HsaINT1044850 @ hg38
Intron Retention
Gene
ENSG00000168477 | TNXB
Description
tenascin XB [Source:HGNC Symbol;Acc:HGNC:11976]
Coordinates
chr6:32043437-32043892:-
Coord C1 exon
chr6:32043749-32043892
Coord A exon
chr6:32043557-32043748
Coord C2 exon
chr6:32043437-32043556
Length
192 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGA
5' ss Score
7.62
3' ss Seq
AGCCCCTCCCCTTCCCCCAGTTC
3' ss Score
8.9
Exon sequences
Seq C1 exon
GGGAGCCTCAGAGTGTGCAGGTGGATGGCCAGGCCCGGACCCAGAAACTCCAGGGGCTGATCCCAGGCGCTCGCTATGAGGTGACCGTGGTCTCGGTCCGAGGCTTTGAGGAGAGTGAGCCTCTCACAGGCTTCCTCACCACGG
Seq A exon
GTGAGATGGACTGGGACCCGGGGCAAGAGGTGGGAGCCAAGAAAACGGCATGGGTGGGAGTTGAGAGAGAACGAGGAGGGTGAAAGGGAGGTGGTGGAGGCTCCGATTGCGGACGGGAGGCCAGTGGAGTCTGGGGAGGCACGGAGTAGAGAGAGCCGCGGGGACCCTTCTGAGCCCCTCCCCTTCCCCCAG
Seq C2 exon
TTCCTGACGGTCCCACACAGTTGCGTGCACTGAACTTGACCGAGGGATTCGCCGTGCTGCACTGGAAGCCCCCCCAGAATCCTGTGGACACCTATGACGTCCAGGTCACAGCCCCTGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168477:ENST00000375244:35
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.490 A=NA C2=0.463
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(50.0=81.6)
A:
NA
C2:
PF0004116=fn3=PU(46.9=92.7)
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:
CTCAGAGTGTGCAGGTGGATG
R:
CCTGGACGTCATAGGTGTCCA
Band lengths:
243-435
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains