HsaINT1044838 @ hg38
Intron Retention
Gene
ENSG00000168477 | TNXB
Description
tenascin XB [Source:HGNC Symbol;Acc:HGNC:11976]
Coordinates
chr6:32056586-32058390:-
Coord C1 exon
chr6:32058058-32058390
Coord A exon
chr6:32056904-32058057
Coord C2 exon
chr6:32056586-32056903
Length
1154 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
ACGTGTCTGTCCAACTCCAGAGG
3' ss Score
7.25
Exon sequences
Seq C1 exon
CCCCACAAGAGGATGTGGACGAGACCCCCAGCCCTACAGAACCAGGCACAGAGGCCCCAGGGCCCCCCGAGGAGCCTCTCCTGGGGGAGCTGACAGTGACAGGATCCTCCCCTGACTCGCTGAGCCTTTCCTGGACCGTCCCCCAGGGCCGCTTTGACTCCTTCACCGTGCAGTACAAGGACAGGGACGGGCGGCCCCAGGCGGTGCGTGTTGGGGGCCAGGAGAGCAAGGTCACTGTGAGGGGCCTGGAGCCTGGGCGCAAGTACAAGATGCACCTGTACGGCCTCCACGAGGGGCGGCGCCTGGGCCCGGTGTCTGCCGTGGGCGTCACAG
Seq A exon
GTGAGTGAGTGTGGGTGGGGCAGGGTTGGAAGACAGCCCTAGAAAATGTGCCCTTCTCTACCATTTTCCTATACATATTTCTGTCTTGATGGGGCTCACAGTGAAAGGAATATAGCAACATTATGGAAAGACATGTCATGGAGAGACAGGCTGCAATCCAGCAAATGAAGCAAAGGCGGGTGAGCATGTGATAGGGAGGCCCAGGGCTCAGGTCAGGACCAGACAGGGACGCCTAAGTCACCCTGCCCATGGGTACCCAGGGGACAGCCAGGACCTGAGGCCAGGCATGCCTTAGCTTGGTGACAGCTTTAGAGAGAAGGTGAAGTGTGTCAGATAATCACAGCTGGTGCAAAGGCCAGGAGGCTAGAAAGAGCATGGCACGTGAGAGGCACTGAGGATTGAGTGGGGTGTCCTTTACGGTGAGTATCTCATCCTGAAGTGTGGGAGCAGAGGAGGGGACCACTCACCAGGCCTGGGGTCTCCCAGGGATGAGGATGTGGTTGCCCAGGTCTGTGCTGAGATGGCCCCAGCAGCTGTGCCTGTGTGAAGCTCATCCGTGGGGGCTGAAGATGGGGATGGGGTGGCAGGGAGCCTGGAGGCAGCGAGGCCAGTAGGCAGTTGGTGGCCCTGGTGAGAGGTGACAGTGGCTCAAACTAGGATCGGGGACTGGAGGTGGGGTAGGAAGGTATCCAGGGGAATTCAGGGTAAAGATGCTCTGAGGCTGCTGGCAGCTGGTGAGGAGCTGGATCCAGGAACACACCCCAGGCTCTGGCCTCGGGAGGAGTGTGCTGAGCTTGTTGCGGAGCAAAGACAGAAGCCCAGTGAACAAAAGATGGCGAAGAGACCCCAGTGCTGGGAGGCCAGGGGTGCAGAGGCCGAGTGGGGCTGTGCTCAAAAGAGAGGCGGTGCTGGAGGGACAGGGAGAGGTGGCCTGGGTGTTGGGAGGTGGGGGTGAGGTGGGGGCTGAGGGCAGGAGGGTCAGGGTGAGGGATAGGAAAGGCCACAGGAGAGGAGAGGATGAAGAGCTGTGCTGGAGGGGCTGTGGGCAGCATCGTCCTGCTCTTGGGCACTTTGTGTTTTGTGACACATCCTTTCTATGCTGAACTGAGGAGCCAGGGACCTCACTGTCCCCACACGTGTCTGTCCAACTCCAG
Seq C2 exon
AGGATGAAGCCGAGACCACCCAAGCAGTGCCTACCATGACCCCTGAGCCCCCCATCAAGCCTCGCCTGGGGGAGCTGACCATGACAGATGCCACCCCTGACTCCCTCAGCCTGTCCTGGACGGTTCCCGAGGGCCAGTTTGACCACTTCCTGGTCCAGTACAGGAATGGGGATGGGCAGCCCAAGGCGGTGCGGGTGCCGGGGCACGAGGACGGGGTCACCATCTCAGGCCTGGAGCCAGACCATAAATACAAGATGAACCTGTACGGCTTCCACGGTGGCCAGCGCGTGGGCCCCATCTCTGTCATTGGGGTGACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168477:ENST00000375244:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.866 A=NA C2=0.729
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=72.3)
A:
NA
C2:
PF0004116=fn3=WD(100=75.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACTCCTTCACCGTGCAGTA
R:
TCCCCATTCCTGTACTGGACC
Band lengths:
351-1505
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains