HsaINT0172398 @ hg19
Intron Retention
Gene
ENSG00000132481 | TRIM47
Description
tripartite motif containing 47 [Source:HGNC Symbol;Acc:19020]
Coordinates
chr17:73871982-73872573:-
Coord C1 exon
chr17:73872343-73872573
Coord A exon
chr17:73872181-73872342
Coord C2 exon
chr17:73871982-73872180
Length
162 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAG
5' ss Score
6.66
3' ss Seq
TGGGCATTTGTCTGGCACAGGAG
3' ss Score
5.15
Exon sequences
Seq C1 exon
AGTGCAGCCGTAGCAGAGCGGGAGAGGGTGAGCCGGCTGTTTGCAGATGCTGCGGCCGCCCTGCAGGGCTTCCAGACCCAGGTGCTGGGCTTCATCGAGGAGGGGGAAGCTGCCATGCTAGGCCGCTCCCAGGGTGACCTGCGGCGACAGGAGGAACAGCGCAGCCGCCTGAGCCGAGCCCGCCAGAATCTCAGCCAGGTCCCTGAAGCTGACTCAGTCAGCTTCCTGCAG
Seq A exon
GTGAAGGCCGCTCTGGGGGCCACGGAAGGAACAGAAGCTGGGACAGGTGGGGTGGAGGGAGGAGGAGGCAGTGGGTGCATGACTTCCTGGCAGAGCTGCCTCCACCCCCAGCAAGGAGGAGCCATGGCCAGCAGCACTTTAATGGGCATTTGTCTGGCACAG
Seq C2 exon
GAGCTGCTGGCACTAAGGCTGGCCCTGGAGGATGGGTGTGGCCCTGGGCCTGGACCCCCGAGGGAGCTCAGCTTCACCAAATCATCCCAAGCTGTCCGTGCAGTGAGAGACATGCTGGCCGTGGCCTGCGTCAACCAGTGGGAGCAGCTGAGGGGGCCGGGTGGCAACGAGGATGGGCCACAGAAGCTGGACTCGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132481-TRIM47:NM_033452:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.299 A=NA C2=0.493
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:
AATCTCAGCCAGGTCCCTGAA
R:
CTTCCGAGTCCAGCTTCTGTG
Band lengths:
244-406
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)