BtaALTA0027685-4/4 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000014975 | SLC4A3
Description
solute carrier family 4 (anion exchanger), member 3 [Source:HGNC Symbol;Acc:HGNC:11029]
Coordinates
chr2:108278296-108278964:+
Coord C1 exon
chr2:108278296-108278479
Coord A exon
chr2:108278840-108278867
Coord C2 exon
chr2:108278868-108278964
Length
28 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGT
5' ss Score
7.7
3' ss Seq
GCCTCCGGTCTGGGTCCCAGCCC
3' ss Score
5.12
Exon sequences
Seq C1 exon
CCATCCCAATGATGACAAGGACAGTGGCTTCTTTCCCCGAAATGCGTCCAGCTCCAGTGTGAACTCGGTCCTAGGAAATCACCACCCAACCCCCAGCCACGGCCCTGACGGTGCAGTGCCCACCATGGCCGATGACCTGGGGGAGCCAGCCCCACTCTGGCCTCACGACCCTGAGGCCAAGGAG
Seq A exon
CCCTATTCCAGTTCTGCGTCCTCAGAAG
Seq C2 exon
CCCCTGCACATGCCCGGGGGAGATGGTCACCGGGGGAAAAGCCTGAAGCTGCTGGAGAAGATCCCTGAAGATGCTGAGGCTACTGTTGTGCTCGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014975-12-12,12-11,12-10,12-9-4/4
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=0.871 A=NA C2=0.500
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(22.6=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(12.2=100)
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:
CTCACGACCCTGAGGCCAAG
R:
CGAGCACAACAGTAGCCTCAG
Band lengths:
117-145
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development