HsaINT0172398 @ hg38
Intron Retention
Gene
ENSG00000132481 | TRIM47
Description
tripartite motif containing 47 [Source:HGNC Symbol;Acc:HGNC:19020]
Coordinates
chr17:75875901-75876492:-
Coord C1 exon
chr17:75876262-75876492
Coord A exon
chr17:75876100-75876261
Coord C2 exon
chr17:75875901-75876099
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:ENST00000254816:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.276 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
Chicken
(galGal3)
No conservation detected
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