HsaINT0172396 @ hg19
Intron Retention
Gene
ENSG00000132481 | TRIM47
Description
tripartite motif containing 47 [Source:HGNC Symbol;Acc:19020]
Coordinates
chr17:73872799-73874656:-
Coord C1 exon
chr17:73873955-73874656
Coord A exon
chr17:73872895-73873954
Coord C2 exon
chr17:73872799-73872894
Length
1060 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGC
5' ss Score
6.32
3' ss Seq
ATGGAGGGTGTTGTCCACAGGCT
3' ss Score
5.46
Exon sequences
Seq C1 exon
GGCGGCGCCCTGGGCGGCCGCGGAGTCATGGACGGCAGTGGACCCTTCAGCTGCCCCATCTGCCTAGAGCCACTCCGGGAGCCGGTGACGCTGCCCTGCGGCCACAACTTCTGTCTCGCCTGCCTGGGCGCGCTCTGGCCGCATCGTGGCGCGAGTGGAGCCGGCGGACCCGGAGGCGCGGCCCGCTGCCCGCTGTGCCAGGAGCCCTTCCCCGACGGCCTTCAGCTCCGCAAGAACCACACGCTGTCCGAGCTGCTGCAGCTCCGCCAGGGCTCGGGCCCCGGGTCCGGCCCCGGCCCGGCCCCTGCCCTGGCCCCGGAGCCCTCGGCACCCAGCGCGCTGCCCAGTGTCCCGGAGCCGTCGGCCCCCTGCGCTCCCGAGCCGTGGCCCGCGGGCGAAGAGCCAGTGCGCTGCGACGCGTGCCCCGAGGGCGCGGCCCTGCCCGCCGCGCTGTCCTGCCTCTCCTGCCTCGCCTCCTTTTGCCCCGCGCACCTGGGCCCGCACGAGCGCAGCCCCGCCCTCCGCGGACACCGCCTGGTGCCGCCGCTGCGCCGGCTAGAGGAGAGCCTGTGCCCGCGCCACCTACGGCCGCTCGAGCGCTACTGCCGCGCGGAGCGCGTGTGTCTGTGCGAGGCCTGCGCCGCACAGGAGCACCGCGGCCACGAGCTGGTGCCGCTGGAGCAGGAGCGCGCGCTTCAGGAG
Seq A exon
GTGGGCTCCGGGGGCACACTCGGGTGAGCCGGGGCTGGTGACCGACCGCGCGCGAGCGGGCCGAGGACCTTGGACCCCCCAGTCTTCCCGGGTTGGGTCTTAATCTCCTCCTCTAACCTGAGGATCTTTGCGGTCCCTTCCAGCCTTGACAAGGTCATCTGCTGGCGGTGATGGAGATGGGAAGGGAGGAAGGAGGGACGTGAGAACAGGACAAGGACGCGAAGAGCGGGCAGGGGACCTGAAGCCGGGCCGGGGTCTATGGGGGTGTAGGCGGGAGGGAGCCGGGTTAGGCCCGCGGGGTTCCGGTAGCGTGGCTGCTGCTCCCGCCCGGAGGGTCACGCCGGTCTCAGCTCAGATTTGCCCTGGGCTGAGGCAGCAGCTTTCGATGGGTGTGGCAGGCGGCAGGAGGGCGGCAGAGGGCGACCGGGCACACAGATTCTCTGTCCAGCTGTTCCGGGGGCCAGTGGTGGGAGCATGTGAGCCGCGGCCTCTACCTCCCGCCCCCAGTTTCCTTTGGCCTCCAGCCCGGTCTTGGCGCCTCTGGCCAAGGGATTTTCCGTTTCTCCTGCCTGGAGCAGTGACTCATAAGACCTAGGGGATTTGCCCGGAATCCCCTTTTTTCCAGGCCTGGACTGTGGATGCAGGCTCTTTGGGAACAGTGATCCTCAGGACAGCTTAATGCCTCCTTGTGCAGTCACCCCTCCGCCGCCCACCTCCCAACCTAACTGGCTTACTCTCTGCCTCTTCCCCGCCGGAGGAAGTTCTCAAATTCATCTGAGCAACACTGAGACCAGCGGACGGCCCTGTACTAGGCCTCCTGTCAGAGACCCGAGGCAGACACCCAGTCAGCCTGCACGCCCCCCAGGCGTTCAGGAAAGGCACCAGCCTGGGCTGCAGGCACCTCTGGCATATTATGGGACATCGTGGCCACTCCAGTCCCACCTGATGCACAGATACCACTCCCCAGTCACCCCCTTCTCTCCCCTGGCAAGGCCTGGGACCCGAGTGTAGGGCTGTGGCCTCTGCCAGACCTCACACTCATGGAGGGTGTTGTCCACAG
Seq C2 exon
GCTGAGCAGTCCAAAGTCCTGAGCGCCGTGGAGGACCGCATGGACGAGCTGGGTGCTGGCATTGCACAGTCCAGGCGCACAGTGGCCCTCATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132481-TRIM47:NM_033452:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.276 A=NA C2=0.031
Domain overlap (PFAM):
C1:
PF152271=zf-C3HC4_4=WD(100=21.8),PF0064319=zf-B_box=WD(100=18.2)
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCTGCCTCTCCTGCCTC
R:
CTTGATGAGGGCCACTGTGC
Band lengths:
346-1406
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)