BtaEX0017229 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000015235 | HMCN1
Description
Bos taurus hemicentin 1 (HMCN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001192537]
Coordinates
chr16:68613336-68617906:+
Coord C1 exon
chr16:68613336-68613519
Coord A exon
chr16:68614366-68614463
Coord C2 exon
chr16:68617628-68617906
Length
98 bp
Sequences
Splice sites
3' ss Seq
TGGGTCAAACTGTTTTTCAGGAT
3' ss Score
7.33
5' ss Seq
TGGGTATGT
5' ss Score
7.43
Exon sequences
Seq C1 exon
TTCCACCTGCAATTAGGGGTAATAAAGAAGAAGCAGAGAAATTAATGGCTTTGGTGGATACCTCAATAAATATTGAATGCAGAGCCACAGGAATGCCTCCACCACAGATAAACTGGCTAAAGAATGGACTTCCTCTGCCTCTCTCCTCCCATATCCGGTTGCTGTCTGGAGGACAAGTTATCAG
Seq A exon
GATTGTGAGAGCTCAGGCATCCGATGTCGCTGTGTATACTTGTGTGGCATCCAACAGAGCTGGGGTGGATAATAAACATTTCAGCCTTCAAGTTTTGG
Seq C2 exon
TACCACCAAGTCTGGACAATGGGATGGGGACAGAGGAAATCACAATTGTCAAGGGTAGTTCCACCTCCATGACATGTTTTACTGATGGAACCCCAGCTCCCAGGATGTCCTGGCTTAGAGATGGTCGGCCTCTGGGGCTAGATGCCCATCTGTCAATCAGCTCTCAAGGAATGGTCCTTCAGCTCATCAAAGCAGAAACTGAAGATTCGGGACGGTACACCTGCATTGCCTCAAATGAAGCAGGAGAAGTCAGCAAACACTTTATCCTGAAGATCTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015235_CASSETTE3
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.106
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(62.4=85.5)
A:
PF0767911=I-set=PD(36.5=91.2)
C2:
PF0767911=I-set=WD(100=89.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCATATCCGGTTGCTGTCT
R:
CCAGAGGCCGACCATCTCTAA
Band lengths:
173-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development