BtaEX6070461 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000015235 | HMCN1
Description
Bos taurus hemicentin 1 (HMCN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001192537]
Coordinates
chr16:68498774-68511671:+
Coord C1 exon
chr16:68498774-68498900
Coord A exon
chr16:68501518-68501672
Coord C2 exon
chr16:68511393-68511671
Length
155 bp
Sequences
Splice sites
3' ss Seq
TAAAATTGTATTTTTTCTAGGCC
3' ss Score
8.36
5' ss Seq
ATAGTAAGT
5' ss Score
8.65
Exon sequences
Seq C1 exon
TCCCGCCCACCATAATAGGTGCTGGTTCCCCTGGTGAAGTCTCAGTTGTCCTGAACCAGAATACCACCCTTGAATGCCAGGTGAAAGGCACCCCCTTTCCTGTTATTCGCTGGTTAAAAGATGGCAA
Seq A exon
GCCTTTATTTTTGGGAGACCCTAATATTGAAATTCTAGACAGAGGACAAGTTTTACATTTAAAGAATGCACGAAGAAGTGACAAGGGACGCTACCAGTGTTCTGTGTCCAATGCAGCTGGCAAACAAGCCAAGGATATAAAACTGACAATCTATA
Seq C2 exon
TTCCACCTAGTATTAAAGGAGGGAATGTCACCACAGAAGTGTCAGCTTTGATCAACAGCATAATTAAACTGGAATGTGAAACACGAGGACTTCCGATGCCTGCTATTACTTGGTATAAGGATGGCCAGCCAGTCATATCCAGCTCACAAGCACTTTATGTTGAAAAAGGACAATTTCTTCATATTCCTCGAGCACAGGTCTCTGATTCAGCAGCATATAAGTGTCTAGTAACCAATGTTGCTGGAACTGCTGAAAAATCATTCCATGTGGACGTCTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015235-'32-41,'32-39,33-41=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=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(40.7=81.4)
A:
PF0767911=I-set=PD(58.1=94.3)
C2:
PF0767911=I-set=WD(100=90.4)
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:
AGGCACCCCCTTTCCTGTTAT
R:
ATCAGAGACCTGTGCTCGAGG
Band lengths:
248-403
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]