RnoINT0021505 @ rn6
Intron Retention
Gene
ENSRNOG00000001888 | Arvcf
Description
ARVCF, delta catenin family member [Source:RGD Symbol;Acc:1306655]
Coordinates
chr11:86736142-86737882:-
Coord C1 exon
chr11:86737797-86737882
Coord A exon
chr11:86736869-86737796
Coord C2 exon
chr11:86736142-86736868
Length
928 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
GTCTTTGTCTCTCTTTGCAGGGC
3' ss Score
13.38
Exon sequences
Seq C1 exon
ATGGCTACAGCACAGTTGACCGGAGGGAGAGGAGGACACTGGGCAGCGACTCCATAGGCGACTCCTCTGAGAAGGAACTACTGAAA
Seq A exon
GTGAGTGACAAGAAGCAAGTACCCAGGGAGGCTTGACGTCTAGGGCTTGTCAAGAGGATAGCCAGGTAGTACTGAGTATGACGAGGATTTGGGGACACGGCTGGAGTGGCACTCAGTTGCAGGGCCCAGGAAGTAACTCATACACACATCAATCAGACTTCAGCTGAGGGGTCTGGTGCCTGCACCTGCCGCAAAGGAGTGGACAGGGGCGGCTCTGCCTGGCTACAGGCTGCATAGGCCCAGAGGGTGAGCAAACACATTTGTGCCCTTCTCTTACATGTGTATGGGCAGCCTGTCTACTGTGGTCCCCTGGAAAAGGCAGCATATGCCACCTGTGTGCCAGTATCCTGGCTTCATGTACCAGCCTCTGGGTTTATCTGTGTTGTGCCACCCCATACTATTGTGAACCATAACCAATCCCAGAGCTTGGCCTCCTTGTACACGCCAACCAGCCTAAACCAGCCTAGCCTACCCTTCACTGCAGTTAACCTGCTTTTTTTTTTCTGCTTCTAACTCCTATCTGCCCACCTACCATGCACTGCAGCCGGACCTTGGCAGGAAGGCCCCTCCGCCTGGGCCCAGCAGGCCCTCGGTCAGGCTGGTGGACGCCGTGGGTGACGCTAAGCCTCAGCCTGTTGACTCCTGGGTCTAGCTTGCATGCCTGGTACGTTCCTTCCTGTTTGCCTGTCCTTGGACTAGGGCTCCTTGTTCATCTCTGCTTGCTGCATTCCTGAGCTGCCCGTGAGGCAGGACTGGCTCTGGTGTTGAGGGTCTTGGCATGGCCCGTCCTGCAGCCCACAGTTGCCACTTCTGTGTGGCCTGTCGAGGCAGCTGCCCTGTATGGAGGTCCCAAGTCATCTTGCTACATGTTTCTGGCTCTTAGCTATGGGCTCCAGACTAAAGCAACTGTCTTTGTCTCTCTTTGCAG
Seq C2 exon
GGCCCTGGCCCAGCTGTTTGTTCTTCGGATCACATGGAGGTAATTGGAAGAGGGCCGTCTGGAACAGACCCAGTCTTGGGGCCAGGAGCCCCACCCTTCTGTGTTGGGTTGGCCAAGCCTCTTGTCTACCTTGCCCTGCCCTCCTCTCTACTCTCCTGATCTAACTCTCCAGGTCCGAGTTAGCTATTTACTGACATGGTGCTGTGTGGTAGGAGAGGAGGTTGGGGGGAGGTCCCCTGCACAGCCACAGAGGAGCAAATACCAGCCTGGAGTGGAGGCCTTGGAGCAGGCAAAGGGACAAGTAGGGGGTCTTGGAAAAGAACTTGGGCTCCCAAGGGTGGCTGGAGGACTACCCTGCATGCCGGCTGGCCACAGTGAGGGCTGCTCCAAGAGTCCAGACAGGGAAGTTTAGGAGGCGGCTGGTTTGGGGGTGGGAGCAAGCTGTGCTTGTCCCCGGCGCCCCCGTCCTTGGATTCCCGGAACACCTTCCATCTGCAGCACACTTCTCCTAAGCTGCCTGTGGCTGGGGCCTCCCTAGCTGTTGCATCTGCCTAGAACCTCAAGTAACCTCGGGGCCTGACTGCCGGCAGCAGCGGGGGGAACTGCTGTTCAGTGCCTGCTGTTTGTGACTTAAAAATGAAGAAAACTGACAAAATGCATTAAAAACGAAACCAAAATGAGACTGTATCAACAAACATTGAAATTTTTCTAAGAAAATTTAAAGATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001888:ENSRNOT00000044635:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.577
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCGACTCCTCTGAGAAGGAA
R:
CAAGACCCCCTACTTGTCCCT
Band lengths:
344-1272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]