HsaINT0169923 @ hg19
Intron Retention
Gene
ENSG00000041982 | TNC
Description
tenascin C [Source:HGNC Symbol;Acc:5318]
Coordinates
chr9:117791639-117792684:-
Coord C1 exon
chr9:117792533-117792684
Coord A exon
chr9:117791736-117792532
Coord C2 exon
chr9:117791639-117791735
Length
797 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
ATTCATCGATATGTTTATAGGTG
3' ss Score
5.8
Exon sequences
Seq C1 exon
TTGGACTCCTGTACCCCTTCCCCAAGGACTGCTCCCAAGCAATGCTGAATGGAGACACGACCTCTGGCCTCTACACCATTTATCTGAATGGTGATAAGGCTGAGGCGCTGGAAGTCTTCTGTGACATGACCTCTGATGGGGGTGGATGGATT
Seq A exon
GTGAGTACCACCAGGGACTGCAGAGCCCTCAGGCCTAGGGGAAGAGGGAGAGGGCAAAGCAGGGGAGGAGAAGAGGGTGATCTCCTCCTGATGCACTCTGACACCCCCATGTGTGAGGCCTTGCAAGATAGTGCCTGTCACACAGAGGCACTCAGGAATTCTCTCTTAAACAAAAGAATGGGAAACACGCTGGCTACTTTTTGAAACGGGGAGATAAGTTTCTTGTAGTTTATCTCATCCAATCCTCATCAAACAACTCTGTGATGTATAAATGACAGTTGATCATTGAACCCATTGCTTACATTAATTAGCACTGACTAAGCATTTATTATCTACCAGGCACTGTGCTAAGAGTTTAAGATGAATTATTCCGACCCCATTACCATAGGAGCTGGGTAGTGTATTTTTGAATTAATAAACTCTATTTTTTTAGAACAGTTTTAGGTTCATGGCACAATTAAGTGAACAGAAGTTTTCATATACACCCCACACCCACCCACACAACCTCCCCATTATCAATATCCTGCACCAGAATGGTGCATTTGTTACAATCAATGAACCTACATTGACACATCATTATCACCCAAAACTGGGTGGTATTTTTAATCCCTGTTTTTCAGGTGAGAACACCAAGACTTAAGGAGGGGCAGGTGACCACCCAAAGTTACATAGCAAATTAGGGATGGACAGAATGGAGCCTGATGCTCTCTCCACAGTGCCACACTCCTTCCTCTCACAACGATGCCCTCTTTCCTGCAATAGCTTAAGTACACCCAGATTCATCGATATGTTTATAG
Seq C2 exon
GTGTTCCTGAGACGCAAAAACGGACGCGAGAACTTCTACCAAAACTGGAAGGCATATGCTGCTGGATTTGGGGACCGCAGAGAAGAATTCTGGCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000041982-TNC:NM_002160:24
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
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGGACTCCTGTACCCCTTCC
R:
GCCAGAATTCTTCTCTGCGGT
Band lengths:
246-1043
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)