DreEX6046293 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34263558-34265718:-
Coord C1 exon
chr20:34265481-34265718
Coord A exon
chr20:34263792-34263854
Coord C2 exon
chr20:34263558-34263677
Length
63 bp
Sequences
Splice sites
3' ss Seq
ACATTTTTTTTTTTCCTCAGGAG
3' ss Score
10.49
5' ss Seq
CAGGTAGAG
5' ss Score
7.1
Exon sequences
Seq C1 exon
GACTACACTGAAGACTACATCCAGACAGGTCCCGGACAGCTGTATGCTCTGTCTACACGTATGTTCAGTATAGATAGGGTGAGTGTGCCTTACTCCTGGAATCATACTATCACATATGGACCATCCAGGGGAAAGATGCCGTATTTGGTGCAGACGCTGCACGCCTCAGCTATCAACGCTTTGTATCATCCACTAGAAGAGATGCTGGAGTTTGCCATCCAGGCCACCATTGCTAAAG
Seq A exon
GAGAGCGAAGTAATCAGTGTCCCAGTGGTTTTCAGCTGGACCCTACTGGCCCATACTGTTCAG
Seq C2 exon
ATGAGAACGAGTGTGTGGAGGGAAACCCCTGCTCACATGCCTGCCACAATGCTATAGGCACATACTACTGTTCCTGTCCCAGAGGACTCACCATTTCAGCTGATGGCAGAACATGCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'110-107,'110-106,111-107=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:
PF074747=G2F=PD(26.2=61.2)
A:
PF146701=FXa_inhibition=PU(4.9=9.1)
C2:
PF146701=FXa_inhibition=PD(92.7=92.7),PF0764510=EGF_CA=PU(0.1=0.0)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGGGGAAAGATGCCGTAT
R:
TTCCCTCCACACACTCGTTCT
Band lengths:
139-202
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]