HsaINT0170531 @ hg38
Intron Retention
Gene
ENSG00000116147 | TNR
Description
tenascin R [Source:HGNC Symbol;Acc:HGNC:11953]
Coordinates
chr1:175363708-175365279:-
Coord C1 exon
chr1:175365010-175365279
Coord A exon
chr1:175363828-175365009
Coord C2 exon
chr1:175363708-175363827
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:ENST00000367674:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.198 A=NA C2=0.073
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