HsaINT1044860 @ hg38
Intron Retention
Gene
ENSG00000168477 | TNXB
Description
tenascin XB [Source:HGNC Symbol;Acc:HGNC:11976]
Coordinates
chr6:32088785-32089379:-
Coord C1 exon
chr6:32089223-32089379
Coord A exon
chr6:32089049-32089222
Coord C2 exon
chr6:32088785-32089048
Length
174 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGA
5' ss Score
3.73
3' ss Seq
CTCCTCTTTAACCTGGCTAGTGA
3' ss Score
4.31
Exon sequences
Seq C1 exon
ACAGAGGGGGCGAGCCCCCCATTCACAGCACGGGTTCCAAGCTCTGCCTCAGCCTATGACCAGAGAGGACTGGCCCCTGGACAGGAGTACCAGGTCACTGTCCGAGCCCTTCGAGGGACCAGCTGGGGCCTTCCTGCCTCCAAGACCATCACCACCA
Seq A exon
GTGAGAGCTGGGGCTGTGGGGAGGGGTGTCCTGAGTGGAGATCTGGACTAGAGAGGGAATCTGCCCTCCGGGAGGGCAGAAGGAAGGGGCTGGATGGGGGCTAGGCTCTTGGAAGGAAAGATGATGATTGAAGAACCAGACACCCACCTGAGTCCTCCTCTTTAACCTGGCTAG
Seq C2 exon
TGATCGATGGGCCCCAGGACCTCCGAGTGGTGGCTGTGACACCGACAACACTGGAGCTTGGCTGGCTGCGTCCCCAGGCTGAGGTGGACCGATTTGTGGTGTCCTACGTCAGTGCCGGCAACCAGAGGGTGAGGCTGGAAGTGCCCCCTGAAGCAGACGGGACGCTGCTGACTGACCTGATGCCAGGCGTAGAATATGTGGTGACTGTCACAGCGGAGCGGGGCCGGGCAGTCAGCTACCCAGCTTCTGTCAGGGCCAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168477:ENST00000375244:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.328 A=NA C2=0.243
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(54.8=86.8)
A:
NA
C2:
PF0004116=fn3=WD(100=89.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTCACAGCACGGGTTCCAAG
R:
AGGACACCACAAATCGGTCCA
Band lengths:
242-416
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains