HsaINT0170538 @ hg19
Intron Retention
Gene
ENSG00000116147 | TNR
Description
tenascin R (restrictin, janusin) [Source:HGNC Symbol;Acc:11953]
Coordinates
chr1:175304847-175306815:-
Coord C1 exon
chr1:175306664-175306815
Coord A exon
chr1:175304944-175306663
Coord C2 exon
chr1:175304847-175304943
Length
1720 bp
Sequences
Splice sites
5' ss Seq
ATTGTAAGT
5' ss Score
8.54
3' ss Seq
TTTTTTTATTTCCTTCATAGGTA
3' ss Score
11.18
Exon sequences
Seq C1 exon
GAGGCCGGGTGTTCCCTCATCCCCAAGACTGTGCCCAGCATTTGATGAATGGAGACACTTTGAGTGGGGTTTACCCCATCTTCCTCAATGGGGAGCTGAGCCAGAAATTACAAGTGTACTGTGATATGACCACCGACGGGGGCGGCTGGATT
Seq A exon
GTAAGTACAATCTGTGCTCTCCTTGCACAGAAGCGTCCTCAGTGTTCTAGTCTACCTAGCTCAGCACCTGCCAAGCCAACTTCACCATCCTCCTGGCCATCCTTTTATCACCCCCCACATGTCCATCTTGGGGCTCCTCATTGCCCTCAAGGCCCATGTTCAGAGTCCAATCATATATCTGGCCAGGCAGGGAAAGGAATAACTATATCTGTCCTCACAGAAGGAGGAGGAAAGGACAGTTAAGCAGGAGAGTGCTGGGGAAAGGCAGTCGCGGGTCTGTTGGGCCCAAGGATCTTGCCTGCTGAGAAATGCATCTCTAATAAAGCAGTGGAGGTGCTGGGCAGAGTGGCTGATTCCTGTAATCCCAGCACTTTGGGAGGCCAAGGCGGGTGATGACTTGAGGCCAGGAGTTCGAGACCAGCCTGGCCAACATGGAGAAATCCTGTATCTCTACTAAAAATACAAAAATTAGCTGGTCATGGTGGCACATGCCTGTAGTCCCAGCTACTCTGGAGGCTGAGGCAGGGGAATCACTTGAACCTGGGAGGCGGACGTTGTAGTGAGACGAGACCATGCCACTGCATTGTAGCCTGGGTGACAGAGTGAGTAAGACTCAAAAAACAAAACAAACAAGCAAACAAACAGGCAGTTGAGGAAAACTATTTCTCTATGAGGAGGTGATCACCACCACAGAGAGATGATCAGAAGCCTCCAATTGAGGATTGCAGTTGGGAAAGCAGATGAGGCCCCAAACATGGATAGCTGGCTCCCCTTCCCCATTCTTCCTGGGGTCTCCCTGGTTCTTCCCCAGAGCTGACACAGCCTTCAGGGAGCACCAGTGGTCAGGAAAAGAGAGACACTGTTTCCTGTCACCACCCTCCTCCCATGCCTGATAGGGCAATACAGAGTGAGGGAAAATAAGGGCAGCCTCCTTAATGCAAGCCGGTCGGAGCAGCCGGGAGTTCCCACCACTTGGCCCTAAAGCAGCCCAACATTAGCTGGATCGCTTTAGGATGGAAAACCAGCCCCTCCGCCCTTCTTTGGATGCCCTCTCTCGCTCTGCTAACAGTGCTGGATGTTTCCTGGTGCAAAATGGGTAGGTTTTGAATGGTGATGTGCTCATAACAGCTACTCTTGGGAGACATTTTCTTTTATGTTTCTGACATATGTGTGCCTCCTTCTTAAAGCATAACTGGAAATTGAAGCCAAGGCTGATATATTGGAGGCTAAATAAAATAAGCACTTAAACAGCTCAGAAAGTGAATGATATGCAATATTGCTTTGCCTGCAATAGGACGATGACAGTTACTAGCTGATTTGAAGTTGGTCCTGTTCTTTTGGTGAGAAATGCTTTCTACTGCACTCTGTAGTGCAAAAGATTCGTTTGAGAGCCAAGCCTATTTCCCCTGATATTTAGGGCTTGATATGTATCCTGAGTCCTTTCTACATTGCAGGGGTGCAAATTAGTGTCAACATCACACTGGAGCCTATTCATCAGGGGCCTCTACACTTCAAGAGAAATGCTCTGAGTGTCTCCTACAAAAACTGCTGTGTAAATACTGAGCTCTGCTCTGAAATGTTCCTTCTTTGGACATCTTTGTCATTGCAGATATAAAACCCAGTTATATCAATTTTACTTATCACAGTTTATTTTCCTTAGCATCTCTTTGGGTTTTGTTTTTTTGTTTGTTTGTTTTTTGTTTTTTTATTTCCTTCATAG
Seq C2 exon
GTATTCCAGAGGCGGCAGAATGGCCAAACTGATTTTTTCCGGAAATGGGCTGATTACCGTGTTGGCTTCGGGAACGTGGAGGATGAGTTCTGGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000116147-TNR:NM_003285:19
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=0.000
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=PU(21.0=86.3)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(15.2=100)
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:
GGTGTTCCCTCATCCCCAAGA
R:
CCAGCCAGAACTCATCCTCCA
Band lengths:
242-1962
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)