BtaEX0017230 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000015235 | HMCN1
Description
Bos taurus hemicentin 1 (HMCN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001192537]
Coordinates
chr16:68673597-68683662:+
Coord C1 exon
chr16:68673597-68673767
Coord A exon
chr16:68682930-68683100
Coord C2 exon
chr16:68683492-68683662
Length
171 bp
Sequences
Splice sites
3' ss Seq
CTGTCTTGGGCTGTTTGTAGTTC
3' ss Score
5.59
5' ss Seq
CAAGTAAGA
5' ss Score
7.61
Exon sequences
Seq C1 exon
TGGACGGGAACTGGTCAGAATGGAGTCCCTGGGAAGAATGCACGAGGAGCTGTGGACGCGGCAACCGAACCAGGACCAGAACTTGCAATAATCCATCAGCTCAACACGGTGGGCGACCGTGTGAAGGGACTGCCATGGAAATCATCATGTGCAACATTCGGCCTTGCCCAG
Seq A exon
TTCATGGAGCATGGAGTACCTGGCAGCCTTGGGGGACATGCAGCGTAAGTTGTGGGAAAGGTACCCAAACAAGAGCAAGACTGTGCAATAACCCACCACCATCATTCGCTGGGTCCTACTGTGATGGAGCAGAAACACAGATTCAAGTTTGCAATGAAAGACACTGTCCAA
Seq C2 exon
TTGATGGCAAGTGGGCCACCTGGACCAGTTGGAGTGCCTGCTCTGTATCCTGTGGAGGTGGCGCCAGGCAGAGAACAAGGGACTGCTCTGATCCTGCTCCCCAGTATGGAGGCAACAAATGTGAAGGGAGTGATGTCCAGAGCGATTTTTGTAATAGTGACTCTTGTCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015235_CASSETTE4
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.034 A=0.000 C2=0.000
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)
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:
AAGAATGCACGAGGAGCTGTG
R:
CCATACTGGGGAGCAGGATCA
Band lengths:
247-418
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development