HsaINT0169921 @ hg19
Intron Retention
Gene
ENSG00000041982 | TNC
Description
tenascin C [Source:HGNC Symbol;Acc:5318]
Coordinates
chr9:117793832-117797613:-
Coord C1 exon
chr9:117797483-117797613
Coord A exon
chr9:117793965-117797482
Coord C2 exon
chr9:117793832-117793964
Length
3518 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTT
5' ss Score
7.64
3' ss Seq
ACTTTTTCTTCTGCTCTTAGGAA
3' ss Score
10.7
Exon sequences
Seq C1 exon
ACCTCGATTCTCCAAGAGACTTGACTGCTACTGAGGTTCAGTCGGAAACTGCCCTCCTTACCTGGCGACCCCCCCGGGCATCAGTCACCGGTTACCTGCTGGTCTATGAATCAGTGGATGGCACAGTCAAG
Seq A exon
GTATTTTAAGTATATAACAACTCCTCAATGCTAGTTGAAGCATTTGCATGATCTTCAAAGTATGGAAGAATTACCTGATGCTGTTTTTCTACCCCAGTGCATCTGGGGAGCTGAAAAAAAAAATTAGTAGAGACTGGATGGCATGCCAGACCTTCTGAATCATACTCTCCAGCCTCTTTCATTTTAACCAGACTCCAGTTCTGATAGGCAGCCAAGATCAAGAACCACTGCTTACAAGACTTGAGGACATTTTAGGAGCTGGAATCTTGATCCTTTAATATTTTGTTGAACAAAGGCCAAAAGGTTTCTCTGCATGTTTGCCATATGTATTATCTCACAGATGGTATCTTTATATTATATATTGTAATATGTTTCACCGTGTTCTTATGATATCAACTGTTAATACCATTTTTATCCAGTGTTTATATTATTTATATTCGCTACCCAAGAATTTTCTTTCTTTTACCTTTTAATTTGAAATAACTTTAGATCTTCAAACAAGCGAAGGAGATTTCCTAAACTTTACCTTCCAAACTTGTTATTGAATTTTTCATTTTGGTTATCTCACTTTATATTTCCAAGATCTTTTGCTTGTTCTCCACACATTGATCTTTTTCTGGCATTTTGTTTGTGCTTCCTATATCATCATCTCTTTATCTCTAAGAATATGTTGCTGGTATTTTATTCTATATCCTGCACAGTGTTTGTTACAAGTTTCTTTGTTTTGCTGCTGTTGTTGAGTTTGGTTTGGTTTGGGTTTCTGTCTTTCATGTTGGAGACATCCACCCAATGTCTGTTGATCATGGTCTGTCTTTTTGTATTTGAACTAGGAATGAAAGAGCTAATAGGGAGTTAGCTCAGGCAGGGCTTGTCAACTTTGTGGCTCCCTGCAGAATGATTGGGCAAGTACCCACAGTTTTCTTGGGGGACCCCCAAATAACAGTGCCATAAAACCTGGCCTCTCACTGTGTACAAACTTTCATCTTATTATGTTTCCAGTGTAGCACCTCGGCCTCCTTGAAGGCTGAGCCTGGTGGATTTGAATCCGGACTTCCTCTCTGGCTCAACCTTTCCAGAGAGTAAACCTCAGCCTACCATCTGAATGGGAAAGGGCAGTCATTTAGACTGTTGGAGGGAATGAGGAGATCTTAGAGTCTGTTTCTTACAAAAAAGCTTCTAAACAAACCAAACCTTTGTTCAACCACACTCCACATTGGCCTTTAAAGACATCTCTGCTTTTGTACACATTCCTTTACTGAACTTGCTGGACTCTGTGACTTGCACCAAGCAGCCTCTGACTAGCTCTGCCCATGCTCCTTAGTTAACCTCAGCCTTCTTCATTCATTCCCCTCCATGGTCTCTCTACCACTCACTTTCTATCTACCAAGTTTCTGGCACACCTGTTGCTGTCTCCTCTCCCATTCCCCTCATCTTCATGGATTTATACCTTACATTCTCTTGCTCTCTTTTTAGTGGGTTTTAGAAGCAAGTAGAGATGAGTGGCTGTATCCAATCTGTCATATTTAACCAGAACTGGACACATTGCTAATAACTATCATGCCCCTTCCTGGAATTGATATAACAATGAACTATCTCACTGTGTGAGCTGAAGCAAATCCTTTATCTTCTCTGGGTGTCAGTGTTCCCATCTGTAAAATGAATGCCTTGGACTTATCCATCTTTAAGGTCTTCTCCTTGTCAGGCATTCTAGGATTCTGTGTTTACCTGAATCATGAGTCTCATTTTGATCTAGAGTACCCTAATTGCCTAGAAAATGGCTTTGCACAGAAGCCTAGAGAACTGACAGGTAATTGTATTCCTAAGTAATTCAATGAACCCAGCTTTATCCCTGACAGTTGATCTTTCCCCCAGGGACTAGAACTGGGGGGCTGCAAAAAGGCCTCTGGGTATTAAATGAGCACTCATCCCAGTTTACTTTTCTGCATGTCCATTCACCAGCTTTACATGTCTTAGAAAAAAAATCAACCTGGTATAGGAGAAAAGAGTCCTGGACAGGGTGTTGGGAAACCCGCATGCAAGATCATCCTCTGCCTCCAACAATTTATGGAATGAGAGCAAGTCTTTTAGCTTCTCTGAAACTCAATTCTCCCATTGAAGAAAACAGGATAAGGTACCTTCCCAGTTCCCAGGATGCAGGAGAACCTTCCAGGGGCTTCTGCACTGATGCATGACTGCCCAAACTAAGCTGGCTGTTTGCAGGTTGTAGAGAAGATCGTTGTGCTTGGTTTACTAGGAGTGTAGGTTGAATTCCAATCCCAGACACTAAGGTCATTTGCTGAAAAGAATTGGAAGCTAGCAAGAGGGTGTGGAAAGAGGATTTCCTGCAAACTGAAACCAATGACCTCCTCTGTACAGCAGCACAGAGACCAGCCACAGACTACAAGTGTAGTTAGAGTTGGTCAACATCTGTCTGTCATGGATATCTCTGTTCTAGAAGAGAGACATGTGAGGTCAGCTTAAGTTTTAATCCTACCATGCCTATGGGGCTATTATAATCATCTCCTAACTCAAGAGATCCCCAAACTGACTGCACATTCAAATCACTTGGGAAGTTTCTTAAATATAGCCAGGCCCAACTTCTGGCTCTGATGATTCCATCAGTCTGAGATGAGGCCCAGGCATCATATTGTTTTAAAGCTTCTGAGAGTGATAAAGAGCTATATTTAGGGACCACTGACCTAACTGACCTCAAAGTCCCTTACCCTGTGTGATTCATCTTGCTACCAGATTAAGCTTCTTAAAGCACAGCTTGGTTTATGTCATTGGCATGTCCAAACATCTTTCAAGGCTCCCCATTTCTTGTGATGATAAACTTCAAGTTCCAAAGCTTAGCATTTATACCTTACAGGGCTCCTCACTCCGTTTAATGATAAACTTTAAGTTTCAAAGCTTGTCATTTAAAGGCCCTTCATAATCTAGTAACATTTTCCACTGTTCTAACACCTGAAGCTAAGTATGGTTGAGGTCGCTTATTGCCTCCTTATATTATTTCATTTTATGTTTTAAATCTGCTTTATTCAAAGTTTACTGATTTAAATATTAATCTCATCCAAAAAAAAACCCCCTTCACAGAAACATAGAATAATATTTGACCAAATATCTGGGCCCCATGGCTCAGCCAATTTAACACATAAAATTAACCATTACAATCCCATTCTCCCAATATAGTTTGGCAGGGCCTTGGGCAGGTGGTAGCCTTAGCCCTGGAGTCTACAGCAGTGCTCTCATCCTTACCAGATGCGGTCTCTCCCTCCTTATATTATTTTAACTTGCTCTGCACCTTCTGGCCCAAGGACCTTTGCTTGTGCTGTACTCTCCCCATCTCTGATATCTCAGCAGTGCACATGGAGCCTGGTAGAGAGTGGGTACTCAATGAATTCTTGTCCAGTAAGTAAGTGAATGGATGGGTAAATGAACTTATAAATAGAATGACTTCTTATCTATACCCTGAGAATTTCTGTGACCAAAAGCCATTATACTTTTTCTTCTGCTCTTAG
Seq C2 exon
GAAGTCATTGTGGGTCCAGATACCACCTCCTACAGCCTGGCAGACCTGAGCCCATCCACCCACTACACAGCCAAGATCCAGGCACTCAATGGGCCCCTGAGGAGCAATATGATCCAGACCATCTTCACCACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000041982-TNC:NM_002160:22
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF106044=Polyketide_cyc2=PD(23.2=64.4),PF0004116=fn3=PU(53.2=91.1)
A:
NA
C2:
PF106044=Polyketide_cyc2=PD(15.7=57.8),PF0004116=fn3=PD(44.2=75.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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)