MmuINT0147247 @ mm10
Intron Retention
Gene
ENSMUSG00000021733 | Slc4a7
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 7 [Source:MGI Symbol;Acc:MGI:2443878]
Coordinates
chr14:14738184-14739913:+
Coord C1 exon
chr14:14738184-14738344
Coord A exon
chr14:14738345-14739724
Coord C2 exon
chr14:14739725-14739913
Length
1380 bp
Sequences
Splice sites
5' ss Seq
CAGGTTATA
5' ss Score
1.5
3' ss Seq
TTTTTTTTTTCATTGACTAGATA
3' ss Score
7.02
Exon sequences
Seq C1 exon
GTGGCTGAAATTTGAAGAGGATGTTGAAGATGGTGGTGACCGATGGAGTAAACCCTATGTGGCAACTCTGTCTCTACACAGTCTCTTTGAATTGAGGAGTTGTATCCTGAATGGAACAGTTATGCTGGATATGAGAGCAAGCACTCTTGATGAAATTGCAG
Seq A exon
GTTATATAGTAAACTGTTTTTTTTTTTTACATTTAATATAATTAAATAAAATTAGATGTTATTTAGGCTCAGGCCTAAGCTCATTTTCCCCCTTGCCCAGAAAAGGGACAAATGAAGGCCACCCTTGACTTACTGGCCTGAACCATTAATTTTATGTGAGAAGTTGTAGTGATTAAGTTGGGAAAAGAGTAATTCTGACATGTAATTTGGGAATATTATCCTGGTTCACTCTGGACTGGGAATAGAAGCAAGAAATCCATCTATTTCTTTGAAGTTCTGTGAGATAGTAAGGTTGGTATTAGATACAGCAGTGGAAGCCAACAAGCCAGATTTGAAGGATTGTAAGGAGTTAGAGTTGGAAAAAATGGAAAAAGAGTTGTGTTTATTTAATGACTTTAGTCTACAGTTGCTCAATAACAACATCATGTTAGTTGTGAACCAGATACTATGTAGTCAGTGCAGATTGCTCCCACAGAAAAACAGTAGATGGAGATTTTTGGTTTATTAAGAAACCCAAAAACTTAACTGTAATTTGTGGGCTATAAATATTTTGAATTTTATTTGTTAGATTTGACTGTGTTCTGGAGATCTTTGAATTGTCACATCCCATTTGTGTATGAGTGACTGAAAAATTGAGTTAGAGTTAGGAATATTGAGTATAGACAGATGAGTCTCCCTTTCATTTTATAGTTGTCACAAAGTAGAACTTTTATTTTTAAAAAAGAATGTTGTTACTTATTCTTTGAAACGTTTATACCTGGTATATCAAAGGATCTAGCCTTGATGTCCAGTGCTCACATAGCAGCTTACAACTGTAATTCCAATTCTAGGGGCTATGACACTCCCTTCAAATGTCTATAGGCTTATGCAACCACATGGTGCACATGCATACATGCCCAGTATAGTAAAATAAATAAATACATATTTGTACAATGTATTGAAAATCGTGCCCTGACCACACTAATTCACAGAAGGGCACAGGCATCAGGCCTCTCATTCTCCCATTCCTTTTTGTTTCTTGACAGAATTTGCCATGTCAGGCATTTGGTCATCTTCATTGGTTTTGTACCTCTGGCAGAGTAAAAGCTATCACAGTACTGCCCTGCTCCTAGCGTAACGCAGACACTTGGAGGAAATGTTTAGAAGCCTGTGCCATTGAATATTTAGCTAAATAGAATTTACTATTTCTGTTTCATTTTTTAATTAGAATTTACCATATCTATATAGGAAAACAGCCTCTTTAAAATATACTATTTAGTAAAATAAGAGTCTCATTCATTATTTCATGTTGGGTGCATACTGTTCATATTTATCTTTATGCATATCCTTTCATAGTGTTTATATAGAAAACCTCTGAATTTTTTTTTTTTCATTGACTAG
Seq C2 exon
ATATGGTGTTAGACAACATGATAGCATCTGGCCAGTTAGATGACTCCATAAGGGAGAACGTCAGAGAAGCTCTTCTGAAGAGACATCATCATCAAAATGAGAAAAGGTTCACGAGTCGGATTCCCCTGGTTCGATCCTTTGCAGATATAGGCAAGAAACATTCTGACCCTCACTTGCTTGAAAGGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021733:ENSMUST00000057015:5
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=0.190
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PU(17.5=85.5)
A:
NA
C2:
PF075658=Band_3_cyto=FE(23.5=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:
GTGGCTGAAATTTGAAGAGGATGT
R:
CCTTTCAAGCAAGTGAGGGTCA
Band lengths:
346-1726
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