MmuINT0147088 @ mm10
Intron Retention
Gene
ENSMUSG00000026904 | Slc4a10
Description
solute carrier family 4, sodium bicarbonate cotransporter-like, member 10 [Source:MGI Symbol;Acc:MGI:2150150]
Coordinates
chr2:62296756-62298220:+
Coord C1 exon
chr2:62296756-62297007
Coord A exon
chr2:62297008-62298151
Coord C2 exon
chr2:62298152-62298220
Length
1144 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
CTTCTATTGTTCTCTTATAGTTT
3' ss Score
9.62
Exon sequences
Seq C1 exon
AAAGGTTGTGGCTATCACCTGGATCTGTTAATGGTGGCAGTCATGCTCGGGGTCTGCTCCATTATGGGCCTGCCATGGTTTGTGGCTGCCACAGTTCTCTCCATCACTCATGTCAACAGCCTCAAGCTCGAATCAGAGTGCTCTGCTCCAGGAGAACAACCCAAGTTTCTCGGCATTCGGGAGCAGAGGGTGACCGGGCTCATGATTTTTATTCTTATGGGTTCATCCGTTTTCATGACCAGCATTCTGAAG
Seq A exon
GTAATGAAATCATCATTCATATGTTTAATATATCATTTTAATATAGGCATCCATATGTAAACATTGCACGGCATGAGATAAAAGTGATAATTAAAAAAATGTTTATATAATTCTCCTTCACTAATGATAAATGAAAATTTGTCCTGTTTTAGAATCCTGAAGTACTTTGAAAGTACAATTTTGATCTACTCTCTGGCAGTAACAATTTTGATTTGTAATTTTCATGCCATGGAACAGATTACAGTTTCTACTAAACTCACTGCACTTCCATCCAAATTCAAGTTTCTAGTATTTTGTCAATCTGTATATTGAGTATTATTATTCAGTCTGTAGAGTGAATCTTATTGTAAGTAGGTGGTGTCGACAGGACAATGAGCATGCCTTGCTCACCCAGACAGCTTTATATTTTGACGGCCTCACAAAACACAGTATTAGTAATTTCTACACTTAAAATTATTGAATTAAATTTGAACGGCGGTAAAGACTGATGGTTTTTGTCATATAATTCTGGAAGGTAGTCTTACAGCATGATAGCTTATCATTCATTTTGATTGCTGAACATATTAAATATTAATTTAATTGTTTCATTTATACAACTTCTTGTATTTAATCATTGAAAACTCTTATTTATATTATATAACTAATAGAATAGAGGATAAAATGAGCTAACCCAATAAAGAAAATTTGAACAGTTCACCTGTTAACAAATATTTGCCACAATGAAGGACCGATTTGTAAAAGGAAAACTTCGCCCCTTACCTTTAATCCAAATATCTTACTATTTTAAAAGAGAATGGAAATTGTCTTTAAAGTGGCTAAGAATGTTTATTGTGGCTCGATAGAGCTTCCAGTACCATTGCTTAGGAATCATGTGGGTTTCAGAGAAGGTTAAATTCTTATAGCTACACTATTGTTAGCATCCCCCTTCAGATTGGAGTAACTAAGTTGCAGGCAGCATAAGTCACTGCTTAGTGTTACAGGTATAAACATGCTAAGGTACTGTTTGAAGTTACATCTTCTGATTCTGAGCTACACTTGATTCTAGCATGCTTTCAACTGTCCTTTCCCCTCGCTGATAGTTGCAAAACTGAATGACCGTGTGCTGGAAAGTAATGCCAGGCATTCTTCTATTGTTCTCTTATAG
Seq C2 exon
TTTATCCCCATGCCAGTGTTATACGGAGTGTTTCTTTATATGGGTGCTTCGTCTCTCAAAGGAATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026904:ENSMUST00000102735:19
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(16.1=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(4.3=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:
AGGTTGTGGCTATCACCTGGA
R:
TGAATTCCTTTGAGAGACGAAGCA
Band lengths:
318-1462
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