MmuINT0147234 @ mm9
Intron Retention
Gene
ENSMUSG00000021733 | Slc4a7
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 7 [Source:MGI Symbol;Acc:MGI:2443878]
Coordinates
chr14:15603723-15605211:+
Coord C1 exon
chr14:15603723-15603828
Coord A exon
chr14:15603829-15605049
Coord C2 exon
chr14:15605050-15605211
Length
1221 bp
Sequences
Splice sites
5' ss Seq
TCTGTAAGT
5' ss Score
7.96
3' ss Seq
TCCCTCTCCTGCCCATTCAGGAG
3' ss Score
9.41
Exon sequences
Seq C1 exon
ATGTGTATGTGCTGAGCCATCTAACCCTAGCAACGAAACTCTAGAACTGTGGAAGAGGAAGAATATAACAGCATACAGTGTTTCCTGGGGCAACCTTACTGTTTCT
Seq A exon
GTAAGTGTATTGGGGATTGAGAAGTAGCTTAGGTCTCTGGGAACCTGGCTTATATCTCTCTCTGCCTGTTGTCTCAGCCTCCCCTCTGCTAAGATTCAAAATCTTAGTCCCCATGTCCAGCTTTTCTTAGCCTTTTCTGATTATGCTTAACTTTCCTTCTTGATAATATATATGTAGATTGTTTTCAAAATACGTTGTTCTGTTATTTCAATTGTTATTTATCTCCATGTGAGTGGGTTTGTACATGAGTGCAGATACTCACAAAGGCTGAAAAAGGTATTAGATCTCTCTCAGACTGGAATTTCAGTCAGCCATTTCTGCAGCCATTGTTGTATTTGTTTGTTTTAAGTGGTGTGTCAGGCCTCAGACCACTGTTCTCAACCTTCCTAATGCTGTAACCCTTTAATACAGTTGCTGACCCCCCCACACCATAAAATTGTTTCATTGCTACTTCAAACTGTAATTTTGCTAGTTATGAATCATAGTGTAGGTATCTGATGTATGATGTCCATGGGAGTCTTAACCTACAGGTTGAGAGCTGCTGCTTGTACCCAGGACTGCATATGTGCTAGGCAAGTGCTTTACTGCTGAGCTATAGCACCAGGTCAGAATGTGGTGTTTTCACTAAAATTTTAATAACCACTTTGCTGCTCATGAAAGGCGATGTTTTAATCAAATCAGAGCTAAATTTATTGGCTTTTTTTCCTGCTTTTTCTAGGAAATGAGTGATGGGTTAAGTCTCATTTATCCCAGGTTGGCATCACATTATAAATAGCTGAGACTCACCTTGAATTGCCTGTCTGTCTGCTTCACTTTGAGAGAGATAAAGATTACAGGTGTTTGCCACCATTCCTGCCTCCCCTTGTCTTTTAAGGAAGTGCTTTATCCATGCTCCCCTCAGCATCTGTAGAGACTGCAGTAGTGATTTTTAAAACGTCCATTCAAATACTGCAGTAGTGGCTTACAGGGATGCAGAGGAAATGTTTCATGAGCCTTCTCTAAAGGGAACATGTGGTCAAAAGAAAGGAGAAAGTTGGTGAAATGTTCTATGAGTGATTTTGATAGGAATGTTATAATATCTCTAAATGATGATGTATAGTTAGCCTAATGGAAGCTCTCTAGGTAAAGCAGGACATTGACATCTTAAATTCAACCATGTGCATGAGTTGGATGATTGAATACTTGAAAGTCTTCATCTCCTTCCCTCTCCTGCCCATTCAG
Seq C2 exon
GAGTGTAAGACCTTCCATGGTATGTTTGTGGGATCAGCTTGTGGGCCTCATGGACCTTATGTTCCTGACGTGCTCTTCTGGTGTGTCGTCTTGTTTTTCACGACGTTCTTTCTGTCTTCATTCCTCAAGCAGTTTAAGACCAAGAGATATTTTCCTACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021733-Slc4a7:NM_001033270:15
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(6.8=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(10.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTGCTGAGCCATCTAACCC
R:
CTTGGTAGGAAAATATCTCTTGGTCT
Band lengths:
262-1483
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: