DreEX6046264 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34283323-34284091:-
Coord C1 exon
chr20:34283960-34284091
Coord A exon
chr20:34283563-34283712
Coord C2 exon
chr20:34283323-34283482
Length
150 bp
Sequences
Splice sites
3' ss Seq
TGTTTTGATTGTCTTTGTAGAAA
3' ss Score
8.08
5' ss Seq
ATGGTACAG
5' ss Score
3.5
Exon sequences
Seq C1 exon
TTCCCCCCAGGCTGGACGGCCCAGCAGAAGAACGTGTTGTCGAAACCATTAGTAATCCTGTCACCTTCGCCTGCGATGCTACCGGGATCCCTCCTCCCTCCCTCACCTGGTTGAAGAATGGCAGAGTAATAG
Seq A exon
AAAACTCAGAGTCTCTAGAGATGCATATCCTGTCTGGGGGCAGTAAGCTGCAGATTTCCCGCTCACAGTTATCTGACAGTGGCACTTACACCTGTGTTGCATCCAATGTGGAGGGCAAGGCCCAGAAAAACTACCATCTTGTAATACATG
Seq C2 exon
TCCCGCCAAACATTATAGGATCTGAGTTACCCAGTGAGATGAGCGTCCTGCTGAACGACAGCGTCCAGCTGGTGTGCCGCGCTGAAGGAACTCCTACCCCTGAGATCCAGTGGCTGAAGGATGGTATGACAATTAGCAGAACTGCACAGAAGAACATTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'65-69,'65-68,67-69=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=0.000 C2=0.148
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(45.6=91.1)
A:
PF0767911=I-set=PD(53.3=94.1)
C2:
PF0767911=I-set=PU(53.4=87.0)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCAGCAGAAGAACGTGTTGT
R:
TGTCATACCATCCTTCAGCCAC
Band lengths:
244-394
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]