BtaINT0136209 @ 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
chr7:53245735-53246315:+
Coord C1 exon
chr7:53245735-53245889
Coord A exon
chr7:53245890-53246198
Coord C2 exon
chr7:53246199-53246315
Length
309 bp
Sequences
Splice sites
5' ss Seq
AAGGTATCT
5' ss Score
7.56
3' ss Seq
CGGGTTCCCCTGGTCCTCAGGCT
3' ss Score
7.22
Exon sequences
Seq C1 exon
CAATTTCAGTGGAGAGTTCGGCGGGCCAGCAGCCTTCATGACCTTCTGGCAGCCCTGGATGCTTTCCTAGAGGAAGTGACAGTGCTCCCTCCAGGTCGATGGGACCCAACAGCTCGGATTCCCCCACCTAAATGCCTGCCCTCTGAGCACAAAAG
Seq A exon
GTATCTGGGGGGTCATCATGCCATAGAGATCCTTCCAGTGTTGAGGAAGGGAAGTGGGGGAGGGGGGCGAGAGGAAAGGGTAAGACCTGCGTTCTGCTGGACCACTCTGTGGCTGTGAGACCTTGAGTACCTTCCCGTGCTGGAGCCTGGCTTTCACTATTAGAAGGCGACCTGGACCTTGTGGAGTTGCGGCGCCCCCAGCCCGCAAACACACAACCCGCCGCCAGGGGGCGGATCGCCGAGAACTCTGGCGCCGAGTCGCGGTCTGGTAGCAGAGCCTTAGCCAACTCGGGTTCCCCTGGTCCTCAG
Seq C2 exon
GCTCCCTTCGCAATTGCGGGTGGCCAAGGGGCCCTCTGTCCGGAGAAGGACCCCAGCTGAGGACAGGCACGGCCGCAGACAGCACGCGGCTAACCCGGAGTTGCGGCGGACAGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021775:ENSBTAT00000029024:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.154 A=NA C2=0.725
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(24.5=69.2)
A:
NA
C2:
PF0095516=HCO3_cotransp=PU(1.2=15.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTTCAGTGGAGAGTTCGGCG
R:
CAACTCCGGGTTAGCCGC
Band lengths:
256-565
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]