GgaINT0047246 @ galGal3
Intron Retention
Gene
ENSGALG00000012561 | PKP4
Description
NA
Coordinates
chr7:38067513-38068440:+
Coord C1 exon
chr7:38067513-38067644
Coord A exon
chr7:38067645-38068366
Coord C2 exon
chr7:38068367-38068440
Length
722 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGG
5' ss Score
10.19
3' ss Seq
CAAAATCTATTTTCTCACAGGCT
3' ss Score
7.11
Exon sequences
Seq C1 exon
TTGGCAGTACATCTTCATCACCAGCTTTATTAGGAATTAGAGAACCCCGCTCTGAATATGACAGAACACAACCTTCTATGCAGTATTACAACAACCACGGCGATATCATTACTCACAAAGACATCTATACCG
Seq A exon
GTAAGGTGCTAGCTAGGTGACCTCCTACCTGGAATAAGTAAACATTCCTTCTATGTGGAGTTCATGCAATCGTAATACAGCTGCATTAGCAGAAATGTTGCTTTTAATGTTGTTTTCACTTCTATTCATTGCACGAGGAACAGAAGAGGTTTTTCTTATCTATCTGCTATTTTCTTTAAAATTACAAACATTACCAGAACAACAGATAATCTCTGAGGTCCCTTCCAAACCAAGCCATTTTTTGATTCTATGAATAGGAGATCTGTTTATATACTGGGAGGTGAGACATTTGGAAAACTTACTTTAGTTTAAAAATCTGTTGCAGAAAATTATTATACACTTCATATGTTATAATCAAACATTTTTTTAATATGCATATATATAATTATGTTATTGTAAAGCTATACCAGTATTTCATGCCTCCCTGATTTTGCTTTTCCTTCTTAAAGTCACAAAATAAGAGATGTCAGTAAAAAGGGAGAAATAAAGTCCTCATTTTAAAGGTTATCAGCAGCACACATGCATGGGGAAAAGGGAAAAAAGCACTGGGGTTTCTGTTCAACTACTGCTGAGGGATAAAATTCACTTGTATCTTAGTAGTAGTAGTAAACTATTAAATCTGCAGTTAATTGTTGGAGTGCTACATAATTTTTCTAGATAAAATAAAGCACAAACAAAAAAAATAAAGACCAAAGATGATGCCAAAATCTATTTTCTCACAG
Seq C2 exon
GCTCCAGCAAAACTTCACCAATTTACATCAGTTCTTATTCCTCACCAGCGAGAGAACAGAACAGACGGCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012561:ENSGALT00000037713:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.556 A=NA C2=0.640
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:
TTGGCAGTACATCTTCATCACCA
R:
CTGTAGCCGTCTGTTCTGTTCT
Band lengths:
206-928
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]