HsaALTA1024023-3/3 @ hg38
Alternative 3'ss
Gene
ENSG00000130287 | NCAN
Description
neurocan [Source:HGNC Symbol;Acc:HGNC:2465]
Coordinates
chr19:19226486-19228263:+
Coord C1 exon
chr19:19226486-19227073
Coord A exon
chr19:19227683-19228117
Coord C2 exon
chr19:19228118-19228263
Length
435 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TCTCTCTTTGACCCCAACAGGAC
3' ss Score
9.38
Exon sequences
Seq C1 exon
TAGAGAACTGGAGCCCACCCTGGAGGAGGAAGAGGTGGTCACCCCTGACTTCCAGGAGCCTCTGGTGTCCAGTGGGGAAGAAGAAACCCTGATTTTGGAGGAGAAGCAGGAGTCTCAACAGACCCTCAGCCCTACCCCTGGGGACCCCATGCTGGCCTCATGGCCCACTGGGGAAGTGTGGCTAAGCACGGTGGCCCCCAGCCCTAGCGACATGGGGGCAGGCACTGCAGCAAGTTCACACACGGAGGTGGCCCCAACTGACCCTATGCCTAGGAGAAGGGGGCGCTTCAAAGGGTTGAATGGGCGCTACTTCCAGCAGCAGGAACCGGAGCCGGGGCTGCAAGGGGGGATGGAGGCCAGCGCCCAGCCCCCCACCTCAGAGGCTGCAGTGAACCAAATGGAGCCTCCGTTGGCCATGGCAGTCACAGAGATGTTGGGCAGTGGCCAGAGCCGGAGCCCCTGGGCTGATCTGACCAATGAGGTGGATATGCCTGGAGCTG
Seq A exon
GACAGGGTGGAGAGGCCATGCCCACAACACCTGAGTCCCCCAGGGCAGACTTCAGAGAAACTGGGGAGACCAGCCCTGCTCAGGTCAACAAAGCTGAGCACTCCAGCTCCAGCCCATGGCCTTCTGTAAACAGGAATGTGGCTGTAGGTTTTGTCCCCACTGAGACTGCCACTGAGCCAACGGGCCTCAGGGGTATCCCGGGGTCTGAGTCTGGGGTCTTCGACACAGCAGAAAGCCCCACTTCTGGCTTGCAGGCCACTGTAGATGAGGTGCAGGACCCCTGGCCCTCAGTGTACAGCAAAGGGCTGGATGCAAGTTCCCCATCTGCCCCCCTGGGGAGCCCTGGAGTCTTCTTGGTACCCAAAGTCACCCCAAATTTGGAGCCTTGGGTTGCTACAGATGAAGGACCCACTGTGAATCCCATGGATTCCACAG
Seq C2 exon
TCACGCCGGCCCCCAGTGATGCTAGTGGAATTTGGGAACCTGGATCCCAGGTGTTTGAAGAAGCCGAAAGCACCACCTTGAGCCCTCAGGTGGCCCTGGATACAAGCATTGTGACGCCCCTCACGACCCTGGAGCAGGGGGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130287-14-15,14-14,14-13-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.980 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTATGCCTAGGAGAAGGGGG
R:
GGGGCGTCACAATGCTTGTAT
Band lengths:
358-793
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains