BtaEX6070405 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000015235 | HMCN1
Description
Bos taurus hemicentin 1 (HMCN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001192537]
Coordinates
chr16:68688249-68690292:+
Coord C1 exon
chr16:68688249-68688398
Coord A exon
chr16:68688708-68688845
Coord C2 exon
chr16:68690171-68690292
Length
138 bp
Sequences
Splice sites
3' ss Seq
TTTACCCCTTTTTTCTCTAGGTC
3' ss Score
13.14
5' ss Seq
CTGGTTCGT
5' ss Score
5.4
Exon sequences
Seq C1 exon
GTGGGCCCCAGCGAGCCAGAGGAAGTGTTATTGGAAGCATTAATGATGTTGAATTTGGAATTGCTTTCCTTAACGCCACGGTCACAGATAGCCCAAACTCTGATACTAGAATAATACATGCCAAAATTACCAATGTACCTCGCAGTCTCG
Seq A exon
GTCCAGCAATGAGAAAGATAGTTTCTATTCTAAATCCCATTTATTGGACAACAGCAAAAGAAATAGGAGAAGCAGTCAATGGCTTTACCCTCACCAATGCAGTTTTCAAGAGAGAAACCCAAGTGGAATTTGCAACTG
Seq C2 exon
GAGAAATCTTGCGGATGACTCACGTTGCCCGGGGCTTGGATTCTGATGGTGCTCTGCTGGTAGATATCATCGTGAGTGGCTATGTCCTGCAGCTACAGTCACCTGCCGAAGTCACCGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015235-'100-107,'100-106,101-107=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.039 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF074747=G2F=FE(26.6=100)
A:
PF074747=G2F=FE(24.5=100)
C2:
PF074747=G2F=FE(21.3=100)
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:
AGCGAGCCAGAGGAAGTGTTA
R:
AGGTGACTGTAGCTGCAGGAC
Band lengths:
245-383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]