HsaINT0171694 @ hg19
Intron Retention
Gene
ENSG00000131323 | TRAF3
Description
TNF receptor-associated factor 3 [Source:HGNC Symbol;Acc:12033]
Coordinates
chr14:103341961-103342862:+
Coord C1 exon
chr14:103341961-103342065
Coord A exon
chr14:103342066-103342694
Coord C2 exon
chr14:103342695-103342862
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-TRAF3:NM_145725:5
Average complexity
IR-S
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:
PF0217613=zf-TRAF=PU(94.7=96.4),PF101744=Cast=PU(23.8=67.9),PF0205011=FliJ=PU(4.0=7.1),PF0149614=V_ATPase_I=PU(4.0=12.5)
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)