HsaINT0172237 @ hg19
Intron Retention
Gene
ENSG00000121060 | TRIM25
Description
tripartite motif containing 25 [Source:HGNC Symbol;Acc:12932]
Coordinates
chr17:54972704-54972965:-
Coord C1 exon
chr17:54972882-54972965
Coord A exon
chr17:54972803-54972881
Coord C2 exon
chr17:54972704-54972802
Length
79 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
CTCTCTGTTTCCTCTCCCAGCTG
3' ss Score
10.87
Exon sequences
Seq C1 exon
CCCCTGTCCCTGCCTTACCCAGCAAGCTTCCCACGTTTGGAGCCCCGGAACAGTTAGTGGATTTAAAACAAGCTGGCTTGGAGG
Seq A exon
GTAAGTTATCATGGGCAAGGAGCTTTGGGGTGTCCACTCTGAGTTTGTTCTGCAAATCACTCTCTGTTTCCTCTCCCAG
Seq C2 exon
CTGCAGCCAAAGCCACCAGCTCACATCCGAACTCAACATCTCTCAAGGCCAAGGTGCTGGAGACCTTCCTGGCCAAGTCCAGACCTGAGCTCCTGGAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000121060-TRIM25:NM_005082:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.379 A=NA C2=0.324
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:
CTGCCTTACCCAGCAAGCTTC
R:
AGGAGCTCAGGTCTGGACTTG
Band lengths:
169-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)