HsaINT0170529 @ hg19
Intron Retention
Gene
ENSG00000116147 | TNR
Description
tenascin R (restrictin, janusin) [Source:HGNC Symbol;Acc:11953]
Coordinates
chr1:175335011-175336433:-
Coord C1 exon
chr1:175336344-175336433
Coord A exon
chr1:175335275-175336343
Coord C2 exon
chr1:175335011-175335274
Length
1069 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CCATTTATGTCAATCCACAGAAC
3' ss Score
8.54
Exon sequences
Seq C1 exon
ATCTGGTACCTGGCACTGAGTATGGAGTTGGAATATCTGCCGTCATGAACTCACAGCAAAGCGTGCCAGCCACCATGAATGCCAGGACTG
Seq A exon
GTGAGTAGGAGGACTGCTGAGGAAGAAGACCAGGTTAGCCTATAAGCCTAAGGAGTCATGGAGGCTCGTCCCAGCAAAAATTAATCAGAAAGCAATGTCTTCCAGTGAACAGGGCTCTGGTGACAACTGTCAGCCTAGAAACAACATCCACCCTATGCCTAATCCTTGATCTCTGACAGGCAGGACAGAGTCACCCTCTTCCCCACAGACCTGTGCTCGGTCCCCCGTGGTCTGAAGAGCTGCTCAGGGCTGTACAGAGCAGAGGTGGAAAATCCTAAATAGGTTGATGCCATTGCAGGCCATATTTTTATCTAGACCACCCCGACAGCAGGCAGAATGGGGCATCCTCGCCCTGCATACACCACAGAGGTCCTCACAAACGCCACTTGGGTGAAGGTCTAGACTTGCAACAACCCATTAAATCTGAGGGCAGAAGAAAAGTCCAGCTGAGACCCTTGCTGCTCTGGATTCAGCAGTTTTGCTTCCAAATCCTGGGTAAATTTCAAAGTCATTTCAGCACCTATGGTACTAGCAGCCTGGGCTGGGCTAGGGATTTTAGACCAGTCCTTGTCCCAAGGTTCAGCCTCTCTAGAGAACCACATGGACAAAAGTCTCCAGGTCCTCAGATCTAGCTGCCTGCCTGGCTATGGTTAGAACAAGTCAAAATAGCCTCAGGGTTGGAGGGTGGTGCGCTTCTGTTGCCAGGAATGGCATATCCCTACTTGGTGGTAGCTACCATTTTATCCTTATTGGCTCATTGAGAAAGGATGGGAGAAAATGAATATGGCGAGCTTGAAAATCAGCAGCCAGCTTTGTCCCAGAGGTGGATGCAATCCAGTGGTATCAGAGCTCATCACGGCTTTCTTCAGATTGTTCATCTATTTGCCAAGCCCCTGGCCATCATTCAGAGGGAAGGTACTTAGCAAAATATTAGATAAGTGTCAGCAATGACAAGCTAGTGCTCATAGTCAGCAGGCCTGCTGATAGCTTGGAAACACACAAAGCAGGCCAATAAATACTGCCCTCCAGGGGAACACATGTAAAATAGGCCATTTATGTCAATCCACAG
Seq C2 exon
AACTTGACAGTCCCCGAGACCTCATGGTGACAGCCTCCTCGGAGACCTCCATCTCCCTCATCTGGACCAAGGCCAGTGGCCCCATTGACCACTACCGAATTACCTTTACCCCATCCTCTGGGATTGCCTCAGAAGTCACCGTACCCAAGGACAGGACCTCATACACACTAACAGATCTAGAGCCTGGGGCAGAGTACATCATTTCCGTCACTGCTGAGAGGGGTCGGCAGCAGAGCTTGGAGTCCACTGTGGATGCTTTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000116147-TNR:NM_003285:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.581 A=NA C2=0.284
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(26.5=71.0)
A:
NA
C2:
PF0004116=fn3=WD(100=89.9)
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:
ATCTGGTACCTGGCACTGAGT
R:
TCCACAGTGGACTCCAAGCTC
Band lengths:
343-1412
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)