GgaINT0090279 @ galGal4
Intron Retention
Gene
ENSGALG00000009158 | CDC42BPA
Description
serine/threonine-protein kinase MRCK alpha [Source:RefSeq peptide;Acc:NP_001186372]
Coordinates
chr3:11769323-11770777:+
Coord C1 exon
chr3:11769323-11769404
Coord A exon
chr3:11769405-11770560
Coord C2 exon
chr3:11770561-11770777
Length
1156 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
TGTATTTAAAATTTTTTCAGGTC
3' ss Score
8.91
Exon sequences
Seq C1 exon
GGATGAAGAATTCTCAGTGAGTTCTGTCTTGGCTTCGGATGTCATCCATGCAAATCGAAAAGATATCCCCTGTATCTTTAGA
Seq A exon
GTAAGTATGTATGTCTTGAACTTATTAACCCAGAAGGACAGGATTTTACTCTGTGATGTGCAGTGTGCATTCACAGAGTGCTTACTTAATGTGTAACTTCTTCTGCAAGTTCTGGCTGTGTGGTGTTTGTTGCTGCAGCAGTACATAAATCTCTGTACTTATTCATACATATTGTACATTTTTTGTGGTAAAAATAGCACTGATATATTTAGACGAGCACCCGTCTCCATTTTACATAGGTTTTATTTTTTTCTAATCTTCTCATTAAGACCTATGTCTTAAGAGCTTTCTGTTTGTCATTTGGAATTCTTTTGTTCATGATTTTCTACATTTTCATTTCCCAAAGTTGCTTTCTGCTTCTCAGTTTGATTTGTCGAATTACTTCTGAAGCCTTTATTATATATTAATTTTTAGTATATAAGCACTGGATCTCTGAAAACTCCCTCATCAGGTAGTTATTACAGAAATCCAGTGTAACATATTCATAAAAATTTGTCAATTACATGGTATCAGAGGATTTTGCCATCATTGACTTTTTCTATTACTCTGCTGGATATTTAATTGAAGATTTGACCTCAGTGAAAAATTTGACCTCAGTCTAATTAATTCCCATATCATTTCTTTACTGTACCATTGTATTCCACTCCTTGACTTTACAGCTTTCAGGCTGTTCATCACTCTGCATGCTGAGGAGATAAATATCCCAAAGTGGCCTTCACTTTTACCTGTTTTAGTTGTACCAAGTACATGAAAAAATTCATAAAGCATTCTTATGTATATACCATTCCTATTGCATTAATTAACAGTGAAAGCTATTGTACTTTAAAAAATATGAAATGCTTTGTATGAAATGCTCTACATTAAAAAATCACTGAGATAACCAGATGTCTATCTGATTCAGAGTGGATGTTTCCAAATTACAGAATGAGTATAAATGCATTTAAGAAAATAAATAAAGTTTTCAGATTTTGCTGAGTTATTCACATTAGATTTTTCTGTGATAGAGTTTTTCTATTAAGTAAGGCTAAATTTCTTGCATTCTTAGCTCAGACAGCTAATTGAAAGCATCTACATGCATTTGATGTCTTTGTATAAATGATCAGGATGAAATCTTTTGTTGCATAAGATTTAAAATATGTATTTAAAATTTTTTCAG
Seq C2 exon
GTCACAGCTTCCCAACTCTCTGCAACCAGTAATAAGTGTTCAATCCTGATTCTAACAGACGGTGAGAATGAAAAAAGCAAGTGGGTAGGAGTGCTGAATGAATTGCATAGGATCTTGAAGAAAAACAAACTCAAAGACCGCTCAGTCTATGTTCCCAAAGAAGCTTATGACAGCACCTTACCCCTCATCAAAACAACGCAGTCAGCAGCAATCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009158:ENSGALT00000039364:27
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0078017=CNH=PU(1.9=6.8)
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:
TGAAGAATTCTCAGTGAGTTCTGTCT
R:
ATGATTGCTGCTGACTGCGTT
Band lengths:
294-1450
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]