BtaINT0136192 @ 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
chr7:53247096-53248503:+
Coord C1 exon
chr7:53247096-53247358
Coord A exon
chr7:53247359-53248444
Coord C2 exon
chr7:53248445-53248503
Length
1086 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
TTGAATTCTCTGCTTCCCAGGAA
3' ss Score
7.89
Exon sequences
Seq C1 exon
AGATCACAGCCTGGATTACCTGCCCTTCCGCCTGTGGGTTGGCATCTGGGTGGCCATCTTTTGCCTGGTGCTGGTGGCCACGGAGGCCAGCGTGCTGGTGCGCTACTTTACCCGCTTCACCGAGGAAGGCTTCTGTGCTCTCATCAGTCTCATCTTCATCTATGATGCTGTTGCAAAAATGCTGACCTTGACCCATGCCTATCCCATCCAGAGACCTGGCTCTCCCACCTATGGCTGTCTCTGCCAGTACCCAGATCCAGGAG
Seq A exon
GTGGGTGAGGGAACTTGTTGTTGTTTGGTCACTAAGTCATGTTCAACTCTTTTTGCAACCCCATGGACTGTAGCCTGCCAGGCTCCTCTGTCCATGGGATTTCCCAGGAAAGAATATTGGAGCGGTTGTCATTCCCTTCACCAGGGTATCTTCCCCACCCAGGGATCAAACTCACATCTCCTGCATTGGCAGACAGATTCTTTACCACTGAGCCACCTGGGAAGCCCGAGGGAAATAGGGAGCTTGGCAAAATAAGGGAGGATGCAGGAAGGGTTGTTGTCCCCTTAGTTAAGTTCAGCAAAATGCTGAGTACCTACCCAGTAGCCAGCAGCAAACTTCCTTTCTTTGGTTCTGAGTCAGATGAAAAATAAGTCAACAGAGCAGGCCTAATTTCATCTTTTACTTCTGCCAGTGCTAAGAGAAGACCATGGTTATATCTATGAGTATGTGGGCTTCCTAATGATGAAACCAAAATTGGATTGACTTACTCACCCAGTCATGGCCATGCTGGACAGGGACTGTCTCACCCTAGAGGAGCAGAGCTCAATGCATGCAGGGTGCTTACTCCCTAGAGAGGGAGAGGAAGGGGCAGGACCAAGCATGCCCAGCTTCTTCTCCCAAAGTCACCAACCAAATAAATCACCACTCTTCCCCCGGGCCATGTGAGTGACAGGGTGGAGAGGAGCTCGGACTATTGCACCAGCACATTTCCTTCCACATGGCCAGGAACACCAGGACTGGGGAATAGGCATCCTCTCAAGAGTGCCAGACTCTGTACCAGGCACGAACAACAATAATTCTGATGCTGGTGGAAACACACAAATGTGTGTGCTCAGTCATTTACTAGGCACTTGCTTTGGCCGGTCCTGTGCCAGCCACCAGGGATACAGATAGGGAGGGAATTTGAAGGGATAAGGGCAAGAGGCAGTGTCCTGAGAACAGACTGGGTAGTGATTGGAGTCAGCAGACAGATGAGTCAGAACAAAGAACTCTCTGGTTCAGCTGGACCTGTGAAATTAGGCTTCTAATTAAGGCTGGAGAAGGTTCCCAGGGGAAGAAAACTCACTTGAATTCTCTGCTTCCCAG
Seq C2 exon
GAAATGAGTCTCAGTGGACAAGCACAAACCCTAAAGACAGAGATGACATCTTGAGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021775:ENSBTAT00000029024:12
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=0.300
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(17.1=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(3.7=100)
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:
ATCACAGCCTGGATTACCTGC
R:
TGCTCAAGATGTCATCTCTGTCT
Band lengths:
318-1404
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]