GgaINT0047230 @ galGal4
Intron Retention
Gene
ENSGALG00000012561 | PKP4
Description
plakophilin-4 [Source:RefSeq peptide;Acc:NP_001006529]
Coordinates
chr7:35905539-35910118:+
Coord C1 exon
chr7:35905539-35905573
Coord A exon
chr7:35905574-35909992
Coord C2 exon
chr7:35909993-35910118
Length
4419 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTA
5' ss Score
7.26
3' ss Seq
ATCTTACATTATTTTTTCAGATC
3' ss Score
8.84
Exon sequences
Seq C1 exon
TTCTACTGAGAAGTCATTTCCTTGGAGATCACCAG
Seq A exon
GTATTATCTTCTACGCGTACGTTTTGCCATATGCCACAAACCCTTCGTTTCCTTGGCATTTATTGCTTGTTTTGATGTGCACTGAACATTAGCAGTAATGCTGTGTGTCTCTTTCAGATATGTTTTGTAAAGCAACATTAATATACTCTTTCACACATGGACTTTTCTGTTCCTTTGTTATTACAAAAGCTTATTTAGCTTAAGTAAGGGTAGTTGCAGCTACTTTTCTTGCATCCTTTTGTGCCTTTATGATTTTTGTGTTGTATGATACTAACAAACTTTACATGTTTGGTGTCCTTCACAATTAATTCAAAAATAACTTTGAGTCTTCCCCATAGCCCATAAGGACCATGAGGACGATGTGTGTGCTTTAAGCCTGAAGTCTGTCGTTCCTTCGTACGGCTATTCTTACTTAACCTACATCCTCCAATGAGCACAGGTTTTTCTGAGAGTACTTTTTCTGTTTCTGTATCTCAGGATATCTTAAACTCTCTTTCCAAAATATGAAAAATTACTCTTGTAGTTCCTCTGAGTCTTCTATTAAGTATATTGCATGGAAGTGGATAGGACTGTAGTTTTCAAGTGAGATCCAGGTGTATAATCTGAAGGAACTGTTAGAACCATCCGATCTGATCCTCGCAGATCAGGGCATTTAATGATTGAAAAGTCAACCTCTGACCAGCTGATAGTTTCTTTAGAGAGATGAATGTATCTGCAGAAATCAGCACTGCCAACACCACAGAGCAGGACCAGAACAGGACCTTGGCTCCCTGCAAACTGCTCTTTGCACTGGGCCCTGTTTTCCTCATTCAGTTGTAAATTCTTGAAAGGATGTCATGGTAAGCAAAACTGGTTGAATATAATAAAAATGCAAACAGAATTGTAGATAGCTTGTTACTAACTAAAGATACATCAACACTGTGCAGAGCCCCGTGTGAAGGTGCATGCAGTTTTAAGAACTACTCAATGTTTTGCATCATAACACACCATAAAAAATAATGCATCATAATTATCTGCTTGCTCACTCAAATGTATTTATAATTATCCATATTCTTGGTAAATCCATCTCTCAAACTATCTTCTTTCCTTTTTTTTTTTTTTGTTTGTTTTGTTTATAGATACTAAGTTCTTAAACCTTGTGTATAATTCTATTTGCACAGTTTCAGTTGCCATCATGGTATCACCTCTGCTGACATGAGGTATATTAGCTTTTTTATTTGCAATCTAATGTGGTCACAGCCTACTTGCAACGGCATTCAATTTTTGCTAATCAGGGTGGTGTTTGGGGGTGTTCTTCTAACACTATTTTCAAACAGAAATCACATTAGCTGGGTTTTTTGTTTGATCTTTTTTTCCAAGTAATTGGGTTACTTTGTTGTGTTGTTTGTTTGTTTTTAACTTTCATTCCGAGCATTATTTTCATGGCTTTATCTTACGTTATTTCCCTTGGCTCTGTAATGTCCCAGTGGCAGCTCACCACTGGTAAAGGTATATTCTGACACATCTCAGCCTCTGTTTTACAGACTTATCTCATCCATTCGCATTCCATTCCTTACTTCCTCCTCAGTTGTTCCTGCAACCTACTCATCTGTTGCTTTTTCTCCTCGTCTTTCCATTAATTTGTCTCTTTCATCTCTGTCGCTCTTATTTTTATCTTATCCTGTAGCTCTGTCCTCCCATCTGCTGTTTCTTTTTCTTAGAAATCCCCTGCTCTGAGGTCACCTCGCGCTTGGCAAGATGGCAGAACTTAAACAGGGAGGTCCGAGAAGTGGAGGAATGCACTTCTTGTTGTAGAACAGGATTTGTGTCCAAGCTGTGACAGTTAACAAATACACAAGCTTTAACTTAAGAGCTTGTGCTTCTGCTTAAGTAGTGCATGTGTAATACCAAACGAGATGTATGTTACGTCCATCTGGGTGTATCTGATGTAAGGCTGTCCTGCAGTAATGGCTCAGAAGTGGGCACGTTTGAAAAAAGTGTATTTTTTGCTTGGAACTTCAGCTGATGCTAGGAGTGTTATTTACTGTTCATGTATATGTGGTGAGTGTAGCATGATGGTAGGTTTTACTTACTTACGAGTTCACTTCTGAGCTTTACCTTAAAGAAATATCACTTGATGATGTCTTACTGTGATCTGAAAAATACTGACACCAGAGCTGAAGGACAGGGCTGCCTGCAGTCACTGTTTCTGACTTGCAGACGGCAGTTTATGTCAAAAGACATCAGCGGGCGGTGTGGTGTGACCTTACCTGAGTGCATCAGGAGAAGTATACAGGATTTTTAACAGGAATATAGCATGGCGTTGTTTTGCAGATGCTTGCGAATAGAATATTAGATCAGCAGCCGTTTATAAAAAGGCTATTATTTTATTCGGGGCATTCTCCTCATGATTGATAGTAGCAGAGAGAGAGATAGAAAGACAAGACGTTTTATTGTGCTTTCTTGCATTTGTTAGGGAGTCTAAACAATCTTTATTATTTGGCCTCGTGAAAGCATTTGCTTGGTGGCAAATGTTATGATAGAAGTGAGGTTTTGGTTTGGATCTCTGCTTAGGAACAGCTGTGCAGCGCTGCACAATTGAACTTTATTCTTCGGATGTTTCTCCCCAGATGGGTTATTTGTCAGCCTGGCATACATTTGATAATAACGTGACAGGCAGGAGGCAGCACAACAGGGCCTTGCATCACTTAAAGAAAAAAAGGTTGAAAACTAAAATGTTCAAGCTAAAGATAATTGTAAAGTAATTTAACTGCCCCTGTCCCTGCAGCCCTTTAGTTTAAAGAGCATGTGTAATACCCACTTCTGTCTGCCAGCACTGAGTTACTTCAGCATTGGTTTTCTGTATCATATCTAGAGAGACTTGTGATGAAATTAATGCAAGTGTAGTAACGCTTCTTAAGTCTTAATTAGATTTGGTCTATTATACTCCCATTACAGTGAATTGATTTAGCATCAAATATAGTAGAGGGCTTGGCCTAAGAACGTTCTGCTCCCCAGTAACTGTGCTGGCTGCATGTCATTTGTAAGGTGTGTTGTCTTTATGTCTTAAATCTGGTGTTTGAACAGTGTTCAAGCATTCCTCATAATAGTAATTAGTAGCATTTTTAGTATGGGAATTCCATTACTGCACAAACATTGAGACACCAGCACTTGGTGTACAGCTATTGGTAAAAATCAGGTAAGAGTATTTCTGCTTTGGCTTGTTAGAGCCAGGAGCATCCCTACCTCTTTTGGAGTTCTCTTTCATGGTGTACTGCAATAACGGCTGCAATAAAGAATTTTTAATAGCCCATCTCTTGTTTTTTGTGATTTTTTTTTCCATGACTGCTGACAGATTTTATATCAGAACCATTATTTGTCAGTCTGAGACTTTTCTTTAGCCCCTGCATGGAGTTTTTCAGCCTTCCTTCGTATTTTCTTCCTCAGTCATTCCCACCACAGCTCTGCTGTCAGTCTGTGTGGTTTTGTACCCTGCTGGGAGGTTTGGTTTCAAGGAGTGCTCCGCAGGCATCGCCAACAACTCACACCTTTAACATGCAGCATTCACAGCAGTTGTTATTCAACCATTGCTTCCCAGCATGTTGTTTTGGGTTTCCCATCCAGGTGCATTCACACATTTCTTCAGCACAAATGTACATCTCTGGTGATAACTTTAAATGCAATCCACATTCCCTACTGCATCTCTGACACCTGTTCCTATCAGTATGAGTGTGACATGGCAGTTGAATGACAACTGAGTATTTTTGTCAAAATAATTTTGATTCAGTGTTCTGTTTGGTGCCCTCATCTTTGTCGTCCTATCTCAGACTGTTCAAGTTTCTCATTTCTTCATAACACCGCTCTGATGTTTTCTTTGCTTTCTCTTACATATGATGAGCCTTCCCTTTGCTACCTATGAAGTTCTGCTAATATTCTTAGAACTGATGTTACCTTAAGAGTCATTAAAAATAAGCACTTAGATAGTAATATATTAAATAAAGCATTCATAAAATTTGCAACAGCTTCTGTCGATGATACACAAGTAGGGATGGAGTTCAACTCAACCTTGTATTTATTCAGGTCTTGAGATAATAGGTGCTTAAGACCAGCAATGACTATTCTGGGTTCTACCGTGCAGTTCCATAAAGTTTCTACTCTGCAAAGTACATTTGCTAGGTAACCAATTACACTTTATTAATGTAGGTTGAACAGTACATTTAAAAATTGGGAACTGTAGAACTACCTCAAAACTACAGGAAATAAGATTCCCAGACACAAGTATGATAATTTCTTTCCTTTAGTTTGGTAGATAGTAACTGCTGCCTACCAATAGGCTGCCTTGATGTTGCAAGTTCATCAGTAGTGTTTGAGAATTATTACTGAGTGTGCAGAGTCCTGCATGTGAAGTACTAGAGTCCTCATCTTACATTATTTTTTCAG
Seq C2 exon
ATCCAGCAGCCACCAGTGCAAACAAACCCCTCGTGTCAGAGGGAGTTCATACCAATGCCTATCACATTAGGACAGAACCAGTACAAGGGAACCTCTACTCACCGGAACAGACATCTCTCCATGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012561:ENSGALT00000020513:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
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]