GgaINT0047242 @ galGal3
Intron Retention
Gene
ENSGALG00000012561 | PKP4
Description
NA
Coordinates
chr7:38060522-38062948:+
Coord C1 exon
chr7:38060522-38060672
Coord A exon
chr7:38060673-38062752
Coord C2 exon
chr7:38062753-38062948
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:ENSGALT00000037713:16
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=0.027
Domain overlap (PFAM):
C1:
PF0051418=Arm=WD(100=74.5)
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]