BtaEX0017224 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000015235 | HMCN1
Description
Bos taurus hemicentin 1 (HMCN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001192537]
Coordinates
chr16:68638102-68644807:+
Coord C1 exon
chr16:68638102-68638238
Coord A exon
chr16:68643280-68643421
Coord C2 exon
chr16:68644663-68644807
Length
142 bp
Sequences
Splice sites
3' ss Seq
ATTTTCCTTGTTGAATCCAGGCA
3' ss Score
5.97
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
Exon sequences
Seq C1 exon
TACCCCCTAATATTGCTGGAACTGGCGAGCCCCAGGATTTCACTGTGTTACGGAACAGACAAGTGACACTGGAATGCAAATCGGATGCAGTGCCTCCACCTGTAATCACTTGGCTTAAAAATGGAGAACGGTTACAG
Seq A exon
GCAACACCTCGAATAAGAATCCTCTCTGGAGGGAGATATTTGCAAATTAATAATGCAGATCTAGGTGATACAGCCAATTATACCTGTGTTGCCAGCAACATTGCGGGAAAGACTACAAGGGAGTTTATTCTCACTGTCAATG
Seq C2 exon
TTCCTCCAAGCATAAAGAGTGGCCCCCAGAGTCTTGTCATTCACTTAAATAAGTCAACTCTATTGGAATGCTTTGCGGAAGGCGTGCCAGCCCCAAGGATAACATGGAGAAAGGATGGAGCTGTTCTATCTGGTAGTCATGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015235-'76-84,'76-83,77-84
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.196 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(45.3=84.8)
A:
PF0767911=I-set=PD(52.3=93.8)
C2:
PF0767911=I-set=PU(52.3=93.9)
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:
ATATTGCTGGAACTGGCGAGC
R:
CAGCTCCATCCTTTCTCCATGT
Band lengths:
251-393
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development