BtaEX6070408 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000015235 | HMCN1
Description
Bos taurus hemicentin 1 (HMCN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001192537]
Coordinates
chr16:68683492-68685164:+
Coord C1 exon
chr16:68683492-68683662
Coord A exon
chr16:68684653-68684823
Coord C2 exon
chr16:68684994-68685164
Length
171 bp
Sequences
Splice sites
3' ss Seq
CCAATGGTTCTGTGTTGTAGCTC
3' ss Score
7.2
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
Exon sequences
Seq C1 exon
TTGATGGCAAGTGGGCCACCTGGACCAGTTGGAGTGCCTGCTCTGTATCCTGTGGAGGTGGCGCCAGGCAGAGAACAAGGGACTGCTCTGATCCTGCTCCCCAGTATGGAGGCAACAAATGTGAAGGGAGTGATGTCCAGAGCGATTTTTGTAATAGTGACTCTTGTCCAA
Seq A exon
CTCATGGTAACTGGAGTCCTTGGAGTGGCTGGGGAATATGCAGCCGGACATGTAATGGGGGGCAGATGCGGCGGTACCGCACATGTGATAACCCTCGTCCCTCCAATGGAGGAAGAGCTTGTGGGGGCCCAGACTCCCAGATCCAGAGATGCAACACGGACATGTGTCCTG
Seq C2 exon
TGGATGGAAGTTGGGGAAACTGGCATAGTTGGAGCTGGTGCTCCACCTCTTGTGGAGGAGGTGAAAAGACACGAGAACGGCTGTGCAACAATCCAATACCATCTAAAAGTGGTCGCCCCTGCCCAGGCGATGCTACTCAGGTATCCAGATGTAATATACAAGTATGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015235-'96-104,'96-103,98-104=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=0.034 C2=0.052
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=WD(100=87.9)
A:
PF0009014=TSP_1=WD(100=87.9)
C2:
PF0009014=TSP_1=WD(100=87.9),PF074747=G2F=PU(0.5=1.7)
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:
GCAGAGAACAAGGGACTGCTC
R:
TACCTGAGTAGCATCGCCTGG
Band lengths:
247-418
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]