HsaINT1044857 @ hg38
Intron Retention
Gene
ENSG00000168477 | TNXB
Description
tenascin XB [Source:HGNC Symbol;Acc:HGNC:11976]
Coordinates
chr6:32042012-32042362:-
Coord C1 exon
chr6:32042266-32042362
Coord A exon
chr6:32042174-32042265
Coord C2 exon
chr6:32042012-32042173
Length
92 bp
Sequences
Splice sites
5' ss Seq
TGGGTCAGT
5' ss Score
4.68
3' ss Seq
GGCACGTATCCCACCCCCAGGCA
3' ss Score
6.57
Exon sequences
Seq C1 exon
GTGTTCCAGCGCCGCATGGATGGACAGACAGACTTCTGGAGGGACTGGGAGGACTATGCCCATGGTTTTGGGAACATCTCTGGAGAGTTCTGGCTGG
Seq A exon
GTCAGTGCCTCACAGGGACTGGGGAACTACGGATGGGGATGGGGGCCCTGTGGACACCAGGACCCTGATGAGGGCACGTATCCCACCCCCAG
Seq C2 exon
GCAATGAGGCCCTGCACAGCCTGACACAGGCAGGTGACTACTCCATGCGCGTGGACCTGCGGGCTGGGGACGAGGCTGTGTTCGCCCAGTACGACTCCTTCCACGTAGACTCGGCTGCGGAGTACTACCGCCTCCACTTGGAGGGCTACCACGGCACCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168477:ENST00000375244:41
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(15.2=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(25.7=100)
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:
GACTGGGAGGACTATGCCCAT
R:
CCGAGTCTACGTGGAAGGAGT
Band lengths:
169-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains