BtaEX0017231 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000015235 | HMCN1
Description
Bos taurus hemicentin 1 (HMCN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001192537]
Coordinates
chr16:68711749-68717796:+
Coord C1 exon
chr16:68711749-68711877
Coord A exon
chr16:68713777-68714127
Coord C2 exon
chr16:68717677-68717796
Length
351 bp
Sequences
Splice sites
3' ss Seq
GTATCATGGCACACGAGCAGATA
3' ss Score
-0.87
5' ss Seq
TAGGTAAAT
5' ss Score
6.62
Exon sequences
Seq C1 exon
ATGTTGATGAGTGTAAAGATGGGACCCATCAGTGCAGATATAACCAGATATGTGAGAATACAAGAGGCAGCTATCGTTGTGTGTGTCCAAGAGGGTACCGGTCTCAAGGACTTGGAAGACCCTGTTTGG
Seq A exon
ATATTAATGAATGTGAACAAGTGCCTAAGCCTTGTGCATATCAGTGCTTCAACACCCCTGGCAGCTTCAAGTGTATCTGTCCACCAGGACAACATTTGTTAGGGGACGGGAAATCTTGCGCTGGACTGGAGAGGCTGCCAAATTATGGCAATCAATACAGTAGCTATAACCTTGCACGCTTCTCCCCCATGAGAAACAACTATCAACCTCAACAGCATTACAGACAGTACTCACATCTCTACAGCTCCTACTCAGAGTATAGGAACAGCAGAACATCTCTCTCCAGGACTAGAAGGACTATTAGGAAAACTTGCCCCGAAGGCTCTGAGGCGAGCCTTGACACATGTGTAG
Seq C2 exon
ATATTAATGAATGTGAAAATACAGACACCTGCCAGCATGAGTGTAAAAATACCTTTGGGAGCTATCAGTGTATCTGTCCACCTGGCTATCAGCTCATGCTCAATGGAAAGACATGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015235_CASSETTE5
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.008 C2=0.000
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=95.5),PF0764510=EGF_CA=PU(0.1=0.0)
A:
PF0764510=EGF_CA=WD(100=33.9)
C2:
PF126622=cEGF=PU(83.3=48.8)
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:
TTGATGAGTGTAAAGATGGGACCC
R:
CTTGACATGTCTTTCCATTGAGCA
Band lengths:
246-597
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development