HsaINT0170531 @ hg19
Intron Retention
Gene
ENSG00000116147 | TNR
Description
tenascin R (restrictin, janusin) [Source:HGNC Symbol;Acc:11953]
Coordinates
chr1:175332844-175334415:-
Coord C1 exon
chr1:175334146-175334415
Coord A exon
chr1:175332964-175334145
Coord C2 exon
chr1:175332844-175332963
Length
1182 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CAATCACTGGGTCCTTGTAGGAA
3' ss Score
5.64
Exon sequences
Seq C1 exon
GCTTCCGTCCCATCTCTCATCTGCACTTTTCTCATGTGACCTCCTCCAGTGTGAACATCACTTGGAGTGATCCATCTCCCCCAGCAGACAGACTCATTCTTAACTACAGCCCCAGGGATGAGGAGGAAGAGATGATGGAGGTCTCCCTGGATGCCACCAAGAGGCATGCTGTCCTGATGGGCCTGCAACCAGCCACAGAGTATATTGTGAACCTTGTGGCTGTCCATGGCACAGTGACCTCTGAGCCCATTGTGGGCTCCATCACCACAG
Seq A exon
GTGAGGCTGGAGGACTTGGCAGCAGGTGATGAAAGGGGTTTTCACAGTAGCCTTTGACAAATCAATGAAATTTTAAAAGAGAAAGACCCAAGGAGTAGGGGATTTCCTCTATGGCTAGAGAAAGTCTGTGACCTGTTCTGAAACAGCTACTTCCTCCAGTGCTGCAGAAGATGCATTAGATAAGAAACTCCCACTTGGAAGGTGGGACAAAGTCAATGTCTTGAGGAGGTCAAAGCTTGAATGCATTTGTCCAAAAGACCTCCCACTACCAGCTTAGAAGAAAAGCACTGGAGAAAGCTAGTCTCCAAGAGGAATCCCTCTACAGTGAAGAGACACCTGTTCCTATTCTGAAGAACCATCTCTTAACTGCCCAGAAAGTTCACTCGTACAATAATGCTTCCTTAGTCTCACATGGGACTAGCATGCAATCAGGTAGTGACCTGGCACTCAGAGAATGGGGTTGATTTGGATGTTGCTTAGAAAACACAGGCACTCAGAGATGAATTGGATCAGTCCCAGCTCATTATTCCCAAACACAGTTTCAAATATGAGGTACATGTGGGTGAAGATATGTATGTTTGGGTAGTTTCCTCCTTACTAACAAGAACTCACAAACTGGACAAGTAGATTAAACACTTAGCTGATCAACTCTGTGATCCCCTAGCAGTAAAAAAAAAAAAAAGCCCATAGCATAAATGAAATACAATTTAGGAAAATGGATTTGTTCTGGACTTGTGCTCTGAAATCCCTGTATAGTCAATAGGCAGTTTTTCAAAACTGAAACCAAAGGTGGCTGCTAAAGAATAAGAGATACAGGCAAAATTTGGTTTATCTTAAAAAATTACCTCAGAGAAAATGCCTATGTTTCTCCCAATTCAAAACAAAACATATGAACTTAAAAAAAAAGTTCCTAGTTGGCTTGCAGATAGGTAACAGGTACAGAGCTTGCCAGCTTGTCTTCATGTTGTTAAAATATTCTCCATGAACATAGCTTTGGTCATACCTACAAGGTTTCAAGTGAAACATCAGCGTGACCATGGTTTTAAGATACCCTATTACATGGAAAGATCTTGTCTGCCTTTGGGACAACATTGGCTTTTGGTCAACATAAAACCAGGGATGAGAATTTCTTTTTCACACTGTGCTTTCTGTCTTTTTCCCACAATCACTGGGTCCTTGTAG
Seq C2 exon
GAATTGATCCCCCAAAAGACATCACAATTAGCAATGTGACCAAGGACTCAGTGATGGTCTCCTGGAGCCCTCCTGTTGCATCTTTCGATTACTACCGAGTATCATATCGACCCACCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000116147-TNR:NM_003285:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.198 A=NA C2=0.055
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=89.0)
A:
NA
C2:
PF0004116=fn3=PU(47.5=92.7)
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:
TCCGTCCCATCTCTCATCTGC
R:
AAAGATGCAACAGGAGGGCTC
Band lengths:
352-1534
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)