DreEX6046298 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34258275-34261416:-
Coord C1 exon
chr20:34261291-34261416
Coord A exon
chr20:34260544-34260672
Coord C2 exon
chr20:34258275-34258637
Length
129 bp
Sequences
Splice sites
3' ss Seq
ATTTTTTTATCTGCTTGCAGACA
3' ss Score
9.73
5' ss Seq
TTGGTACGT
5' ss Score
8.11
Exon sequences
Seq C1 exon
ACATAAATGAATGCAAACAGAGAGTGTGTCGCTCAGATCAGCAGTGTAAAAACACACGTGGTGGATACACTTGCATTGACCTCTGCCCTACTGGCATGACTAAAGGAGGCAATGGCACATGCATAG
Seq A exon
ACATTGATGAGTGCCATGACGGCACACATCAGTGCAGGTATAATCAGATCTGTGAAAACACCAGAGGTAGTTACCACTGCACCTGTCCGAGAGGGTACCGTTCTCAGGGTGTGGGACGTCCCTGCCTTG
Seq C2 exon
ATATAAACGAGTGTGAGCTGGTACCGGTGCCCTGTGCCTATCAGTGCGTGAACAGCCCTGGCAGCTACAAGTGCCTGTGCCCACCGGGGCTCCACCTGTTGGGCGATGGCAAGTCCTGTGCTGGACTAGAGCGCTTGCCCAGCTATGAGACTTTCTCATATGGGTACAGAACATCCCAGTCCTCCTCTGATCGGAGCTCCTACCTGCAGCGATACCATAGCCTGACATCCCAGAGTTACCACTCATATGTACCCAATGGGGGGCGTCATGTGGCCAACAGACCCAACAGTGCCCCTTCACGCAATCGTAGGAGTACTTATATCTGTCCTCATGGTTTTAAGACCAAAAATGGCCATTGCTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'115-113,'115-112,116-113=AN
Average complexity
A_C3
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=0.123
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=95.3),PF0764510=EGF_CA=PU(0.1=0.0)
A:
PF0764510=EGF_CA=WD(100=95.5),PF0764510=EGF_CA=PU(0.1=0.0)
C2:
PF0764510=EGF_CA=WD(100=32.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATTGACCTCTGCCCTACTG
R:
GGTAGGAGCTCCGATCAGAGG
Band lengths:
258-387
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]