RnoALTD0025273-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000008482 | Rbms1
Description
RNA binding motif, single stranded interacting protein 1 [Source:RGD Symbol;Acc:1307777]
Coordinates
chr3:46894939-46990190:-
Coord C1 exon
chr3:46943460-46990190
Coord A exon
chr3:46943422-46943459
Coord C2 exon
chr3:46894939-46895114
Length
38 bp
Sequences
Splice sites
5' ss Seq
TAGGTAACC
5' ss Score
6.66
3' ss Seq
CCCTGGGTTTTGTTTTGCAGCAG
3' ss Score
9.04
Exon sequences
Seq C1 exon
ATTACCCTCTGACCTTGAAATTCTGTATTTTTGGCCTTCATAATTTTTGGCAAGTTGCCTAACCTACCTTCTTGCAGGGTAGCATGGACGCATCTGCCCTGCCTTTAAGTCTCTTAGTCTTTAAGGGGATAATAAAGTGTTTCTATAGATGGTAACGTGTTAATGCATGTATTATAGCTATGAGAGAGACAGAGAGAGACGACAGAGGGACAGAGGGACAGAGAGAGATAGTAAAATACTCCAATGTCTTCTGAGAGTCTGGATTTTTATAAGAACCCTGTCTTTTACCTATCATTCTTTCTGCCACTGTACTTAAGGTAAGGTTGGGGGTTGGTATGTTCAGGGGTGGGAATGTGCTTAATATAGCTTGAGTGTTCTGGGAGTGTCCTTACAGTTTGGAATTAGGAATTGCTGATGTCATGATCAGCCATATTGTCACGACAACCCTAGAATTTCCTCACGTGCCTTCTTCTTGCCTTGGGAGTATCGATTTGCCACAG
Seq A exon
GTCTGACGTCAGTATACCCCGTGTGTTAAATGTGTTAG
Seq C2 exon
CAGTCTCTGGTCCCAGCGCACCCCATGGCCCCTCCCAGTCCCAGCACCACCAGCAGTAATAACAACAGTAGCAGCAGTAGCAACTCAGGATGGGATCAGCTGAGTAAGACGAACCTCTACATCCGAGGCCTGCCCCCCAACACCACTGATCAAGACCTGGTGAAGCTCTGTCAACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008482-2-5,3-5-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.525
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0007617=RRM_1=PU(29.9=33.9)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTTCTTCTTGCCTTGGGAG
R:
TCCTGAGTTGCTACTGCTGCT
Band lengths:
127-165
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]