GgaINT0126531 @ galGal4
Intron Retention
Gene
ENSGALG00000009054 | TMEM141
Description
transmembrane protein 141 [Source:HGNC Symbol;Acc:HGNC:28211]
Coordinates
chr17:412436-412871:-
Coord C1 exon
chr17:412788-412871
Coord A exon
chr17:412568-412787
Coord C2 exon
chr17:412436-412567
Length
220 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
CCGCGTGCTGGTCTGTCCAGCGG
3' ss Score
4.93
Exon sequences
Seq C1 exon
GCAGCGGCGCTGCGTTTGCCGTGCAGAAGCTGGTGAACAGGAGGCTGCCGTACGCGCTGCAGTGGAACCTGCTGCTGTCTGTGG
Seq A exon
GTGAGTGCCCCGCGCTGACCCCCCCCCGCCCCCGCTCCCTGCCCGTCGACGGCGCGGGGCCCCGCGGGGAGCACAGCCCGGGCTGCGGGAGCGGAGCCGCGTTTGCGGTTGTTGGCCGATCGCCCTCCCGCTCCCCTGTGCCCGGGGGGATCGGGCGCTGCTCGCGGGCGGCTGCACAGCCCGCGTTAGGGGGAGAACACCCGCGTGCTGGTCTGTCCAG
Seq C2 exon
CGGCAGGGTCCTTGGCCAGCTACACGGTGACCAGAGCGGAGACGCAGAAGTGCTCGGACTTCTGGATTTATTTGGAGACGGGCATGTCCCCGCGGGAGCGCAGTGTGGCTGACGGAGTGCCTCAGCCCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009054:ENSGALT00000034208:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.267
Domain overlap (PFAM):
C1:
PF151101=TMEM141=FE(29.5=100)
A:
NA
C2:
PF151101=TMEM141=PD(29.5=62.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCGTTTGCCGTGCAGAAG
R:
AGGCACTCCGTCAGCCAC
Band lengths:
196-416
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]