BtaALTA0027706-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000021775 | SLC4A9
Description
Bos taurus solute carrier family 4, sodium bicarbonate cotransporter, member 9 (SLC4A9), mRNA. [Source:RefSeq mRNA;Acc:NM_001192206]
Coordinates
chr7:53246199-53246655:+
Coord C1 exon
chr7:53246199-53246315
Coord A exon
chr7:53246481-53246502
Coord C2 exon
chr7:53246503-53246655
Length
22 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGACAACCCATGGGCGGGAGGCT
3' ss Score
-8.94
Exon sequences
Seq C1 exon
GCTCCCTTCGCAATTGCGGGTGGCCAAGGGGCCCTCTGTCCGGAGAAGGACCCCAGCTGAGGACAGGCACGGCCGCAGACAGCACGCGGCTAACCCGGAGTTGCGGCGGACAGGCAG
Seq A exon
GCTGTTCGGGGGCCTTGTCCAG
Seq C2 exon
GACGTGCGGCGGAAGGCCTCGTGGTACCCCAGCGACTTCTTGGACGCCCTGCACCCCCAGTGCTTCTCGGCCGTGCTCTACATTTACCTGGCCACCATCACTAACGCCATCACTTTTGGGGGTCTGCTGGGAGAAGCCACCGACGGTGCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021775-9-9,9-8-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.725 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PU(1.2=15.0)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(11.3=100)
Main Skipping 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:
GAAGGACCCCAGCTGAGGAC
R:
TCCAAGAAGTCGCTGGGGTAC
Band lengths:
117-139
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development