RnoINT0021510 @ rn6
Intron Retention
Gene
ENSRNOG00000001888 | Arvcf
Description
ARVCF, delta catenin family member [Source:RGD Symbol;Acc:1306655]
Coordinates
chr11:86743211-86744536:-
Coord C1 exon
chr11:86744037-86744536
Coord A exon
chr11:86743395-86744036
Coord C2 exon
chr11:86743211-86743394
Length
642 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TGACTAGAGGCACATTACAGGCA
3' ss Score
-4.97
Exon sequences
Seq C1 exon
GGCCTTGGAAGACACCGCAGATGACACTGGTGAGCTGGTAGAAGAGCGGCCCCCGTTCCCAGCCGCAACAGCCCCTCTAGCCCAGCCTGAGAGGGGCAGCCTGGGCAGCTTGGACCGAGTAGTGCGGCGCTCACCCTCAGTAGACAGCACCCGCAAGGAGCCGCGCTGGAGGGACCCTGAGCTGCCCGAGGTGCTGGCCATGCTGCGGCACCCCGTGGACCCTGTGAAAGCCAACGCCGCAGCCTACCTGCAGCACCTCTGCTTTGAGAACGAGGGCATCAAGCGTCGGGTGCGGCAGCTGCGTGGGCTGCCCCTACTCGTGGCGTTACTAGATCACCCTCGGGCTGAGGTGCGCCGCCGGGCCTGCGGGGCACTGCGCAACCTCTCCTATGGCCGCGATGCCGACAACAAGGCTGCCATCCGGGACTGCGGGGGCGTGCCAGCCCTGGTGCGCCTGCTGCGGGCTGCCCGTGACAATGAGGTCCGTGAGCTGGTCACTG
Seq A exon
GTGAGTGGGCCCTGGCCGTGGCTGACATGAACATGGCTCAGTCGGAAGTTGGGAGAACAGGAGTGTAGTAGGCCCATGTGCTGGGATGGGTCCCCAACTCTCGCAACCGTAGAGTTGCTGGCACCAGACCCTGCCTCCCTGGTTCCTAACCTGTGCAAATGCCGGGGTAGAGCTTGTGCCTTGGAGAACTTGGGAGCCACAGGACGGTCTCTCCATGGTCCTGTGGTCTCAGGAGCATGTGCCAGTCCATCTACTCGAGTAGCAGGGAATGGATGGGATAAACTATCACTGGTCACACCTCTCCTATAACTTTTCCTTGTTAGCGGAAAGCTCCTACTAAGTGCTGCCTATACACCTTGCTGTATGGGGTCCAGAACCTCTTACAGCTTTCAGTGCTCCTTATGTGAACGGAGTGTCACTCAGTGGAACTGCTTGCCTAACATGTGCAAAGGTGCCATCTTTGGGACAACTTCCCAACCCCGACCTCACCCCTACCCCTCACAAAAACAGCAGCAATTATGCTAGCTTCGAGTGCTGGCTGGAAGACAAGGACGTTAAGCAGAAGCAGATCCTAAGTGTCATCCCTGGGGAGGCCGAGGCAGTGGGTCATGGCCAACATTATTGACTAGAGGCACATTACAG
Seq C2 exon
GCACACTCTGGAACCTGTCATCCTACGAGCCCCTGAAGATGGTCATCATTGACCACGGCTTACAGACTCTGACCCATGAGGTCATCGTGCCCCATTCTGGCTGGGAGCGAGAGCCTAATGAAGACTCGAAGCCCCGGGATGCCGAGTGGACGACAGTCTTTAAGAACACATCAGGCTGCCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001888:ENSRNOT00000044635:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.405 A=NA C2=0.306
Domain overlap (PFAM):
C1:
PF0051418=Arm=WD(100=24.4),PF0051418=Arm=PU(81.0=20.2)
A:
NA
C2:
PF0051418=Arm=PD(16.7=11.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGAGAACGAGGGCATCAAGC
R:
TCATTAGGCTCTCGCTCCCAG
Band lengths:
358-1000
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]