HsaINT0169911 @ hg19
Intron Retention
Gene
ENSG00000041982 | TNC
Description
tenascin C [Source:HGNC Symbol;Acc:5318]
Coordinates
chr9:117822009-117825468:-
Coord C1 exon
chr9:117825196-117825468
Coord A exon
chr9:117822282-117825195
Coord C2 exon
chr9:117822009-117822281
Length
2914 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAT
5' ss Score
7.88
3' ss Seq
ACTTTTCTGTCCTTCTTCAGAGG
3' ss Score
10.76
Exon sequences
Seq C1 exon
AGGAGGTTCCAGATATGGGAAACCTCACAGTGACCGAGGTTAGCTGGGATGCTCTCAGACTGAACTGGACCACGCCAGATGGAACCTATGACCAGTTTACTATTCAGGTCCAGGAGGCTGACCAGGTGGAAGAGGCTCACAATCTCACGGTTCCTGGCAGCCTGCGTTCCATGGAAATCCCAGGCCTCAGGGCTGGCACTCCTTACACAGTCACCCTGCACGGCGAGGTCAGGGGCCACAGCACTCGACCCCTTGCTGTAGAGGTCGTCACAG
Seq A exon
GTATATGACCCTCCTCCCAGACTGGAGACATGATAGGAGCCAGCATGTCATTGAAATAGAGAAAATTCACCCGTGTGGCAGAATCCTACCCCAATGTTGTTGACAGACAGCGTGAATCTCTAACTCAGGAAGGTCTGTGTTGGAATTCCACCTCACTAGCTAAATATTCTTGGGACTATATGTGTATGTATATATATAGATACACATATATACACACACACAAATATATACTTATATATATAGTGTGTGTGTGTATATATATATATGTGTGTGTGTATATATAGATATATACTTTTTTTTTTTTTTTTGAGTCAGGGTCTCATTCTTTTGCCCAGGCTAGAATGCAATGGTGTGACCATGGCTCACTGCAGCCTCGAACTCCTAGACTCAAGTGATTCTCCTGCCTCAGCCTCTACAGTAGCTGGAACCACAGGTGTGAGCCACCACACTCAGCTAAGTTTTTTGTATTTTTTGTAGAGATGGAGTTTCACCATTTTGCCCAGCCTGGTCTCAAACTCCCGGGCTCAAGCCATCTTCTCACCTTGGCCTCCCAAAGTGCTGGGATTACAGGCATGAGCCAGCGTGCCCTACCTCTATTCTTGGGTATATTTCTTTACATCCCTGAGCCTCCTTTTTGTATCTTTAAATCAGCAATGAACCCTACTTCAGGAAACTGTCGTGAGCAATAAATAAGTTAATGAATGTCAGTGCTTAGTAAAGCGCCCATCACGTAGTAAATACTGAATAGCAAATAGCTAAATTTATCATACAGCAACAGAGTCATGATTTTTAAAATAGCACAAACGTTAGGGCTGTGGCACAAAAATAAGATCAGAACTTTCTAGAAAAACCTTATTACTAGCCTCAGAGCCACCAACTAACACCCACCTGATAGGCAGATCTCTACATAATAACCTTTAGAAATGATGCAGTTAGCTTCTGCTGAAACTATCTAGGACTCTCTCCTCAACAGATACAAAAAGCAGGGACATTTCCAAGAAAGGACAGCCACCTTTGACTTCAATGCTTTTCATTCAATTTGGGAAGGAAAAACAATTCCTCTCAATTTTCCACCAAAAATGAGCTGCTCCATCTGTTATAAAAAACTGTGCTGTACATGAGATTTCTAGAAATAGCTTCAAAAAGGGCTATGGGAAAAAGGGCCAACTTTTTGGTGATAGGGTTTCTGTGCTGAGCCCTAAGCCCATGCCCCACTCTACATATGCTGCCTTTTGATAATGCAATCCAAATCACTCAATTCAAAACAATTGTTTTCCTTGCTCTTATATAACAGATAAACTTGGTGGTTGCTAGAAACTACATAAAATTCCAAAAATAAGGGGGCCAGGTTTTATTCCTGTGTTGCCTGGAATATCTTCAGATCAAACAAGAGCAAAAAGGGCCTTTGAGACAGGTGTGGTCTGTGTGCAAGATGCTCATATCTTCCTCTGTAGTCCGCAAACTTTTGTTTTTAGCAGTACAACTCCTTTTGCAAATGAAATCTTCCAAGGAACCCTACTATTTGACAGATAAGTGAACAGCTGTTCTTGGTGTGCCTGGAAGTAAGAGGGGGATACCTCCACCCATGTTCTCAACACAGTTCTTCTAGAAAAGCCCCAGATCTATGTGGAACACAGTTTGAAAATAACCCCTCTTAAAAGCAAGAGGTTGCTCAGAGGTTGCTCAGACTCTCACAGGGCATTGAATCCTTGGATACCCAAGAGCAAGTATCTATATCTTTCAACTATTTTTGGTTGAAATCCCTGCAGATATTCTCCTCCCTAACTTCTAACCCATGGCCACTTCAGCCTTCAAAACAGTGGCTGAGAGACTGCATTTAACCCTCAGAAGCATCCCACAAAACAATGGGTTTTTCCATATCCTAAATCCAAACTTTCTAAATCACCAATAACAACTACGTTAAATTTCCTTTCTACATTGTAGAAGCAGTAATAGTGGGTTCTGTTCTGCACCATTTACTGAGAAAAATCTCCTTTCTTTTAATTAAAAGTAGGCACACTCATTTCACACAAACAGCTTTGCTCTGTGATACAGCCATTCTTCCTTTAGACATAAAGTACGAGCAGAAAAAGGTGGAAGAAGAAACAAGCTGAGAACCCAGTACACAACTTTTGATCCCTGAAAGCTGATAGAAGACCAAAGAAAAAACATCATACTTGTTCACACCTGAGACAGCATACACTTTATCAACCCAGGCAGGTAGCCAGTGGCTAGTGATGAGATAATCTTTCTAATTATAAATAATGAAATAAAGCAGGGATTTCTCCCTGACATGAGTAAGAAATTCCAAGGGAAAACACTTGAACAATGATTTCTTTATTAAGCTGACACTTATTGGGCACTCGCCATGTATCAGGTATGATACTAAGAAGTTGATAAATATTACCATTTAATCATCACGCAATCCCATGAAACAGTACCATCAACTCCATTTAAAGGTAAAGAGAGGGTGGCTCAGAGAGAAGCTGAGTGACATGCCCAAGATTATGCAGCTAGCAAATGCTAGTATTGGGATTCTAATCAAGGACTACTTGCCTCCAAATTCTGCACTTGTAACCATTGCTGTATCTCTTACCCTAACCCACAATCCTACTTTTCCATGTGAATTTCACCTGCTAGCAATGCATGCTCCCGGTGGGTTGTGCATTGGTGCAGATGTCTTTGCCATCTCAAGGATAAACCATGTAGATATTTCCCTTTCTGGCCATTTTCAACTCCTGAAGACAACTGTGGCCAGGGAACCACAGTTCAAATTGCAAATGCTCAGAGACCAAGAATTAAAAAAAAAAATTATCTTTCCCCTTTCTCTCTTTCCTAGAGTTGGGCTGTGGGATGTTTGGTTTCCTCATTTTTGGTTTATAGAACTGACAAATACTTTTCTGTCCTTCTTCAG
Seq C2 exon
AGGATCTCCCACAGCTGGGAGATTTAGCCGTGTCTGAGGTTGGCTGGGATGGCCTCAGACTCAACTGGACCGCAGCTGACAATGCCTATGAGCACTTTGTCATTCAGGTGCAGGAGGTCAACAAAGTGGAGGCAGCCCAGAACCTCACGTTGCCTGGCAGCCTCAGGGCTGTGGACATCCCGGGCCTCGAGGCTGCCACGCCTTATAGAGTCTCCATCTATGGGGTGATCCGGGGCTATAGAACACCAGTACTCTCTGCTGAGGCCTCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000041982-TNC:NM_002160:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.207 A=NA C2=0.016
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=88.0)
A:
NA
C2:
PF0004116=fn3=WD(100=87.0)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)