DreEX6046300 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34254429-34256573:-
Coord C1 exon
chr20:34256454-34256573
Coord A exon
chr20:34256202-34256328
Coord C2 exon
chr20:34254429-34256119
Length
127 bp
Sequences
Splice sites
3' ss Seq
TCACTTTTGCCTATGGACAGACA
3' ss Score
5.4
5' ss Seq
AGGGTGAGA
5' ss Score
6.65
Exon sequences
Seq C1 exon
ATATTAATGAGTGTGAACAGAGGGATACATGTCAGCACGAGTGTATGAACACTCCAGGCAGCCATAGGTGTTTGTGTCCCAGCGGCTATCGGCTTATGACCAACGGAAAAACCTGCCAAG
Seq A exon
ACATAGATGAATGCCTAGAGCAGAACATTCAGTGTGGTGCAAACAGGATGTGTTTCAACATGAGAGGGAGTTACCAGTGTATCGACACACCTTGCCCACCCAATTATCAGAGAGATCCTGCCACAGG
Seq C2 exon
GTTCTGCTTGAAGAATTGCCCGCCTAATGACCTGGAGTGTGCCCTGAGCCCATATGCACTGGAGTACAAGCTGCTGTCCTTGCCCTTCGGCATCGCCGCCAATCAGGACCTGATCCGATTGGTTGCCTACACCCAGGATGGAGTCGTCCACCCGCGCACTTCCTTTTTAGTGGTCGACGAAGACACGACTCTGCCCTTCGCCCTCCGGGATGAAAACCTCAAAGGTGTTCTGTTCACCACCCGGCCACTGCGCGAGCCTCACACATACCGCATGAAAGTGCGAGCTCTGTCTTACAGCGCCGACGGAGGAATAGAGTACCAGACCACCTTCATCGTCTACATCGCTGTCTCAGCCTATCCCTACTGAGCACTTTATTACGCCCACAGCCTAAGAAGAGAGGGACTGCTCAGAGGTTGCGCTATGAATCCATCATTTAATGGTTTACGAACACTTTCAGACATGTTAATGGTGGTGTCCTAAAAGTCAAACTAAAAAATTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'118-116,'118-115,119-116=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF126622=cEGF=PU(83.3=48.8)
A:
PF126622=cEGF=PD(12.5=7.0),PF129472=EGF_3=WD(100=81.4)
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCAGCCATAGGTGTTTGTG
R:
TCGTGTCTTCGTCGACCACTA
Band lengths:
253-380
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]