GgaINT1027925 @ galGal4
Intron Retention
Gene
ENSGALG00000009054 | TMEM141
Description
transmembrane protein 141 [Source:HGNC Symbol;Acc:HGNC:28211]
Coordinates
chr17:412976-413332:-
Coord C1 exon
chr17:413121-413332
Coord A exon
chr17:413043-413120
Coord C2 exon
chr17:412976-413042
Length
78 bp
Sequences
Splice sites
5' ss Seq
CCGGTGCGT
5' ss Score
9.74
3' ss Seq
TGCTGACGGTGTCTCCGCAGGCG
3' ss Score
9.89
Exon sequences
Seq C1 exon
CGGCCGAGCCGGGGCCGGGCGCGGGGCGGCAGTAGCAGAGGTAGCGGTCCGGACCGTCCCGAAGCACTCGGAAAGGCCCCGACGGCTCCGCCATGGCAGCGCCGGAAGGGGCGGTGCGAGAGGCGCGGGGCGGCGCTGCGGGAACGGACGGCGCCGTGATGGTGCACCTCGGGCTGCGGCGGGTGGAGGACAGCGTGGCCGCCAAACACCCG
Seq A exon
GTGCGTGCGGAGCCGGGGGGAGCGGGGCGGGGCGGGGCGGGCGGCGCCGGTACGCCCGTGCTGACGGTGTCTCCGCAG
Seq C2 exon
GCGCTGCAGCAGTACGCGGCGTGTCAGGCCCACGCCTTCATGAAGGGCATCGGCACCTTCCTGGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009054:ENSGALT00000034208:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF151101=TMEM141=PU(15.8=83.3)
A:
NA
C2:
PF151101=TMEM141=FE(23.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
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:
GAAGCACTCGGAAAGGCCC
R:
CTGACACGCCGCGTACTG
Band lengths:
179-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]