RnoALTA0000727-1/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000030243 | AABR07051892.1
Description
NA
Coordinates
chr3:25991780-26024676:-
Coord C1 exon
chr3:26024509-26024676
Coord A exon
NA
Coord C2 exon
chr3:25991780-25991959
Length
0 bp
Sequences
Splice sites
5' ss Seq
AGGGTCAGT
5' ss Score
5.85
3' ss Seq
CTTCATTTGACATTAAGAAGCTC
3' ss Score
-2.93
Exon sequences
Seq C1 exon
ATGATGACTGTGGGGACCGGAGTGATGAGGTGGGCTGTGTTCACTCTTGCCTTGATGACCAGTTCAGATGTGCGAGCGGCCGGTGTATACCAGGGCACTGGGCCTGTGATGGTGACAATGACTGCGGAGACTTCAGCGATGAGACACACGTCAACTGTACCAGAGAGG
Seq A exon
NA
Seq C2 exon
CTCGTTCTCCTGTTGGATGCATTGGGAATGAATTTCAGTGCCACCCTGATGGAAACTGCATTCCTGATCTATGGCGCTGTGATGGAGAGAAAGATTGTGAGGATGGCAGTGATGAAAAGGGCTGCAATGGTACCATTCGACTGTGTGACCACAAAACCAAGTTCTCCTGCAAAAGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000030243-16-19,16-18-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=PD(31.6=21.1),PF0005713=Ldl_recept_a=WD(100=68.4)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=61.3),PF0005713=Ldl_recept_a=PU(35.9=22.6)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGATGAGACACACGTCAACT
R:
ATGCAGTTTCCATCAGGGTGG
Band lengths:
94-97
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]