GgaEX6045341 @ galGal3
Exon Skipping
Gene
ENSGALG00000005141 | HMCN1
Description
NA
Coordinates
chr8_random:224065-237731:+
Coord C1 exon
chr8_random:224065-224187
Coord A exon
chr8_random:234701-234872
Coord C2 exon
chr8_random:237625-237731
Length
172 bp
Sequences
Splice sites
3' ss Seq
TGTGTTATTTTCTCTTCTAGGTG
3' ss Score
13.65
5' ss Seq
TAGGTAAAG
5' ss Score
6.93
Exon sequences
Seq C1 exon
GTAGTATTTGTGCTAACTGGAGACTGTGATGACAGAGATCATATTGGTTACAAAGTCTATGAAGAAATTGCCTCAACAAGCTCTGGTCAAGTTTTTCACTTAGACAAAAAGCAAGTTAATGAG
Seq A exon
GTGTTGAAATGGGTTGAAGAAGCAGTTCAAGCCTCCAAAGTACATCTCTTGTCTACAGACCATTTGACCATGGCTGTAAATACTTGGAAGATCCCCTTTGATCCAAGTCTGAAAGAGGTTACAGTGTCCTTGAGTGGTCCTTCACCAGCAATTGAAATTCATGATCCATTAG
Seq C2 exon
GTAAACAGATTAGCAAAGGATTGGGACTGAACGAATTGCTGAATATCCACAACTCCGCAAAAGTAGTAAATGTCAAAGATCCAGACCCTGGAACATGGACAATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005141-'2-8,'2-5,7-8=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.094
Domain overlap (PFAM):
C1:
PF135191=VWA_2=FE(33.3=100)
A:
PF135191=VWA_2=PD(3.3=6.9)
C2:
NO
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTAGTATTTGTGCTAACTGGAGACTG
R:
ATTGTCCATGTTCCAGGGTCTG
Band lengths:
226-398
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]