HsaINT0171679 @ hg38
Intron Retention
Gene
ENSG00000127191 | TRAF2
Description
TNF receptor associated factor 2 [Source:HGNC Symbol;Acc:HGNC:12032]
Coordinates
chr9:136898713-136899672:+
Coord C1 exon
chr9:136898713-136898928
Coord A exon
chr9:136898929-136899593
Coord C2 exon
chr9:136899594-136899672
Length
665 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCAT
5' ss Score
4.89
3' ss Seq
TTGCCTTTTTTCCCCACTAGCTC
3' ss Score
8.31
Exon sequences
Seq C1 exon
GGCTTTGTTCGCGGGGGTCACAGCTCTCATGGCTGCAGCTAGCGTGACCCCCCCTGGCTCCCTGGAGTTGCTACAGCCCGGCTTCTCCAAGACCCTCCTGGGGACCAAGCTGGAAGCCAAGTACCTGTGCTCCGCCTGCAGAAACGTCCTCCGCAGGCCCTTCCAGGCGCAGTGTGGCCACCGGTACTGCTCCTTCTGCCTGGCCAGCATCCTCAG
Seq A exon
GTGCATGGGGCCTGCAGGCTGGGAGGAGGGGCAGGCAGGCTAGGCTGGTTTTAGAGCCACGCTGCCCAGCCTGGTAGCTCCCAGCAGAGCCGGGTCCAGCTTAGATGTGCTCCAGTTATCGATACTCCCTGGATTTCGGAGGTTTACCACAAAGAATGTAAAATTAATAATTTTAAAATAGCAATTTGAAATACGATTTTGGATACATGGGGTTAAATATAGTACGTCATTACAGTTAATTTTATCTTTTTATTATTTTTAATGTGAGTACTGGAAAGTTTAAAGTGCCACCTACTGCTCACTTTTTGGCTGCTCTAGGCAGCTAAGACAGCCGCCTTCCTTGCAGCGAGTGGTCTGAGAGGTGTGGCCTGTGCACATCGGCAGCAGCTCGGCCTGTCGGGAGAGCCGGCAATACCTGAGTTACTGCAGCAGATGTCCTTGGCGGTTCAGGCGTGCCTTCCTCACAAACGGAGTGATAAAAACAGTGTGCTGTGAATACTGGGGTTTAAAACATGTCCTGTTAACATTTGCCTGCTGTTGGTTTCACTAAGGATGAGAAAGTTTAAACTGTGGTGTGGAGGTAGGTTTTTGAACTGAAGCAAATGGTGTTTGTTTTTTGCATTAGGTTTCACAGTGGGTTGTTTTTTGCCTTTTTTCCCCACTAG
Seq C2 exon
CTCTGGGCCTCAGAACTGTGCTGCCTGTGTTCACGAGGGCATATATGAAGAAGGCATTTCTATTTTAGAAAGCAGTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000127191:ENST00000247668:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009720=zf-C3HC4=PU(74.4=46.0)
A:
NA
C2:
PF0009720=zf-C3HC4=PD(23.1=33.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTTGTTCGCGGGGGTC
R:
ATAGAAATGCCTTCTTCATATATGCC
Band lengths:
278-943
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains