HsaINT0113493 @ hg19
Intron Retention
Gene
ENSG00000087303 | NID2
Description
nidogen 2 (osteonidogen) [Source:HGNC Symbol;Acc:13389]
Coordinates
chr14:52485779-52486896:-
Coord C1 exon
chr14:52486777-52486896
Coord A exon
chr14:52486013-52486776
Coord C2 exon
chr14:52485779-52486012
Length
764 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
CTCTGCCTTGATCCTGGAAGACT
3' ss Score
1.83
Exon sequences
Seq C1 exon
ATGTAGATGAATGCTCAGAAAACAGATGTCACCCTGCAGCTACCTGCTACAATACTCCTGGTTCCTTCTCCTGCCGTTGTCAACCCGGATATTATGGGGATGGATTTCAGTGCATACCTG
Seq A exon
GTAAGTTTCAGAGGGCCAGATTAGGCACATGAATCTCTTAGCTCCTTCAAGGATATTTTTCTATGACAGCCCACTCTTGATTTAGCCTGGTCTGGAGCCTTGGTGGATTTTCCAAGCTGTGGATTTTTTTCCTTGGTTACCTCCTGCTGCCTAGTTTACTGATAGTTCACTGATTCGTAACATTTCTGGAGGCCTGCGGGAGACGACCCACCCATCGTCCTACCTCATAGCCCCTCTGGTTAACTGCCCTAGTGATCTGCTTGACCTTGATGAGTGCAATTTGGATGAAGTGTTGAGATCAAGCTTATTAAGCAGAGCCTTATGCGCCGGTAGCCAGGGTTAAGCCCGTGGCGACCGTGTTAGAGGAGCTTGGCTAGCTTGGTGCAGTCTCGTGAGTGGTGAGTGCCGTTGGCTTGCAGCTTCTCAGACTTAACCTGTGGGCCTCAGGGCATGAATGAGCTTTGGCTTGTTTTCTCCAGAGTCTCTTGGGATGTTGGGCAGATGCCACCGCTATCCCTCATTTTCCCCAGATGACAATAGGGAGGGGCCGGGCTGCTTTACACTTAGAGCCAGCTAGGGACCTATAGGATGAACTAGAAGAACTGGAGAGAAATGAGGTAAATAGTGGCAAGGTATTATAAAATAAGAATCTCGGGCTCCAAAATCCCAGCGCTTTTCCATGCCACGCTGTGGGCTGGTGAAGTGGATGGGTTGCAATGCCTTCTATTTCTCTTTTGTGTCTTCCTCTGCCTTGATCCTGGAAG
Seq C2 exon
ACTCCACCTCAAGCCTGACACCCTGTGAACAACAGCAGCGCCATGCCCAGGCCCAGTATGCCTACCCTGGGGCCCGGTTCCACATCCCCCAATGCGACGAGCAGGGCAACTTCCTGCCCCTACAGTGTCATGGCAGCACTGGTTTCTGCTGGTGCGTGGACCCTGATGGTCATGAAGTTCCTGGTACCCAGACTCCACCTGGCTCCACCCCGCCTCACTGTGGACCATCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000087303-NID2:NM_007361:13
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=0.291
Domain overlap (PFAM):
C1:
PF126622=cEGF=PD(13.6=7.3),PF129472=EGF_3=WD(100=82.9)
A:
NA
C2:
PF0008613=Thyroglobulin_1=WD(100=83.5)
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:
TGCTCAGAAAACAGATGTCACCC
R:
CTGGTGATGGTCCACAGTGAG
Band lengths:
343-1107
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)