BtaEX6036684 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000001764 | NCAN
Description
Bos taurus neurocan (NCAN), mRNA. [Source:RefSeq mRNA;Acc:NM_001193082]
Coordinates
chr7:3957972-3960603:-
Coord C1 exon
chr7:3960487-3960603
Coord A exon
chr7:3959401-3959514
Coord C2 exon
chr7:3957972-3958130
Length
114 bp
Sequences
Splice sites
3' ss Seq
AGCCCCACCTTCCCCTCCAGATA
3' ss Score
8.67
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
Exon sequences
Seq C1 exon
GCCCCTTGGATCCCTGTGAGAACAACCCTTGCCTGCACGGAGGCACCTGTAGAGCCAATGGCACCATGTACGGCTGCAGCTGTGACCAGGGGTTCGCTGGAGAGAACTGTGAGATCG
Seq A exon
ATATTGACGATTGCATCTCCAGCCCCTGTGAGAACGGTGGCACCTGCATCGACGAGGTCAACGCCTTCATCTGCCTTTGCCTCCCCAGCTATGGGGGAAGCCTCTGCGAGAAAG
Seq C2 exon
ATACAGAGGGCTGTGACCACGGCTGGCACAAGTTTCAGGGCCACTGCTACCGTTACTTTGCCCACCGGCGGGCATGGGAGGACGCCGAGAGGGACTGCCGCCGCCGAGCCGGCCACCTAACCAGCATCCACTCATCAGAAGAACACAACTTCATTAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001764-'11-14,'11-13,12-14=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=77.5),PF0000822=EGF=PU(2.8=2.5)
A:
PF0000822=EGF=PD(94.4=87.2)
C2:
PF0005916=Lectin_C=PU(30.2=59.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCTTGGATCCCTGTGAGAA
R:
GAGTGGATGCTGGTTAGGTGG
Band lengths:
249-363
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]