MmuINT0120937 @ mm9
Intron Retention
Gene
ENSMUSG00000026991 | Pkp4
Description
plakophilin 4 [Source:MGI Symbol;Acc:MGI:109281]
Coordinates
chr2:59149751-59156701:+
Coord C1 exon
chr2:59149751-59149970
Coord A exon
chr2:59149971-59156568
Coord C2 exon
chr2:59156569-59156701
Length
6598 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGT
5' ss Score
3.1
3' ss Seq
GCTGTGTCTCTTCCACGTAGGGA
3' ss Score
9.23
Exon sequences
Seq C1 exon
TAGGTATTGGAAATCTACAAAGGACATCCAGCCAGCGAAGCACCCTTACATACCAAAGAAATAACTATGCCCTGAACACAGCAGCTACCTATGCGGAGCCCTACAGGCCAGTTCAGTACCGAGTCCAAGAGTGCAGCTATAACAGGCTGCAGCACACAGGGCCAGCTGATGACGGTGCCACAAGATCCCCATCAATAGACAGCATTCAGAAGGACCCCAG
Seq A exon
GCAAGTACCAGAGGGACACCACGGCGCACACCATATCACACTAACTACTTCTACCTTTTTTGTCTTCTTAACCTGTCAACTCTGATAGGATCAGTAATTCCTTATCTCTGTTACTTCCACCCATGTAGGTCACTGAGGCTGACTTCATTTTTAAAGCTGATTGCTTCTTTCCGTACTTTAATTACAGCTTTGAAAACACACAGATCTGTGGGCATGTGTGTAGCATTCATCATGTAGGTATTTTACTCCAGCAGCTACCTGGGCAGGCCTGTGTGAGTTAGGAGACTGAGAAGGATCTCACACACACACACACACACATACACACACCCCTTTATATGGCTCAGAAAGTTCATATATTAATCCTAAATTTAAAAGATGAGTGTACATTTCCAATTGAGTTAGTCAGTGATAGGTAGAGCTTTTAGCAATGAGATCCTTTAAGAAGCTTTGCACCAGGCTAAAGAGATGGCTCAACGGTTAAGAGCACTGACTGCTCTTCTGAAGGGCCTGAGTTCAAATCCCAGCAACCACATGATGGCTCACAACTATCCATAATGAGATCTGATGCCCTCTTCTGGTGTGTCTGAAGACAGCTACAGTGTACTTACATATAATAAATAAATAAATCCTTTTAAAACAAAAAGAAGAAGTTTTGCACCATTTAGAAGAAGAGAACATACAAGAAATTCTTATCTCACAAACAAAAATTATTTGTCAGATAGTAAGTATGTATGTATTCTTGTTTTATTTTGTTTGGCCACCTAGCTGATACTTTACATGGTAACACAGCCACACAGCCACTTGGTACTTACTGAGTCTTGAAAACTGGCCTCCTTTTTAGTGAAAGCCATTTCAAACATTCAGAAAATATGTTTCAAAACTAAAAGAATCTTCGTTTCTGAAAGAACAGAATCATTACTAAGTTTTGAACAACTTTCGTGTTATTTTAAGGCATAGATTATTAGCAAGATTTCATTCACTCTCCACCCACAATTGTCTCACTGGGAAGTTGCTATAATCATCCATTTGAATCTAACAGCCTACCAACGTATTCTAATGACTGAGCTACACTCAGTGAGCTTCTCACCGCCGAGCGAGTCAAGGGGCTTCAGATGGTTGGGAGGCTGCTGGTGAACTGAAGCTGTGGCGTGACTTTGCCTCGGACCTAGGCATACAGTCTGGCTTTGTAGTCCTGGTTTCCCTCTTTGTGCTATCATAAGGGCTTTTCATTTTATAATAGAGTTTTTTATTGTTTATTATAGTACCTTATATATTATTGTCAGAAAAATTCTTAATTTTCCAAAATCTTCAGAATGACAAAATTCTGTGGTACCCAGCACATACAGAATTTCCCCCAAAGTACTCATGCATAATTCAGGGTAATTTGATACCCTAGCTACACCTGCAAGATAATAACAGCTGCCTGTGGGAACAGGGAGGAGTGATTTGAGTTCCTGTTGAAGATGTGCTCTGAAGGCCTCAGCTTTGACCTCTGGGTGAACTGATTCACTGAAAACAAAAGTTTCGTGGATGGTAATACACTCTGCTATTGTGCTATGGTAATGTCATAGTCTAGCACATGAACTGTTACGGCAAGCTCTGATTGCGTGCAGCTGCCGCTCAGTTCTGTTTGTAAGATGAGCAGAGGTCGTTCTACGGTGACAGGTATGTTTACTGTAGCTGACCCTGGAATCCCAATGAATGAAGACTGAGTATTCAAATCAGCATCAGAGGCTTATGACAACTGCTATTCCTCAGCTGTGAAAATAACAATGGTAGTGCTTTCATTAGCCTCAACGTTACTGTCTTTACTACATAATTAGCCCGACACGTTCGTTCTCTGTGACTGGGAGTTGTTGATGTTTACCGTGTAAAGGGAGTCTGTACGAATTTTGTTTTTAGGTCTGGTGGGTGTTGTTTGTTTTTCATTGTTGCGGTGGATTTTAGTCTTTTAGAGACAGGCTTTTGCTGTGTAGCTCGGGCTGGCTGGGGTCTCTCTCACATCTTCATGCTAGAATTGCAGATTCATGCCTCCAGGCCCAGCTGTGACTTAAAAGCAAAAAAACCAAAGGGTCTCAGCTTGGAAATTAAGGTTATCAGTTATATGAATAGTTTCTCTGCACAGACTCGGGAGAGAGCATCCCGTGTGGAAGGTGGCGCCCCTTCATGCTGGCCTCCTCCAGCTGGCCCTTGAACACCCAGAATCTAGTGTTATTACTGAAAAATGGTCATTATGGAAGAAATAAAAGCAGATATTTTAAAATATTCACCCTTCCCACATACCCAGGCCTCCATCTTGTCTCACCTCCAGCAGCCTGAAGAATTTGGTTTGAGTTCTTTTAGCCTCAGTTTATCTTAAATGGTTTTGTCTTGATTTTCAGGATATTTTTTGCTACATATAAAATTCAGGATTTACAAGTGTGAATTTTTTTTTTCTTTCAGTACTTTAAAAGGTGTTATTCATTGTCTTCAGACATCTGTTGTTTTTTGGTGAGAAATAACACATTATTGTACTCTTCTCATTCTGTCATCCTTGCTCTCTCTCGGCTGCCTTTGTTCCCCTCCGCTCTCAGCAGTTCTGCTACGAGGAGCTTAAGTGTGGGGCTCTGCATCTGACCGGATCGGGAATCTGAGAGTCTTTGAATGTACATTGATGGATTTGCCAAAATTAGAAAATAAAAATCAGCTTTTATTTCTTTAAATTCTTTACTGTCCTACACCCCCTCTTCTCCTTCTGAGAGTCTAGTCCCGTGTATTAAAGTCGCCCCGTGGTCGTGAGCGTGCGCGAGCTCCCGTTGGCTGGAGAGCTTCCCATACTGTCTTCACACATATGTGCCTTTTACTATAACCTCAGTGTGTTTGGCTTATGCCTTTTTCTTTTCTTTTTCTCTTCTTTGTTTTTTTTTTTTTTTTTTAAACATCACCCTGGTTCTTTTTCTGTAGTTTTCATGTCCCTGACTACTCACTCACCACATCATGGTCTTCTTTTTGGTGTGGTTGGCTTTTGTGATAGGGTCTCACTGAAACTCGAAGACTGCCCTAAAAGAGTCCTGCATCTGCTGGTATCTTGGGGCTCCACCACCACCACACCCAGCTTCTTTTTTCCTTTCTTTCCTCTTCTTTTCTTTTTTAAGTCTTTGAACACAAATGGAGCAATCTCACATTCTTCCTCTGAAATATCTGGGATCAGGAACACCTCTGGTTTTGTTTGTAGTGTTGCTTTTTGTCACAACATCTCCAGATTTTTGGTTATCTGCTGCTGGCTGTTGTGAACAAGGAAACCTGGATTAGATGATTTCTTGCTTGAGTACTAAGTTTCCTATGGCAGATAACTAAGTTACGAGCAGATCCTGTTGATACAGCCAGTGCTGATCTTGCTCTTTAAGAATTCTATTTCAGATGTGTTCTAGCCTAGAATATCAATTGACCTAATTCTGTGGCTTAGCCCTGGCTGCTCATAGGCCTTCATGGGCTTGTGACTTAAATTCTGAGATACTCACATCTATACTCCAACAAGTCTGAGTAAACATTACCTACTGTGTGTTCAACTCTGCCATACAGTAGTTGGCCTGCACCTACCAGTCCCTTCTGAATGCCCTGTCTGTACCTTCTGACTTTCTTAGCACCAGTCTATCCCGACCTCCTCCAGTGTCCTCACCCCACTCCTAACCCAGTGTTGTACCGATTCTAAGCAAAAAGCCAGGTAGCTGTAGGATTTTTTGTGTACTATCTCCTCAAGGATTTCATTCTTGTGTTACGATTCTCAGTTTTGTAGTAGTTTATGAAACATCAGAAATACAAAGCCAGAGCTAAAAACTAAAGTCAAGGCTCAAGTTATGAGTAAGCAAAACCCTTGCATTGATGTTGCCCAGTTAGCACGGAGCTGAAAGCAGTCTTCCCAGGATAAATTTCTGCTGAACTTAAGTCAGAGATGCTGATGCCAGCCATTGCCCTGCTCCTGCTGGAAGCTACTCTTCTGCTCTCTGGTCCTCCTGGCTCTCAGAAATGTCAGAAAATCTTAACCATCACTGTTCCGCTTAAAGGGAAAAAAAATGTTTACAATAAATGTGAGTCATGAGAAAGGATTAGGCCACACTTCCAGCACTCTGTCAGTTACAGCTCAACCTCACACAATAGACTGTAAAGTTTATTTGTTTGTTTGTTTGTTTTTTAAATCATAAATGTTTAACACAGTTGAGTGTAGAAAAGGGAGGCTATTACAGAAAATGTTCCTCCTTGGAAAGCCTCATTTTTTTTAGAGGTGATTGTTACTAACTGTACACCATCACACTTAACTTCTAGAGCCTTCGCTAAGTCAGACAGAGATAACAGTTTGACCTCTCTTACTTTACAGATGAGGGAACTGTGCCCTGAATACTTAGCTGACTTCCAAAATATCAGTGACTGAAGACATGCCTAGAGTTTCAGCCCAAGTAGTAGAACTCCAGTTCTTACGATGTTTTCTACTTTTTATCTGTATGTGTGGCATGCATACCATGTGTATGCATGCCTACATGTGTGGGGGTGCACATAGATGTGAGTGCATGCAGGCAGGGGCTGAGGGCTCATGCTTGGAACCCTCTTCAGTGTCCCATTCGCCTTGTTCAAGCTCTCACTGAAGTGGTGAGTCTGCTAGCCGGCTCTCTGTGGGGATCCCATCTCCCCCCTTCTGAGGCTAGGATCCAGGCAAACTGGCGTAGCTATGAGCACTGTGAGGTTTCTGGACAATTCTTAGATCATCTGTCTGCCCAGCAGAGACTATTTCCCCACTTCAAACTTGTGTCTACTTTCTAGTTTCGTTAGTGAGGAACACTTAGACTACGTGTTTCTCTAACTTCCACTTCCATACTAAACCCAGTTCCTTGTCTATATCCAGTGATACTCAGTAGTGCTAGCCTCAGCGGGAGCAGTGTTGGTAAATGATGGGGATAAATAAATGCTAACTTGTGCCATTGCCAGGAAGGGCACATGGGGCCCTAGTATAGCTTACGAGGGATACACCAGATGCTCACTTGATGGGTGTCATTTGTGAATATGTAGAGGTATGAAAATGAAATGGCCCTTTGAAGTAGACTGGAAAGTCAATGTCTGGAGCCTTCCCAATCCATGTGACTCTGGGCTCTATAAACTCCGGGTAGGCAGGGGTGGGTGGTGGGGAGGCTTGTCTGGAGTTAAAGCCTGAATGAGCTAGAGAGTAAGACCCTGAGTCGAAAGAACAAAGAAGGAAAAAAAAGATTTAAAATATTTCCATGCTCTTGAAAGTTTTTTCTTATAATTTTCAAGAAATCTTCAGTGCACCCATTGTTCTGTAGGCCGTTACTGCTCAGATCCCCGTTAGCACTGTTCCCTTTGCTTGCTCATTTCAGTGGTGTCTTGTATTGTGTACTATGGTATCTGGGTTCTTTTGCTTAAAACAAAAAGTCAGTGCACACTACTGAGTATACCAGTAAATTCATTCCTGTTGACAGGTCTCATTCCATCTGTGATATATATAACTACATCACAGTTGACCGTTGGTGGAGAACTGGGAGACCTCCAAATGGCCTACTATAAATGGCATTTATTAGTTAGTGTCCATGTACAGAAGCACAACTCACCAATAGTCAACTGGTTATTAATATGAAAAGTAGTTTTTATCACTTTACTCAGTGTGAATTCATTATTTTCATTAAAGTTTAATGGCAGCCCTAGTGGGAGTCTACATATTTGTTATTATGTGAACTATTTTCTTCATGTAAAATAGGCATGTTGGCAAAAATCCTAAACAGTAGGCTGGTCAGATGACATCATAAAATTGTGACAGTGTGATGCTACCAGAAAAGAAAGTATAAAATAATCTATATCAAGGGTAAATGTATGTTCATATCATTATACAACAACATGGTAGAGATGATGCACAGATGCTACCCAGCCATTCACTAGCTATGACCAGCTCCCTGGTCTCTCATATGCACATATCATATGGAATCAGGGAGTAAGAAAGATATCACAGCTGGGAGAGAGTCTGACACAGAAACTGTGTTCCTGTCTCTACACATTCTAGAAAATATAAAGGTCAGGAAGGTTCAGAGGTGGTGTTCCCTGGACATAGCATTTCTGACAATTTCCTTTTTTCTTTTTCACACTCCTCTGTGTTTCTGTCTCATGATCACAGCAACTATGATTATTAAGGTTTCTGAACAATCACCATGATTTCCCACCATATCTGTGGTAACAGCTTTGTCCTTTCCATCAGGCTTTCCTGTCCTCGGGGGTGATATCTCACTCAGCTAAATCACACTTGTGTACCTGTACATTGCATCTACTGCATTCTTAAGTAGAAAGGCAGAAAATTAAAGTCTGGAGGAAGAACACTGAAGTGGAAAACCACCCATATTGAGAATCCCTTTTGTTCCCCTGACCCTTTCTCTGTGTCTGTGTACTATGATTTCCTTAAGATCACAAGCATTTCAGCCTCTGCAAACATTGATTGGAAAAATTACTTTCAAATAGATAACATTAAGATTTTTGTAACTTCTCATGCCTGCCTTTGCTGAACTTTTCCTCCTATCAGAAATATGGCCTTCCTCCTTTCTGATGCTGTGTCTCTTCCACGTAG
Seq C2 exon
GGAGTTTGCCTGGCGTGACCCTGAGCTGCCAGAAGTCATTCACATGCTGCAGCACCAGTTCCCATCGGTCCAGGCAAATGCCGCAGCCTACCTGCAGCATCTGTGCTTTGGTGACAACAAAGTGAAGATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026991-Pkp4:NM_175464:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.496 A=NA C2=0.013
Domain overlap (PFAM):
C1:
PF0051418=Arm=PU(9.8=5.4)
A:
NA
C2:
PF0051418=Arm=PD(87.8=80.0),PF0051418=Arm=PU(14.6=13.3)
Main Inclusion Isoform:
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: