BtaINT0136195 @ 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
chr7:53249032-53250498:+
Coord C1 exon
chr7:53249032-53249145
Coord A exon
chr7:53249146-53250336
Coord C2 exon
chr7:53250337-53250498
Length
1191 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CATGGACTCCTCTTCCCCAGCCC
3' ss Score
6.13
Exon sequences
Seq C1 exon
GTACGCAAGATGCTGGGTGACTTCTCCTCGGTCCTGGCCATCCTGCTAGGCTGTGGCCTCGATGCCTTCCTTGGCCTAGCCACACCGAAGCTCATGGTGCCCAGAGAGTTCAAG
Seq A exon
GTGAGAGCTGGGCATGGAGGGGAGAGGGCAAAGCAGGGTCAGCAGACAGGACCCTAGAGGAGGAAGATGAATCGATACCACACTTCTCTAGCCTTCCGTTTTCTCATTCATAAGATAGAAATAGTATAATAATGGTCTTACAGAATTGTTGTGAGGGCACATTGTGTACCAGACACATAGTAAGCCTAGGATAGGTAGCTACTGTTGCAGGTAAGAGGTTAAAAGAGTGGGTTCTGGTTAGCCAGCCCTGGGTCTGAGTCCCATTTCTGTCACTTCCTAGCTGTGTGTCTTGGGAAAGTTAACCCACATTCTGAGCCTCAATTTCTTCATCTATAAAATGGAAATAATAAATAACAATAGTTTCTGCCTCATAGCTTGTTTTGAGGTTCACAGAAGATCATAGTCCCAAGCACTGTCAAATTACTGGGACTGACTCATACCAACACCTCAATTAATGCTAGTTATTGTTGTTCTGTGTTCTCCCTACCCTCGGCATGGCCCTACTTACTACTCCCCACTCTCTACTTTGCACCCCCAATTGCCTGCTCTGATGGGGTCAAGCTAGAGCTCCCTGCCCAGGGCATGACAGTGCACAGGACAAGGCTCAGCGCTCACTTAGTACCTAAACTTTGTCGGTGCATTTGGAGACCTCCCCTCCAGCTTCCCTCAGGACAGGAAAGCAGGGTGGCTCCAAGGCTCCAAGGCAGCCTTAGGGGCTCAGAACCCAAGATAGCAACTGAGGCCCTCCCCGACACAGACGCCTTGTAATCAGAGCAGACGCAGACACACCCAGCCCTATCCCTGCCCCAGCCCCAGATCAAGGCAGGTCTGAACCTGAGTTGCCCGGCTCTTGGTGGGGGAGGGGGGTGGTTGCTTAGGGAGAAGTGCTCTGTACATCAAGAAGTGTGGGTGGGCCTCATCCACTACCTCCTCCTCTTACAGGGAGGGAAGGACCCTAAGACTCAAAGTCCAGAGCCCCTGGTTCCAGCCCAACCCCCAGGCTGGTCTCCGTCCTTCTGCCCTGGGATGCGCTGAACCAGCTGTACACACACAGACTGCTCCCACCTAGCATCCAGTGTCTTACAGTGGGTGGGGAGGGGGGCATTGTGGAAGAATGCCATGGCTAGAGTGTGTAGATGAGGTGTTCTTAAGATAGCCTCTCCAATTTGTCCATGGACTCCTCTTCCCCAG
Seq C2 exon
CCCACACTCCCTGGACGTGGCTGGCTGGTGTCACCTTTTGGAGCCAACCCCTGGTGGCTGAGTGTGGCAGCTGCCCTGCCTGCTCTGGTATTGTCTATCCTCATTTTCATGGACCAGCAGATCACAGGGGTCATCCTCAACCGTGCTGAATACAGACTGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021775:ENSBTAT00000029024:15
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(7.2=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(10.3=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:
GCAAGATGCTGGGTGACTTCT
R:
GCAGTCTGTATTCAGCACGGT
Band lengths:
270-1461
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]