BtaALTD0020226-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000018227 | SLC4A7
Description
Bos taurus solute carrier family 4, sodium bicarbonate cotransporter, member 7 (SLC4A7), mRNA. [Source:RefSeq mRNA;Acc:NM_001098926]
Coordinates
chr22:1809144-1817193:-
Coord C1 exon
chr22:1817044-1817193
Coord A exon
chr22:1817005-1817043
Coord C2 exon
chr22:1809144-1809259
Length
39 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGA
5' ss Score
8.94
3' ss Seq
TTGTTTGTTCTTAAATACAGGTA
3' ss Score
8.46
Exon sequences
Seq C1 exon
ATATGGTACTGGACAACATGATCGCCTCTGGCCAGTTGGACGAGTCCATCAGAGAGAATGTCAGAGAAGCCCTTCTAAAGAGGCACCACCATCAGAATGAGAAGAGGTTCACCAGCCGGATCCCCCTAGTTCGTTCTTTTGCAGACATAG
Seq A exon
GCAAGAAACATTCTGACCCTCACTTGCTTGAAAGGAACG
Seq C2 exon
GTATTTTGGCCTCTCCACAGTCTGCACCTGGAAACTTGGACAATAGTAAAAGTGGAGAAATGAAAGGTAATGGAAGTGGAGGAAGCAGAGAAAATAGTACTGTTGACTTCAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018227-15-12,16-12-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.270 A=NA C2=0.897
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(23.5=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(14.2=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCTTCTAAAGAGGCACCAC
R:
TGTCCAAGTTTCCAGGTGCAG
Band lengths:
124-163
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development