BtaINT0136199 @ 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
chr7:53252926-53253372:+
Coord C1 exon
chr7:53252926-53252994
Coord A exon
chr7:53252995-53253198
Coord C2 exon
chr7:53253199-53253372
Length
204 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TCCTCCCCTTGTTCCCCTAGTTC
3' ss Score
10.22
Exon sequences
Seq C1 exon
TTCATCCCAATGCCTCTTCTCTATGGCATCTTCCTGTACATGGGGGTGACAGCGATTAGCAGCATCCAG
Seq A exon
GTAAGCCCATTACTTCCTGCCTACATTTGCTAGTTCTCCTCCTCTTTTCCTGCTTCTCCTGGGCACAGAGCCTCTGCTGCCACACTCTGGATGGAGAGGGGACCAAGGGAGCCTTCTGACCTCCAAGCTAGGCTTGGATAGCTAACAGTGACACCCTCCAGACTACCTGAGTACCCTGTTTTCTTCCTCCCCTTGTTCCCCTAG
Seq C2 exon
TTCACGAAGAGGGTGCAGCTATTATTGATACCAGCGAAGCACCAGCCAGACCTTCTGTTCTTGCGGCATGTGCCCCTGAGCAGGGTCCACCTGTTCACAGCCATCCAGCTTGCCTGCCTGGGTCTGCTTTGGATAATCAAGTCTACCCCTGCAGCTATCATCTTCCCCATCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021775:ENSBTAT00000029024:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(4.3=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=PD(6.6=58.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCATCCCAATGCCTCTTCTCT
R:
GGGGAAGATGATAGCTGCAGG
Band lengths:
236-440
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]