RnoINT0020988 @ rn6
Intron Retention
Gene
ENSRNOG00000018714 | Arl5b
Description
ADP-ribosylation factor like GTPase 5B [Source:RGD Symbol;Acc:1305569]
Coordinates
chr17:82079045-82080727:+
Coord C1 exon
chr17:82079045-82079105
Coord A exon
chr17:82079106-82080579
Coord C2 exon
chr17:82080580-82080727
Length
1474 bp
Sequences
Splice sites
5' ss Seq
ATTGTAAGT
5' ss Score
8.54
3' ss Seq
TCAATGGTGTCTTTCAACAGCTT
3' ss Score
7.84
Exon sequences
Seq C1 exon
AGCACAAAGTAATCATTGTGGGACTGGACAACGCGGGGAAAACCACCATTCTTTATCAATT
Seq A exon
GTAAGTATCCGTGTCTGCTTATTAGCTCTCGAAAAACTTGGTTTTTATAAGTTATAACATGCCACTCCTACCGATCTTAATAATCAGTAGACTTAAACATGTAACTTTTCTATTTTACCAAATAAAAAAGGTAAAATAAGATGTCGTTTGCTCACTGAAGACTCCTCCACGTCCTAGCCTTCTGACTCGGAAAGGAAAAATGGACTTTTATATTAAACTAAAACAAGGTAGAGATGCTCCTGGGTGAGGTGACGAAGTGACTTCCCACAGGAGCCCACAGAGGGCCGGTACTGAAAGCCACGTTCCCTAACAGCTTTCGGATTGTTTAACAGATCCAGACTTGTCTAAAGTGGTGCGGTCAAAAAGCTGCTGTAGAGCTTTCAAAACTGAGAAGCTTGAAATCCTCAGAGATACATTAAAGCTCATCTTCAGTAAATGTTAACACCCCAAGAATCCAGGGTAGACGGAGTTCCCGTTATCCTCTCAGAGCCAGAGAAATGTTAAACTGTGGGAGTGGGTTCATATACCCAGAGCAATTTAACAGCTATTCACACAGAACTTGGCACCATCCTATGAAACCTACTCCTCCCTTCCTGCATTTAAAGCCCACCAGTTTAGGGCCTGCGTTATAGCTCAGAGGAGCAATTCCCCATTATGCAGGAATCTCTGGGCACAATTTCTAGCTCTGCAAAAGAAGGGGGTGGAAACTTTAGTTCCACTGTGGCAGGCTCCTCGTGTTACTGTTTCAGAGTTGAATCATTACTTTTCTTTATTATCTTTCCATTGATTAGCTAAAATACATGTTAACTCATTTAGTCTTTAATATAAAGCTTAAATATCTCTGATAACTGTACACAGTGTCAAACACATAGTATAAAACTCAAGAGAAAACTGTCTTCAAATACATGTTATCATGGAATGCTATCAGCAAACGTGTATATTGAGTAAAATAATATAACTTAAGCAATCAAAAAGATAAAACAAGTGATGTGAGAGTCAGTATTCTAAATACAATTCATTTTAAGTCAAATTTCTATTGCACGTGGCCTTTAAGACTACAGGTTAGTGTGCCTAACCTACCTGGACCTCCATCGAAACGGTGAGAGAACACTGCTTAGCTGTTGCTACTCTGCACATATCGTGGTCCCAGCTTTCCAGAAGTTGGTCTTCCAGGGTGGAACATTGGTCTTCATCCGACTGACTCAATAACTGGACGTGCAAGTCCATATGACAGTGTCCCATCTCTGTCAGGCCTGCGGTTCATCCCATATCCCATGGAACAGCAGAAAACAGCCTTCAGGAATTGCTGTTTCCGTCTCTAAGTGCACAGAAAAGTCTCTAGACTTCTCTTTCTCGTGTTAATGGTTATTGTGATTGGTACAATTGAGGAAGGTTGACTTCTCTTAAAAACAGAGCAAACGTGCTTGGGGTTCTTAAGATTTACAAAAGAGTTTTCAATGGTGTCTTTCAACAG
Seq C2 exon
CTTAATGAATGAAGTAGTTCATACTTCTCCAACCATAGGAAGCAATGTTGAAGAAATAGTTGTGAAGAACACTCATTTTCTTATGTGGGACATCGGTGGTCAGGAGTCTCTGAGGTCATCCTGGAACACCTATTACTCAAACACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018714:ENSRNOT00000051349:2
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:
PF0002516=Arf=FE(11.4=100),PF128032=G-7-MTase=FE(32.8=100)
A:
NA
C2:
PF0002516=Arf=FE(27.8=100),PF128032=G-7-MTase=PD(45.9=56.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCACAAAGTAATCATTGTGGGACT
R:
TGTGTTTGAGTAATAGGTGTTCCAGG
Band lengths:
206-1680
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]