RnoINT0077310 @ rn6
Intron Retention
Gene
ENSRNOG00000015380 | Jup
Description
junction plakoglobin [Source:RGD Symbol;Acc:620412]
Coordinates
chr10:88280519-88282235:-
Coord C1 exon
chr10:88282066-88282235
Coord A exon
chr10:88281309-88282065
Coord C2 exon
chr10:88280519-88281308
Length
757 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGG
5' ss Score
5.2
3' ss Seq
TGTGTCCACATGCCCCACAGGAG
3' ss Score
8.55
Exon sequences
Seq C1 exon
ACATGGATGCAACCTACCGCCCCATGTACTCCAGCGATGTGCCTCTGGACCCCCTGGATATGCACATGGACATGGATGGCGACTACCCCATGGACACCTACAGCGACGGCCTGAGACCTCCCTACCCCGCTGCAGACCACATGCTGGCCTAGCTGGCTCCACCTCACTCA
Seq A exon
GTAAGGCCCCTTTCTGTCTTGCCGGCCTTGCCCTCTGCCTGTAGCTGTGGTTACAGTGGCACTTCCTTTTTTCTCTGGCCTGGTGGGGACCTCTCGGTCCTGGGCTATAAACCCTGGCTCATTTGGGGGCGGGGAAGGAGTGTGGCAGTCCTGTGCTTTTTGGTCTGTTACCTTTTGGCCTGCTTTTCCTCTGATGATGGTGAATATGACTATTGACTAGGTCTTACTCCGTGTTTCAGGCTGGCCTGAAATCCATTGTGTAGCCCAGGCTGGCCTCAAGTCTGCAGCTTTTCCCCAGCCTTAGCGACACCACCATGCCCAGTGTCACCTTTTTTTTTTTCTTTTATTACACTGGGAACTGAATTTATTGTGCCTTATGACTGCTAGGCAGGGGCTCTACCATTGAGCCGCATCTCCAGCCCTGGTTTTGCCTTTTATTATATTGAGATAGTCTTGCTAAACCGTCCAGGCTAGCCTTTAATACTTGGGAGCCCAGACATGCCTTGAATTTAGGATCTTCCCGCATTGGTCCCTTAAGTAGGTGGATTATAGGGCTGCACAGCGTGGGGTGGGGAGGTCCCTCCTTTACATTAGTCCCTTGCTTGGTGAGTCTGTGCACCTCCAGCTACTTCTAAGCAAATAAGGAAAAAGGCCAGTTTTTTTCTGGGGTCATAGGCAGAGGTCACAATAGCACCCTGAACTTCCAGGGGATACAGGCCAGTCAAGCCCCTGACCTCTGTGTCCACATGCCCCACAG
Seq C2 exon
GAGCTGTTTCTCACCTGGAAAGCTCTCCAGAGCAGACTGTGGGACGAGACAGTACCTAAGCCCCGGGAGCCAGCCTGGACTTCCTGCTGCACACGCGCTCCAGAGAGTTCCTCCGTAGGGATTTTGGGATGGTGTCTGCTCCCGCTTTTCTGTCCTGGGCTGGGGATCCAGGCTCAGTACTTTCTCCCCCTCCCCACTATGGCTATGACCACTAAAGCTTTAGACTCGGCCTGTGTCCCTGTACAGCAGCCCTCTCTGCTGACTCCAGCTGCCTGGACCCCCCAGGGCTTCCTTTGTTTTTCCGGGGCCAGTTTTCTCAATGAACTAAAGCATCCAACTGCCCTGACCTCCTGGGATATCCAAGACACAGGTTCAAGGCCCAAACCCTTCACATCCAAAGCTTCTTTTGAAAAGTTCAGGGACCTTCTTGGGGGTAGCGGGAGAGAGTGGAGACTTTTTAAGTGCCCCTGCTAGGACCTGCCCTTCTCTTCAGGATGCTAAGTCTGCCTTGCCCCTCCCAAGGGTGAAGCTCCCTCTCACACTGCTCCACACTGGCCCATCTGACCTGCAGAAGTGCTCTAGCTCACCCCTCTGGTGTGTGGTGAGGGGCTTTCTTCTCCCACTCCTTTTTGACTCCCACCACCTCCTGCACATGGGTTTGGGGAGGACTGAAATGGAAGTCCCCTCAGAGAGTCTTATTATCAACACTTTATGTTTTGGTTATTGGTTTTTCTTTCCTTTTTGTTTTTGTATAGACCAAAGCAAAGAAAATAAAATAACACAGAGATCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015380:ENSRNOT00000040845:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.180 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCACATGGACATGGATGGC
R:
GACACAGGCCGAGTCTAAAGC
Band lengths:
348-1105
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]