HsaINT1044854 @ hg38
Intron Retention
Gene
ENSG00000168477 | TNXB
Description
tenascin XB [Source:HGNC Symbol;Acc:HGNC:11976]
Coordinates
chr6:32042455-32042831:-
Coord C1 exon
chr6:32042699-32042831
Coord A exon
chr6:32042607-32042698
Coord C2 exon
chr6:32042455-32042606
Length
92 bp
Sequences
Splice sites
5' ss Seq
CGGGTACCT
5' ss Score
4.35
3' ss Seq
CCCCTGCTCTCCTCTCCCAGGTG
3' ss Score
12.6
Exon sequences
Seq C1 exon
GAGATCCTGCTCCCAGGAGGGATCACATCTCACCAGCTCCTTGGCCTCTTTCCCTCCACCTCCTACAATGCACGGCTCCAGGCCATGTGGGGCCAGAGCCTCCTGCCGCCCGTGTCCACCTCTTTCACCACGG
Seq A exon
GTACCTGGACGCACGGGCCCGGGGCCGGGGGCTGGGTGGGCAGCCAGGGCCTAAGGCTTGGAAAAGGACTGGCCCCTGCTCTCCTCTCCCAG
Seq C2 exon
GTGGGCTGCGGATCCCCTTCCCCAGGGACTGCGGGGAGGAGATGCAGAACGGAGCCGGTGCCTCCAGGACCAGCACCATCTTCCTCAACGGCAACCGCGAGCGGCCCCTGAACGTGTTTTGCGACATGGAGACTGATGGGGGCGGCTGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168477:ENST00000375244:39
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.255
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(45.6=80.0)
A:
NA
C2:
PF0014713=Fibrinogen_C=PU(21.0=86.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCTCCACCTCCTACAATGC
R:
GTTGCCGTTGAGGAAGATGGT
Band lengths:
178-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains