BtaINT0136210 @ bosTau6
Intron Retention
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
chr7:53246316-53246480
Coord C2 exon
chr7:53246481-53246655
Length
165 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
GTGAGGCGTGCTGAGGTGGAAGCCAGGGTACCTTGGGTGGGGGGGGCAGTGGGGTGTCATGGGCTTGAGGTGTGCAGTCACTGTGGGGGACGCGGGGGGAGGCTCACCTGGCCCCAGGGACTTGGGATGCTGAAGCCTGGATCACTGACAACCCATGGGCGGGAG
Seq C2 exon
GCTGTTCGGGGGCCTTGTCCAGGACGTGCGGCGGAAGGCCTCGTGGTACCCCAGCGACTTCTTGGACGCCCTGCACCCCCAGTGCTTCTCGGCCGTGCTCTACATTTACCTGGCCACCATCACTAACGCCATCACTTTTGGGGGTCTGCTGGGAGAAGCCACCGACGGTGCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021775:ENSBTAT00000029024:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
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 Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATTGCGGGTGGCCAAGG
R:
CCCCCAAAAGTGATGGCGTTA
Band lengths:
250-415
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]