RnoINT0021017 @ rn6
Intron Retention
Gene
ENSRNOG00000005074 | Arl6ip6
Description
ADP ribosylation factor like GTPase 6 interacting protein 6 [Source:RGD Symbol;Acc:1564819]
Coordinates
chr3:38742072-38743683:+
Coord C1 exon
chr3:38742072-38742466
Coord A exon
chr3:38742467-38743629
Coord C2 exon
chr3:38743630-38743683
Length
1163 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTG
5' ss Score
8.56
3' ss Seq
ACCTCTCTTTGTGTTTACAGAAT
3' ss Score
10.28
Exon sequences
Seq C1 exon
CGCCATGTCCTTTGTGGAGAGTTGGAGGTCTGTAGGCCCGCGTAGGCGCCGTCAGGTTACCCCAGGCCCTGTCACTCGGTCTGTGTATTCCGACTACACTCAAGGGAATAGCTGGAGTGAGGACGGAGACGAGGGATGCGACCAAGTGGCCCGCGACTTGCGAGCAGAGTTCTCGGCCAGGGCGTCGTCGGAGTCCAAGAGGGCTCCGCTACTCCCACGGATCGGGGACGGGTCGCCGGTCCTGCCGGATAAGCGCAACGGCATCTTCCCGGCGACTGCGGCCAAGCGAACCCAGGCTCGGCGGTGGCCCATCCAAGCCCTTTCCATTCTTTGTTCGCTGCTGTTCGCCGTCCTCCTTGCTTTTCTCCTCGCCATCGCCTACCTGATCGTTAAAG
Seq A exon
GTACTGAGATCCAGGCCTTGAAAGGCTGTCCAGCATAAAGTCGAGCCAGTACATCACACGCCCCCATTCACACTTTCCTCCCAAAGCTTTCCCTCGAAACTGTTACGGTACTTTGTCGTCCCCCCCCCCCCCCTTTGTCTTCTCTCCTTAGATGGGCGACCCTGCTCCATAATGAGTGTAGAAAAGATCCACACTCTTAAATGCTGTAAAGGCATTGAATCCTTGAGTTGAAACATAAGTACGGCTTATGTTAATCAGAGCCCCTTTTAAAAGGATCAAAAAGTGTATGTAACAAAAATAGGCTGTTGATGTTCTAAGGCTGAGGTTTAGAGACGTGCTGTGTATACGCTTTTCTCTGATCCTAGATACATTGAAGGACAAGGATTTCTCCCCCTCATCCCGGGTTTCTACTTTTATAGGCAAATGGTTTTTCTTTGTAACCAAGTAGAGTTATTTCAGGACAGTCTGTTCTATATACTACTTAGTCAGAAATTGGCATATGTTGTCCAAGTAGGAATGTTCTGAAAGACGCTCTTCCCTTTACCCCATTGGGATTTGTTGTATGGTTTAGTATTTTTTGAAGTGGAAAGAGATTTGAATTTAGTTAGTGTTGCTTTTGCCAGTTCTTGAGAAACTGAAACATGAAAGCAGTATCTTGTATTAAAAGGATTCAACGCTTTGTGATTCTCCTGTTACCTTTACGAATTAAACTTTAATCTCTCATTTTCCCCACCCCCTAATGGGCTGCAGGTGGCCCTTGAACAGTTTTTTTTTTTTCTCTCACTTCAACCACGATAGATTTGTTGTGCACTTAGTTTATTTTTCTTTTACAATAAAGTTATATGTCCATAAGTAGAAGTTCATTTCAGAGGACATTGGTATTTTGGAGAATTGAGTAAAGAACTGAATTCAAATTCTGTTATGCCCTTAAGTTTCTTTGTACAAATTGTCTTCAACACACCTAGGAGACTATTCTCATGTTTATGGAAATCGGCTCTTGTAGAGGTAGTTGCTTGAAGGTAACTGAGGTGGTAAATCAGAAATTTAACTTAGCTCTGACTTCAGGGTACTTTTGACAACTGAACAGTATCTTTGCTGACTTTGGATATTCATGTCAGGAAGGAACACTACTCTTCTACCTAAACCTCTCTTTGTGTTTACAG
Seq C2 exon
AATTGCATACAGAAAACTCGAAAAATGAAGATGTCGTAGATACGGGGCTGTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005074:ENSRNOT00000006774:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.156 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF150621=ARL6IP6=PU(18.2=73.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTGTCACTCGGTCTGTGTA
R:
TCATTTTTCGAGTTTTCTGTATGCA
Band lengths:
357-1520
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]