BtaEX6070395 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000015235 | HMCN1
Description
Bos taurus hemicentin 1 (HMCN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001192537]
Coordinates
chr16:68717677-68733392:+
Coord C1 exon
chr16:68717677-68717796
Coord A exon
chr16:68731200-68731326
Coord C2 exon
chr16:68732836-68733392
Length
127 bp
Sequences
Splice sites
3' ss Seq
TGTTTCTTGTGCTGTTGTAGATA
3' ss Score
9.38
5' ss Seq
AGGGTATGT
5' ss Score
8.34
Exon sequences
Seq C1 exon
ATATTAATGAATGTGAAAATACAGACACCTGCCAGCATGAGTGTAAAAATACCTTTGGGAGCTATCAGTGTATCTGTCCACCTGGCTATCAGCTCATGCTCAATGGAAAGACATGTCAAG
Seq A exon
ATATTGATGAGTGTCTGGAACAGAATGTGCGCTGTGGGCCGAATCGCATGTGCTTCAACATGAGAGGAAGCTACCGTTGCATTGAGACACCCTGTCCACCTGACTACCAACGGGATCCTGTGTCAGG
Seq C2 exon
GTTCTGTCTCAAGAACTGTCCACCCAATGATTTGGAATGTGCCTTGAGTCCATATGCCTTGGAATACAAACTCGTCTCCCTCCCGTTTGGAATAGCTGCCAATCAAGATTTGATCCGGCTGGTTGCATACACTCAAGATGGAGTGATGCATCCCAGGACAACTTTCCTCATGATAGATGAGGAACAGACTGTTCCCTTTGCCTTAAGGGATGAAAACCTGAAAGGAGTGGTGTACACAATACGACCACTACAGGAACCAGAGACCTACCGCATGCGGGTTCGAGCCTTATCCTACGGTGCCAATGGGACCGTTGAGTATCAGACCACGTTCATAGTTTATATAGCTGTGTCTGCCTATCCGTACTAAGCAGCTCTCCCAAGCGTAAATCCACATAAGTAAGCCACATTTACCATGGGAATTAAGTTCCCTGAACAGTTGCAATCTTTGCAAGTTGAAAACGGTGCTGTGCTCTGTTTTGTGTGCCTTCCTTGGTAGTGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015235-'112-119,'112-118,113-119=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF126622=cEGF=PU(83.3=48.8)
A:
PF126622=cEGF=PD(12.5=7.0)
C2:
NO
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:
CACCTGCCAGCATGAGTGTAA
R:
TCCTGGGATGCATCACTCCAT
Band lengths:
253-380
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]