MmuINT0147250 @ mm10
Intron Retention
Gene
ENSMUSG00000021733 | Slc4a7
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 7 [Source:MGI Symbol;Acc:MGI:2443878]
Coordinates
chr14:14748466-14750522:+
Coord C1 exon
chr14:14748466-14748623
Coord A exon
chr14:14748624-14750434
Coord C2 exon
chr14:14750435-14750522
Length
1811 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAAA
5' ss Score
6.02
3' ss Seq
ATATTTTAATCTTTTCTTAGGTT
3' ss Score
8.96
Exon sequences
Seq C1 exon
GTTGACATGAATTTCATGAGGAAAATTCCTACAGGAGCTGAGGCATCCAATGTTTTGGTAGGAGAAGTGGACTTCTTGGAGAGACCGATCATTGCATTTGTGAGACTGGCTCCTGCAGTTCTCCTCTCAGGGTTGACTGAGGTCCCTGTGCCCACTAG
Seq A exon
GTAAAAAGCAGTTTTTCTTTGACTGTTCATATCAATCCATTGGCTGGAAGAATATTTGCTCTGTGTAATAAAAGCACTACTTAATTACTAATTGTTGATACTCAGTCATTATGCCAAAACGCTTTGAGTATTAGAGTATAAGTTATCATCCCCTTCTCCCAGCTTTTAGCTAGTTTCATTCTGGAACTTATGATGTAGCCCAGGCTAGCCTGATTCCTCATCAGGCTATAAAGGATAATTAGCAAGTTGTGTTAACCATCTTATAAATGATGAAAACGGGGATGCCTCTGCGGTTTAATAGCATCAGAAGCCTAATTGTGAATGTGACTTGTTTTGAAAGTAACTATTATATTTTTGTTGAAATTTTTTGTTGTTTGTTTGGTTGGTTTGTTTGTTTGTTTTAGATGAAGTCAGTGTGGCCCAGGTTGAATTCCTATCCTTGGAATTCCTTCTGCCTCAGCCTCCTAAGTGCCTGGCTTCTGAGCAACTGAGCTAGGTTTTTGTGTTTTTTAATTAGGGAGGTTCCATACTAGCATGAAGAGGTTTAGTTGATAATGTACTTTCATGACTGATTCAATAAGATATGAAGAATTAATAGGAATTTGAACCTTTTTTTTTACTCCCATTTTCACTAACGATACAGTGTTGATAAGTGAAGAGGATCTGATTACTTTCTATGTTCATTTTTATAAAGCAAGAAGCATATTTGGGTAAAAATTTTAATATTTCACATAAGAATGAAGTATTAATGAAACCCATTGTTTTATGTGCTAGCATATGAAAACAGTTAAAATATGAATATCTGCTACTATAGTGTTAAGAAGGATACAACTATGTACTTTTATTTAACATTAAAAGTAACAGGTTTGATGTTGAAGCTAGAAATTCTTTTTCCACTCAGAAGGTTACTTGATTAAATGCCATATTTATGGTATTAAGGCTTTGATCCAGAATCGTTTCAGAGTGCAGAATTTTTTGTGTGTATATTCTGTACTATTTGATTTGACAGACACTTACTTTCAAGAAATCAGTGTGGGATAAGGCTCAGATGTCAGAGTGCATGGCATGCACAAAGCCTTGGGTTCAATTCCCAGCACTTCATAAACTGGGTGTGGTCTGCCACACCTTTAATCCCATCACTTAGGGCAGAAGAGGCAGTGGAGGCAGGAAGGTCCAGAGTTCAAGGTTACCTCTGGCTGTACCATAAGCTCAGGTCATTCTGAGATACATGACTTTTCTCAAAGAGGAATTAGTGCGGAAACAGTGCTACTAACCTGTAAGCCCAGCAAGCAGAGACTGAGCAGTGTGATGTCAGCTTGGGTGATCTAGTGAGACCCACATAGGATTGTTAAAACTTTACTTGTTTTTGTCACTTCAGACCAGAGTTAGTTGTGTAATCCAGAAGGATATAAAAGATGGAAATTTTTATGAAAAAACACTTTTTTAGTAACTGTTTTGCACTAAGGAAGCTTAATAAATTAGGAATGCCTTTTGTAGTTTCATGATCTGATTTCTGCTTATTTTGTTTAGTATTTGAAATAAGATTTCCCATAGCCTCAGCTGAGCATGACCTTGAACTCAGATCCCCCTTGGCCTCTGCTTTCCAAGTGCTAGAATAGCAGGCTTGCCCTCCACACTCAGTTAGGATCTGTTTTAAATAGAATTAACATTATTTTGTATTGGTAACTGTGGGTGCTTGCAAAAGTCTGAGTGTTGTTTCTATGTTTATAATAGAATAACTTTTAAAAGTTTCTGGATTTGTGTATATATGTCAATTCTTTTAATACCTGCATATTTTAATCTTTTCTTAG
Seq C2 exon
GTTTTTGTTTCTGTTACTGGGCCCAGCAGGGAAAGCCCCACAGTACCATGAAATTGGCAGATCCATAGCAACTCTCATGACAGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021733:ENSMUST00000057015:8
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:
PF075658=Band_3_cyto=FE(19.4=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(10.8=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:
AATTCCTACAGGAGCTGAGGCA
R:
TCATCTGTCATGAGAGTTGCTATGG
Band lengths:
222-2033
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