RnoALTA0032576-1/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000000763 | RT1-M3-1
Description
RT1 class Ib, locus M3, gene 1 [Source:RGD Symbol;Acc:3494]
Coordinates
chr20:1816522-1818037:-
Coord C1 exon
chr20:1817762-1818037
Coord A exon
NA
Coord C2 exon
chr20:1816522-1816690
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
ACATCACCCTAACCTGGCAGTTG
3' ss Score
5.42
Exon sequences
Seq C1 exon
GTTCTCACATCCTGCAGTGGATGGTTGCCTGCGAGGTGGGGCCAGACATGAGACTTCTTGGAGCACACTATCAGGCTGCATATGACGGCTCGGATTACATCACCCTGAATGAGGACCTGAGCTCCTGGACTGCAGCAGACATGGTGGCTCAGATCACGAAGAGCGAGTTAGAGTCAGAAGGTAGAGCAGAATACTTCAGAGCCTATGTGGATGGAGAGTGCCTGGAGCTGCTCCATAGATTCCTGCAGAATGGAAAAGAGATTCTTCAGAGAGCAG
Seq A exon
NA
Seq C2 exon
TTGAATGGGGAGGACCTGACCCAGGACATGGAGCTTGTGGAGACCAAGCCTTCAGGGGATGGAACCTTCCAGAAGTGGGCATCTGTGGTGGTGCCTTCTGGAGAGGAGCAGAAATACACATGCCATGTGGAGCATGAGGGGCTGCCTGAGCCTCTTGTCCTGAAATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000763-4-5,4-4-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.194
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(49.2=94.6)
A:
NA
C2:
PF0765410=C1-set=WD(100=93.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
GACGGCTCGGATTACATCACC
R:
GTTCCATCCCCTGAAGGCTTG
Band lengths:
258-365
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]