTGCCTGCAGGACACGTAGCCACCCCGTTCACTGCTGCCATGGGCTCAGGACAGGCTTCTGCGTACCCAGGATTACAGTGCCCACCTCTGCCTCCCAGAGTGGGCCTCCCCTCTCAGCAAGGATTCTCCACACAGTTGGTGTCACCGTACCCACCAGCCCTGCCCCAGAGACCCCCTCCACGGATGGCTCCTCACCAGCCAGGCTTCATCCTGCAGTGAGCTCAGGGGCCTACTCTTCCTTCAAGACATCCTCTGCCTGCCGTGCCGAGCTCTGCACACACAGGCTGTGAGGTTCAGCTTCTGGGCCAAGGGCTTGGATGCCCTGGGCCAGTGTGTCCGTCTGACTTTAGAACTGTAGGTCCGTGGTAAGTAAGTAATAGAGAGCCGGTTTTGTGCACCAAGGGAGCTCTGTTTGTACCAGGCCAGTCAGCATCACATCGGTCTGTGTTCTGGGTGTGATTTCTGAGTGTCTAGTGTTGTTGATGGACTCGTGCATTTGGAAAGATAAACCTCCCCCCTCCAATTTAGAATCATGGCCCTCCTGTTGCAGCTTTATTTAATAAGCATGATTAATTATGTCTGTTTTATTTTCAAGTCTTGGCCCACCAGCTGCTGTGGCACTAGTAAAGGCTGGTCTACAGCGGCCAGCCGGAGCGTGTGCCGGTGCCCAGGCCATGCTGGGCAGCTATGCTGTTCATTGAATCTGTGCAGGGCAGGGCATCACAGTGACCTCGTGTTCCCGCCAAGCTGGATGCTTTCATGGTTCCAAGTCACAGGCAGAATTTGCACTTGGCTGCTGTGTGCAGAGGCCAGGAGAGCTGTGGCCCTGGGGGTGAGGCCAGTGTGTTGCACAGTACAGCCCTCAGCCCTCCCCTCACACCGTCAAGCCGCATGACGGTTTCTGTGAAAAAAATACTCAGTGTTTTTACTACACTTGTAATTTTCCTGTTTTATATTTCAAAAGAAAACTTTTTTGACACTCTCAAGACCATTCAGGGAAACTTTTTTAAAAATGCAGATAGACTGTTTTGAGTTGGTTAAAAATGCAGATTTATTGAGTGCCGCTTCCTGTCAGGCGAGCAGTGCGTGGTCACATCCGTCCGTGGCCGTGCTGTGCCTTAGCTTCACCTGGTGCCAGGGCTCAGATGCCTGCAGCGTGCCAGCCACAGCTGCCCTACAGAGCCGTTAGGCGGGGCCTAACAGGCCACATCACTTTGTGACAGGTCAGAAAGGGTCCCTCCTCCTCCAACCAGGATGACTTAGGCAGCTGGCTGTGCTGCAGGTGTCGGCCAAGGCACGGAATGGGTTTGGGGAAGGCCCACCCCACAGGATTGGCGGCAGCAGCTCCGTCCTCTCTGGGACCTCATCTGCAGGTGCCCCATGTGCAGAGTTCCCAAGGCCCAGCCGGGGAGGGGCAGTCCCACACCTGTTCTGCGAAGAGGGCTGCGCGACTGTTGGTAGAACTCAGAACCCCCTCCACCCTGCCAGCTGGCTGCAGCCCAGGGCAACAGTCAAGGCAGCGCTGGTTAGAGCCTGTCCCAGCTGGGCCACCGGCAGGACCATCAGCCTTTGTCCCCAAGTCATCCTATATTCCTCATCACGGATTTGGACTCTGTACCCTACTGGAACTATTCTGTAGAGACAAAGCTGTATGTGCCACCTCAATACCTCTGCCACCAGCTGCCACCAGGAACGCCCACTGCCCAGTCCTGGGCTGCAGCCACATGGGAGCTCCAGGTGGATGTAGGAAAGGGGCTGCCAGGCTGACCTTGCCGGGCCAGAGCTGGCACCGTGGCTGTAAAGGTGTAGACCTCTTAATAAATTGAGAATTATTAATTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001086:ENSRNOT00000001445:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.143 A=NA C2=0.718
Domain overlap (PFAM):
C1:
PF072008=Mod_r=FE(18.0=100),PF101464=zf-C4H2=FE(12.2=100)
A:
NA
C2:
PF072008=Mod_r=PD(24.0=22.0),PF101464=zf-C4H2=PD(70.7=95.7)
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:
GGGGCCAAGATTGAGGAAGAC
R:
AAGCCTGTCCTGAGCCCAT
Band lengths:
358-1220
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]