MmuINT0147282 @ mm9
Intron Retention
Gene
ENSMUSG00000024485 | Slc4a9
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 9 [Source:MGI Symbol;Acc:MGI:2443384]
Coordinates
chr18:36695177-36696573:+
Coord C1 exon
chr18:36695177-36695355
Coord A exon
chr18:36695356-36696500
Coord C2 exon
chr18:36696501-36696573
Length
1145 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAG
5' ss Score
6.66
3' ss Seq
ATTCCTCCTTCTCCCCACAGGGA
3' ss Score
13.57
Exon sequences
Seq C1 exon
AAGGGAGCTGGCTTCCACCTGGACCTCTTCTGTGTGGCTGTTTTGATGCTGTTCACATCGGCACTTGGGCTGCCATGGTACGTCTCAGCCACTGTCATCTCCTTGGCCCACATAGACAGTCTTCGGAGAGAGAGCAAAGCCTGCATCCCTGGAGAAGCCCCCAATTTCCTGGGCATCAG
Seq A exon
GTGAAGCCTATAATGAGTAGGCTGGGGTGAGAGGGGTGTGGCAAAAAACGGTTATGGGATGTGAGATATTTGGGCAGCTTGAATTCTCAGCTTCTACATCCTAAGAACTGCAGTGGGGTAAATGGGCGGTGGATTCCGTACTCTGAGATGGGTGAGTGGCTTATAATAAATGTAAGGGTGAAGGTCGCCAGGGCTAAAGTGGAGAGGGAGAGACCACCTTTCAGTACCCGCTCAATGTAGAAGCATACCACGGATGTTGCAAAGGACTCCATGACAAAACCATCTCTGTCATTGTTAAAAACAGTCTACCCAAAGCAAATGAAGTTGACTAACCTTGTACATTATGAAATATAGGTCTTTATGGCAGTGAGAAATTGTTAATTTTCCATCTAAATAAAAAATTAAAGACAGTGGTGAAGCATAGGGTGCATACCTTTAATCCTGTACTCTGGAGGAAGAGGGAGGCAGATCTCTGTGAGTTTGAGGCTAGACTGCTCTACAAAGCAAGTTCCAGGACAGCCAGAGCTACAACAACAAAACAAAATAAAACAAATCAATCAATCAAACAAACAAAACCCCAAAAACAAAAAAACAAAGAACAACTATGGAGCTAGGGATGAAATATGAGGCCCTAGGTTCAAATCCCAGAACCATTAAAACAATCAAATGAACAAGCAAACAAACCCAATGGGCTAGTGAGGTGGCTCAGTGGGCAGAGACACTTTCAGCCATGTCTCAAGACTTGAGTTCCATCCCTGGGACCTGGGTGGTAAAGGAAAGAACTGATTCCTGCAAGTTGTCCTCTGACCGTCACATATACACCAAGACAGGCACATGCTCACATACATGCTTGCACATACACAGTATAAATAGGATGTAATACAACATTTAATAAACAACCAAACCAAACTGAAACGTGGCAACAGTGAGCCTGGACTGATGGCAGAGGCCAGGGGCCCTGGGTTGGAACGCTTTGCTTTTCCTTTCCGTTTCTCACAGTAGGCAAGGGCCCTTCACCAGGTAACCTATCGAGGGTTTCCCTCCTCTTCTCTTGGTGCCATATCTGTAACAGGCCTGGTAAGGTCTCTAGCCTGGGTGCTCCAGGAGCACACTCAGACCCAGCTAATTCCTCCTTCTCCCCACAG
Seq C2 exon
GGAACAGAGGCTGACGGGCTTGGTGGTGTTCGTCCTTACAGGTGTCTCCATCTTCCTGGCACCTGTGCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024485-Slc4a9:NM_172830:15
Average complexity
IR-S
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(14.0=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=PD(0.1=0.0),PF0095516=HCO3_cotransp=PU(28.0=92.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGGGAGCTGGCTTCCACC
R:
CACAGGTGCCAGGAAGATGGA
Band lengths:
246-1391
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: