HsaINT0172397 @ hg19
Intron Retention
Gene
ENSG00000132481 | TRIM47
Description
tripartite motif containing 47 [Source:HGNC Symbol;Acc:19020]
Coordinates
chr17:73872343-73872894:-
Coord C1 exon
chr17:73872799-73872894
Coord A exon
chr17:73872574-73872798
Coord C2 exon
chr17:73872343-73872573
Length
225 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAAA
5' ss Score
1.82
3' ss Seq
TCTACTGTCGTCCTGTGCAGAGT
3' ss Score
9.61
Exon sequences
Seq C1 exon
GCTGAGCAGTCCAAAGTCCTGAGCGCCGTGGAGGACCGCATGGACGAGCTGGGTGCTGGCATTGCACAGTCCAGGCGCACAGTGGCCCTCATCAAG
Seq A exon
GTCAAACACCCCTCCCTCAGCATGGAACAATCCACTCCAAACAAACCATGCCCATACCTACTGAGCACAAGTGTCCCCTGACCTGGCCCAGATCCAGGACAGGCTCAGTCTGGCCCCTCTGTCCCCTCAAGAGGGCCGGTGGGAAGCCGGGGTCAGGGAAGGAGGGGGGTACAGTCCGGGACGGTTCTTTGCCCTCATTGCCCCCTCTACTGTCGTCCTGTGCAG
Seq C2 exon
AGTGCAGCCGTAGCAGAGCGGGAGAGGGTGAGCCGGCTGTTTGCAGATGCTGCGGCCGCCCTGCAGGGCTTCCAGACCCAGGTGCTGGGCTTCATCGAGGAGGGGGAAGCTGCCATGCTAGGCCGCTCCCAGGGTGACCTGCGGCGACAGGAGGAACAGCGCAGCCGCCTGAGCCGAGCCCGCCAGAATCTCAGCCAGGTCCCTGAAGCTGACTCAGTCAGCTTCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132481-TRIM47:NM_033452:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.031 A=NA C2=0.299
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GAGCAGTCCAAAGTCCTGAGC
R:
TTCAGGGACCTGGCTGAGATT
Band lengths:
300-525
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)