HsaINT0171685 @ hg38
Intron Retention
Gene
ENSG00000127191 | TRAF2
Description
TNF receptor associated factor 2 [Source:HGNC Symbol;Acc:HGNC:12032]
Coordinates
chr9:136920234-136921215:+
Coord C1 exon
chr9:136920234-136920515
Coord A exon
chr9:136920516-136921037
Coord C2 exon
chr9:136921038-136921215
Length
522 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
GTGGTCTTGGCACCCGGCAGGTG
3' ss Score
5.05
Exon sequences
Seq C1 exon
GTAGAGGGTGAGAAACAGCAGGAGCACGAGGTGCAGTGGCTGCGGGAGCACCTGGCCATGCTACTGAGCTCGGTGCTGGAGGCAAAGCCCCTCTTGGGAGACCAGAGCCACGCGGGGTCAGAGCTCCTGCAGAGGTGCGAGAGCCTGGAGAAGAAGACGGCCACTTTTGAGAACATTGTCTGCGTCCTGAACCGGGAGGTGGAGAGGGTGGCCATGACTGCCGAGGCCTGCAGCCGGCAGCACCGGCTGGACCAAGACAAGATTGAAGCCCTGAGTAGCAAG
Seq A exon
GTTTGTGCCTGCCGGGTGGCCAGCCATGAGGAGGACAGTGTAAAGGGGGATAGTGTTCGTGCCCCAGCAGGTTCTAGCAGGTCCTGGAGCTTTAGAGCCCGGACAATGTAGAACTCCATCTGCAAACCCCAGTCCAGTGTGGTTTAGGGGAGGCTCTGGCCCCCTTCATTTCTGAGTCCTGTCATCTAAGGGGCCCAAACCCTGGAAGGTCCTAGAGGCCAGGCCGTGGGCAGGAGCCTCTTCTCTCTGATGGGAGGGCAGAGTCAGCCATGGATGGGGATGTGCATGGCCTGGTGTGGCTTCTGAGCACGCTTGCTGGCCCGGAGCTTCTGTGTGGACTTGGAGCCACCACCTCTTGGCGAGGGTGGGGTTGGGTTCTTGTGTGCAGGGAGTGGACATGAGAAACATGGAGCCCAGGGGTGCCCAAGAGCACTGTCCTGCTGGAGATCGGTGGGTGTGGGAGGCAGGGGCTCGTGCCCGCACCCCTCCTGTAAGAGGGAAGGTGGTCTTGGCACCCGGCAG
Seq C2 exon
GTGCAGCAGCTGGAGAGGAGCATTGGCCTCAAGGACCTGGCGATGGCTGACTTGGAGCAGAAGGTCTTGGAGATGGAGGCATCCACCTACGATGGGGTCTTCATCTGGAAGATCTCAGACTTCGCCAGGAAGCGCCAGGAAGCTGTGGCTGGCCGCATACCCGCCATCTTCTCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000127191:ENST00000247668:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0217613=zf-TRAF=PD(13.8=8.5),PF045827=Reo_sigmaC=FE(67.4=100)
A:
NA
C2:
PF045827=Reo_sigmaC=PD(27.5=63.3),PF0091721=MATH=PU(15.6=36.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAAACAGCAGGAGCACGAG
R:
TGCCTCCATCTCCAAGACCTT
Band lengths:
354-876
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains