GgaEX0007075 @ galGal3
Exon Skipping
Gene
ENSGALG00000005141 | HMCN1
Description
NA
Coordinates
chr8_random:277858-281168:+
Coord C1 exon
chr8_random:277858-277985
Coord A exon
chr8_random:279744-280016
Coord C2 exon
chr8_random:281073-281168
Length
273 bp
Sequences
Splice sites
3' ss Seq
TAACTTATCTTCTTGCTTAGTTC
3' ss Score
6.33
5' ss Seq
AAGGTATTG
5' ss Score
7.76
Exon sequences
Seq C1 exon
ACACACTTTCCTACTCTCAGGGTCAATGAAGATCAGTGAGACACAAGTTTCAGACAGTGGAATGTATTTCTGTGTAGCCACCAATATTGCTGGGAATGTGACTCAGTCAGTGAAACTAAGTGTACATG
Seq A exon
TTCCTCCTAAGATACAGCGTGGTCCTCAAATTATGAAAGTCCAGGCTGGCCACAGAGTTGACATACCTTGCAGTGCCCAAGGGAACCCTCCGCCAGCAATCACCTGGTTCAGGGGCAGCAGTGCTGTGCCAATAGGCAGCGGGCAGCCCACTCACAGCCTGGGTGGGGCTCTGAGCATCAGCAACGTCCAGCTTTCCAATGCTGGGATCTACAGGTGCATCGCCAGTAATGCAGCAGGCAGTGACACCTCCGAGATAACAATTCAAGTTCAAG
Seq C2 exon
AACCTCCTACTATGGATGATCTTGATCCTCAGTACAATAATCCCTTTCAAGAAAGAGTGGTAAATCAACGCATTGCATTCCCATGTCCAGTAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005141-'30-39,'30-38,31-39
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.045 A=0.228 C2=0.485
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(48.2=93.2)
A:
PF0767911=I-set=WD(100=95.7)
C2:
PF0767911=I-set=PU(22.0=54.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACACACTTTCCTACTCTCAGGGT
R:
TACTGGACATGGGAATGCAATGC
Band lengths:
220-493
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]