MmuINT0120928 @ mm10
Intron Retention
Gene
ENSMUSG00000026991 | Pkp4
Description
plakophilin 4 [Source:MGI Symbol;Acc:MGI:109281]
Coordinates
chr2:59347924-59350622:+
Coord C1 exon
chr2:59347924-59348041
Coord A exon
chr2:59348042-59350493
Coord C2 exon
chr2:59350494-59350622
Length
2452 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
TCCTTTGCCTCTCCCTTCAGTTG
3' ss Score
11.41
Exon sequences
Seq C1 exon
GATGGGTGGAATCAGAACCATTTTATTACACCTGTGTCCACGCTAGAGCGAGACCGATTCAAATCACACCCTTCTCTGTCCACCACCAACCAACAGATGTCGCCCATCATTCAGTCAG
Seq A exon
GTCAGTGTGCGTTTGTATGACAAAAGATTGTATGTGCGCGCGCGCACACACACGCGAGCGCGCACACACACGCACACGCGCACACACACACACACACGCGCACACACACACGCACACGCGCACACACACACACACACACACGCGCGCACACACGCACACGCGCACACACACACACACACACACGAGCAGATTAAGCATGTCACTTCAGCTCTGCCCATCTATCTGAGAGCATGCTTTCAGAGTCGCACGCTGTTGTAAACAGCCACTATCTTTCATTTGGAAAGAAAAAACTGCTTACATCAGCTGCAGTGCATTAAAAAAAGAAAAGAAAAGCCTCCAGGGCCAGCCCCCACCTGAATGCTGCTTCCCCACATTGGGGAAGGGGCCCTGGCATTGTATCTGACCAGTTGGACCAGTAACCTGATGCAGAGTCCTGGGAGGTGGGGAGTCATTGAAGATGTACTGGCTGACTAGGAATGTCCTCTCTGCCAGCTTTGCATAAGTTTTAAGTCTCCTCCTAAGGAGCTGCTGCTGCTGCTTTGTGTGGAGTTTTGTTTGGTTTTGGTGTTGGTTTTTCCTTAGTTTTCTTGGTGAAACTTCTTAGGAACAGGCTTCTAGAACATAGGTCATTGGAGCTTTGCAGTGGCACCTCCCAGTCGCCTGGCTGCTTTGCAGACCCGCACCCCCACACCCTTACACCACCCAACCAGCCACCCTGATGTGGCCTTCTAGAAAGTTCCTTGGATGTTCAGCTGAGACGCTTGGCAACTGCTCCACCCACTCATTTGCAGAGCTCAGCCGAATGCTTCATGCTATGACTGCCGAGTCAAACAGTCCTGTAAACTTAATTCTTACCTGCATGAAGCAGGAAAAATGACGCTTCTTACTTTGATTTGGCTTAAATCCCACGTTCTGACACATATATTATCTGCTGTAGACAGCGGTGCAGTTTCTGACAGTCCTATTGCTCATGTGGACAAATGTGGACAAAAAGACTGATGCCCATGCCCAGGGGCTCCCGCCACGGAATTGGATGTCTGTGTTTGTGCTAGGAGTTAACCGCTGTCTGCTTTATTTGATGATTTCTTTTCTTTCTTTTTTTTTTTTTTAAAACCTTGTTTACACCTACTGTGTATAACAGATATATATGTCTTGGTTTAAAATTACGAGCTGTGTTATTCATCAAGAATTCTGCTTGGTTTTGCATACATCCTTTTATGAAAATATTCAGCATGCCCGTCAGGGGGAACAGGAGAGGTGGGTGGCTGCCAGCCATGGGCCTTCAGTGCAAGCACAGAGTCGTTTCAAACAGATCAGCACACAGCTACTGTGCAATGGATTTGCCACTGGGACCTCAAGCAGAAGTGCTGGTGGCCCCGCCCTGGTGCTAGGTAGCCCTCTGTGTTCCACTTAGAGGGAAGATGTGTGTCGCTCCTGTCTCCCAGCTGTCTAAGGGCCGACCCTCGTCACTTGGCACTGAGGAGGGATGTGCTTATAAGCATGTCCCCTGCCTCCTTAGTGTCTTCACAAAGGGAAGCTGCTGTCTTCTGTCCTGCCATCTTCCCAGAAGTGAGCTGGAAGTGACACAGACACACAGATACGCATGCTCAGCCCGCCCACCCAACAGCACAAGAAAAGAACTGCCCTGCCAGGGCCCTCAGAAGGCGTGGCTGTGCAAAGCAACAGGGCCAAGGCTGGAGAACCACTGCTTTCAAGTGAATTGGGTAAAGATATGGCCTCTGGTTATTATTATTACAGACCAGACTGTTAATGGGGAAAGAAACACCTCACATTACCTTCCTGGCCAAAGTTTTAAAAATAATAATAATAATTGTCCAAAAGGGGACCCAGGAGTAGATGGCTAGTCATGGCTAGTCATTATCAGCTGTGTGGCCCAGGCTAGCATCAGAAGTCACCGGGGACACCGGGTTCACATGATCTCCTGACAATAGATCACCGTAGAGAAGCATAAGTGTTATTTACTGGGCACTTCTAGACACACTAGACCAGGCCAGAAATTAAAACACACTATAAAACCTGCTACCAAACATCTGTACATAAACGATGGCAGATAGTTTATAAGCAGCTAAACTATGACCACAAAATAGAAATAACTCTTGCATGGCTCTTAAGTTACTCTAGATGGTTCCAAGGTGGGTCAAGTCCCTGGATCCCTGCTGCCTGCTGCCTGCCACCCCCTACCCTGGGCTTCTAGAGCTGGCTGCTTGCTACAGCTCGGCTGTGGGCCCAGGTGTCACCCTTGCTGGGATAGGAATGTAGGGTGTGTTCATGGTCCTGGGGTCTGGCTGCTCTTTGTCCTCAACACCTCTCAGAGCCGGTTTTACTGTGGCATTGCTAATAAATAGCCTTTGTTTTCCTGGAGCACTTTCCAGATTTGCTGACAATCTGATTTCTCTCTTTTCCCCTCTCCTTCCTTTGCCTCTCCCTTCAG
Seq C2 exon
TTGGCAGCACCTCTTCCTCACCAGCACTGTTAGGAATCAGAGAGCCTCGCTCTGAATACGATAGGACCCAGCCACCTATGCAGTATTACAATAGCCAAGGGGACACCACACATAAAGGCCTGTACCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026991:ENSMUST00000102754:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.600 A=NA C2=0.886
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
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]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types