DreEX6046287 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34268551-34269223:-
Coord C1 exon
chr20:34269053-34269223
Coord A exon
chr20:34268807-34268977
Coord C2 exon
chr20:34268551-34268721
Length
171 bp
Sequences
Splice sites
3' ss Seq
ACTGGTTTCTTATCTATCAGTGG
3' ss Score
6.47
5' ss Seq
CTGGTGAAT
5' ss Score
3.53
Exon sequences
Seq C1 exon
TGGATGGTAGTTGGTCAGAGTGGTCTTCCTGGGAGGAGTGCTCTCGTACCTGCGGTCAGGGTAACAGAACAAGGGTGCGGACATGTAGTAATCCTCCTGCCCAGCATGGAGGGAGAGCTTGCGAGGGCAAAGCGGTGGAGGCCATCATGTGTAGCATAAGACCATGCCCAG
Seq A exon
TGGCGGGAAACTGGGGTGCCTGGTTGCCTTGGAGCCCTTGTAGTGAAACTTGTGGCAAAGGGATGCAGACAAGACTCAGACTCTGCAACAATCCTCCACCTTCATTTGAAGGGCCGTCGTGTGAAGGACCAGACACACAGACACAAGTGTGCAATGAAAGGAATTGCCCTG
Seq C2 exon
TGGATGGTAAGTGGTCATCCTGGGTAAGTTGGGGGGCTTGTAGTGTTTCTTGTGGAGGCGGTACAAGGCAAAGGACACGCATCTGTGCAAATCCCACACCCCAACATGGTGGACGGCAGTGTGAGGGAAATGACATCCACATTGACTTCTGCAACAATGAACCCTGCCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'101-99,'101-98,102-99=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.034 A=0.017 C2=0.034
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=WD(100=87.9)
A:
PF0009014=TSP_1=WD(100=87.9)
C2:
PF0009014=TSP_1=WD(100=87.9)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTAATCCTCCTGCCCAGCAT
R:
GGCAGGGTTCATTGTTGCAGA
Band lengths:
253-424
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]