RnoINT0021513 @ rn6
Intron Retention
Gene
ENSRNOG00000001888 | Arvcf
Description
ARVCF, delta catenin family member [Source:RGD Symbol;Acc:1306655]
Coordinates
chr11:86740715-86742352:-
Coord C1 exon
chr11:86742181-86742352
Coord A exon
chr11:86740787-86742180
Coord C2 exon
chr11:86740715-86740786
Length
1394 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
GTGCCACCCTTCCGTTCCAGGGA
3' ss Score
9.76
Exon sequences
Seq C1 exon
TCAGTAGAGAACTGTGTGTGCATCATGCGGAACCTGTCCTACCACGTGCACAAGGAAGTTCCAGGGGCTGACAGGTACCAGGAGGTGGAGCCTGGGATCCCGGGCAGTGCTGCAACCTCCCAGCGTCGGAGGAAGGATGACGCCAGCTGCTTTGGTGGCAAGAAAGCGAAAG
Seq A exon
GTGGGTGGGTGAGGCTGAGATGTGTGTCTTTCCCACCACTTCCAGGGCTCAGGGCTCTCTATGTCCATGGCAGTGGTCCTGGAGTGCTGAAGTCAGTCCCCGTGGGCATACAGCAAGTGGGAAAGGTGCAGACTCAAGGCCTAGCCTTAGCCCTTTCCTGTGGGCCATGGATGCTAGTCACATCTGTCTACTCTGGGGAAGGATTCCGAGGGCCCACAAATGACACCACCTGACTGCCACAGAGCAGACTGGAAAGCACAGCCCTTTCCTTCACCTGGCCAGGTACCCTCAGCACTTGCAGGGTACAGGTTCAGGTACCTGCATCCCCCAGCTGCAGCAGTGGGACAGGTGCGCTGCATTCTCTTGTCCTGACCATAAGTCTTCCCTGTGCCTTATGGGTACTGAGTCCCCAGAGTTCCCGAGTGAGGTTGACAGTCTGCCAGCTTGGCCCTCGCATGGGTGGGAGTAGGAGTCATGGGAGGGTGCTGCTGCTGCTCAGGCTCATCTCCTCTCTCCTGTGCTTCTTCCGGCCGCCCAGAGGAGTGGTTCCATCAAGGTGAGTCCCTGTTCTGCTGTCCAGGTCTGGCAAGTGCTGTCCAGGTCTGGCAAGTGCTGTCCAGGTCTGGCAAGTGCAGTGGGCAGCAGAGTAACTCTGTTACCTAGGCTCAGGCAGTTATTTCCATGACAACTATGGGACAGCTGGGATGCCTTCCAGCCTTCAGGCCCTGCCCCACCCCCGTCCCCTGGAAGGGCAGCCATCTCCATGACAACTGCATAGCTGTGACAGAGGCTGGAATGTAGCCCTGGGCTGGTGGGGAGGCCCAGGGGCTGCTGCTTACAAAGTCAGAACAAGCTACCAAGCCAGCCCTGGGACAGAGCAAACAGTGGGCAGGGCCTAGAGAGTGGCCAGCACAGGGACCATCTGCCCCTCTGATGAAATGGGTGATGTGCAGCACAGAAGTACACAGGGTAAGCAGGGCAGGAGCACCAGGTCATCTGCAATGGTTTGCTGCCTGCTAGAGCTTCCTCAGCTGAAGAAGGGCCTGCAAGTACAAACTGGCTGCTGTAGGTTGGTCCACGATTGGTCCCCAAGGGGAAGTTTTCCCCTTGGATGTAAATTTTAGGCCCAGCCTTGTTGCACTGTTTCTGGCATGCTGCATTACTGTCCCTGATGAGAGGGAGGCTTAGGTACTCGGGACATGGTTAGGCTGTACCTCTGCTCCACTGCCACCCCTGTCCTGAGCCAGCCTGACTCCTCTGCGGGACGGTACATCTCTGTCGTGGTGTCTTAGTGTCCCCTTTGGGCTCTGAGCAGGAGAGGACTGTACCTGACTCTTGGTACACACTTGTCTGTCGTGGACTCTGCTTCTCAATGTGCCACCCTTCCGTTCCAG
Seq C2 exon
GGAAGAAGGATGCAGAGGCCGACCGGAACTTTGACACATTGGACCTGCCCAAACGTACTGAAGCTGCGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001888:ENSRNOT00000044635:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.445 A=NA C2=0.327
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF136461=HEAT_2=PU(13.8=52.0)
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:
GAGAACTGTGTGTGCATCATGC
R:
CTTTCGCAGCTTCAGTACGTT
Band lengths:
238-1632
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]