RnoINT0020994 @ rn6
Intron Retention
Gene
ENSRNOG00000036880 | Arl5c
Description
ADP-ribosylation factor like GTPase 5C [Source:RGD Symbol;Acc:1563128]
Coordinates
chr10:85944750-85945704:-
Coord C1 exon
chr10:85945557-85945704
Coord A exon
chr10:85944834-85945556
Coord C2 exon
chr10:85944750-85944833
Length
723 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
CATCTCAACCTGCTGGACAGTTT
3' ss Score
3.72
Exon sequences
Seq C1 exon
TCTGACCAACGAGGTTGTTCATACCTGTTCCACCATTGGTAGCAACGTGGAAGAAATTGTTTTTCAGAGGACCCACTTCCTCATGTGGGACCTAGGAGGTCAGGAGGCACTGCGCTCCACCTGGGAGACATACTACTCGAATGCTGAG
Seq A exon
GTAAGGGGGGAACCAGATCTGGGAGGTCAAAGAGGTGGCTGGGCATTAGCCTGTTAGTCACCTGCCGTTTCTCTGAGCCTTCGGCCACCTGGGACATGGCAGTCACATCAGCCGAGAGGAAAGATAATACATGCTGTGTCAAATAACACAGTGTAGCATCTGGGAAGACTTTTAAAATATTTATTTGTTTGTTTGTTTGTTTATTTTATGTATATAAGTCCACTGTCACTGTCTTCAGACACACCAGAAGAGGGCATCAGATCCCATTACAGATGGTTGTGATGCTGGGAATTGAACTCATGACCTCTGGAAGAGTAGCCGGTGCTCTTAATCTCTGAACCATCTCTCCAACCCAAGACTTTTGAATCCTAAAAACAAAAGATAAAAGAAATAAAAATTTAAATATATAAATATGAAAAGGAGAAAGATTTCCTAAGATGATACATGTGATGTTTCATGCCTATAATCCCAACACTTGGGGGACTGAGACAGGAAGCCCATAAACCCCACACTAGTCTAGGTTACATCCTAGAATTTTTGTCTCCAAAGAATAAAATATAAGGTGGTTAAAAATGGGCCCAGCCTGGTGAGTGGTGGATTGTACAGGTCCTTTCCCATGGGGCTGGCACCTGCCAGGGCAGAGGCCAGTGATCAGAACCATCAGTAGGAAGCATTGTTCACCAAACAGAAAGCTTGCAGCTCACATCTCAACCTGCTGGACAG
Seq C2 exon
TTTGTCATCCTTGTGATAGATAGTACTGACCGGAATCGGCTGTCGACCTCCCGGGAGGAGCTGTATAAGATCCTGGCCCATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000036880:ENSRNOT00000037318:3
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:
PF0002516=Arf=FE(27.8=100)
A:
NA
C2:
PF0002516=Arf=FE(15.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAACGAGGTTGTTCATACCTGT
R:
TGGGCCAGGATCTTATACAGCT
Band lengths:
223-946
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]