RnoINT0163605 @ rn6
Intron Retention
Gene
ENSRNOG00000012001 | Vps37a
Description
VPS37A, ESCRT-I subunit [Source:RGD Symbol;Acc:1560016]
Coordinates
chr16:54860868-54862604:-
Coord C1 exon
chr16:54862524-54862604
Coord A exon
chr16:54861146-54862523
Coord C2 exon
chr16:54860868-54861145
Length
1378 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGT
5' ss Score
9.66
3' ss Seq
TGAAATTTTTTTCATTTCAGATT
3' ss Score
9.61
Exon sequences
Seq C1 exon
ATTTGCCACTGTAGAAGAGCTAAAGAAGAGAAGCTTCACCAGGTGATAGCCATGCACAGCCAGTTCCATGCTCCTCTCTAG
Seq A exon
GTAAGTGCTTATCTAGCTAGTATCTCAAGGCAATATATTGTACAAATATGCTTTACCTGAATAGCTCTTAATAGTGCCTGTTCACTGCTGTTAACATGATTCTATCATTATGTCATTGACTGTTAAAAATACTGACAGTTATATCCTAAACATTAACATGTAAGTAAGACTATATCAGTAGGTGCCTTTTAGCTATTTTCTCAGTGCTGCTGTATCCTTACCAAGAGTTTGCATTTCTCCTAAGGTTAGCTTACAGCCATGCTCTTCCTTCTACCATCATCTTCTCATCCATGATCTTCTAGCCCTCAAGGTCCTTTCCTTTTCCTCCCTACTGATTTTAGGAGTGTCTTGTTTATAGAAGAAAACCCTGCCCTGTATTCTCTTGCTATGATAAAATACCATGACCAAGGTATCTTATAGATAGAAGTTATTTGTGTTTGTGGTTGGTAAGGGAGAGTCCATAATGGTGAGGGAGGCTTAGCATCAGACAGCTGGAGCAGCAAGCTAAGAGATCACATCTTTAACCACAAACATAAAGCAGAAAGCAGACTATTAATACAGTGTGCTATGACCTCTCAAAGCCCACCCATAGTGACTTGACAAGCCAGACTGCACCACTTCCCAAGACAGCACCAGGTGATCAGCTATCAAGGACTGTTGGGGTACTTCTCTTTAAAACACCACAAACCCCAGAATCTTAAATAAGAGCTTGTTACGGAAGGAGAATACAGTTACTACAGAGTCAAAATAAGGGAAGTATAGTGCAGTTCCTGAGACATACTGGAAACTACTTAATAACCAAAACAAATCTTTCTCCGGCTGTTTCTCATATCTGCATCAAGTCTGATTTTTGTTTGTAGTGTTGGGATCAGACCCATTGCTTTCCATGTGTTCAACAAGCACTCTAAAACCGACCTACATCACCAGCCCTTTCCTTAGTCACCCATCAGCCACAGCAGCGGGCATGTACTGAGAGTCTTGAGTTGAAGTACAGATCCCTACCCTAGGAGAGATGGATGAATCACCCGCCTGCAGCCGTCCCGGCTGAAGGAGTACACTTCAAGGATGAGCATGGGGGTTCTTTTGAAAAGGGTGAGGTAATAGGCATTTCTTATCTCTAGTTTTTATTCTATTACAATCACTTCTGAATTGTGTTATATTTTAATTTCCAAGTTGAGCTAATTTTTATACTGTTTGTATTCACCCCCAGCCCAAGAAGTAGAAATAGATTATTGAAAGGGACACACTGAAATCTTTTCCTAACCCAGTTCCCTCCCAGTCAATATCGAGTTCCCTCCCAGTTATAATATCTAAACAGGAAGACAATATAAAGAAATGAGTATTTATAATCTTAAATTTGAAATTTTTTTCATTTCAG
Seq C2 exon
ATTTTCCTGAAAACATGAACTATCAAGAAAGAAATGTGACACAAACCTAAGCACATTATTTTCTATTTATGACTTAGGAATTGGCCTTTCATGACCATGGCTGACATCCAGATGCCTATAGAGTATATATGCACCTGAGACTGATTTTGTATAGATTAGAATGATTGCTATATTTGTTTTGAGAAAAGTTTCTGCACTATTTGCACTAAAGATGTTTATTGTTGACAAATCCTGTATTTAAGTTCCTCTGCTATTCCTGATTAAACATATATGCATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012001:ENSRNOT00000016321:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF072008=Mod_r=PD(7.3=40.7)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTTGCCACTGTAGAAGAGCT
R:
AATCAGGAATAGCAGAGGAACTT
Band lengths:
343-1721
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]