BtaALTD0000998-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000018010 | ABCA4
Description
ATP-binding cassette, sub-family A (ABC1), member 4 [Source:HGNC Symbol;Acc:HGNC:34]
Coordinates
chr3:49635960-49636717:+
Coord C1 exon
chr3:49635960-49636099
Coord A exon
chr3:49636100-49636497
Coord C2 exon
chr3:49636580-49636717
Length
398 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCT
5' ss Score
8.49
3' ss Seq
CTGCCGCCTTGTCCCTCTAGGTG
3' ss Score
13.38
Exon sequences
Seq C1 exon
CCTCACCGTGGCTGAACACATCCTGTTCTACGCGCAGCTGAAAGGGAGGTCCTGGGACAAGGCCCAGCTGGAGATGGAAGCAATGCTGGAGGACACAGGCCTCCACCACAAGAGGAACGAAGAGGCTCAGGATCTGTCAG
Seq A exon
GTGCTTGGTATTGGAAAATGGGCTTCGGATGGCCAATCCACGGTTTCCCAGTGCACAGGGCCTTGTATATATACATGTGTGCTTGTGTGTGTGTGTGTGTTCTTAAACTTGTAACAGGAGAGCTCCTAAGGGTTGGAATAATCTATAAAGTTATTCTGAGCATCTAAGAGAAACCCAACTCTGGATTATTTTCTACATAGAACACTATCCTGCAGCAGCCTGGGCTCTAATGTGCTCTGAGGTTTATGTGTTTGAACTAAAAATGTGAGAACAATCTTCACATGGTCTGATCCTGGGAGGCAGGGAGTTTCTGTTGTGTATTATAAGGCCTGAACCACTAGGGTTCTGAACACTGTGGACATCTAAGGAGGCAGCTTGAAGCTGCTGCTGGATCTAAG
Seq C2 exon
GTGGCGTGCAGAGGAAGCTGTCTGTGGCCATTGCCTTCGTGGGAGATGCCAAGGTGGTGGTTCTGGATGAGCCCACCTCTGGGGTGGACCCCTACTCACGTCGCTCAATCTGGGACCTGCTCCTGAAGTATCGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018010-25-20,26-20-2/2
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=0.125 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(32.4=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(17.9=55.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
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:
CCTCACCGTGGCTGAACACAT
R:
CTGAGCGATACTTCAGGAGCA
Band lengths:
278-676
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development