HsaINT0171758 @ hg19
Intron Retention
Gene
ENSG00000082512 | TRAF5
Description
TNF receptor-associated factor 5 [Source:HGNC Symbol;Acc:12035]
Coordinates
chr1:211542794-211544812:+
Coord C1 exon
chr1:211542794-211542934
Coord A exon
chr1:211542935-211544643
Coord C2 exon
chr1:211544644-211544812
Length
1709 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TATCCATTTTGTAATGAAAGGTT
3' ss Score
3.37
Exon sequences
Seq C1 exon
ATTTCTGACTTACACAAGAGCCTAGAACAGAAAGAAAGTAAAATCCAGCAGCTAGCAGAAACTATAAAGAAACTTGAAAAGGAGTTCAAGCAGTTTGCACAGTTGTTTGGCAAAAATGGAAGCTTCCTCCCAAACATCCAG
Seq A exon
GTAAGAAATGGCCTTTGCGTTGAAAGCCAAGATTTGGCTTTCAATTGCAGTGAGAGTTTTTCTTTTAACTTCTTAAATAGAAATAATTTAAAATATACAGAAAAGCTGTAAGAATAAGATGGTGCAAAGAACACTTGTATAACCTCCACCCTGATTCACTCATGGCCAACATTTTGTCCCGTTTGCTTCATCATTCATGCTCCCCTCCACTGCTCCTCCCCCGACGTGTATGTGTGTGTGTGTGTGCGTGTGCATGTGTGTGCACGTGCTCTCTCTAAACCATTTGCGAGTACGCTGCGTATATTATGGCCCTTTACCTCTACATATTAATACTTCAGTATGTATTTCCTAAGAATAAAGATCTTCTTTTACACAACCCCAGTACGTTTAGCAATATCAGTAACTTTAACATTGATACAATGCTTCTATATAATTTATAGCAATTAGGGTTTTAATTAATGTTGGGCCATATTAATCACTTGATTGCAGATTCATTGAGAGCATCTGTAGTTCTGCATTTTGTGGTCAACAAGTGAAACTATTAATTTCCTTGGGAAGAAAATGCTTTAAACATCACTAAAATATAGCAAAAATAATACTTTGTAAATTATGAACATTAAATAACCATAAATGAATTCTGATGAATAATGTCTTTATCATGATTATAAAATTTATAGTGAAAAAGATTTCAAGACATGTGGTGTAGGCAATATATTTGAAATTTAAGTTATCCCAGAAAATCTAGGCCCTATAATTTCCATACTTGGCCAGCACATTATACATTAAACACACACACACACACACACACACACACACACACCCTTCATATACATACAATGTATATGTATGTGAAATATATATAAAGTATATATGCACATGTGTATATACATTAATATGCACAGATGCTCCTTGACTTACAATGGAGTTATGTCCTGATAAACCCATTAAGTTGAAAATATCGTAAGTCAAAAATGTGTTTGATACACCTAACCTATTAAACATCATAGCTTAGCCTAGCATACCTTAAACATGCTCAGAACACTTACATTAGCCTACAGTTGGGCAGTCATCTAACACAAAGCCTATTTTGTAATAAAGTATTGAATTCCACATGTAATTTATCAAATACTGAAAGTGAAAAACAAAATGGGTACTTTGAGTAGCCATACCTTATATTGTACACACATAGGAAAAGGGAGGAGTAGTTTTATTTAGTCTCTTCCACCTGAGAGAGCAGTCAAAAGTTTAGGCCGTACTCAGGGCCTTCTGCACCACCTGTAGAGCTCAGGCCAGAACAGGTGGGCGTATTCCATTTCATTCTCCACCTTCTAGCAGAGCAGGAGTGAATCAGGAGATTGGCTTCTAAGAAGAGAAAGAAGTGATAGGGCAAGAGGAGAAACAACATGAAAATAAATATATAAAGATAGGTTGGAGAACCAAGCAGAGGGAAACAGAGGGAGGATAAAAATCAGATAAAGAAAAGTTCAAACATTTAGAACAGGAGCTGTGGTAGGAGAGGAGGAGGAGGAAGATAATTAGGTGGCTCATCTCTCTGTGATCCTCATTGAATTTTATTTTCTGGGCTTGTATTTTTCATTCTGTTAATTGATTAAATGTGATATGTTTGAATTGAAAAAAATTTTAATCTCAATGAATTGCTAAAATATTAACTAATTTTTTAAACATGATTATCCATTTTGTAATGAAAG
Seq C2 exon
GTTTTTGCCAGTCACATTGACAAGTCAGCTTGGCTAGAAGCTCAAGTGCATCAATTATTACAAATGGTTAACCAGCAACAAAATAAATTTGACCTGAGACCTTTGATGGAAGCAGTTGATACAGTGAAACAGAAAATTACCCTGCTAGAAAACAATGATCAAAGATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000082512-TRAF5:NM_004619:9
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:
PF059116=DUF869=FE(17.6=100),PF086146=ATG16=PD(47.3=74.5),PF100464=BLOC1_2=FE(46.9=100)
A:
NA
C2:
PF059116=DUF869=FE(21.5=100),PF100464=BLOC1_2=PD(31.6=54.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTCTGACTTACACAAGAGCCT
R:
TTGATCATTGTTTTCTAGCAGGGT
Band lengths:
302-2011
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)