RnoINT0163620 @ rn6
Intron Retention
Gene
ENSRNOG00000048699 | Vps37d
Description
VPS37D, ESCRT-I subunit [Source:RGD Symbol;Acc:1587769]
Coordinates
chr12:24655195-24656793:+
Coord C1 exon
chr12:24655195-24655277
Coord A exon
chr12:24655278-24655689
Coord C2 exon
chr12:24655690-24656793
Length
412 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CCCTCCTGGACGCTACCCAGGTC
3' ss Score
4.65
Exon sequences
Seq C1 exon
AGAAGAGCATGCATCGCTGGAGCCCCCAATGTGCGCTGGGCTGGCTGCAGGCTGAGCTGGAGGAGGCTGAGCAGGAGGCTGAG
Seq A exon
GTGAGGGGCAGAGGTGGCTGGGCCCAGGTGAACAGGGAGGGAAACCGTCTTGTCTCATTGGGGTCTTCTCCAAGAAGCTCTCCATGATTACCTACAGAACTTTCTGGACTCTGCCCGGGACAGCAGACTTTGATGTCCTAGGGTGTCTACTGACATTGGAGGGCAGGGTCGGCAGAGTGTAAGGCCCATTTCTCTGGGCTGGGTTGGGAACAGATACTAAAGTGTGTTGATAGGTACGGGACAGCCCTCATTGCGGAAATAAACCGGACATCTGTCCAGTCTGGGTAACCCAGAGGCTGGGCCAGGTCGGAAGCTCAGGGCCTCTGCTGGCTGGTCACCGTGGGGAAGAAGGAGTCAGGCTCTGATCAGATTGCCTCCCCAACTCTCCCTTTCCCTCCTGGACGCTACCCAG
Seq C2 exon
GTCCAGATGGAGCAGCTGCTGCTGGGGGAACAGAGTCTGGAGGCCTTCCTGCCAGCCTTCCAGAGGGGCCGTGCCCTGGCCCACCTGAGGCGGACACAGGCAGAGAAACTACAGGAAGTGCTGAGGCGTCGAGAGCGCTCTGCCCAGCCGGCCCCCACCACTGCTGCTGCAGCTGCTGCTGCCGCCACCGCCATGGATCCCCCCAAACCCTTCCCTGCTGCTGCCGTCCTGCCCACTGGGGCCGCCCGGGGACCACCTCCAGCAGTACCCCGGAGCCTGCCCCCCTTGGACTCCCGCCCAGTGCCCCCAGTGAAGGGCTCCCCCGGGTGCCCTTTTGGCCCAGCCCCTTTGCTGAGCCCTCGACCCTCTCAACCTGAACCCCCTCATCGGTAGGAGCCAGGGTGCGCCCTCCCAGCGGGGGTCCAGACAAACTTGATTCATGGCTCCTCCTCCTCCCCCACTGCCTGGGTGGGGGGAGGGGCAGGCCCCTCCCCCTAGCCTCAGGCAGGCCCAGGGCCCTGGAGGCTGAGCTGGGGAAGAGGGGCTCCCCGAAGAGGCCCGTAGAGGGCTGGGGGTGGGGTGGGCAGGGTGCTGGACTTCGGTCACCAAGGAAACTCTGCCTTTTTATTTTATTTTTTCGTCTCCCCGGCTGGGGCCTCCAGGGTGCCAAGCCAGGTCCTCAAATGAAAAAGAACTTTATGGGGTCCTGCTTCCTCCAGGGGAGTCTTGCTTGGGGGCCTGTCGCACCCTGCCACACTACTGGGCTCGAACAACCGCCAAGGCTAACTGGATTGTTCTCCTCATATCCTGAGCTAACCAACCCTTCCTGCAGTTTGAGGGCCCTCCGCCTAGGAGCCGGGTGGTCATGCCCCAGCTGCGGGCCCAGGGACACCCCCAATGGCCTTGCACCTGGCCCTGGGGCAAGGTAGGACAGAGGCCTCTTGACCTGCACAGGTGAGAGCCTGCCACCCCCAGGAAAGACCATTCTGTATTTTTCTGTCCCTGTCTCCTTAGAATGGAACCTTTTTGAGGGCAGGTCCTTGTCTTTGTATGTTCTGTCCCCAGCCCCGCCTCCTAGGGGCTGTCAATAAATGTGCTGATGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000048699:ENSRNOT00000071569:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.812
Domain overlap (PFAM):
C1:
PF072008=Mod_r=FE(18.0=100)
A:
NA
C2:
PF072008=Mod_r=PD(12.1=3.1),PF072008=Mod_r=PD(94.7=27.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGAGCATGCATCGCTGGAG
R:
GTACTGCTGGAGGTGGTCCC
Band lengths:
350-762
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]