RnoINT0163606 @ rn6
Intron Retention
Gene
ENSRNOG00000012001 | Vps37a
Description
VPS37A, ESCRT-I subunit [Source:RGD Symbol;Acc:1560016]
Coordinates
chr16:54876015-54877590:-
Coord C1 exon
chr16:54877516-54877590
Coord A exon
chr16:54876130-54877515
Coord C2 exon
chr16:54876015-54876129
Length
1386 bp
Sequences
Splice sites
5' ss Seq
CATGTACGT
5' ss Score
6.32
3' ss Seq
TTATGTTATTCCTTTTCTAGATT
3' ss Score
10
Exon sequences
Seq C1 exon
TATAGCTGAAATACAAAAGGATGTGGAATACAGATTGCCATTCACAGTAAACAACCTGACAATTAACATTAACAT
Seq A exon
GTACGTAGCATGGCTTTCTATTTCTATATATAGGTTTTCACTTTTGCTTTCTATCTTAGCAGCCTGAAAGTATTAGTGTGGGAATAGAATTGTAATTTATACTTCATGTAATAGGAACTAGGTTTTTTTTTTGTTGTTTTGTCTTTTACTTAATAATCAGAAATAAGCTGTTTAAGTGGACTCATTCAAAGGAACTGTAACACAAACTAGTGCTTCGCTGAGTGAAATAACAGCTGTCGTGGCTCATTGCTAACACATGGGCATGGGACGCCTTCCTCAGTGTTCTTGGAACAAGCCGAAGAGCGGACAGATAGTGCTGGGAAAAAACTTCCCAAGTATGAGCTGTACGAACCTGTATAGTAGCTTACACACTAGGATAGATTACAGACACATAAACATAAAAAGTGACAGCAGACACATACGCAGGTTAGTTGGCTCCAAAGACCACATATTGCCTCTTTTACAAGACTATTTTAAAAATCTTTAGCTATAAAAAAACAGACAAAACAAACAAAACTACCTATATAAATAAATTCATTTTATTTCTCTTAACTAGTGTCCAGGTTTGAAGAGGCCAACAAAATCGTAGTTTTGTTTTTTGGGTTTTTTTGTTGTTGCTGTTGTTTTTTTTGTTTTTTTGTTTTTTGTTTTTTTTTTTTGATAATGCTGTCAACAAGTAATTTTCTTGCAATATGTAAGCAGAGAAGTTTAAAAGGAAATATCCTGAGTGTTCAAAACTTGAAAAACAGTTCTTTATTTAACAAACTTCTATTAAAGTGTTTCATAAACTAACTTTAATTTTGTAGTGCTTAAAACAGTTTGAAGTTTTCACTTTTCTGAATTAAGAACTCTTTGATCTTCAAAGTACATGATTTTACCTCAGAGTGAGGGGAGATGTTATTGCAGCATTTAAGAGCGACCTAAATGAAGGCTCAGCGATAAGTTTAACACACACACACACACACACACACACACACACACACACACACACACACAGATAGCCATATTCTAAATAACCAGATGGGGTTTTGCATAATTTGCTTGCTACAAGGTACAACCTAGTTTTTAGCTGAGATTTTATTTATTAAATTATATTATCTTTAAAATCAATTCACTGACATGCTATAAAGGCTATTCTGTAATACATGATGTCTATATTCTACATTAAAAAGAATCTATTGTATTGAGTATCTTATTGCCAAAATGTAACCTTTTGTATATTTTCAATCTGCTCAAAAATCTATACTAAGGCACTTCTTACAAAAGAATTAATGCATATTAGTCAATGTGAAGGTTTAATTTGCTTTTAAATAACTTTGTTTTAGGATTATGGTCACATGTAATTTTTTTATTTGTTTATGTTTTCTTATGTTATTCCTTTTCTAG
Seq C2 exon
ATTACTTCCTCCACAGTTTCCTCAGGAAAAACCAGTGATTAGTGTTTATCCACCAATAAGACATCACTTAATGGATAGTCAAGGATTATATGTTACCTCTCCATTAGTAAGCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012001:ENSRNOT00000016321:2
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:
PF057438=UEV=PU(24.1=76.9)
A:
NA
C2:
PF057438=UEV=FE(45.8=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:
TATAGCTGAAATACAAAAGGATGTGG
R:
ATTGCTTACTAATGGAGAGGTAACA
Band lengths:
190-1576
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]