BtaINT0136206 @ 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
chr7:53244687-53245043:+
Coord C1 exon
chr7:53244687-53244742
Coord A exon
chr7:53244743-53244885
Coord C2 exon
chr7:53244886-53245043
Length
143 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
CTCCTTGAACCCCCACCCAGCAT
3' ss Score
2.62
Exon sequences
Seq C1 exon
GATCTGCCCATCCAAGAGAGGCTTCTCAGGAGGAGGAAGCCCCCCTGAAGGAACAG
Seq A exon
GTTTGTGGCCCTTCCAAGGGCAGGGCTGGGAGAGAGGTCAGGGGAGCCACCCTCCACTGGGCTCCTCATCAGTCAAGGTCCTGCCTACATCCTCTCCCCTGAATAACCTTTCATCGTCTGTGTCTCCTTGAACCCCCACCCAG
Seq C2 exon
CATCAGAACCCTCTAAGACAGAAGTTCGCTGCAGGGGCTGAAGCAGGAGCTGTGCTGGCAGGACAGCTGGGCTTCCTGGAACAGCCACTGGGGGTCTTTGTGCGACTGAGGGATCCGGTGGTACTGGGGCCCCTTATTGAGGTGCCCCTCCCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021775:ENSBTAT00000029024:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.094
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(12.2=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(35.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCTGCCCATCCAAGAGAGGC
R:
CCTCAATAAGGGGCCCCAGTA
Band lengths:
197-340
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]