GgaINT0047245 @ galGal3
Intron Retention
Gene
ENSGALG00000012561 | PKP4
Description
NA
Coordinates
chr7:38064985-38067644:+
Coord C1 exon
chr7:38064985-38065102
Coord A exon
chr7:38065103-38067512
Coord C2 exon
chr7:38067513-38067644
Length
2410 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
AGCCTTTCTTTTTTCATCAGTTG
3' ss Score
6.45
Exon sequences
Seq C1 exon
GATGGATGGAATCAGAGTCACTTCATTACACCGGTATCGACACTTGAACGGGAGAGATTCAAATCCCACCCCTCGTTATCAACAGCAAATCAGCAGATGTCACCGGTCATACAGTCAG
Seq A exon
GTCAGTGGAGACACATAAAGAGATCTACTGAAGGGATATCTTGTATCTCATTGAACTCAAATGGCCTTTCAGTTGACTTATCATTCTAAAGCATGGGGGCCCTACTGTGCCTTCTCTGTATTTAACCCTACAAACAGCAGTGCACAGGTGTGTTACCCTGTCTGATACTGCTGGCAGGTTCCAGATCCCACATTGTGTGAGCATCTCCACTTCTGCATTCGGATAAAGCACGCTTTGACATAAACACCCCCTTCTACTCCGTAATGTCAAAAGCTCAAACAGGCTCAGAATGTGTGAAATGTATTCCTTTCGGACGAATCAAATCAGATGGTGTGCTTCCAGAACACCAGTAGACCCCAGCTGATAGTGGGCATGCAGCCTGTGGGACCAGATTAGATGTAGTCCTAAGTGAAATCCTCAGTGCACACTGTGTGGACATCTGGACTTTGTCACTGTTTCCCTCTACAAAATCACCGCTTTTCAGCTGCATGGCATTGTAGGTCAGGCCTCAACAGGTATACAACATATATTACTCTTCTGACTCCTCACAGTTGCAGCAAGCCCCCCTTTGTTCCTTTAACATCTCCAGGAGTAGGATTTAGATCTTTGTGACAGGACTGCCCTGCAAGGCTTTCGGTGGGTTTTGTATCCGCTGAATTTAGCGTTTTATTTCATCCAATTTGCCCTTCAATTTGTATGTGAATAGAGCTTTCTTAATACTGAGAAAAATACATTTACCATTTGCTAAAATAATTGACCAGCTCCTACAATACAATCGATTAATTACTTACATAAATAAAAGGAACAGCCCTCACACACACCTTTGTGAAACAGGTGACTGAAGAACGGGGACTCAGGCAGGGATTTATTTTGCTATCAACAGTATCCTGTAGTGACTCGGGGAAAGACAGCACATCCTTCATGCCCAGAGTTCCTCTCAGCCACCACCATACAACACACAGGACTGATTTCTTTGTCTGGTGTCATAAAACAGCAGACTACAGTCTTCAGTTCTAGAGCATTTTGTTGTTCTGATCTTTTTGTTCAGTTACATGTTCAGTTTTCTCCCATCCCTTTGGGATTCTGAGAGATTGTTCTGAACAAACATCCCTTTGTCTCCCTCCAACCACATAATACCAAAGGCAGTTGCGATGTACTCCTGGATAAGTTGCTAAGTTGCACATGCTGGTATCAAAACTGCATTTGTGGACTGTTTAGGCCATGTATCTACAGCCAGAACCAAAAATACATTCTCAAAAGAAGCAGTGACTCTGAAGCAAATTCTGCTCAGGCTCTGGGAACGATGAGCTTTTCCTGAAGCTCTCTCCCTAAGATACGCTGGCAGAATGACTGTGGTGCTCCGGTTCTGTGAACTGTAAGTAGGAAATAAGATGGGAAGTTCTAACATAATATTCTAAGGCTGTTGAACTTCAAAGAGCACTGAGCAGAAAAAAATACCAACAGGAAGTGCTCGTTTTTCTGTTCCAGAGCATGACCAAGCTTAAACTATTAGGGCGGATGCTCAATGCATAAAGCTTATCTGCAGAGAGTACTGTGGGAACAGCCCTGCAGGTTGCAGCACGCACAGCAGATGTGGTAGAACACTTGTATGTGGTCTGCAGCAGTTGTTCTTTGCTGAAGTCACTCAGTGCATGCATTGAGTTGACCGCTTCCGGTATGACGCTCCCCCAAATTAGCTTTTTTAGCCTTGAGTATGCTAGGAAAATGTCAGTAATTAAGCTATTCTTAATAACCAAAAATTGTGAACATGACATGAAGGACACAACTATTGGAAGAAGAAAAACAGGTGAAAAAGAGGTAGTTGTACAAACTTTCTGCATCTGTTCACTGTAATGAAGGCAATGGATTACGTTGTATTGTTTTACTATGGCTGTCAGCCAACAGAAGCTGACCAAGTGGCCAAGATTCACTTCTGCATGATAGTGAAAGAAAAATAGTACAAGTCTGTGCATGGGTGACTTCAACCAGGCAGAGTGTAATGTTACCTGACCTGTCCTGGGTGACATGGTGGACTTGAAGATTCTATTTAAGCATAACCTAAATAAAATCATAAACTTTAACAAAGAATTGAATGATTGCATTTGTATTTGAATAGTTATGTTACAGAAAACTCTAAAGATGTCATAACCAAAATGAAATGGGTACGGTCTCTCACTTATTTCAAATCATTATGGAGTGCTGACTGGTTGTAGAAGTATCAGTGATAATTTCATGGTGCGTTGTTGATAGCTCTCATCATTGCAGTCCTTCATACAGGAAAGGCTATACACTAATTTTGGCCATTACCCGTGAATTTGCTCATCACATTTGCTGATCCTTGGAGAAGGATGAGGAGAGAAGAGAGAAAGATGATCAGTCTGTGCAATAACAGCCTTTCTTTTTTCATCAG
Seq C2 exon
TTGGCAGTACATCTTCATCACCAGCTTTATTAGGAATTAGAGAACCCCGCTCTGAATATGACAGAACACAACCTTCTATGCAGTATTACAACAACCACGGCGATATCATTACTCACAAAGACATCTATACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012561:ENSGALT00000037713:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.537 A=NA C2=0.556
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]