GgaINT0047242 @ galGal4
Intron Retention
Gene
ENSGALG00000012561 | PKP4
Description
plakophilin-4 [Source:RefSeq peptide;Acc:NP_001006529]
Coordinates
chr7:35925277-35927703:+
Coord C1 exon
chr7:35925277-35925427
Coord A exon
chr7:35925428-35927507
Coord C2 exon
chr7:35927508-35927703
Length
2080 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
CTGTTGATGGGTTGTTACAGGTA
3' ss Score
7
Exon sequences
Seq C1 exon
TTTGCAGCATACATTCGAGCTGCTGTGAGGAAAGAAAAAGGACTGCCAATCCTTGTGGAACTCCTGAGGATGGATAATGATAGAGTCGTTTCATCTGTGGCAACCGCCCTAAGGAACATGGCGTTAGATGTTCGGAATAAGGAGCTCATTG
Seq A exon
GTGAGTCCAGAACGGTGAGGGATAAAGAATAAGTCTGACCTAATATTGAAAGAGTACAAGGATGAGATTCTACCAGTAGAAATAACATATTTGATTTTACTGTATCACATCACTTGTGCCCCAGAAATTAATATTTTTGACAACAGAGCAATACCGTTATTTTGGTTTGCCTTTAGCCATCTTGCATGCCAGGCTCTTCACAATGGGCTGAAGTGACCTCAAATGAACTGGACAGGAAACTGTCAGTACAAAATATGATGGAAAACACAACTCTGCTTCCTTGGAGCTAATGAATGGTAACTTTCTCAGAGGGTTTCAAGGTCCCTTATGTATACTAAGAGAACAGGACAGCCCTGCTGCCAGTGCACCAGTAAATGCTTTAATAGCCCTGGATAGGGAGAGAGGGGAAAAGTCCTCTCCTAGTGAAATATTTCCACCAAAACCCAGATGTAGAGCAGTATGCGTATGGCTTTGCTGAATTAAGTAATCAGTAAGGATGCTTGCTAGAAGAACTTACTGGTTTCCTTCTGACAGTTTTAATATTTAACATTTAAAGCACTCGTCTGTGCCTTTCTCATCTACCCTTTAAAAACAAAAGTAAAAACTTCTGCTGCCTTGGTCAGGAATCTGTCTACTATGGCAAGTGTTGAGCACACCTTGCTCCTGTGGCCCTAAGGATCCTGCTAACTCTTGTCAAGATGTAAAGATGTTTGATTTTTTAACAGGAATTTTCGATACTGTAGGCTAATGGGGTAAGCATGCATGCAATAACTATTTATACAGATAAGGGATTGTTACTCTCAAAAAAAAAAAATGCAGTTGAAAATCATATATTTCTGGAGCTTTACCATCTAGGATGTTCAGAACATGTTTTCTTGCAGAGCAGGTATCATATCCATAAAAAATTAGGAGAAAAACACATACTTATGTTCCGTTGCATCAGCCATATACAGGCAATACTCTGTGAAAATCTGTTTTCAGAACCTTTCCTTCCCCTCGCAGCAGAACTTGTCAGTTAGGAACGTCCCTCCCCCTGTGCTCTCTGTCAAAGCCTCAGCTATCAAAGAGTTATCAGCTTTCCAGGCATAAAATATTCTCAGACATGAGGTGAGTCAGAAACAAGGCCGTGCCAGTGCCCTGTTTTATACAACTTTATCACCATTGGTCGGTGCAGAGCTCTGGGGTTTCAGTGATTAAAACTCTGGAGGGAAAAAGGGTATTTAAAAGAATGGGTACTCTAACAAATAGCAGTATGAGATGGTTTGTGGTAATGTGCATTGCTGAGCTTGCCAAAACACTGGCAGTGACAGAGTGGTGCTGTGTACAGCGCTGGTGGTGGTAACTTTCCACTGCGTGTGAAAAGGAATTGCTTTTGTGCGCAGAATTCATTTTTGGATACAATTTTTCCCCAGACACATCATGCAGATAGATAGCAAAGGGCTCTGAGAAAAGCTTGTTCATCAAGCACCGTGACGTACAAATACAAGTCTTCAGTAAAATCAATTAGTAATCGTTTAATTATCAGCATGTCCTAAGCAGTAAAAGAAAAAAAACAAAAACACTTCAGCTTTACTTGATTTCCTTTGTTTGCAGTGTGGTTATTCCTGTCAGTCAGTCACTGAAACTGAAGGAGCTGAGATCTGATCTCTTGTGGGTGACAAGCAGGGTGAACAGAATGTCTGAAGGAAAAAGGCGCACACGACTGTAAGGATTTCTTTAGCCCCCCATAAATGAAGCTGAGGAATGCACACAGCTCCTCAAATCACATGAAATAATCTAATGTTTTCTCTTGAATAATTCTGCTTTCTCCAAATAATCTGTTTCCAAATGCTCCAGTTTTAATACCAAAATGCAGGTTACTTCTCATAGTTTTTAGGCCAGAAGGAGAGAAGGGGGGAAAAAAGTGATCTCTACTCTCACTTGACTGTGTAAAGTGTGAAGTCTTGGAGCTTTTCCGTGCATTGGATCCCGTGTTCCGTTTGACTGCTTTCAAATGCAATTTACTGATGAGTCTTAGAATTTCAAATCTTAAGTACCAAAGCATATGTTCTGACTTGGTTCTGTTGATGGGTTGTTACAG
Seq C2 exon
GTAAATACGCTATGCGAGATCTGGTGAATCGCCTGCCAGGAGGCAATGGCCCAAGCATACTGTCTGATGAGACCGTAGCAGCAATCTGCTGTGCACTGCATGAGGTCACCAGCAAAAACATGGAGAACGCCAAAGCCCTCGCGGATACTGGGGGAATAGAAAAGCTGGTGAACATAACGAAAGGAAGAGGTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012561:ENSGALT00000020513:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0051418=Arm=WD(100=74.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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]