GgaEX6014844 @ galGal4
Exon Skipping
Gene
ENSGALG00000008532 | COBRA1
Description
negative elongation factor B [Source:RefSeq peptide;Acc:NP_001006202]
Coordinates
chr17:1898989-1902218:+
Coord C1 exon
chr17:1898989-1899219
Coord A exon
chr17:1900661-1900846
Coord C2 exon
chr17:1902106-1902218
Length
186 bp
Sequences
Splice sites
3' ss Seq
TTTTTCCACTTTGGATTTAGGTG
3' ss Score
9.77
5' ss Seq
AAGGTATTA
5' ss Score
7.04
Exon sequences
Seq C1 exon
GTGCCTGAGAAGAAGCTGAAGTTAGTAATGGCTGATAAGGATTTGTATAAAGCATGTGCAGTGGAGGTGAAGCGCCAGATTTGGCAGGATAACCAGGCTCTGTTTGGTGATGAGGTATCTCCACTGCTGAAGCAGTATATCCTGGAGAAAGAAAATATTCTGTTCAGCAATGATATTTCTGTCCTGCACAACTTCTTCAGTCCATCTCCCAAAGCAAGACGTCAGGGAGAG
Seq A exon
GTGGTTCAGAAGCTGACTCAGATGATTGGGAAGAATGTGAAGCTCTATGACATGGTGTTGCAGTTCCTGAGAACTTTATTCCTCCGGACAAGGAATGTGCATTACTGCACGCTGCGGGCAGAGCTCCTGATGTCACTGCATGATCTGGAAATCAGTGAAATCTGCACTGTTGACCCCTGTCATAAG
Seq C2 exon
TTCACGTGGTGCCTTGATGCCTGCATTCGGGAGAAGTTTGTGGACAACAAGAGAGCTCGGGAATTGCAAGGCTTTCTGGATGGAGTGAAGAAAGGACAAGAGCAAGTTTTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008532-'9-10,'9-7,10-10=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF062098=COBRA1=FE(16.1=100)
A:
PF062098=COBRA1=FE(12.9=100)
C2:
PF062098=COBRA1=FE(10.7=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGCATGTGCAGTGGAGGTG
R:
CCGAGCTCTCTTGTTGTCCAC
Band lengths:
243-429
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]