RnoINT0116070 @ rn6
Intron Retention
Gene
ENSRNOG00000002930 | Ppl
Description
periplakin [Source:RGD Symbol;Acc:1305511]
Coordinates
chr10:10672771-10674772:+
Coord C1 exon
chr10:10672771-10672866
Coord A exon
chr10:10672867-10674649
Coord C2 exon
chr10:10674650-10674772
Length
1783 bp
Sequences
Splice sites
5' ss Seq
CAAGTGGGT
5' ss Score
4.82
3' ss Seq
TGCCCTCTGGTCTCCCTCAGTTT
3' ss Score
9.41
Exon sequences
Seq C1 exon
GCACACATGGAGGCGGTGCACGCGGAGTGGAAGGAGTACCTGAACCTGCTCATCTGTGAGGAGAGCCACCTGAAATACATGGAAGACTATCACCAA
Seq A exon
GTGGGTACCTGCCTGGCTGCAGCGCGTGTAGGGTTCAGGAGTCCCTGGGTGCATACGGAGCCCCTCGCATGCATGTGGAGGTCAGGGGACAGCTTCCGTGAGTGAGTGTCTCCACCATGGCATCAGGGGACTCGACTCAGGTCATCGTGCATTGAGCATTTTTATCTGCTGAGAGATTTCACTAGCCCAGGGTTTTGACTTTCTGACGTAGGATCTCATGTAGCCCAGGCTAACCACTATCTGTGTGATAGAGGATAAACTTGACTCCCAATCCTCCTGTTGGGTTGAAACCTAACTCCACTTGTTGGGTTTAATTTTGCAGAGTTGCACAAAACATAAGCCTTGCTATTTTAGCTCCCCTTTCAAGAAAACTAACATTCCTACCCCACCCCCCTTTTTCGAGACAAGTCCTCAATATCTAGTCCAGACTGTCCTTACATTCAAACTCCCAACCATTCTCCTGCCTCAGCCTCTAGAGTAGCACCACCATGCCCAATTCATTTTTCACTACTGTACCATTTATTACATCAATAATATAGGACAACCTCACCCCTGTTTCCCGAACTTTCTCATCAGACAAATAGAAATTGAGTGCCCGCCCCCAGCGCGCGCACACACACACACACACACACACACACACACACACACACCAGCCTGATGACCTCTGACCTGTCTCTAGATTTGCCTGGTATCAGCTAGAGTGAGCATAAAGGATACAGAACGGTGCCTCTTGCCCTGTGTGTCTGGCTTTTCTCACTAAGCATGGTGGCCCGATCTCAGTGTAGCACGTTTTTATTCTTATGGCCAAGCCTGTTGTCCAGGTGGGCACCCGTTTGCATACCTATCTATTCATAGACACTTCGTGTTTTCATGGGAAATAAGAACTGTAGGAAATCGTCATCATGTAGGGTCTTCCTCATACTTTCCCTTTTCTAGCAATCAAGTCCAGGGCCCCACATAAGCCAGGCCAGGCCCCAGCTCTAAGCTATATTTCTAGCATCCCTTTATCTTTGTTGGAAGACCCTCTTACTAAGTGGCAAACTTGAACTTGTGATCCTCCTACCTCAGCCTCCTGAGTGGCTAGGATGACAGAGTCCACAGGCCTGCTTGATCTAGGGTCTTAAGACTGAAACTTGAACTCAGGGGGTACCTCGTGACTCTTGCTGGAGTCTCTGAGCAACACGGAACTTCACAGAGGTGCAAAAAGTCCTCCTCGGGGCAGCAGTCCGAGTGTTCAGCCAAGGGGATGACTGAAAATAAATGAGTCAAGAGTTAATGAACCAAAAACTGGGCAAGGGAACTTCCCAGAACAAGAGGAGGAGGCAGTTTGCAAGGCATACAGTTAAAGCATGGTTAGGTGCTGCTAAACGGTACAGAAAGCTCCTGAGAGATGTAATGTTGGGTGATTTTGTTATCGTGCAAACCTGAAGTACTTACACCTGGTGGTTTCACTGGGTGAGATGTTTGTAAAGCACCTGTCATATAGAGGGTCCTTGGGGGACGGTTTGCATATAACTGCATTGTTAGGGTGTTTCCGGTACACAGAGAGAAAGCCTGAACTTAATGGCATCTCAAGATGGAGGTGGGGTGTTGGGGAGCCAGCTTTTCCCCCTGAGGAGCCAGGCTGAAGAGGGAGTCAAACAGGCTCAAACAGGCCATGTCACAGATTTAGGGAGAGTGGGAGGCTCAGCGTCACCTAGGGAATAAGCGTGCATCCGTAGCCAGCCGTCAGGGTGCTTGTGGTACCTTCCCATCTCTGACGGTGCCCTCTGGTCTCCCTCAG
Seq C2 exon
TTTCACAAAGATATGAAGGATGCTCAGGAACTGCTGCGCAAGGTGGACTCAGACTTGAACCAGAAATACAGCCCTGACTTCAAAGACCGATATCAGATAGAGCTGTTGCTTCGGGAGCTGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002930:ENSRNOT00000004026:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.031 A=NA C2=0.049
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(22.1=71.9),PF0043516=Spectrin=PU(5.1=12.5)
A:
NA
C2:
PF0043516=Spectrin=FE(50.6=100)
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:
CACATGGAGGCGGTGCAC
R:
CCCGAAGCAACAGCTCTATCTG
Band lengths:
208-1991
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]