MmuINT0147190 @ mm10
Intron Retention
Gene
ENSMUSG00000060961 | Slc4a4
Description
solute carrier family 4 (anion exchanger), member 4 [Source:MGI Symbol;Acc:MGI:1927555]
Coordinates
chr5:89214474-89215793:+
Coord C1 exon
chr5:89214474-89214652
Coord A exon
chr5:89214653-89215720
Coord C2 exon
chr5:89215721-89215793
Length
1068 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
3' ss Seq
GTCTTTGGATTTTGTTTCAGGGA
3' ss Score
9.84
Exon sequences
Seq C1 exon
AAAGGAGCTGGGTATCACCTGGATCTGTTTTGGGTCGCCATCCTCATGGTGGTATGCTCCTTCATGGCTCTTCCCTGGTATGTGGCTGCTACTGTTATCTCCATTGCCCACATTGACAGTCTGAAGATGGAGACGGAGACATCTGCGCCTGGAGAACAACCAAAATTTCTGGGAGTAAG
Seq A exon
GTGTGTTGTCTCAGGAAAATGACCCTAAAAAAACCTCATAGGTATACATCTTTGTGTCAATCATAAGGAAGTGGACACAATCTGGGAATAAGATAAATGGTGACGGTTAATTTATTCCTAAATTATCTTCTCCAGGAAGGACATTTTAATAAGGAGGAAAACTAATAACTTTTAGTTCATTTCTTAAAGAACGTCTTGATTAGCACAATATTAAATGAAGCAACAGAAAAAGCTAAGCAAGCGATTAATTTTCTTCAGTATAGAGCTGAGTGCTCTACCTTAGTCATGTGTAAAAGCCTTAAGTCTTCCATGATTTTCATGACTGAAGAAGTAGGAATTCTTGTTTTCCAACCCATTCCTGTTCCCATAAGAACTTGGGAACCTTCAAATATTGGAGTATTTGTGAAGGTCAGTGGTGGAGGACCTCTGTCCTCTCTTGAGTGTTTTGTTTCATTTCTTGTTTTTGGCTTTTGTCGTAGCAAGCTTTGCTCACAAGGGCTAGGGTGAATAGCTCACACAACAGAGCCATCATTTCTCAGGCCTCAACAGTGGGTGATTCTTTCTTAGGGGTGCGGGGTGTTGGATGGGGATCACATTTGTTAAAAAGCACTTCTGTTGTTTCAAATTTGAGAATTAGACTGGTGAGATTTATTGAGCTCATGAAACTTCCCTGAGCTGTTTGTTAATTAGAATGTGGGACAATGTAATATCTGTCTCCTATGAAAGAAGGTATAATTACACAACAGGACAAGTTGTTTGAAAAACAAGAGCTTCAAAGAAGCCAGTAATTCCTGGAGCTGGAGCAAGCAATCTTTCTTTCTTGGTTCTGAAAGGAGCAAAAGCTTTAGAAGAATCACTTTTTTTTTCTTCATGAGTTCCGATCATATATTGTAATAGTTTTAACATTTTTTAAAAGTTTACACTTGTATCTAATTCGTACAATATTCTTGAGATTTGATGTGAGTTATATCAAGACTTTCGATGCCGTAGCTCAACACCGATTTGGTCTTTCTTTGAAGGTTCCTGAAAACTGGAGTTAGACTGATTGGTCTTTGGATTTTGTTTCAG
Seq C2 exon
GGAACAACGAGTCACTGGAACCCTTGTGTTTATTCTGACTGGCCTGTCAGTCTTCATGGCTCCCATCCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000060961:ENSMUST00000148750:19
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(11.3=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(4.6=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:
GGAGCTGGGTATCACCTGGAT
R:
TCAGGATGGGAGCCATGAAGA
Band lengths:
247-1315
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