BtaINT0136174 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017950 | SLC4A8
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 8 [Source:HGNC Symbol;Acc:HGNC:11034]
Coordinates
chr5:28528335-28528525:-
Coord C1 exon
chr5:28528494-28528525
Coord A exon
chr5:28528417-28528493
Coord C2 exon
chr5:28528335-28528416
Length
77 bp
Sequences
Splice sites
5' ss Seq
AAGGCAAAC
5' ss Score
0.38
3' ss Seq
ACTAACTTATGTTTCAACAGAGA
3' ss Score
7.35
Exon sequences
Seq C1 exon
GTTTTCCCCTTCGGTGTTGCATAAAGGGTAAG
Seq A exon
GCAAACACACAGTACTTGAATGAAAGTTTGAATGAATGTATGAGTACTACTGTGGCTACTAACTTATGTTTCAACAG
Seq C2 exon
AGACCAGATGAAGAAGCTGTGGTGGATCAGGGTGGGACCAGCACAATTCTCAACATCCACTATGAGAAGGAAGAGTTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017950:ENSBTAT00000023868:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.636 A=NA C2=0.679
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
TTTTCCCCTTCGGTGTTGCAT
R:
TCCAACTCTTCCTTCTCATAGTGGA
Band lengths:
111-188
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]