RnoINT0020993 @ rn6
Intron Retention
Gene
ENSRNOG00000036880 | Arl5c
Description
ADP-ribosylation factor like GTPase 5C [Source:RGD Symbol;Acc:1563128]
Coordinates
chr10:85945557-85947137:-
Coord C1 exon
chr10:85947077-85947137
Coord A exon
chr10:85945705-85947076
Coord C2 exon
chr10:85945557-85945704
Length
1372 bp
Sequences
Splice sites
5' ss Seq
GTTGTAAGT
5' ss Score
8.3
3' ss Seq
ACCTTCTCTTGCCTCCCTAGTCT
3' ss Score
10.45
Exon sequences
Seq C1 exon
AGCACAAAGTCATCATCGTGGGACTGGACAATGCAGGAAAGACCACCATTCTCTACCAGTT
Seq A exon
GTAAGTAATTACTGAGGGGGGGGGGGGAACAGAGGGCTGGGCCTCACATCAGACTGATAGTCATTTGCACCAATCACCAGAGCCCTTCCCTGGGTTAGTGGGTAGCAGTAGACAAGAAAAGTGATGGGAGGATGGTGGTGTGACCTTTCTGATTTAGTGGCTGCCGGCCGGGATTTGAATCCTGCCAGCTACGGGCGACCTCAGGTCCCACGAGATCCCGCCAAACACATTTCAGTCCTGGCAGGTGTGGAATGCGTGGCGGCTTCTCGCCTCACTGCTCTTGGCTCCCCCTGGCGGCAGGACCCTTTGTTCTCACGCTTGCCTTTACACCGGGTTAAACCCCAGCCAGGGCAAACCAGAAGCTCTGCTCTATGTACACGCTGTGCGAACAGGCCACCTTCGCTTTCCTAGTCGTTTGCTCCGGATGGAGTCTTTCCTGATGTGGAGACTCTATTGAGAGCTCCCTGCGAAAGGAATATATGTAAGATTAATTAATTAATTAATTAATTAAATTATATTAGAAAAGAAAGGTCTGGAGGTGTTGGTCAACGGTAGAGTGCTTGCCTAGAATTCTTGAGACGCTAGATTCCTGACATTGTAACGTTAGAAAAAAATTAAAACAGTACAAAGATTTCACTCTCAAACTTCCTTCCGTATAACTTCTTGGTAAGCTTCCATAAAACAAGCTTAGGCATTGTGGCCCTTGCTTGTAATCACAGCACTCTGAAGGTTAAGGCAGGAGGATCTCATATTTGACGTCATAGTCACACATACACACACACACACACACACACACACACACACACACACACACACACACACCCCAAACACATAAAACAAAACATAAACAAAACCCAAGGAAACCAAACCAAAATACCCCAAACTGACAACAAACAAAATTTTTCTTTTTTTTTTTTTCTGTCCTTAAACCAGGAACAGAAAAAAAAAAAAAAACCAAAAAAAAAAAAAAAAAAACAAAATGTCTGATGGCCTTGCGGGGATCTGTCTGTTTTTTTCACAGCTCCTAAAATTCCAGTGTGGTCCACAGAACTCATTAGCACTGCAAACCACCAGGCCTCAGAATCATAAGCTGCATCTAGACAAGACTCCCAGGTCTTTCTGCCAAGTCTGAGGATTTAGGGTTGTTCTAAGGAGCCTCTCTTCATTGGGGTCCCAGGCCAGGCCACACTCGGACTAACTTGTATCTTTCTTTCCCCAAACCAATCACAGGATGTGTCTGGGCCTTGGTTAGTGCTTGGTCACCCCGAGTTGAGTTGTTCTGGGCTGGACTCAGCTTCTTTGGGAGTAGAGAGGGAGTCTGAGCTGGGAGTGAGCTGGGCAAAGACCATAGAACCTTCTCTTGCCTCCCTAG
Seq C2 exon
TCTGACCAACGAGGTTGTTCATACCTGTTCCACCATTGGTAGCAACGTGGAAGAAATTGTTTTTCAGAGGACCCACTTCCTCATGTGGGACCTAGGAGGTCAGGAGGCACTGCGCTCCACCTGGGAGACATACTACTCGAATGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000036880:ENSRNOT00000037318:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.286 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0002516=Arf=FE(11.4=100)
A:
NA
C2:
PF0002516=Arf=FE(27.8=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:
AGCACAAAGTCATCATCGTGGG
R:
AGCATTCGAGTAGTATGTCTCCCA
Band lengths:
206-1578
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]