BtaEX0017223 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000015235 | HMCN1
Description
Bos taurus hemicentin 1 (HMCN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001192537]
Coordinates
chr16:68606399-68610059:+
Coord C1 exon
chr16:68606399-68606530
Coord A exon
chr16:68606855-68607004
Coord C2 exon
chr16:68609900-68610059
Length
150 bp
Sequences
Splice sites
3' ss Seq
TGCTTTGTTTCTACCGCTAGAAA
3' ss Score
7.78
5' ss Seq
AAGGTATGT
5' ss Score
9.79
Exon sequences
Seq C1 exon
TGCCACCCAGTATTGAAGGGCCTGAAAATGAAGTCACTGTGGAGACAGTCAGCAATCCTGTTACTTTAACATGTGATGCTACTGGAATCCCACCTCCCTCCATAGCATGGTTGAAGAACCACAGACCCATAG
Seq A exon
AAAATTCTGGCTCATTGGAAGTTCATATTTTGTCTGGGGGAAGAAAACTCCAAATTGCCAGGTCCCAACATTCAGATAGTGGAAACTATACATGCATTGCCTCAAATATGGAGGGGAAAGCACAGAAACATTACATTCTTTCAATTCAAG
Seq C2 exon
TTCCTCCAAATGTTGCTGATGCTGAGATTCCAAGTGAAGTCAGTGTCCTTCTTGGGGAAAATGTTGAGCTGGTCTGCAGTGCAAATGGCATTCCCACCCCACTTATTCAGTGGCTTAAAGATGGAAAGCCCATAGTTAGCAGTGAAACAGAAAGAATTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015235-'67-75,'67-74,68-75
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.356 A=0.098 C2=0.037
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(46.2=93.3)
A:
PF0767911=I-set=PD(52.7=94.1)
C2:
PF0767911=I-set=PU(52.9=85.2)
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:
GCCACCCAGTATTGAAGGGC
R:
ACTGAATAAGTGGGGTGGGAA
Band lengths:
242-392
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development