HsaINT1044862 @ hg38
Intron Retention
Gene
ENSG00000168477 | TNXB
Description
tenascin XB [Source:HGNC Symbol;Acc:HGNC:11976]
Coordinates
chr6:32084413-32086118:-
Coord C1 exon
chr6:32085750-32086118
Coord A exon
chr6:32084710-32085749
Coord C2 exon
chr6:32084413-32084709
Length
1040 bp
Sequences
Splice sites
5' ss Seq
TGGGTACAT
5' ss Score
1.38
3' ss Seq
TTTTGCCTCTCAAACTCCAGACA
3' ss Score
7.55
Exon sequences
Seq C1 exon
GGTCCTCACCCTTGGGCCTCTTGGGGACTACCGATGAGCCTCCTCCCTCAGGCCCCTCGACGACGCAAGGGGCCCAGGCTCCTCTCCTGCAGCAGCGCCCCCAGGAGCTGGGAGAGTTGAGGGTGCTGGGCAGAGATGAGACAGGGCGCCTCCGTGTGGTCTGGACCGCCCAGCCTGACACCTTTGCCTACTTCCAACTGCGCATGCGGGTGCCCGAGGGGCCGGGGGCACATGAGGAAGTGCTGCCAGGGGACGTCCGCCAGGCTCTGGTGCCTCCACCCCCTCCTGGAACCCCGTATGAGCTGTCACTTCATGGGGTCCCTCCTGGGGGCAAGCCCTCTGACCCCATCATCTACCAAGGCATTATGG
Seq A exon
GTACATCTTGGACTCTGCTCAGATCAATATCCTGAGATTGGGGGAGGAGCTGGGGTTATTGGGACTTCAGAGGTAGGATGGATATTGAGGGGCCAGTGAAGGGCAGGGCTGATGTTTGGGGCTGGATAGAGGAGAAAAGGAGAGAAAAGGAATTGCAGGTTCAGCAGGAAGATGGATCGAGGGGGATCTTAAAACAATGATAAGGATGGGTGGGGAGAGGGGAAAGAGGCAGAGGTAAAAAGGCCGAGGGTGGGACAGAGATTCCAGGAGAGAGGCTGAAGGTCCCTGGCCCTCCACCTGCAGCTTTCCTTGCCCTGTCCCCTGCCCCCACTCTTCGGTTGCTCCTCTGCCCTTCCCTGCCCTATAAATCTTTCAGGGTGGGCATGGGAAGGCCTCTGGACACTGACCCTCAGCCCCCAATACCTCGTCCCTGGGAGCCTGGTTTGCAGTGGACAGCAGTCCATGGTCCCATCAGCCAGTTTCTGCTGGGGGTGAAGGCTCCTTGGGGCAGGGGGCTCCACAGCCATCAGGACTTCAGACATGGATGAGGTTTGCAGGACCAGTGAAAGACAGGTCCTGGGGTACCTGGCTTTCACATCCCCTCTTTGTTCCTCTCTGTGGGACCAGGGTGGCTGACTCATCCCCCAGCTCCAGGTCAAGCTCACCACTGGAAGAGAGGGTGGTAAGAGAGACAGCAGCTCAGGTGGGCAGAGGAGCTTTCAGACTGCTCTGATGCTGCAGCAGGGAGGCTTGAAACTCTCATTCAGAACCAGGGGGACCTGAAACCCCCGCAAAGATCCTGGTGTGCAGAGAGACCAAGACCTTGTGAGGGATGGAGAAACTGTCACAAGGGAAGAAGCAGAGATTGAGAGGGAAATGCCCCTCTTCCAGAAGAGCTAGTCACTGAGGGGTGGGCAGATAGAGTCTTCCGGGGAGGGATCTATCCAGGATGGAGTGAGGTGGGCAGGGGAGAGGGAAGGAGACACAGACAAGAGAACGGTTGAGTCCACTATGCTTTGCTTTTGCCTCTCAAACTCCAG
Seq C2 exon
ACAAGGATGAGGAGAAGCCTGGGAAGTCCTCAGGCCCACCACGCCTGGGTGAGCTGACGGTGACAGACAGGACCTCCGACTCCTTGCTCCTGCGCTGGACGGTCCCCGAGGGCGAGTTTGACTCCTTCGTGATCCAGTACAAAGACAGGGACGGGCAGCCCCAGGTGGTGCCCGTGGAAGGACCCCAGCGCTCGGCCGTCATCACCTCCCTGGATCCTGGCCGCAAGTACAAATTTGTCCTGTATGGGTTTGTTGGCAAGAAGAGGCATGGTCCGCTGGTGGCTGAAGCCAAGATCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168477:ENST00000375244:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.788 A=NA C2=0.500
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004116=fn3=WD(100=80.0)
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:
ACCCCGTATGAGCTGTCACTT
R:
GACCATGCCTCTTCTTGCCAA
Band lengths:
352-1392
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains