HsaEX0042900 @ hg19
Exon Skipping
Gene
ENSG00000116962 | NID1
Description
nidogen 1 [Source:HGNC Symbol;Acc:7821]
Coordinates
chr1:236195701-236205592:-
Coord C1 exon
chr1:236205210-236205592
Coord A exon
chr1:236201404-236201553
Coord C2 exon
chr1:236195701-236195952
Length
150 bp
Sequences
Splice sites
3' ss Seq
CAATTGTTTTCTTGGACCAGTTT
3' ss Score
3.8
5' ss Seq
AAGGTAATT
5' ss Score
8.83
Exon sequences
Seq C1 exon
GAGTAGTAACTCTGGGCAGCAGGGTGTCTGGGTGTTTGAGATTGGGAGTCCAGCCACCACCAATGGCGTGGTGCCTGCAGACGTGATCCTCGGAACTGAAGATGGGGCAGAGTATGATGATGAGGATGAAGATTATGACCTGGCGACCACTCGTCTGGGCCTGGAGGATGTGGGCACCACGCCCTTCTCCTACAAGGCTCTGAGAAGGGGAGGTGCTGACACATACAGTGTGCCCAGCGTCCTCTCCCCGCGCCGGGCAGCTACCGAAAGGCCCCTTGGACCTCCCACAGAGAGAACCAGGTCTTTCCAGTTGGCAGTGGAGACTTTTCACCAGCAGCACCCTCAGGTCATAGATGTGGATGAAGTTGAGGAAACAGGAGTTG
Seq A exon
TTTTCAGCTATAACACGGATTCCCGCCAGACGTGTGCTAACAACAGACACCAGTGCTCGGTGCACGCAGAGTGCAGGGACTACGCCACGGGCTTCTGCTGCAGCTGTGTCGCTGGCTATACGGGCAATGGCAGGCAATGTGTTGCAGAAG
Seq C2 exon
GTTCCCCCCAGCGAGTCAATGGCAAGGTGAAAGGAAGGATCTTTGTGGGGAGCAGCCAGGTCCCCATTGTCTTTGAGAACACTGACCTCCACTCTTACGTAGTAATGAACCACGGGCGCTCCTACACAGCCATCAGCACCATTCCCGAGACCGTTGGATATTCTCTGCTTCCACTGGCCCCAGTTGGAGGCATCATTGGATGGATGTTTGCAGTGGAGCAGGACGGATTCAAGAATGGGTTCAGCATCACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000116962_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.460 A=0.059 C2=0.035
Domain overlap (PFAM):
C1:
PF061199=NIDO=PD(18.3=13.2)
A:
PF129472=EGF_3=WD(100=70.6),PF074747=G2F=PU(0.5=2.0)
C2:
PF074747=G2F=FE(42.2=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCACAGAGAGAACCAGGTCT
R:
GTCTCGGGAATGGTGCTGATG
Band lengths:
251-401
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)