HsaINT0113501 @ hg19
Intron Retention
Gene
ENSG00000087303 | NID2
Description
nidogen 2 (osteonidogen) [Source:HGNC Symbol;Acc:13389]
Coordinates
chr14:52472455-52473378:-
Coord C1 exon
chr14:52473255-52473378
Coord A exon
chr14:52472568-52473254
Coord C2 exon
chr14:52472455-52472567
Length
687 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CTCTTCCTTTCTGTTACCAGGGA
3' ss Score
10.26
Exon sequences
Seq C1 exon
GAACCAAAAAACTGGAGTGTACACTACCTGATGGAACTGGACGGCGTGTCATTCAAAACAACCTCAAGTACCCCTTCAGCATCGTAAGCTATGCAGATCACTTCTACCACACAGACTGGAGGAG
Seq A exon
GTGAGCCCCACAAATTCTGGACAAGCCTGAAAAGGCCAACTGTTCCAGAGGACACACCACTTGTTTTACCAAAAGTCAGTACCTGACTTGACTCATTAAGCCCTCTGAGGCTTTTGTTTCATCACCTCCTCATTGGCAGATAAGATCCTTCAAGGATGTTTTTCATCCTTTCATGTTTTTGAAATCATCCTTTTACTTCACCCAGAAATCGAATGGTATTGCTCACATATAGCTTAAAAAGTAGCAAAGCTATTGGATAATGTCTCAAAAGGGAGCATATTAATCTAAATATGTTCTTTAGAGAATAAGACTACCCTTGATACCATGAGCTATATTACAGGGCTTAAGTTGGCTTTTGACACTGTGGACATATTGTCTGAGGGACCGAAAAATACTATTTAGACTAGTTCTCAAATGAGGAACTGTGGAACATTAAAGTCTAAGCCCTTTACACCATGCCCTACAACTCTGATTTGATAGCTCATCATGTGATTCTAACATGCAGCTAGAGATGAGCAATGGATTTAGAGCAATGGTCTTCAAACTTCAGTATGGCTTTAGCACCAGCCCTGGGACAGAGAAGGCTGCCAGAAATTTTCCTCTATTGCAACTGATTTTCTGTGGCTGACTGACTTCTTTATCTAGTAAATGACTGTCCCTGAATTCACTCTTCCTTTCTGTTACCAG
Seq C2 exon
GGATGGTGTTGTATCAGTAAATAAACATAGTGGCCAGTTTACTGATGAGTATCTCCCAGAACAACGATCTCACCTCTACGGGATAACTGCAGTCTACCCCTACTGCCCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000087303-NID2:NM_007361:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAACTGGAGTGTACACTACCTGA
R:
CTGTTGGGCAGTAGGGGTAGA
Band lengths:
230-917
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)