BtaEX6070403 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000015235 | HMCN1
Description
Bos taurus hemicentin 1 (HMCN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001192537]
Coordinates
chr16:68690171-68696806:+
Coord C1 exon
chr16:68690171-68690292
Coord A exon
chr16:68690924-68691161
Coord C2 exon
chr16:68696744-68696806
Length
238 bp
Sequences
Splice sites
3' ss Seq
ATCCGTATTGTCCTCCTTAGGAT
3' ss Score
9.72
5' ss Seq
AAGGTAATT
5' ss Score
8.83
Exon sequences
Seq C1 exon
GAGAAATCTTGCGGATGACTCACGTTGCCCGGGGCTTGGATTCTGATGGTGCTCTGCTGGTAGATATCATCGTGAGTGGCTATGTCCTGCAGCTACAGTCACCTGCCGAAGTCACCGTAAAG
Seq A exon
GATTACACCGAGGACTACGTTCAGACAGGCCCTGGGCAGCTGTATGCCTACTCAACCCGGCTGTTCACCATTGACGGCGTCAGCGTGCCTTATACATGGACCCACACCGTCCTCTACGACGAGGCACAGGGAAGAATGCCTTTCTTGGTAGAAACACTTCATGCATCCTCTGTGGAATCTGACTACAACCAGTTAGAAGAGACACTGGGTTTTAAAATCCACGCTTCAATTTCCAAAG
Seq C2 exon
GAGAACGCAGTAATCAGTGTCCCCCTGGGTTTGCCTTAGACTCGGTTGGACCCTTTTGTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015235-'102-109,'102-108,103-109=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=0.000 A=0.025 C2=0.000
Domain overlap (PFAM):
C1:
PF074747=G2F=FE(21.3=100)
A:
PF074747=G2F=PD(26.1=61.2)
C2:
PF146701=FXa_inhibition=PU(4.9=9.1)
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:
AATCTTGCGGATGACTCACGT
R:
AGCACAAAAGGGTCCAACCG
Band lengths:
180-418
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]