HsaINT0169914 @ hg38
Intron Retention
Gene
ENSG00000041982 | TNC
Description
tenascin C [Source:HGNC Symbol;Acc:HGNC:5318]
Coordinates
chr9:115046410-115048532:-
Coord C1 exon
chr9:115048260-115048532
Coord A exon
chr9:115046683-115048259
Coord C2 exon
chr9:115046410-115046682
Length
1577 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTT
5' ss Score
7.51
3' ss Seq
ACCATTTTCTCTCCCTCTAGAAG
3' ss Score
11.02
Exon sequences
Seq C1 exon
AGGCCCTGCCCCTTCTGGAAAACCTAACCATTTCCGACATTAATCCCTACGGGTTCACAGTTTCCTGGATGGCATCGGAGAATGCCTTTGACAGCTTTCTAGTAACGGTGGTGGATTCTGGGAAGCTGCTGGACCCCCAGGAATTCACACTTTCAGGAACCCAGAGGAAGCTGGAGCTTAGAGGCCTCATAACTGGCATTGGCTATGAGGTTATGGTCTCTGGCTTCACCCAAGGGCATCAAACCAAGCCCTTGAGGGCTGAGATTGTTACAG
Seq A exon
GTATTTCAAATCAAGTGAGCCATTTGTTCCTCTTCCTGGTCCCCTTCTGTGTAATCTGTCTACCGGATCGCCATGACTTTAACATCTTTGTTCACATTCCCTACTTAATCCATAAATGTAGTCTACTGTTTCACCTTCTCCCCACACTCCCTCTTGTCATATGTACTTAATGAACACTCCCCACTCCCACCCCAGAAATGAGAAGGTCGAAATATTTCTGCTTTGTATTCAAAATCCTTTAGACCTTGTCTTGTCCATAGCTCTTGTGTGCTTACCTCATATCATCGTCCCTTGTGATCAACCTGGCTGGTCCCCAGCTACATTTCAGCCTTCTCAAAAGAAATATACCAATGAGTATATTTCCAAAACGTATTTAAAACTTTTGCCATCTCAAAATCTCAACCATGATCTTAACAAACTTACCCAGTGGGCTCGTCATTGGAAAACCAAATGTGAACTTATTTTATCGGTAATCACTAATATCAGAGAGACTCTGCAACACGGACTAAATCCATAATTTTCTCAAGACTAATGATTCCTACAGAAATTAACAACGGAATAGTCAAACATCTGTGTTTCCCAAAGTCTTTCTAGAGATTACTAGCTCCACAGAATGTTCAAAGGTCCTACTCGGTGAGGAAATTCCACGTTCAAATAAGTTTGGAAAGACTGAGTTAAACAAAGTTAAAGAGGATCTTTAACTGCACGGCTTTTCAGAACACCCTAACGTGCATCATCTCCAAGAAGTACTTATCCAGGCAGTATTTTCCAAACTTATTTGACAAAGGATACTTTTTAAGGAAGAGGATCAAACAGGAATAGTTCACTGTGAGCACACTTTGGGAAACTCAGCTCTAAATCTACATTGACATTGAGTTTTGTCTAGTTAAGGCAATGCAAGATGAAACCCTGGGTCCACAGTATGTAGCACAAAAGGTTCCAACCTCAGTTCTACCATCTGAACATTTATCTAATAGTTAATAAAATAACAAGAAAGAATGCAAAAAAAAAAAAAAAAAGTCAAGGGTAGGAGCCTTCTTTAGTGAAACAGCACTAAGAACAAAGCAAAAAGACCATAACATTTTAAAAGCCATTTTGGGCAGGCTCAAGGAGAATGTAATCAGCAGTATCATCATGAGCAGCTCTACAGATCATTAATGCTGGTTTATTTGTCTTTTCAAAAAGAAAAGAAAAAGGTCTTGCAGGGGATGGGCACTCAGCCACTGGAAGACAGAGAGCAAATGTAAACAATTTACTGGCTTTGAACTTATTTAATAATATGTGGGACGGGCCAATGCTGAGTCCAGATGTGGATTTACTGAATTGCTTTTAGACAAAACTCACATATGCAAACATATGCTTGACTTGTATTGAATGTGTCTACTCCATCTTTCCCCTCTCCTGACTCTACTGGACTTGTTAATGTTGAATGATTTTATTTTTGGTATCTCAGGACACTTCTATCTCTGAAAGCCGGGGCATCACTACATATTGATACCCCTACTGGAGAGAAGATTGCACGGACTGGTAAATGATGTTGTCTTTCCTCCTTCTCCCACCATTTTCTCTCCCTCTAG
Seq C2 exon
AAGCCGAACCGGAAGTTGACAACCTTCTGGTTTCAGATGCCACCCCAGACGGTTTCCGTCTGTCCTGGACAGCTGATGAAGGGGTCTTCGACAATTTTGTTCTCAAAATCAGAGATACCAAAAAGCAGTCTGAGCCACTGGAAATAACCCTACTTGCCCCCGAACGTACCAGGGACATAACAGGTCTCAGAGAGGCTACTGAATACGAAATTGAACTCTATGGAATAAGCAAAGGAAGGCGATCCCAGACAGTCAGTGCTATAGCAACAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000041982:ENST00000350763:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.115
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=88.0)
A:
NA
C2:
PF0004116=fn3=WD(100=88.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTGGATGGCATCGGAGAAT
R:
CCAGTGGCTCAGACTGCTTTT
Band lengths:
352-1929
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains