GgaINT0047233 @ galGal3
Intron Retention
Gene
ENSGALG00000012561 | PKP4
Description
NA
Coordinates
chr7:38046479-38048816:+
Coord C1 exon
chr7:38046479-38047037
Coord A exon
chr7:38047038-38048624
Coord C2 exon
chr7:38048625-38048816
Length
1587 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
TTACCTCTTCTTGGTTTCAGGCC
3' ss Score
9.95
Exon sequences
Seq C1 exon
CCTTCAGCAAACGTTGCTACCAACCGAGCCATGAGGCGCGTCAGTTCGGTCCCGTCCAGAGCACAGTCTCCCTCTTATGTGGTCAGCACAGGTGTTTCCCCTTCCAGGGGGTCTCTGCGAACATCTCTGGGTAGCGGGTATGGTTCTCCATCAGTTGCTGAGCAAAGATCCCTTGCTTCTCATGCCTATTCATCCACTACTCTGCCAGTACAGCGGGCGGCATCCCCGTATGCTGCACAGAGACCTGCTTCCCCAGTGACTGTGCGGCGGATTGGCTCGATCACATCCAGACAGACAGCAAATCCCAACGGTGGGACTTCCCAGTACCAAGCATCAGCCAGAGTTGGCTCTCCTCTTGCCCTCACTGATGTACAAACCAGAGTTGTTTCTCCACCCCAAACCCAACTGGGATCATCTTCCCCAAAGCGTTCTGGTATGACTGCGGTTCCGCAGCACTTGGGAACAACACTGCAGAGAACAGTTCATGATATTGAACAGTACGGACAGCAATATGATATATATGAAAGAATGGTTCCTCCACGTCCAGATAGCCTTACAG
Seq A exon
GTTAGTAAAAAAAAAAAAAAAAAAAAGTAAAGACACAGTTTAAAGCTTGTTGCAAGCCTGAAACTTGAAATTAAACAAACAAATATTGTAGCAGTAGTACACAACTGTGGTGTATTTTGTAAATGCTGATGTCAAACACTGTGTATCAGTGCAAGAAGTTCAAAGCAAATACCATCTTTCTCTCCGATTTAGCAATCAAGCTAGCAATGCATTGCATTAAGTTGCATGTTCTGAGGTTTACGTGGCAGTTCCTATTGAGATGCAGTTACTATGTGCTTTAAGTTATTTGCGGTTGCTGTTTTTGTCTGACCTTCATCTAAAGGAGCACAAACAGGTGTGATCTTGCAGTTAGGACTGTATGCTCTTCTGAGCAGTGACTGCAACATTTATTTTCTTTTAAACTATTATACTTCAGGCAATACCAAAATAATCTTATTTCGCAGCAAACAGAATAAGGGGTCTTCTCTCTGACCTCCATTTGCAAGGCTTAATAATCTACCAATTTGCTATGGAAAAAAACTGGATTGGTCACGAAAGGCAATTCAGTAGCAAAAGTGAACGCAGTCCAGTGGATCACATAGTTTGACATAGCAGTAAATCTGTACTCTTAAAGTACTGTTAAGGTACTTTACAAATATCAGTGCTTGAGAATATTTTCTTCTCTAAACAGGTGAACTAATATATCCCCTTAAAAGAGATGAAAAGACTTACTGGGGTAAATCAGTGATTCAGAAACAGATTTTAAGTTCAGTGCATTTGTAGTTTTAGCGAAATAATTAGCAACTGCTGTAGTCATGCTTAGCAACTCATTTTGTAGCCATTTTTACTATAAACTTTCCAGGAAACAGTTATTACTTTCCTGTGCTCAATCCTCCAGCGAGAAAAGCCTTACCTTTCCTCATATAAAGTAGTCCTCATGTTTCTTTAGGGGAATAATTTAATACTGAAATCTTTATTGGGTCCAGGAGAAAGGTTAGTACTGATGCAGCTGTGCTGTTAGTACTGTCCAGAGCTGCTCCCTGCTACAGAAGCTGGATGAGAGGTTGGATCTGGCAGTGCCGCAGCGATAGCAGTAAGCCCACTGCTGAGGAAATTACGTTAAGTACAGCAGAGGTAAAATAAACAGAACTCAAGGTAGCCAGCTAAAAGGAAGGTGAAAAACAAGCATCTCCTACAGTTCCAGCAGAACAGGATATAGAAACACAGAATCATCTAGGTTGAGAAAGACCCTCAAGATCACCAAGTTTAACCACCAGCCTGACCTGCTGTGCCCAGTCAGATTCACCATGCTCAGTATGAACTGTGTGTGCTGACCTGGCTTCCACTCAGACTTTAACTGTAAATGCTGCAGTAAAAAATTGAGTTGGAAAACTTAAAGTTGGCAGTGTTTTATTGAGGGAATGCTGATTTGTCAATGAATGTTTTGGTATGCATCATTTAACAATGGAAAGAAGTTTAAGGCAGAAATGTTTCTTGTGTAGCTATAATACATTTTTTTTCTTGGCTAAAGGAAGGAAGATACAAGCATCGCTGCTTTACTTTTAATCAGTGTGGGCTATGTACATATTTACCTCTTCTTGGTTTCAG
Seq C2 exon
GCCTGAGGAGTTCGTATGCTAGTCAACACAGTCAACTAGGACAGGAATTACGATCAGCTGTATCTCCTGACTTGCACATCACCCCTATCTATGAAGGCAGAACTTACTACAGTCCTGTGTACCGTAGCCCAAATCATGGAACGATTGAGCTCCACCAGGGGTCCCAGTCAGCACTATATCGAACAGGGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012561:ENSGALT00000037713:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.955 A=NA C2=0.715
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
AGACAGCAAATCCCAACGGTG
R:
GGGTGATGTGCAAGTCAGGAG
Band lengths:
351-1938
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]