HsaINT0168487 @ hg19
Intron Retention
Gene
ENSG00000244187 | TMEM141
Description
transmembrane protein 141 [Source:HGNC Symbol;Acc:28211]
Coordinates
chr9:139685777-139686229:+
Coord C1 exon
chr9:139685777-139685876
Coord A exon
chr9:139685877-139686162
Coord C2 exon
chr9:139686163-139686229
Length
286 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGA
5' ss Score
8.72
3' ss Seq
ACCCGCCTCTGCCACCCCAGGGA
3' ss Score
7.08
Exon sequences
Seq C1 exon
CTTCCGCCTGCGCCTGCGCAGGCCCGCTCCCCGAGCCCTGCCAACCATGGTGAACTTGGGTCTGTCCCGGGTGGACGACGCCGTGGCTGCCAAGCACCCG
Seq A exon
GTGAGAAGGCCGGTCTGGGACGCGGGCCTCAAACCCCAGAAGCTGACCTGAGCGAGGCGGGGGGCCGGGGCGTGGGGGTGCCCTCGTCAGGGAAGAGTGGCGGAGGCTGGGGGCACTCTCTTGCTAAGGGGCTCAGGGCGTCCGGGTGGGCATAGGGGAGGTGGGACGTGTCCAAGCGCCCAGGGTCTCACTCCTCCACAGCCAGGGTGTGCCCAGAGGAGGGACAGGAGAGGCGGTGAAGGAAGAGGGCAGGGGATCGAGCCTTCACCCGCCTCTGCCACCCCAG
Seq C2 exon
GGACTCGGGGAGTATGCCGCATGCCAGTCACACGCCTTCATGAAGGGCGTTTTCACCTTCGTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000244187-TMEM141:NM_032928:1
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=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF151101=TMEM141=PU(16.7=88.9)
A:
NA
C2:
PF151101=TMEM141=FE(22.9=100),PF140121=DUF4229=PU(14.9=30.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
CGAGCCCTGCCAACCATG
R:
GACGAAGGTGAAAACGCCCTT
Band lengths:
132-418
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)