RnoALTD0001231-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000004378 | Abca5
Description
ATP binding cassette subfamily A member 5 [Source:RGD Symbol;Acc:628661]
Coordinates
chr10:98602454-98604817:-
Coord C1 exon
chr10:98604648-98604817
Coord A exon
chr10:98604632-98604647
Coord C2 exon
chr10:98602454-98602581
Length
16 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGT
5' ss Score
6.43
3' ss Seq
TTCTTATTTTTCAATTACAGATT
3' ss Score
10.23
Exon sequences
Seq C1 exon
GTTGCTTCTGCTTTTAATTTTTTTTGCAGTTCAGATTTTTATGTTTTTGGTCCATCATTCTTTTAAAAATGCTGTGGTTCCCATCAAGCTCGTTCCAGACTTGTATTTTCTAAAACCTGGAGATAAACCTCATAAATACAAAACAAGCCTGCTGCTTCAAAATTCTACTG
Seq A exon
GTGAGAGCGTGTGAAG
Seq C2 exon
ATTCAGATATCAATGATCTTATTGACTTTTTCACACAGCAGAACATAATTGTGGCCATGTTTAATGACAGTGACTATGTGTCTGCTGCTCCTCATAGTGCGGCTCTCAATGTGGTGCAGTCAGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004378-23-26,24-26-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(15.6=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(11.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTGCTGCTTCAAAATTCTACTG
R:
TGAGGAGCAGCAGACACATAGT
Band lengths:
118-134
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]