BtaEX6070421 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000015235 | HMCN1
Description
Bos taurus hemicentin 1 (HMCN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001192537]
Coordinates
chr16:68645739-68648153:+
Coord C1 exon
chr16:68645739-68645895
Coord A exon
chr16:68647681-68647802
Coord C2 exon
chr16:68647989-68648153
Length
122 bp
Sequences
Splice sites
3' ss Seq
TGCTTTGAAATCTCTTCTAGGCT
3' ss Score
8.51
5' ss Seq
AAGGTAGAA
5' ss Score
6.33
Exon sequences
Seq C1 exon
TTCCTCCATCCATTGCTCCGGGTCCTACCAACATATCTGTAACAGTAAATGTTCAAACCACTCTGGCTTGTGAGGCTACTGGCATACCGAAACCGTCAGTCAACTGGAGGAAAAACGGGCATCTTCTGAATGTGGATCAAAATCAGAATTCATACAG
Seq A exon
GCTCCTTTCTTCAGGTTCACTGGTAATTATTTCCCCTTCTGTGGATGACACTGCAACCTATGAGTGCACGGTGACCAATGATGCCGGAGAGGACAAGAGAGCTGTGGATCTCACTGTCCAAG
Seq C2 exon
TTCCACCTTCCATTGCTGATGAGCCTACAGACTTTCTAGTAACCAAACACACCCCCACAGTGATCACCTGCACTGCTTCAGGAGTTCCATTTCCCTCAATCCACTGGATGAAGAATGGTGTAAGACTGCTTCCCAGAGGAGAGGGCTATAGAATTCTGTCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015235-'80-88,'80-87,81-88=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=0.113 A=0.357 C2=0.071
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(55.6=94.3)
A:
PF0767911=I-set=PD(43.3=92.9)
C2:
PF0767911=I-set=PU(60.2=94.6)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACCACTCTGGCTTGTGAGG
R:
CTCTCCTCTGGGAAGCAGTCT
Band lengths:
246-368
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]