DreEX6046277 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34276918-34277606:-
Coord C1 exon
chr20:34277450-34277606
Coord A exon
chr20:34277159-34277280
Coord C2 exon
chr20:34276918-34277082
Length
122 bp
Sequences
Splice sites
3' ss Seq
AGTTTGCAATCTGTCCTCAGGCT
3' ss Score
7.16
5' ss Seq
ATGGTGAAT
5' ss Score
3.54
Exon sequences
Seq C1 exon
TGCCCCCATCCATTGCTGAGGGTCCTACTAACATCACTGTGACAGTGAATGTCCAGACAACACTATCCTGTGAGGCCACTGGTATCCCCAAACCCTCTGTCAGCTGGACCAAAAACACTCAAGCCCTTAACACTGACCAAAACCAGAATATGTACAG
Seq A exon
GCTTTTGTCGTCAGGCTCTCTGGTGGTCATCGCACCGTCAGTAGAGGACACGGCGCTGTACGAGTGTGTTGTGTCCAATGAGGCAGGCCAGGAGAGCAGAGCCATTCAGCTGACTGTACATG
Seq C2 exon
TTCCTCCTTCTATTGCGGATGAGGCCACGGAGCTTGTAGTGAGCAGACTGTCCCCGGTGGTCATCGGCTGCACTGCGTCTGGAGTGCCTCATCCTGTCCTGTACTGGAGCAAAGATGGACTGAGACTAGCTAAAGACGGAGAGGGTTTTACAATACTACCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'81-82,'81-81,84-82=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.189 A=0.024 C2=0.000
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(55.6=94.3)
A:
PF0767911=I-set=PD(43.3=92.9)
C2:
PF0767911=I-set=PU(60.2=94.6)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCATTGCTGAGGGTCCTACT
R:
AGTACAGGACAGGATGAGGCA
Band lengths:
254-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]