BtaINT0149316 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013889 | TMEM141
Description
Bos taurus transmembrane protein 141 (TMEM141), mRNA. [Source:RefSeq mRNA;Acc:NM_001034462]
Coordinates
chr11:106375876-106376205:-
Coord C1 exon
chr11:106376122-106376205
Coord A exon
chr11:106375984-106376121
Coord C2 exon
chr11:106375876-106375983
Length
138 bp
Sequences
Splice sites
5' ss Seq
TGGGTGGGT
5' ss Score
3.82
3' ss Seq
CCCTGCCCCCTGCTCCCCAGTCG
3' ss Score
7.31
Exon sequences
Seq C1 exon
GCACCGGTGCAACCTTCGGCCTGCAGATGCTGGTTCAAAGGAAGCTTCCATACCCCTTTCAGTGGAAGGTGCTGCTGGCTGTGG
Seq A exon
GTGGGTACTCCAGCCTGGGACCCCTGAGGTGCACCTCAGTTGCCGCTGGCTCTTCAGCAGAAGTGGGTTCCCACTGGGGGTGGGTGGCTGTGGTTCTGGGCATGCCCATCCCCCTGACCCCTGCCCCCTGCTCCCCAG
Seq C2 exon
TCGCAGGCTCAGTGGCCAGCTACTGGGTGACCCGAGTGGAGTCGCAGAAATGCAGCAACCTCTGGCTCTTCCTGGAGACAGGGCAGCTCCCCAAAGACATGGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013889:ENSBTAT00000018443:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.081
Domain overlap (PFAM):
C1:
PF151101=TMEM141=FE(29.2=100),PF140121=DUF4229=FE(63.6=100)
A:
NA
C2:
PF151101=TMEM141=PD(29.2=75.7),PF140121=DUF4229=PD(27.3=32.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCGGTGCAACCTTCGG
R:
CATGTCTTTGGGGAGCTGCC
Band lengths:
184-322
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development