DreEX6046265 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34283100-34283712:-
Coord C1 exon
chr20:34283563-34283712
Coord A exon
chr20:34283323-34283482
Coord C2 exon
chr20:34283100-34283224
Length
160 bp
Sequences
Splice sites
3' ss Seq
GTCCATATTGTGTTCTTCAGTCC
3' ss Score
6.3
5' ss Seq
TAAGTGAGT
5' ss Score
6.43
Exon sequences
Seq C1 exon
AAAACTCAGAGTCTCTAGAGATGCATATCCTGTCTGGGGGCAGTAAGCTGCAGATTTCCCGCTCACAGTTATCTGACAGTGGCACTTACACCTGTGTTGCATCCAATGTGGAGGGCAAGGCCCAGAAAAACTACCATCTTGTAATACATG
Seq A exon
TCCCGCCAAACATTATAGGATCTGAGTTACCCAGTGAGATGAGCGTCCTGCTGAACGACAGCGTCCAGCTGGTGTGCCGCGCTGAAGGAACTCCTACCCCTGAGATCCAGTGGCTGAAGGATGGTATGACAATTAGCAGAACTGCACAGAAGAACATTAA
Seq C2 exon
AATCAGCCCTGATGGCAGCACACTGACTGTGACAGCTGTCCACACATCTGATAGTGGAAAATACACATGTGTGGCCACCAATCAGGCTGGAGAGGAGGACCGAATTTTCAACCTAAATGTCTACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'67-70,'67-69,68-70=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.148 C2=0.093
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(53.3=94.1)
A:
PF0767911=I-set=PU(53.4=87.0)
C2:
PF0767911=I-set=PD(45.5=93.0)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGCATATCCTGTCTGGGGG
R:
AGGTTGAAAATTCGGTCCTCCT
Band lengths:
245-405
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]