MmuINT0147069 @ mm9
Intron Retention
Gene
ENSMUSG00000006574 | Slc4a1
Description
solute carrier family 4 (anion exchanger), member 1 [Source:MGI Symbol;Acc:MGI:109393]
Coordinates
chr11:102210134-102212589:-
Coord C1 exon
chr11:102212416-102212589
Coord A exon
chr11:102211682-102212415
Coord C2 exon
chr11:102210134-102211681
Length
734 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
TTTCTCTTCTACCCCTCTAGCTG
3' ss Score
9.93
Exon sequences
Seq C1 exon
GTGAAGACCTGGCGCATGCACCTCTTCACGGGCATCCAGATCATCTGCCTGGCTGTGCTGTGGGTGGTGAAGTCCACTCCTGCCTCGCTGGCCTTGCCCTTCGTCCTCATCCTCACAGTGCCTCTCCGTCGTCTCATCCTCCCGCTCATCTTCAGAGAGCTGGAACTCCAGTGT
Seq A exon
GTGAGTCGTGGGGGCCCTGATGGGAGGAGAAGGGCCCAGTAATAGGAATCGTGTGTCTTGGAGCTGGGGAGACGGAAGAATGAGGCAGATAGACGTAGGTTTAGGAATAGATGTGGTTCCGTTGGTAGAATGCTTCCTTCCAATGCACAGGATCCTGAATTCAATTCACCCCATAGATTGTATATAGAGGCCCACGCTTATAATCCCAGCACTAGGGAGGTAGAGGCGAGGAAATCAGAAATTCTAGGTCATCCTTGGCCTCCACATGATTCAAAGCTAGCCTGAGTTACATAAGATCCCATCTTAAGAAGAAGAAAAAAAGTCTATATGCAGGCCTTTGTCTCCGTCTTGGTCTGCTGTGTCCTAGCATATGATCTGGAGCAAGTGACCTCATTTCCTTATGGCTCCCCAGTGCAGGCAGCAGTCATGACAGGGTGAAAGGCTAATGAGGCGCACAGGGTGCATCTCTTGTATCATCACCAAGTTATTTGGGACATTCGGTGTGGGGTTGCCATGGTGAGGGGAAGCCCAGCCCACCTTTTGCAGGTTTTCCTCACCAGACCCTCAGGGGCCACCTTCCCCCATTGTAAACCACTCACCTAGACCAACTCTGTACTCTAGGGACAGCAGGGCTTGTCCAGGTTGGTTCCTAACTCTAGAGGTGCGTGCCTCTTAAGTCCCCAAAAAGACTCATCCTGTCCCACTCTCTCACCCTTTCTCTTCTACCCCTCTAG
Seq C2 exon
CTGGACGGTGATGATGCCAAAGTGACCTTTGACGAGGAGAATGGCCTGGATGAATATGACGAAGTGCCCATGCCTGTGTGAGCGGCAGGCCCAGGCCCCAACCACTCCACTTTCCCACCCTCCCAGGAAGACCACTCATGGGCGTGTTATGGCTGTGGGTGGGGAAGGAGGGGTGTTCTAGGAAACCCTCTATCTAAGGTACACTGGATTTTCTGGCTGGAGACGACCGGAAGCTATATCAGGGAATTGGGGTCACAGTCTCTTGCAACTGTATGGGCCCCAGGCTGGAAAAGTTAGATCTGTGTCTCTTCTCTTCATGGCATAGTTATAAATAGCAAAGGGGAGAGACGGAGGACACTTTTCATGTTCCTGCTGGCTGTGTGGCCTTAGGTAAGTCCCTTGACCTCTCTGGCCTCTGCTTCCTACTCTATAAAATGTATGCATTGGTAAGAGTACCTATGTTACCATATGGCAGCTGAGGACCAAGAGCAAATGTCCAAGAACCATTACAGCCTTCATTGTTCACCAAGCCTGCCCAGATCACACAGCCCCTGGGGCCACACAGCGCGTACCTGAGCCTCCTGACCTGGAGGCCACACCTCTGTCCTCCATCTTCCCACCCACATGCCTGCCCTGTACAGAAATACCCCTAATGACTTCCTCCCATTTTCTGTCCCAGCCCCACCCCAAGACTCCCTTCTCTGCATCCAGAGAGGCGTCCTGGTGAGAATAAGGGACTGGGGCTCAGACTCCTAGGTACTTACTCTCTCCCACTAAGTATTCATTCATTTGTTCATTCATTCATTCATTCACTTATTCATTCATTCATTCATACACTCCATAGCCACCTACTAAAGGCCCTAGACCTAGTAGACACAGAGTGAACTGGTTCAAGTTCCTCTGGGTGAGGCCAATACCTAAGCCTGCTCTGGATGTGGGTGGGGATAGAGGGAGGGTGAGAGGGTTGTAATTTATTAACTGTGTATTTTCTAAGTGCTCCTTCTGAGCCTCAGTTCTGCCCCCATGAGAAACCTGCTGTGTCCAACCCCAGCTAAGCTGAATCTTGGGGGGAACCCAAGCTTTGACCCATTGGAGTAGGAGACAGTGGCTTGCTCAAAATATGGATAAACATCTATTTTTTTTTTACAAAAAGATAATATTTTTAAAAAAAGTTGAAAGAACTAGAACTTGTGAGAGAAACAGAAAATCCGAGTGAGCAGGCAGCAGGAGGCTTGCAGTGGGAGATTCTCGGGGGATTTGAAAGCACATGCCTGCCCTCCTGGCACATCACCACAGAACGCTTGTTTCCACGTTCTAGAAATGAGGGCAGGGATGTACCTACCTTGTAGGGAGCTGGGAGGATTGACCCACAAGGTCTAAGAAAAGCGTTTGCCATGTTTTGGGCACACCCCATCCTCTCCTGCCTTGCCTGCTCCTTGAACATTACCAAAGAGAATGGGGATCGTGCCGCCCACTCTGCCAACGCTCTTCCCCCACCGCCGTGCTTGGGAATAGGTTTTGCCAATAAACGTGTCTGTGTTAAAGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006574-Slc4a1:NM_011403:19
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PD(3.8=19.0)
A:
NA
C2:
NO
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:
CCCTTCGTCCTCATCCTCACA
R:
GTTGCAAGAGACTGTGACCCC
Band lengths:
347-1081
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: