HsaINT0113499 @ hg19
Intron Retention
Gene
ENSG00000087303 | NID2
Description
nidogen 2 (osteonidogen) [Source:HGNC Symbol;Acc:13389]
Coordinates
chr14:52473255-52474685:-
Coord C1 exon
chr14:52474528-52474685
Coord A exon
chr14:52473379-52474527
Coord C2 exon
chr14:52473255-52473378
Length
1149 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATA
5' ss Score
8.55
3' ss Seq
TTCCCCCTTTGTTTTAAAAGGAA
3' ss Score
8.99
Exon sequences
Seq C1 exon
CAACTTGTACTGGACAGACTGGAATAGAGAAGCTCCTAAAATTGAAACGTCATCTTTAGATGGAGAAAACAGAAGAATTCTGATCAATACAGACATTGGATTGCCCAATGGCTTAACCTTTGACCCTTTCTCTAAACTGCTCTGCTGGGCAGATGCAG
Seq A exon
GTAATACTACTGATGGAATGCAAATAGATAACCTCTCATCACAGTGAATGTGAGCACTAACAGATTTTACTACAAAATGAAATCCCATCACTTAGATCTCCTTTCTTTGGTCTGTAAACTTTTAAGTACTAGTAAATTTAAGTACTAGTAAATGAGTCTTAAAATGAACTTTCTGGGGTTTGGGTGGAGGGAAGGATATATCAAGCAGTAAGTTTGTACTGCTTGCCTGACCATGAGTGCCTGGCATATTTTTAACAGTTAAAAGAATTAGCCATTGTTGAATTGACAAACTTAAGTGAAGTTATTCTTATGCGGGGAGAGGGTCACTATAACTTACCTATAAACATCTGTTATAATGCTAAGGACATTCTTTGGAAAGCATTGTAGCAGGGTAGCTTCCTTCAGTAATAACATGGGTATTAGCAACCTACATTTGTTTGCTTTTATCAGCACAACTGAAAAAATGCTGTGTGTCTAGTTCTATACTAAAGAATATGAAAAAGACTGTTCTTGAATTTGTAATCTAATAAAAGGGCCTAATGTACATAGGTCACTTTTATAACCCAGTTGTTTAAAACAAGTTACATTTCTTAAAAGGATTTGAAATTTAAATCGGCTCCATGAGAAATGTGAAACTTGGAAATTCTTGAATGGTTTAGCTATTGTAAAAATTTTTAAGACTGATTCCTTTACATTGAAATATGAGTTATGTTACCATTTTAGTCACTTTTTTCCTCCTACCTAGAAAATATTTTAAAAATACTAAGGATTTTGGTTAAAAGGTTGCCTCAGTAATTATAGACATAGCTTACAAAGGGCAAGTATTTACCCAGATGTTATAATTTATAAGCTAAGGCTTGAAATCACACAAATTATAAAAATAATTATGTTTAATGCCCTACTTTGGCAGAAACTTACCAGATTTCAGTAAATGCAATCCTGTCTTCCAAAAAAGGATTGAAAGTTTGAATCTCTACTAAAAACTGGAGACTAGTAATAGGACAGGTAATTTTACAGTTGCTAATCTATGACTGTAATGGAAGTAAAATATCCTATTTCCCCATTCTATCACTGTGTCACTATCACTATGTCACTATCATTTTTGGCAAAGCAGCTGAAGGACCTCATTTTCCCCCTTTGTTTTAAAAG
Seq C2 exon
GAACCAAAAAACTGGAGTGTACACTACCTGATGGAACTGGACGGCGTGTCATTCAAAACAACCTCAAGTACCCCTTCAGCATCGTAAGCTATGCAGATCACTTCTACCACACAGACTGGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000087303-NID2:NM_007361:19
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=WD(100=79.6)
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:
ACTTGTACTGGACAGACTGGA
R:
TCCTCCAGTCTGTGTGGTAGA
Band lengths:
279-1428
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)