BtaINT0149314 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013889 | TMEM141
Description
Bos taurus transmembrane protein 141 (TMEM141), mRNA. [Source:RefSeq mRNA;Acc:NM_001034462]
Coordinates
chr11:106376384-106376837:-
Coord C1 exon
chr11:106376738-106376837
Coord A exon
chr11:106376451-106376737
Coord C2 exon
chr11:106376384-106376450
Length
287 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGA
5' ss Score
8.72
3' ss Seq
CAACCCCTTCCCCCTCCCAGGGA
3' ss Score
8.92
Exon sequences
Seq C1 exon
GGCCGGGTGTAGGTCAGCCCGCCGGCTCCCCGCCGCCGCGCCAGCCATGGTGAACTTGGGCCTGTCCCGGGTGGACGACGCCGTGGCCAGCAAGCACCCG
Seq A exon
GTGAGAAGGCCGGCCTGGACGCGGGCCCCGACCTCAGAAGCTGACCTGAGCGGGGCGGGGGCCTTGGTGGGAGTACCCTCATCAGGGAAGCGAAGAGGGACAGAGGTGTGGGACCCTTTTGCGGTGGCAATGGAGGCCTCCTGCCTGGGTGGGCAGGGGGGCAGGCGGGGTGTGGCTGGGCCCCCAGGGCCTCACGATGAGTGGTCCCCTCCCCCGGGTCCGGAGTGCGCCCTAGGGAGGGACCGGAGGGGCAGGGAACTGAGCCTTCAACCCCTTCCCCCTCCCAG
Seq C2 exon
GGACTAGGCGAGTACGCGGCTTGCCAGTCGAACGCTTTCGTGAAGGGCGTTTCCACCTTTGTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013889:ENSBTAT00000018443:1
Average complexity
IR
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(6.8=13.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCGGGTGTAGGTCAGC
R:
CTGTGACAAAGGTGGAAACGC
Band lengths:
167-454
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development