BtaEX0017228 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000015235 | HMCN1
Description
Bos taurus hemicentin 1 (HMCN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001192537]
Coordinates
chr16:68605706-68606530:+
Coord C1 exon
chr16:68605706-68605908
Coord A exon
chr16:68606206-68606287
Coord C2 exon
chr16:68606399-68606530
Length
82 bp
Sequences
Splice sites
3' ss Seq
ATAGTATCTTTTTCTTTTAGGTA
3' ss Score
9.63
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
Exon sequences
Seq C1 exon
TGCCCCCAAGCATTAAAGATCATGGAAGCGAATCTCTTTCTGTAGTTAATGTAAGAGAGGGGACCTCAGTATCACTGGAGTGTGGATCGAATGCTGTCCCGCCTCCAGTCATCACCTGGTATAAGAATGGACGGATGCTAACAGAGTCTGCTCGGCTGGAGATTTTGGCCGATGGACAAATGCTGCACATCACAAAAGCTGAG
Seq A exon
GTATCTGACACAGGCCAGTATGTATGTAGAGCTATAAATGTAGCAGGACGGGATGATAAAAATTTCCACCTCAATGTATATG
Seq C2 exon
TGCCACCCAGTATTGAAGGGCCTGAAAATGAAGTCACTGTGGAGACAGTCAGCAATCCTGTTACTTTAACATGTGATGCTACTGGAATCCCACCTCCCTCCATAGCATGGTTGAAGAACCACAGACCCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015235_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=0.107 C2=0.356
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(68.6=86.8)
A:
PF0767911=I-set=PD(29.1=89.3)
C2:
PF0767911=I-set=PU(46.2=93.3)
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:
CTAACAGAGTCTGCTCGGCTG
R:
GCTATGGAGGGAGGTGGGATT
Band lengths:
172-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development