RnoINT0112342 @ rn6
Intron Retention
Gene
ENSRNOG00000005504 | Pkp4
Description
plakophilin 4 [Source:RGD Symbol;Acc:1307840]
Coordinates
chr3:45368468-45372679:+
Coord C1 exon
chr3:45368468-45369017
Coord A exon
chr3:45369018-45372490
Coord C2 exon
chr3:45372491-45372679
Length
3473 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GACTGTGTTCCTATTTCTAGGCT
3' ss Score
9.78
Exon sequences
Seq C1 exon
CCATCAGTAGCCAATCGGGCCATGCGAAGAGTTAGTTCAGTTCCATCTAGAGCACAGTCTCCTTCTTATGTTACCAGCACAGGCGTGTCTCCTTCAAGGGGGTCACTGAGAACTTCTCTGGGTAGTGGATTTGGCTCTCCATCAGTGACGGACTCCCGACCTCTCAACCCCAGTACTTACTCCTCCAGCACGCTCCCTGCTCAGCGGGCCGCCTCTCCGTACTCACAGAGACCCGCCTCCCCGACAGCCGTGCGCCGGGTCGGGTCCGTCACCTCCCGACAGACCTCCAATCCCAACGGACCAGTCCCTCAGTACCAGACCACCACCAGGGTGGGGTCCCCACTGACCCTGACTGATGCCCAGACTCGAGTAGCTTCCCCATCCCAAGGCCAAGTGGGGTCATCGTCCCCGAAACGCTCTGGGATGACCGCCGTACCACAGCATCTGGGACCTTCACTGCAAAGGACTGTTCATGACATGGACCAATTCGGACAGCAGCAGTATGATATTTACGAGAGGATGGTTCCACCACGGCCAGACAGCCTGACAG
Seq A exon
GTGAGGATGGGTGACAGCACTGCACAGGTCCCAGGGAGTGGGTCCTCCCTGTGCCTATGTAGACATGGTGATAACTGGGGAAAGACCTGGTGGTCTTCTCTGAAAAGTTATACTGTAAACTTGGGGTCCTCCTTTTTCAAGCACTGGTCCTTTTATGCTTGATGCTACATAACCCATACACAAAACTCTTTCATAAGGCATCTAATTTTCCCCCAAGATATGGTGTGTGCATGCATGTGTGTACATGCTGTATTGATTATAACCCAAGCTCTTGTCAGTATTGTTTCTAAAGCAGGGTTTTGAACATCTAGGCTTACACCTCCGTATGCCCTCATGATATATTAAAGTGTGGTATTAGAATGCCTATTTGAATTTCTCTTGAGGAACGCTGTAGCTGTGTGTGCTAAAATATGACTCACATCCTACTGTTTTGATGGGCACCCTGATGGGAGTGCACAAAGCACTTAGGAATTTCTTCTCAGTGCCATTTGGATTAAATTAGAAAGACCCCAGGTTCCTGACATTCTATCTGTCCCCTTCGGGGGATTTTCATAAAAGATTTTCTACTTTTTGTAATAACTCTATTCTTTTTAGTAAGAATAATTTTTCTTCAAAAAACTTACATATAGGACCCGAGATGCAGGACAGTGGTAGAGTGCTTGCCTAGTCATGCACAAAGCCCTAGGTTTGATCCTATACATTGCCAGAAGATTTTTATTAAACACAGTGTATACAGAGTGAAGAACTTTGAAACCATGATGAAAAGTTGAAATGAAGAACAAAAGTCTCCAGTTCGTCCTCTACACACACCAGTTACATCTTCCCATGTAGTCTACATGTGCATGACCTAGAGAAGCATGTGTGACACATGAATGTGTACGTGTTGTGCTGCATTTTCTTCTGCACAAGGGAGCTCCAGTCATACATGTCCTCTGTGCCCTTCTCACAGTGTGTCTGAGCGTGCACTCTCTGAAGGATGACAATACTCCTTTAATTCTGCGTTAAAACGTATTAGCTGGCTTCCATGTTATTAGGCATGTGTTGGTACCTAATAACACATTAGCTACCAGAGACTCTTTCATGGAAATGAGAAGAGCGTTACCCGTGGGACCTGTGTGTCAAGGCTGACTTGCTACCTCAGAGTATGTACATACTCTGCCTTGAGAGACACTGTCCCGTAGTCTCCTGACCTGTAACTGAGGGCAGGCGCCCTGTCCTGTCTCAGGCACTTCCCGTGGGCCAGTCTTGGGTAAGATGCTGTACCGGAGCCATCGCTAGGTTGTGACTCAGCTGAAGAGCGAGCGTATGTTTGTTTTCTATTTTATCACACAGCATAGACTCAGGCCATCTATCATTTTCATTTGAAGTTTTTATGCTTGAGATAACATTGTTTTTTCATTGTATTTCTTGCTACTTTGCTTTTTTAATTAAATTTTTAATATTTTGAGAATAAAGTTAATATATTTTTATCTTGTGGCCTCTAGAATGTATGAAACTTTTGTAAGCTTTTTCTGATTTAACAAACTCTTATGAAGCATTTATAGTGAACCTGGATTTGAGCTCAGACAAATTCCTAGCTGTGAAGGACTCTGTATGCTGTGTTTTTAAAAAGAAACTTTCTTGGTAGCAAGAGGGGAAGTAAACTTCCTAATAAAAATTTATTAAGTTTAATTTGCTAATGTTCATTCTCCAACTATGGGTTACTTTATGATGGTGACCAAACAGAGCGTGCTTGCTTCCCTGTGATTACCATTTAAAGATCAAAGCATCAGGCACAGCATAAATGACATCTTGGTCAGGGGTGGACTGTCCATCAGTGTTCCCACGAGACTGTGGCACATGGTGACACCATCCTCAGCTTAGTGTGTAAGCATATCCTCTGTCTGTACACAAACAAAACAGGCTGACACATTGCTTGCTGTGTCGCTTACGTGAATGGAGCCGCGGCTGTCCAAGTCGTGGTGTGGTCCCTCTTCTGTTGCCTGCAGACCTGCTCCTTCTCATCAGAGATAGAGCGGAGCCCACTCTGCTCCACACCCCTGTGTCCCAGTATCTGGGACACTCCTTGAAATATATCTATTAATTCACATGTGGTTTTTATGGGAAAACACTGGAAAGTTAGTGGTACTAAAATCTGAATATTATCAGTAAACTAGTAACACTTATTATGAAATATTATTTTACTATTTGTGGTCATTAGGTTTTCCTTTTCTTAACAAGCAAAACCTAAAACCAAACCCAAACCAAACAATTCAAACTTGTTTTTCCAGGAATTCATTAATCAGTCTTGTTTAACTATCTTTCTAGAATAAAGAAAAAAATGCAAAGGAACAATTTAACTAACATTAGATGATTTAAAATATTTTGATTCAAACTGCAACATTTACAGATGGGGATCACGAAAGAAAGGGGATTTGAAATGTGCATATTTTATTTTTTAAATTAAATCAGCACATGCTATATTATGCTGGTCACAAGTCTGTGATTTGCCACTATTAGTAAGTAAAACCTGTCATTTCATTAGTAATAGTAACTAAAATTGTAAGCAAAAGGAGGCCAGCATATGTTTACTTTTGAAGCACTGAAGGTAGCAAAGTAATTACATAAAGGATCATTCCCACCTTTAATCAAATCACAACTAAAAGCAAGTGGAGTGGGCCATTGAGACGGCTCAGTGGGCGAGGGCAATGCCCCTGCTACCTGCACAGTGAGAGGACAGAACTGAATCCACCGTTGTCATCTACAGACAGACAGAGAGAACAAACGAACCTGTAGTGTTAACTCCATGCCGCTTACTGAGGACTGGCATGAGAATTTATAAACACACGGAACTCTAAAGTCAGTGATACTGCACCTACAACAGGGGTGTGGAGCAGAGTGGGCTCCGCTCTATCTCTGATGAGAAGGAGCAGGTCTGCAGGCAACAGAAGAGGGACCACACCACGACTTGGACAGCCGCGGCTCCATTCACGTAAGCGACACAGCAAGCAATGTGTCAGCCTGTTTTGTTTGTGTACAGACAGAGGATATGCTTACACACTAAGCTGAGGATGGTGTCACCATGTGCCACAGTCTCGTGGGAACACTGATGGACAGTCCACCCCTGACCAAGATGTCATTTATGCTGTGCCTGATGCTTTGATCTTTAAATGGTAATCACAGGGAAGCAAGCACGCTCTGTTTGGTCACCATCATAAAGTAACCCATAGTTGGAGAATGAACATTAGCAAATTAAACTTAATAAATTTTTATTAGGAAGTTTACTTCCCCTCTTGCTACCAAGAAAGTTTCTTTTTAAAAACACAGCATACAGAGTCCTTTTCATACCTGGCCTTCCTTCCTGTAAAACTTGAGCAGTTTTTCTCTTCAAGCCTGACACTTGTCCTGTTTATTAGGACTTGAATTGTGGTGTATGATTTTAAGCTCACTGTGATTTTCTCAATTGTTGATGGTGACTGTGTTCCTATTTCTAG
Seq C2 exon
GCTTACGGAGTTCCTATGCCAGTCAGCATAGTCAGCTTGGACAAGATCTTCGTTCAGCTGTGTCTCCTGACTTGCACATCACTCCTATATATGAAGGGAGGACCTACTACAGTCCAGTGTACCGCAGCCCAAACCACGGGACCGTGGAACTCCAAGGATCACAGACAGCACTGTACCGCACAGGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005504:ENSRNOT00000059246:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.680
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]