HsaINT1044858 @ hg38
Intron Retention
Gene
ENSG00000168477 | TNXB
Description
tenascin XB [Source:HGNC Symbol;Acc:HGNC:11976]
Coordinates
chr6:32041771-32042173:-
Coord C1 exon
chr6:32042012-32042173
Coord A exon
chr6:32041935-32042011
Coord C2 exon
chr6:32041771-32041934
Length
77 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
CCTTCCTCCACCCTGCCCAGGGG
3' ss Score
7.47
Exon sequences
Seq C1 exon
GCAATGAGGCCCTGCACAGCCTGACACAGGCAGGTGACTACTCCATGCGCGTGGACCTGCGGGCTGGGGACGAGGCTGTGTTCGCCCAGTACGACTCCTTCCACGTAGACTCGGCTGCGGAGTACTACCGCCTCCACTTGGAGGGCTACCACGGCACCGCAG
Seq A exon
GTAAGCAGAGGCTGTGAGGCTGGGAGGGTGAGGCTGGGAGGGGAGGCCCTCATGGCTCCTTCCTCCACCCTGCCCAG
Seq C2 exon
GGGACTCCATGAGCTACCACAGCGGCAGTGTCTTCTCTGCCCGTGATCGGGACCCCAACAGCTTGCTCATCTCCTGCGCTGTCTCCTACCGAGGGGCCTGGTGGTACAGGAACTGCCACTACGCCAACCTCAACGGGCTCTACGGGAGCACAGTGGACCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168477:ENST00000375244:42
Average complexity
IR
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=FE(25.7=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(25.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGTACTACCGCCTCCACTT
R:
GCGTAGTGGCAGTTCCTGTAC
Band lengths:
168-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains