RnoINT0112344 @ rn6
Intron Retention
Gene
ENSRNOG00000005504 | Pkp4
Description
plakophilin 4 [Source:RGD Symbol;Acc:1307840]
Coordinates
chr3:45374952-45381809:+
Coord C1 exon
chr3:45374952-45375171
Coord A exon
chr3:45375172-45381676
Coord C2 exon
chr3:45381677-45381809
Length
6505 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GCCGTGTCTCTTCCATGTAGGGA
3' ss Score
9.96
Exon sequences
Seq C1 exon
TAGGCATTGGGAATCTACAAAGGACTTCCAGCCAGAGAAGCACCCTTACATACCAAAGAAATAACTATGCTCTGAACACAGCAGCTACCTATGCGGAGCCCTACAGGCCTGTACAGTACCGAGTCCAAGAGTGCAGCTATAACCGGCTGCCACACACAGGGCCGGCTGACGATGGTGCCACGAGATCCCCATCAATAGACAGCATTCAGAAGGACCCCAG
Seq A exon
GTGAGTACCAGAGGGCCGCCGCAGTGCACGCCCTATCACACTAACCACCTCACCGTTTTGTCTCATTAACCTGTCCAAGCGGGTAGGATCAGTAACTCCTTATCTCTGTTACTTCCACCAGTGTAGGTCACTGAGGCTGACTTCATTTTTTAAAGCTGATTGCTTCTTTCTGTACTTTAATTACAGCTTAGAGAGCACACAGATTTGTGGGAATGTGTGTAGCATTCATCATGTAGGTATTTTACTTGGCCCTACCTGGGAGGGCATGTGTGACTTAGACAAAGACTGAGGATCACCCACACGCACACACCTTTGCCTGCCTGCCTCAGAAAGTTCATGCATGAATCCGAAGTGTAAAAGATGAGTGTGCGTTTCCAGTTGTGTTAGTCAGTGATAGGCAGAGCTTTTAGCAATGAGGACCTTTAAGAAGCTTTGCAGCATTTAGAAGAAGATGACATACAAGACATTCTTATCTCACAAACAAAAACTATTTGACAGATAGTAGGTATGTCTTGTTTTATTTTGTTTGGCCTCTTAGCTGACATTTTGCAAGGTAAACACAAGCCATTTGGTATTTGATTGAGTCTTAAAAACTGGCCTCTTTAGTGAAAGCCATTTAAAGCATTCAAAAAAATATGTTTCTTTTAAAACTAAAAGAATTTTTGTTTATGGAAGAACAGAATCATTACTAAGTTTTGAGCAACTTTGGTGTTATTTTAAGTCATAGATTATTAGCAAGATTTCATTCACTCTCCGCCCACAGTTGTCTCACTGGGAAGTTGCTATAATTACCCATTTGAATTTAACAACCTACCAACGTGTTCTAATGACTGTGAACTGAAATTAGTGAGGTTCTGGTCACTGAGTAAGAAAAGGTGCTTCAGATGTTTGGGAAGTCACTGACTCACTGAAGCCACGGCATGAGGTTGCCTTCTGACTTAGACATTCATTTTGTTTTTGCAGTCCCGGTTTGCCACTTTGGGCTGTCATAAGTACCTTTCATTTTATAGTAGAGTTTTTTAATTATTATTATTATAGCACCTTATATATTTCTGTCAGAAAAAAATCTTATTTAATTTTCTAAAATCTTCAGAATGACAAAATTCTGTGTACCCAGCACATTGCTGAATTTCCCTCAGAGTATTCCTAATTCCAGGTAATTTGATACCCTCGCTCCCCGTGCAAGGTAATAATGGCCACCTGCAAGAACAGGGACGTGCAAGTGGAGCTGCAGTTGACGCTGTGCTCTGGAGGCCTCGGCCTTGACCTCGAGGTGAACTGATTCACTGTAAACAAAAGCTCCATGGGTGGTAATACACTTTGCTACTTGTGCTAGAGTATTCCTAATTCCAGGTAATTTGATACCCTCGCTCCCCGTGCAAGGTAATAATGGCCACCTGCAAGAACAGGGACGTGCAAGTGGAGCTGCAGTTGACGCTGTGCTCTGGAGGCCTCGGCCTTGACCTCGAGGTGAACTGATTCACTGTAAACAAAAGCTCCATGGGTGGTAATACACTTTGCTACTTGTGCTATGGTAATGTCACAGTCTAATGCATGAGCTGTTACTACAAGCTCTGATTGTATGCAGCCTCACTCAATGCTGTGTGTAAAGTGAACAGAAGGTAGTTCTACGGTGACAGATACGTTTACTGTAGCTGACCCTGGAATCCCAAAGAATGAAGACTGAGTATTCAAATCAGAATCAGAGGCCACAGACAACTGTCACCCCTCAGCTGTGAAAATAGCAGTGGTGACGTCTTCATTACCTCAAACGTTACTGGTTTTACTACATAATAACCTGACAAATTCTCCGTGAGACTGGAAATTGCTGATGCTTACTATGTAGAAGGGAGTCTGTAAGGATTTAGTTTTTAGGTTTGGGGGTGTTTGTTTTTCATTGTTTCATTGGTTTTTAGTCTTCTGCTGTGTAGCCGGGGTCCTGCTTCCATCTGTCCATCTTCATGCTAAGGTTACAGATATGTGCTGCTGGGCCCAGCTATGACTTAAAACCCAACAAACAGGAGAGAGCATCTCATGTGGAAGATGGCGACGGCAGTGCTGGCCTCTTCCTCAGCACCTTTCTCTACCCCTGACCTTTATTCACTGTCATATGTATTTGAACACCCATGATATAGTGTCATTACTGGAAAATGGTCACTTTGGAAAAAAATGAAAAGAAATAAAAGCATATTTTAAAATATTCACCCTTCCCACTAAAGATCTTCCCGTAAACCCAAGTCTCCATCTTGTCTTACCTTCAGCAGCTTAAAGAATTTGGTTTGAGTTCTTTTTGCCTCAATTTATCTTAAATGATTTGTCTTGATTTTTCAGGATATTTTTGCTACGTATAAAATTCAGGACTTATGAGTGTGAATTTTTTTCTTTCAGTACTTTTAAAGGTGTTATTCATTGTCTTCAGACATCTGTTGTGTTTTGGTGAGAAATAAGACATTATTGTACTCTACTCATTCTGTTATACGGGCTCTCTCTCTCTCGGCCTCCTTTGGTCCCCTCCGCTTTCACAGTTCTACTCTGACAAGCTTAAGTGTGGGGCTCTGCATCTGACTGATCGGGATTCTGAGACTCTTTGAATGTACATTGACAGATTTACCAAAATTAGGGGGAAAAAAAATCAGCTTTTATTTCTTTAAATTCTTTGCTACCCTCCACCCCCTCCTCCTTCTGGAACTGTAGTCACGTGACTAAAGTGACCCTGTGAGGTGAAAGTGAGCAAGTTCCCTGTGGCTGGGCAGCTTCTAGTGCTGCCTTCATGCACATCGTGCCTTTTGCTATAGCCTCATATATGTTTGGCTTTTGCTTGCTTTTTTAATTTCAGATACTTTCTTTCCTTTCTTCTTCTCTTCTCTTTCTTTACACATCACCCCGGTTCTTTTTCTGTAGTTTGCATGTCCCCGACTGCTCACCCACTACATCATGGTCTCCTCTTTGGTGTGGTTGGCTTTTGTGGCAGGGTCTCACTGGAGCTCAGAAACTGCCCTAAGCCTCCTGTGTCTGCTGGGATCTCAGGGCTCCAGCACCACACCCAGCCTTTTCTTTTTCTTTTAAGTCTTTGAACATAACTGGGGCAATTTCAAGTTCTTCCAGGATCCAGAAAAGTCCAGGGTCAGGAATTTGGTGTTTATCGTACTGTTGCTTTCTGTCACAACATCTATCTCAGTGATTTTTGATGATCTGCTGGCTGTTGTGAACAAGGAAACCTGGATTAGATGATCTCTTGCTACAGTACTAAGTTTCTTGTGGCAGATAACTGAATTATTAGCAGATCCTGTTGACGTGGCCAACATGGATTGTGCTCTTCAAGAATTCTATTTCACATGTACGCTAGCCCCAGAACATCAGTCGACCTTGTTCTGTGGCTTGGCCCTAGCTGCTCATAAGCCTTGATGGGCTTATAACTTTAATTCTGAGAAACTCACATTTGTACCCCAACAAGTCTGAGTCCAACATCACCTACTGTGTGTTCAGCTCTGTCATGCAGTAGTTACTCTGCACCAACCAGTCTCTTTTGAATGTCCTGTCTATTCCTTCTGATTTTCCTAGAACCAACAGATTCCGGTCTACCCTGACCTCCATTCCTAACCCCAAGCAACAAATCCGTCCTGTACTCTTTTAGCCTTAGTCTCTCGCATTATGGGACAGAAAATGCTATACCGTTTCTAAGCAAAAAAGCCAGAGAGTCATAGGATTCCTTGGGTGTGTCTCATCTCAAGGATCTCTTTCTTGTGTACTGTCCTCGGTTCTATAGTAGTTTATGGAACATCAAATCCAGAGCCATAGCTAAAATAAAAGTCAAGGCTTGGGCTGTAATAAGGCAAGCCCTGGTAGTGATGTCGTCCAGTTAGTGTGGGAACTGGAAGCAGTCTTCCCAGGGAAAATTTCCGCTGAACTTAAGGCAGTGATGCTGATGACAACCATTGCCCTGCTCCTGCTGGAAGTTACTCTTCTGCTGTCTGGTCCTCCTGGCTTTCAGGAATGTCAGAAAATCCTAACCATCACTGTACTGCTTAAAGAAAAAAAATGTTTGCAATAAATGTGAGTTATCAGTAAGGATTAGGTCGCACGCCTGGTACTCTGTCGATTACAGTTCAGCCTTACACAATAGACTTTACATAGATTTTTTTTTAATCATAAATGTTTAACACAGTTGAGTGTAAAAAAGGGAGGCTCTTACAGAAAATGTTCCTCCTTGGAAAGCCTCACTTTAGAAGTGATTATCAGTACCCTGCACCATCACACTTACCTTCTAGAGCCCTTCTCTAAGGCAGGCAGAGACAACAGCTTGACCTCTCTTACTTTACAGATGAGGGAACTGGGCTCTGAATACTCAGCTCATTTCCAGAGTAACTTGACTGAGAAGTGCCTAGGGCTGCAGTTTAAGTAATATGACTCCAGTTCTTATGATTTTTTTCTACTTTTTGTCTATATGTGCTGTGTGCATGCCATGTGTATGCATGCCTGCATGTATGTGGGTGCACATAGATGTAGATGCATTCAGGGGTTGAGGGTTCATGTTAGGAACCCTCCTCAGTGGCCCATTTATTTACCTTGCTCAAGCTCTCACAGAAGTGGTGAGCTGCTAGCCAGCTTTCTGTGGGGATCCTATCTCCCCCGTAGCTACAGAGCACTGTGTGGGTTCTAGGGCTCTTAGGTCATCTGACTGCCACTTCAAAACTTGTGTTTTATTTCTAGTCCTTTTAGTAAAAAACACATAGACTACATGTTTCTCTAATTTCCACTTACATACAAATCCCAGTTTCTTGTCTGTACCCAATGATACTTAGGAATACTTGCCTCAGGGGGGGAAGCAGTGGCAGCTGATGGGACCCGATGCACGTAACCTGGATAAATGCTAGCTTGTGCCATTGCCACAAAGGGCGCATGGGGCCTGTGTTTAGGGCCACATCTTAGTCAGCATTTGTAGCTTGAACAGCCACGGTGACTCCTATAACTTAACAGGGATACACCAGAAACTCATTTGCATGTGTACAAGTATGAAATGGAATGACCCCTTGCAGTAGACTGGAGGATTAGTGCCTGGAGCCTTTCCAATCCATGTGGCACTCTGGGCTCTATAGACTCGGGGTTGGGGGTGGCCCTTGAGTTTAAAGCCAGCGTGAGCTAGAGAGTAAGACCCTGAATAAAGGACAAAGAAGAAAAAGGATTTAAACTATTTTGATGTTCTTGAAAGTTCTTTCAAGTCATCCGCACGCAGCACCCCCTCCTCTGTAGGCGGTGACCGCTCAGATCCCTGTTAATGTCCACTTCGCTTGCTCATTCCATGGCCTCTTGGATCATGTCCTATGGTACTGTTGCTTAAAACAAAAAAATAAGTGCACGCTACTGATACACCAGTAACTTAATGTCTACTGGCACGTGTCATTTCTCTATATAACTATACCACGGCTGACTTGTGCCCCTTTGGTGGAGTACTGGGAGACCTCCAAATAGATTACTACAAATGGCATTTATTAGTTAGTGTTCACGTACAGAAACACAACTCAATACAAGTCTCTATTGGTTATTAATAAAGAAAAGTATTTTTTATCAATTTATTCAATGTGAATTCATTATTTTCATTAAAGTTTATTGGCATCCCTTAGTGGGGGTCTACATATTTTTTGTTATAGGAACTATTTCCTTTGTGTAAAATGACATGTTGGCAAAAATCCTAAATACTAGGCTGATCCAATGACATCATAAAATTGGGACAGTGTGATGCCACCAGAAAAGAAAGTGTAAAGGAATCTGTTAGGGGTAAATGTGTGCTCACATCATACAGCAACATGGGAGACATGCGCAGGTGCTACCCAGCCGCGCTCTGGTCTCTCATACACACATATCACATGGAATCAGGGAGAGAGCACCGCCGGGAGAGCGCCTGACACACGACGTGTGCTCCTGTCTCCACACGTACTACAGTTCTGGAAAATGTAAAGGTCAGGAAGGTTCAGAATGGAGTTCTTGGTCACAGCATTTCTGTCAGGCTATTTTCTTCTCCGCACTCTGTGTTTCTGTCTCATAACCACAGCAACTATGACTATTAAGGTTCCAGACAATCACCGTGATTACCCTCCGTATCTGTGATTAGCAGCCTGTAACAGCTTTGTCCTCTCCCGTCAGGCCTTCCTGTCCTCAGGTGTGACGTCTCACTCAGCTAAATCGCACTCGTACCTGTACATTGCATCTGCTGCTTCCTAGATGGGTAGGAAGGAAATTGCAGTCTGGAGGAGGAACCCTGAAGTGGGAAACTGCCCACACTGAGACTCCCTTTGTTCCCGGCTCTTTCTCTGTGTCTGTGCACCATGATTTCTTTAAGATCACGAGCATTTCAGCCTCCGCATACATTGATTGGGAAAAAATTGCTTTCAAAGAGATAACATCAAGATTTTTATAACTTCTAAAGTCTGCCTTTGCTGAACTTTTCCTATCAGAAATGTGGCATTCCTCTCTGCTTCCTTTCTGATGCCGTGTCTCTTCCATGTAG
Seq C2 exon
GGAGTTTGCCTGGCGTGACCCTGAGCTGCCAGAAGTCATTCACATGCTGCAACACCAGTTCCCGTCCGTGCAGGCGAATGCCGCGGCCTACCTGCAGCACCTGTGCTTTGGCGACAACAAAGTGAAGATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005504:ENSRNOT00000059246:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.486 A=NA C2=0.011
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0051418=Arm=PU(14.6=13.3)
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]