BtaALTA0024741-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000005180 | RBMS1
Description
Bos taurus RNA binding motif, single stranded interacting protein 1 (RBMS1), mRNA. [Source:RefSeq mRNA;Acc:NM_001035361]
Coordinates
chr2:36142090-36151576:+
Coord C1 exon
chr2:36142090-36142181
Coord A exon
chr2:36151419-36151424
Coord C2 exon
chr2:36151425-36151576
Length
6 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
AATTCTCTGTTCCATTTTAGCAA
3' ss Score
8.63
Exon sequences
Seq C1 exon
GTTATGGTTTTGTTGACTTTGACAGTCCTGCAGCAGCTCAGAAGGCTGTGTCTGCCCTGAAGGCAAGTGGGGTTCAAGCTCAAATGGCAAAG
Seq A exon
CAACAG
Seq C2 exon
GAACAAGATCCTACCAACTTGTATATTTCTAATTTGCCACTGTCCATGGATGAGCAAGAACTTGAAAATATGCTGAAACCATTTGGACAAGTGATTTCTACAAGGATACTACGCGATTCCAGTGGGACAAGTCGTGGTGTTGGCTTTGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005180-8-8,8-7-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.290 A=NA C2=0.396
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PD(38.8=83.9)
A:
NA
C2:
PF0007617=RRM_1=PU(65.7=83.0)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAGGCAAGTGGGGTTCAAG
R:
TTGCTCATCCATGGACAGTGG
Band lengths:
92-98
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development