MmuINT0147236 @ mm10
Intron Retention
Gene
ENSMUSG00000021733 | Slc4a7
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 7 [Source:MGI Symbol;Acc:MGI:2443878]
Coordinates
chr14:14773237-14775052:+
Coord C1 exon
chr14:14773237-14773350
Coord A exon
chr14:14773351-14774890
Coord C2 exon
chr14:14774891-14775052
Length
1540 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
TTATTTTTAAACTTTAATAGCCT
3' ss Score
5.52
Exon sequences
Seq C1 exon
GTACGATCAACAATCAGTGACTTTGCTGTATTTCTCACAATAGTAATAATGGTTGCAATTGACTACCTTGTAGGAATTCCATCTCCTAAACTTCATGTGCCTGAAAAGTTCGAG
Seq A exon
GTAAGTATTAAAACAAGTGGCTATTTGGTTTTGAAAATACCAAACTACTTAGTGAGGAAAGGGCTTGAACCCAGGACCTTGTTCTTATTAGATAAGAGCTCTTGTGAACTGCACTTCTCAATTTTCCTTTTGCATTGACAAATATAAATTTAAATTTTAGTATCTCTTGTCCTTCAGAGTACAAAATCCTCTAATTCACATCTACAGTGTTTTTTCTAACAATCATTTTCATGTTTCATCATTGAAATGTGTTTAAATCTGGTAAGGTGCCAGATTTTTGTCAGTAGTTGTTTGGGCTGTGACGTCACCACTGCCTTACAGAATCCAACACAAGGTAGTTTAGGAGTTGGTACCAAAGCGATCTATTTCACCATAGATAGTGTACATGGGGCCATGTTAAAGTATTCTAGTTTATTTATCTTGTCTCGGCATGCCAAACCTTGTCAAAACACATTCTCTAAGGTGGGCACTATGATGCATGTCTGTAATTCTAAACTGAGGAAGTTGAAGCAGAAGACTTGTGAGTCTGGCGTGGACTAACTAGTGAGTTCCAGGCTGGCCTAAACTGAGTAGCACCACCTTGTCTCTTTATAATAAACAAATTTAAACAAACAAAACCAAAAGTTCGACACCAAAATTGTCTTTGAATAATAAACCTCTGTTTATAATTCTTTAGCAGTTGGGCTTGTCCAGGTGGGATGTGGTCTGGTCAGCCTTACACTTTTCACATGTCTGGTCATCTCGTGGCTTTGTGGTGGTGGTGGGGCAGTCTAGCTTCATTTACCAACCTGGACAGAAACATTTGGAGTGGTAATCTTTCTCTTCCCCACTTCTATTTCCTGTCTTCCCTGAAAGGAACTGTATTCAACACCACAGCCATCATCTTAGGACTTGGAGAGGTTAAGAAACTTCAGGTTTAAATCCAGAATTGAAAACCATACATGTCACTTTGGCAAGTCTCAAAAAGGAAAACATTTATTTGGGACTGGCATACAGTTCAAAAGTTTAGTCCATTATTGTTATGATGGGAACATGGTAGTGTGCCAGCAGACATGGTGCTAGAGGACTTGAGAATTCTACATCTTGATATGCAGGTGGCAAGGAGAGACTGGGTGCCCCACTGGTTGTGTAGGTTGAGCATAGGAGACCTCAAAGCCCGCTCATAGAGTGACATGCTTCCTCCCACAAGGCCACATATCCTAACAGTGCCATTCCCCTTTGGCCAAGTATTCAAACACATGAGTCGATGGGGGACATTTCTATTCAAATCTCCACCACAGTGTATTAAGTTACAAGATTGTCTTGAATAGAAGAAGAGGGAATAGATACCACTCTCTATAAAGAGCAGGCAAGTCCCATGACAAGGGCATACTTCTAGGCTCAGGATTAATTTCTTCTGCCTTTGTGAATAATTTACCACACATCCTAATCCAGCCTTTTCTTTCTTCCTTGGTATTTTATGGAATAGATCCACTTATGTGCTGTGGAAATTTGGTACAATAAAGAAATAACCTTTTTTCTTATTTTTAAACTTTAATAG
Seq C2 exon
CCTACTGATCCAAGTAGGGGCTGGATCATAAGCCCTTTGGGAGATAACCCTTGGTGGACCTTACTAATTGCAGCAGTTCCAGCTCTCCTTTGTACTATTCTCATCTTTATGGACCAGCAGATCACAGCTGTAATCATCAACAGAAAAGAACACAAACTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021733:ENSMUST00000057015:17
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
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGATCAACAATCAGTGACTTTGC
R:
TGAGTTTGTGTTCTTTTCTGTTGA
Band lengths:
272-1812
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types