MmuINT0120917 @ mm9
Intron Retention
Gene
ENSMUSG00000026991 | Pkp4
Description
plakophilin 4 [Source:MGI Symbol;Acc:MGI:109281]
Coordinates
chr2:59188551-59190392:+
Coord C1 exon
chr2:59188551-59188679
Coord A exon
chr2:59188680-59190318
Coord C2 exon
chr2:59190319-59190392
Length
1639 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
AATAAAATATTTTCTTACAGGCT
3' ss Score
7.81
Exon sequences
Seq C1 exon
TTGGCAGCACCTCTTCCTCACCAGCACTGTTAGGAATCAGAGAGCCTCGCTCTGAATACGATAGGACCCAGCCACCTATGCAGTATTACAATAGCCAAGGGGACACCACACATAAAGGCCTGTACCCTG
Seq A exon
GTAAGATGCCAGTTGGGTGTGTGATGTGATACCTGAAGGAGTCACCTCTCTGGGTGGCTCAGCCAGTGTCCTGGGAACAAGCCTATGCTTATGTCAGCTCGGTCGTAGCAGCAAACCACCCCATTCCTTCTCCGCTGCTGTCAGGATTGTTGCCCTCTCTGCTTGTCTTAAATAAATCGAGCTAATATAGTTATACGATGACCACAAATTAAAGAGAGGGCTTAGCTCTGGTGATCATTTCTGGCTGCCCCGGGTTCCAATCCCTTTGCTCTTGTCCCCCTTCTGCTCTGGCAAGAGTCCCTTGTACATCAGAAGTGAGGGTCCCATGTGGCTTCTCCTGAGTTACAAGTACTCTCCAGACTGGTTCAGCTCTAAGTTCACACTGACTGATAACAGTCTAGTCCCTTGGGGGAAAAGAGTTTGAGTGGATTGTAGAATATATCATATGATAGTCCTCAAGTGTGACTACCTTTAAGAACAAAAATATTATTATAGTGTTAATACTTTTATATCCTGTTCAGAAAGATATGCATGAAAAATATTTTAATGTTGCTAGCCCAAAACATAGTTGGTCCACTCTCAAAGATTTAGGGATTAAAACTACTCCTGAGGTTCCAAAGAAGCCATGAGCTACTGCAAAAGAAAAAGTATGTTTTCTTCAACAAGAAAGAAAAGAAAAGAGATGGCAAATAACCTATTTATTAAAAGGAAATAAGCGAGAGCTGCCGGCAGCTTAACTGCAGCAGGGGGAGGAGTCTGAGTTGTGCTGTTGTCTTTGAAACTGTGATTTTGCAGGGCTATTTACTAATTGACTATTGTTACCATGGCAATTAATAGCTCAGAAAATTGCAGATGCTACATTTCTAATAGCAAGCTCTGTGCAAAAGGGAACACACACACACAGGCTGAAGTGCAGGCAGCTTCAGGTCTGCAGCAGCCGGCTTCGCTGTACAGACCGCCTCTCGAGCATGCACCCTTTATCTCTGCTTGTTTCAATAGACTTAATTTGCTTGGAGTATGCCTTATTTTCCTTGTTAAAAAATAAATAAATAAAGCCTTTGCTGGTTTTAGCAGGAATGCAAGGGAGAGTAGTGACGTCATCAGGAGTCTGCTCTCGACTCTTTGAGGACAGTTGCCGAATTACCAATTTCTCTTCTATTTACAACATACTTAGCTATGGCAGACCCAAGACTGTGCCCCTGTGTAGCCCCACTGCTTTGAACATGCCTCTGCCTGTCCTCCGAACTGACTCACAGCTGCTCGGAGGCACGAGGTTCATTCTAACGCTGCATTTCCCATCTCTCTGACTCACACTGTGGCTCAGGGGTCTGGAAAAATGGCGATCATCACTCACCTCAGCACAGGGAGCCGCACTACTGCTCAAAGCCAACTACAGACATCCCTGAGGCTGAGCAGAGCTTGAGATGGGCCCTCTCTAGGAGGGCTCTGCATTCACAGCGTCTTGCTGCCTGCCACACACACATGGCCTGGCTTTGCTGCTAACCATCACAGATCCAGGGAACCTGGGCCGCTGCCCTTCTGCCTGAGCTGGTGCTAGGGAAGGAAGGACCCACCCACACAACCTCGTAGGCCAGTGTAATAAGCATTAGTTTTAATTTAATAAAATATTTTCTTACAG
Seq C2 exon
GCTCCAGCAAACCTTCACCAATATACATCAGTTCCTATTCCTCACCAGCAAGAGAACAAAATAGACGGCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026991-Pkp4:NM_026361:20
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.886 A=NA C2=0.740
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGGCAGCACCTCTTCCTCA
R:
AGCCGTCTATTTTGTTCTCTTGCT
Band lengths:
199-1838
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: