RnoALTA0001485-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000004378 | Abca5
Description
ATP binding cassette subfamily A member 5 [Source:RGD Symbol;Acc:628661]
Coordinates
chr10:98604648-98606584:-
Coord C1 exon
chr10:98606383-98606584
Coord A exon
chr10:98604818-98605191
Coord C2 exon
chr10:98604648-98604817
Length
374 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
AGAGTAAATTTAGGGGTTAGGGA
3' ss Score
-6.24
Exon sequences
Seq C1 exon
ATTATAGTGTATTTACCCAGCAGCCACGGGAGGAAGAAACAGATTCAAAGTCTTTTGATGAAATGGAACAGAGTTTACTTATTCTCTCTGAAACCAAAGCTTCTCTAGTGAGCACCATGAGTCTCTGGAAGCAGCAAGTATCTACAATAGCAAAGTTTCATTTCCTCTCACTGAAGCGAGAAAGCAAATCAGTGCGCTCTGT
Seq A exon
GGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGCAAGCGCAAGGCCCTGGGTTAGGTCCCCAGCTCCAAAAAAAGAAAAAAGAAAAAGAGAAAAAGGAAAAAAAAGAGTAAATCTAGTCTATATGTACTTTTCTAACTTTTCCTTCTCTACCTCAAATTTAATAACCTTTACATTTGATATTGCATTTCGTTTCCTCTCCAATATTATTATCAGGCCATTTTTGGTAAATTTTTAGGAAGGTTTTATTTTTCTTTGCTTTTTGTTCTTGTTTTGTGGTTTTGCAATTGAGTATTGAATCGATACTAACGTGAGGGAAGATAGCTAATAGATTTATATGTTGATGTATATTAAGCTATATTATTTTTTCCTTTCAG
Seq C2 exon
GTTGCTTCTGCTTTTAATTTTTTTTGCAGTTCAGATTTTTATGTTTTTGGTCCATCATTCTTTTAAAAATGCTGTGGTTCCCATCAAGCTCGTTCCAGACTTGTATTTTCTAAAACCTGGAGATAAACCTCATAAATACAAAACAAGCCTGCTGCTTCAAAATTCTACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004378-22-25,22-24-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.074 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PU(1.4=7.4)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(15.6=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
TGTATTTACCCAGCAGCCACG
R:
GCAGCAGGCTTGTTTTGTATT
Band lengths:
350-724
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]