HsaINT0171694 @ hg38
Intron Retention
Gene
ENSG00000131323 | TRAF3
Description
TNF receptor associated factor 3 [Source:HGNC Symbol;Acc:HGNC:12033]
Coordinates
chr14:102875624-102876525:+
Coord C1 exon
chr14:102875624-102875728
Coord A exon
chr14:102875729-102876357
Coord C2 exon
chr14:102876358-102876525
Length
629 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TTGAATGGTCTGTCTTACAGGTG
3' ss Score
10.77
Exon sequences
Seq C1 exon
GTGTTTAAGGATAATTGCTGCAAGAGAGAAATTCTGGCTCTTCAGATCTATTGTCGGAATGAAAGCAGAGGTTGTGCAGAGCAGTTAATGCTGGGACATCTGCTG
Seq A exon
GTGAGTAGCAAAGGGACACTGGAACCTTTTACATGAAGGAATTCGAGTCCCTTACATCCAGCTGATGAAGTGGTCAGTAGGATGTGGCACTTTAAGACCATGTTGACATTAGTTTTTCAAAACACAGCCAAATAGGAAAGCAGTCAGAACCACTTGAGTATAAGTTGTTATTTTTATGACATCATTGGCAGAATTGTCAACTGGTTTTTAAACACTCCCCCCCCTACTTAGAATAGAGAAAATCTGAATTGGATTTTAATTTTGGAAGGCCCATTAAAACCTTTTTTCACCATGAAATTCTACATAACTTCTTATTTTTTTAGTTAGTACCATATTTTAGCTTAGAAAATTATTTGAACTGGAATAAAACAAAGTTCTTAGCAGATATTCATTTATCCTGGAAGCAGAGTTGACTTAATTCTTCAACAACAATATGGTTTGAGTAATCATGAAATAGAATATGAAATTCAGTGTCTCTTGGCATACTTGTTACTCTTTGCTGTGGAAAACTGGTCTAACAGCAGATGAGAAACATTTCTTTAGGGTTTCATTGCATAGAGATTAGAATCTGGTATTTCAGATTTAGGGTTTTTTTCCCAATTAAGAACATTGAATGGTCTGTCTTACAG
Seq C2 exon
GTGCATTTAAAAAATGATTGCCATTTTGAAGAACTTCCATGTGTGCGTCCTGACTGCAAAGAAAAGGTCTTGAGGAAAGACCTGCGAGACCACGTGGAGAAGGCGTGTAAATACCGGGAAGCCACATGCAGCCACTGCAAGAGTCAGGTTCCGATGATCGCGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000131323:ENST00000560371:4
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:
NO
A:
NA
C2:
PF0148516=IBR=PD(82.3=91.1),PF0217613=zf-TRAF=PU(94.7=96.4),PF086146=ATG16=PU(22.2=53.6),PF101744=Cast=PU(1.3=3.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTTTAAGGATAATTGCTGCAAGA
R:
CAGCGCGATCATCGGAACC
Band lengths:
270-899
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains