BtaEX6070398 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000015235 | HMCN1
Description
Bos taurus hemicentin 1 (HMCN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001192537]
Coordinates
chr16:68708287-68711877:+
Coord C1 exon
chr16:68708287-68708400
Coord A exon
chr16:68709100-68709225
Coord C2 exon
chr16:68711749-68711877
Length
126 bp
Sequences
Splice sites
3' ss Seq
ATCTTTGTTCTTTTATCGAGATA
3' ss Score
-2.9
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
Exon sequences
Seq C1 exon
ATATTAATGAATGTCAAGAATCCAGCCCCTGTCACCACCGCTGTTTCAATGCCATAGGAAGTTTTCACTGTGGATGTGAACCTGGGTATCAGCTCAAAGGCAGAAAATGTGTGG
Seq A exon
ATATAAATGAGTGTAGACAGAATGTATGCAGACCAGATCAGCATTGCAAGAACACTCGTGGTGGCTATAAATGCATTGATCTCTGTCCAAACGGAATGACCAAGGCAGAAAATGGAACCTGCATTG
Seq C2 exon
ATGTTGATGAGTGTAAAGATGGGACCCATCAGTGCAGATATAACCAGATATGTGAGAATACAAGAGGCAGCTATCGTTGTGTGTGTCCAAGAGGGTACCGGTCTCAAGGACTTGGAAGACCCTGTTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015235-'107-115,'107-113,108-115=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF126622=cEGF=PU(81.8=46.2)
A:
PF126622=cEGF=PD(13.6=7.0),PF0764510=EGF_CA=PU(0.1=0.0)
C2:
PF0764510=EGF_CA=WD(100=95.5),PF0764510=EGF_CA=PU(0.1=0.0)
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:
TATTAATGAATGTCAAGAATCCAGCC
R:
CCAAACAGGGTCTTCCAAGTCC
Band lengths:
242-368
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]