RnoINT0116063 @ rn6
Intron Retention
Gene
ENSRNOG00000002930 | Ppl
Description
periplakin [Source:RGD Symbol;Acc:1305511]
Coordinates
chr10:10685128-10690223:+
Coord C1 exon
chr10:10685128-10685220
Coord A exon
chr10:10685221-10686620
Coord C2 exon
chr10:10686621-10690223
Length
1400 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
CGTTGTCTTTTCTGCCACAGCAA
3' ss Score
8.67
Exon sequences
Seq C1 exon
GAAGCTGCTCTTGCTGCCAAGTTCACAGAAGTTAATGCCATCAACAGACAGAGGCTACAAAATTTGGAGTTTGCACTGAATCTCTTGAGACAG
Seq A exon
GTAAGCCATGTTAGTTAAAAATACTACTTCAAATTGTCCTACAAGATGAGAAATCAAAGTCTCCTCCTCTGCCTTAGAGACACAGCCTGTGAAGGAAAGGAGTGTCCTCTCCTCACTTTTGAGGACTAATGCTGATGCCAAGCTGAGCCAGCCTTCTTCACTACTTGAGCTAACACCCATCCCAATCCAAACGAAGTTTGTTGAGCACTTGTCAAAGGCTTTTATTTGTTTACAAGTTTTTTGCCTGCATGTATGTATGTATGTATGTATGTATGTATGAATGTATGTATGTATGTATGTATATTTGTGCACTACACGTGTGTCTGGTGCCCAAGGTCAGAAGAAGGCAACACATCCCCTAGAACTGGAATTTCGGGTGGTTGTGAGCCATCATGTGGGTGCTAGGAATCAAACTTGGGTCCTCTGTAAGAACAACAAGTGCTCTTAACTGCTGAGCCACCTCTCCAGCCCCCAGAGGTTTTTGTTTTGTCTTGTTTTGTTTTATTGTTTTTTGTTTGTTTTCGTTTTGGTTTTGCAAGATTGGGTTTCTCTGTGTAGTCCTGGCTGTCCTGGAACTCACCTTGTTGGGATTAAAGGCATACACCACAACCACCCAGCTTCAAAACTATTTTTTTATGGCATGTGTGTGTTTCTGTGTATGGATTCACTTATGTGCAGATACATGTCCATGCTTGTGTGTGCAGGGCAAAAGACAACCAGAGAGTCATCCTGGGGAGCGCCATCTATCTCTTTCAAGTCAAGGTTTCCTACTGGCCTGGAGTTAACCATTTAGGCTAGGCTAGCTGGCCAGCAAGGCCCAGGAAGCTTCCAGTTTCCACCTCCCTGATGCTGGGATTACAAGTGTTTCTACAATCGAGCATCAAAACCCAGGATTGTCACATGAGCTGGGGTCAGAGTGCAAGTCCATGTGCTCGCCAGGGGTTCTCCCGAGCCCCAAGTGTTATTCCAGGACTCAATAAGATTAATGACAGTATTATCTGACATAGAAAGGAACTCTGGCTTAAACTGTCCACACAGTGGACACAAGGCTGTAACGCAATGATGTCGCACCTTCTGAGCCAAGGTGGTACTCTGCCCTCCAGTTAGAAACTGCAAAACAAAAAGTAAACATGTGGTGCTCACTAAAAATATACATAAAAATTCTCCAAGGACAACAGACATCCCCTAGGGACAGGGCAGAGATGGGAAACTGGTGTCACCTCAGACTGCTCTGTGCCTGCAAAACATTTTGCCTTATTCAATTTTTAAAGGCTTTAAAAAGTAATCCTAGAGCACTAGTGGAGTCCCCCAGATCATCATAGGGTAGCTAGCCCAACCTGGTCTGGGTCAGCAGACCTGTCTGTCTCTTAACCATGCATTCGTTGTCTTTTCTGCCACAG
Seq C2 exon
CAACCAGAGGCAGGAGTGACCCATGAGACTCTGCAAGGGAGAGAGCAAGGCTCTGGCATGGAGGAAACATGGAAGATTCAGAAGGAACTGGAGGAGGAGATGGAGCGAAGGCAACAGTTGGAAAATGAGGTCAAGAGTGCCCAGGAAGAAATCCAGACCCTGAAGGATCAGGGTCCTCAGGAATCATTGGTGAGGAAGGAGGTGCTGAAGAAGGTGCCAGACCCTGCCCTGGAGGAGAGCTTCCAGCAGCTGCAGCAGACCCTGGCTGAGGAACAGCACAAGAACCAGCTGTTGCAGGAGGAGCTGGGAGCACTGCAGCTCCGGCTGCAGGCCCTAGAACAGGAGACCAGGGATGGGGGACAAGAGTATGTGGTCAAGGAGGTCTTGCGCATTGAGCCAGACAGAGCCCAGGAGGATGAGGTTTTACAGCTTCGGGAGGAGCTGGAGGGACTACGGCGCCAGAAAGGTGCCCGAGAGGCTGAGGTACTACTCTTACAGCAGCGCGTAGCAGCCCTAGCTGCTGAGAAGAGCAGGGTACAGGAAAAGGTCACTGAGAGAGAGGTGGTAAAGCTACAGAATGACCCTCAGCTGGAGGCAGAATACCGGAGGCTACAGGAGGAACACCAACGGGAAGGTACACTCAGGGAGAAGCAGGAAGAGGAGCTGAGTTTCCTACAGGCCAAGCTCAGGAGACTGGAGAAAGAACGAGCCATGGCAGAAGGCAAGATCACTGTCAAAGAGGTGCTCAAAGTAGAGAAAGATACAGCTGCAGAGAGGGAAGTCAATGACCTCAGCCGCCAGTATGAGGATGAGGCTTCCAAGGCTCGCACTAGCCAGCGGGAGAAGACAGAGCTTCTCAGAAAGATATGGGCCCTGGAAGAAGAAAATGCCAAGGTGGTGGTACAGGAGAAGGTCCGAGAGATTGTGCGGCCAGATCCCAAGGCAGAGAGTGAAGTGGCCAACCTCCGCCTGGAGCTGGTGGAGCAGGAGCGCAAATTCAGAGGTGCTGAGGAGCAGCTGAAGAGCTACCAGAGTGAGCTGGAGGCCCTACGGAACCGCGGGCCACAAGTAGAAGTCAAAGAGGTGACCAAAGAGGTCATTAAATACACAACTGACCCAGAGACGGAGCAGGAACTCCAGCGACTCAGGGAGGAGATCATGGACAAGACCAGGTTAATAGAAAGGTGTGACTTAGAGATTTATCAGCTGAAGCAGGAGATCCAAATCCTGAAAGACACCAAGCCACAGGTGCAGACTAGAGAGGTGGTCCAGGAGATCCTGCAGTTCCAGGAAGACCCCCAAACCAAGAAGGAGGTAGAGTCTCTGCGTATACAGCTGTCAGAAGAAAAGAAGAAACTGGTGGACCTGGAAGGGGAGCAGGCATCCCAGGAAGAGAAGATCAAACGCAAGGAGGAAGAGCTGGCCCAGGGTAAGGAAAGGATTGTACGCCAGGAGGTGGTACAGTATGAAGATGAGCCAGATTTGCGGGCTGAGGTGACTGCCTTCACAGACAGCATTGATGTTGAGCTGAGGCAGATTGATAAACTGTGTGTGGAGCTACGGCGGCTACAGCATCGCAGAGCAGAGCTGGAGAGGCAGCTGGAGGAGCTGGAGCGTGAGAGGCAGGCACGTAGGGCAGCTGAGCTGGAGGTGCAGAGGCTGCAACAGCGGCTGGCTGCACTGGAGCAAGAGGAGGCCAAGACTGGTGAGAAAGTGACCCACACACAAAAGGTGGTGCTGCAGCAGGACCCACAGCAAACCAGGGAACATGCCCTGCTCCGAGCCCAGCTGGAGGAAGAGCGACACCGGAGGCAGCTACTGGAGGGTGAGCTTGAGCCCCTGCGTAGAAAGTTGGCTGCCCTGGAGAAGACAGAGATCAAAGAAAAGGTGGTCTTCTCCGAGAGTGTCCAGGTAGAAAAGGGTGACACTGAGCAAGAGATCCAGCGGCTCAAGAAGAGCCTGGAAGAGGAGAGCCGGAGCAAGAGGGAGCTAGATTCAGAGGTGACCCGGCTGGAAGCCAAGTTATCTGAGCTAGAATTCTACAATTCCAAGTCATCCAAGGAACTGGATTTCCTGAGAGAAGAAAACCACAAGCTACAGCTAGAGCGGCAAAACCTGCAGCTAGAGACCCGGAGACTCCAATCAGAGATTGAGATGGCCGCAACAGAAACTCGAGATCTGAAGAACATAACCATGGTAGACTCTGGAACCCACCTAAACTCTAGGCTGTGGTCCCTAGAGAAGGAACTGGATGACCTCAAGAAGATGTCCAAGGACAAGGATCTGGAGATCGATGAACTGCAGAGGCGTCTGGGCTCTGTAGCCGTCAAGAGGGAGCAGAGGGAGAACCACCTGAGGCGCTCCATAGTGGTCATTGACCCTGACACAGGTCGTGAGCTGTCCCCAGAGGAGGCCCACCGGGCTGGGCTCATCGACTGGAAAATGTTCGTGAAGCTCAGAAGCCAGGAGTGTGACTGGGAAGAGATATCAGTGAAAGGTCCTAATGGGGAGTCATCAGTAATCCATGACAGGAAGTCTGGCAAGAAGTTTTCCATTGAGGATGCTCTGCAGAGTGGCAGGCTAACCCCTGCTCAATATGACCGCTATGTCAACAAGGATATGTCCATTCAGGAGCTGGCAGTCTTGGTGTCTGGGCAGAAGTAGATCCAGCCCTTCTGCCTGGCTTTTCTTGGAGGTGGTTGGCTAACTCGTTCTCAGCAACTTCCTGGGTGTCTTCTGCTCCCTAGCCCTAATACAGACTTCTGAGCTGTTTTGTCCTCACTGTATCAGGCTGCTTATAGTGCAGCTATTGTAATACCAGCAGATACCAGCTGAGTATATACTCAGTCAGTCTGAGTGACCTGCTCCCACCTCTGATGACTTAATAGCCTTGGTATCTTCTCTCTCTTTCCTACATGTTCCCATCACCAGTGCCACAGCTGGAAACCACAGCAGGAGAAAATAGACACACTCAACAAGACAGCATGGGCTTTTGTGGTATCACATGACACTGAAGGCAGACTACCTCCTTTCTGCCTCTTTCAACTCAAGACTGGTCCACTGGGGCTGCTGACCTTCCTTCTTGCCATTCCATTTTCCTGACTGGGATCCAACTATCAGCAGTGCTTGCTCAGTAGTGATTCTTCTCATTGAACAGACTGGGCTCTACACTAGAACATGTGTCCAGAATCCACAATGCCTGGCTCGTGGTGCTAGAATAACTAGCCAGGATGTGCCAGAAAGACAGGCACCAACAACTGTCTGCTAGCTCTGAAATGAAAAGAGCTTGGTACTGGATGGTGTGCTAGTCTTACTTTCAGTGCCTCACAGGTCTTCATTATCTCATTGGCACTTAGATATACAAAAGCTGATTGTTCACCAAATGAATTTCTGCTTCTCTGTATTTCATGTATTATGTAAGAAAATGGGAGTGATAGGGAACTTTATTTATGGCATGAAAATAAAAATCTGGTGGCTTGATTCTAACTCAAAGCAAGTATGAATCCTTTACACATGAGGCTGATCCTTGGCTCTCACACCAGGGCTCCACTGCACTGAAGAATCACTTGCAAATACAATGGCAATGAAAAATGAGGAAAGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002930:ENSRNOT00000004026:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.194 A=NA C2=0.280
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0068115=Plectin=WD(100=4.2)
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:
ATGCCATCAACAGACAGAGGC
R:
TCCTGCAACAGCTGGTTCTTG
Band lengths:
358-1758
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]