MmuINT0147060 @ mm10
Intron Retention
Gene
ENSMUSG00000006574 | Slc4a1
Description
solute carrier family 4 (anion exchanger), member 1 [Source:MGI Symbol;Acc:MGI:109393]
Coordinates
chr11:102356717-102357251:-
Coord C1 exon
chr11:102357041-102357251
Coord A exon
chr11:102356930-102357040
Coord C2 exon
chr11:102356717-102356929
Length
111 bp
Sequences
Splice sites
5' ss Seq
TAGGTACAC
5' ss Score
4.06
3' ss Seq
TTTCCTTTCCTCTACAACAGACT
3' ss Score
9.04
Exon sequences
Seq C1 exon
GTGTTCCGCATTACCGCCTCCATGGCGCATAACCGAGAGGAGCTGCTGCGCTCTCTGGAGAGCTTTCTGGACTGTAGCCTGGTGCTGCCGCCCACAGACGCCCCTTCAGAAAAAGCTCTGCTTAACCTGGTACCGGTGCAGAAGGAGCTGCTTAGGAGGCGGTACCTGCCCAGCCCCGCCAAGCCAGACCCCAACTTGTACAACACTCTAG
Seq A exon
GTACACGGACAAGGTTTCTTGATTCCCCCATGGGGCCCTGGATCCCCAGTACACTGCTCCTTTCCTCGCAGACATTTGCCCCTCTGACCATTTTCCTTTCCTCTACAACAG
Seq C2 exon
ACTTGAACGGGGGAAAAGGGGGCCCTGGTGACGAAGACGACCCTCTACGGCGCACAGGCCGGATCTTTGGAGGCCTGATCCGTGATATCCGGCGCCGTTATCCTTACTACCTGAGTGACATCACCGATGCGCTCAGTCCCCAGGTGTTGGCTGCTGTCATCTTCATCTACTTTGCTGCCTTGTCACCTGCCGTCACCTTCGGCGGCCTCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006574:ENSMUST00000006749:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.085 A=NA C2=0.194
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(14.8=50.7)
A:
NA
C2:
PF0095516=HCO3_cotransp=PU(29.7=79.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCCCCTTCAGAAAAAGCTCT
R:
GCATCGGTGATGTCACTCAGG
Band lengths:
243-354
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