MmuINT0147171 @ mm10
Intron Retention
Gene
ENSMUSG00000006576 | Slc4a3
Description
solute carrier family 4 (anion exchanger), member 3 [Source:MGI Symbol;Acc:MGI:109350]
Coordinates
chr1:75557627-75562172:+
Coord C1 exon
chr1:75557627-75557800
Coord A exon
chr1:75557801-75558812
Coord C2 exon
chr1:75558813-75562172
Length
1012 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGG
5' ss Score
9.63
3' ss Seq
CCCCGTGCTCTCTTCTGCAGCTG
3' ss Score
11.79
Exon sequences
Seq C1 exon
GTGAAGACATGGCGGATGCACCTGTTCACCTGCATCCAGCTGGGCTGCATTGCACTTCTCTGGGTGGTCAAGTCAACGGCGGCCTCGCTGGCCTTTCCTTTCCTGCTCTTGCTCACGGTGCCTCTGAGGCGTTGCCTTTTGCCCCGGCTCTTCCAGGACAGGGAGCTGCAGGCG
Seq A exon
GTAAGGGCTGACGGCTTGGGGTGGCTGGGGGGTTGGGAAGATTAAGGCGGTTGGGGTGGGCACTGATTTAGATACCTGGCTTCCTGCTGGTTTGTGAACTGGGGAAAGTTACTGCATGCTCGGAAGTGCTGTTTTCACTGGTCTAGTGGGCTTGTTGTGTCTACCGAAGAGCTGGTGGGAGAGTTAACTACGAATCCAGGTAAAGCTGCTGATATGAGGCTTTAAGAACAAGACAGGCCTGCTGTGGACAGTTGTGCTTAAACAAAGTACCTGGCTGCAGGCTGCGTATGGATGGGATAGCACAGACATCAGTCTTGGGCCCTGTTTCTGTCAGCTATAGCAAAGGACATCTTTTTGCTCTTCTTAAATTTTTTCATGTTTCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTCCTTCTCCTCCTCCTCTTCCTTCTTCAGCATTTTTGCTTGTTTTTGTTTTCCAAGACAGGGTTTTTCTGTGTAGCCCTGCCTGGCTGACCTGGAACTCGGTCTGTAGACCAGGCTGGCTTCAAGCTCACAGAGCTCCACCTGCCTTTGCCTTCTGCTGGGATCAAAGGCGTGCACTACCACACCTGGCTTTTTAAAATGTAGTTTATGTGTATGTGCTGAGGTTCTCTCTCTGCCACGTGGGTCCTGGGAATTGAAGCTGGGCCATCAAGTTTGGTGGCAAGCACCTTTATCTGCTGAGTCACCTCACAGTCCGAATTTTGCAATTCTTTCAGCTCAGATATGGGGCACAGAGGCGCCAGGATCCCAGGATCCTAAGCATACGCATCCTGTGTCACTGTTGGTATTGTACTAGTCCATTTGGGCATTCTGGGTGATTTGGAAATGAAGGTTTGAGGCAGGGAAGTACTTCAAGCTGGGGTCCTGGAGAGAGAATAGGTGTTGAGAAGAGGATGTAAGGAACAGGAGAAACGTTTGTCTGTCCCCCTGCCTTTCCCAACCCCGTGCTCTCTTCTGCAG
Seq C2 exon
CTGGACTCTGAAGATGCGGAGCCGAACTTTGACGAGGATGGTCAGGACGAGTACAACGAGCTGCACATGCCTGTGTGACCTGCAGGATGGTGCCCCTCCGAGACCCCACCTTGGCGATTCACAGACCCTAGGAACCCAGCACCAGGGCCAGGCATTCCTCAGACCCAGGGATGTGCCTGGAGTCACTGCCCATGCCAGGCCAGTGGCCCCTTGACTTTCACAGCCCAGACGGCACCGGCTTTGAAGTCATTACAACACACTCCGTGTCTTGTGTCTGCCTCATTTTCTTGGTGCCGCTTGTGGCTTGTCAGGCCACATTTACCTACCTGAAGTGTTACCAGGGCCATCCAAACTGGAAGAGATTTGAAGCAGGGGACAGAGAGGGCTTGAGGGGAGGGGTAGATTCAAGACTACTGAAAATCCAAGCTGGGTTTTGCTGTTCCCTTCTTTAGCTCCCTTCAGTATAGCAGAAGAACAGAAAGTTCAAGGTCTACTGAGGGTCACATGCCCATTAATCTAGCCCTGGAGGGGATAAGGAGGCACTGCTTCCCTTTAGCCACCAGGGAAATCAGGGTGACTTCAGTCCTGTGGGGCTACAAAGCTGCACGGGAAATGCATCTGGGAAGCAGAGGTAGCGGCTCAGCCCCTTAGACGCCAGGATGGCGCGGGGTTGGGGGCCCGCTGGACCATTTTAGATCCTTCTGGCTTAAGTGGGAAGGGTTCTAGGATTCCTGAAGCCACTCCTTGTGCAACAGTCTGTTTTGCCAGAAATAACCTAGGAGGCCTTGAGGGGGGTGGAAACAGGACCCGTTGCGTCACAGTTGCTAGGTAACCAGCTGTCTGGAGCCTGCCGGCCGTGTGTAGCCCTCTGGTGGTGGTTTTTGCGCACTGTAGGCTCTGTCGGCAGAGCAAGGGGAAGGCTGCCACCTGGCGGATCCGATTTAATCCCAGGTTTCATTTAAGCGGGTTCCAAAGGATTCTGGGAGGTTCATGGAGGTCTGCGGCACCAAGCATCCAGGGTTAATGATGCCTTGGCATCACATAATCCTTTCCCTCTGGAGCTGGTTCTGCATTCCTATCTTTATCCGATTTGACCTCTCCTTTTCTGCCATGGTTCAGGCCTACAGCTGGCGCCTGGGGCAGGCAGGGGACACAGAGATGTTTGCTGTTTTCCTAAGTCAGAGCAGAACCGAGACAACAGTAACCGGGCTATCATCACGTTTTAAGCATTTCATCCCAGCTGCCCACCCATCTTTGCTCTCTGATGCTGTCATGCCTTTGACTGGCTCGTCTAGCCTATTTGAACACAAAAGACTTGGTAGATGGGCCATGCCAAGGTTGAATGTAAAATTACTCTGCCAGGGATCAAAACAAAGGTCAGATGTAAAGCCTAGATCACAGGCAGGCGTGGAGCAGGTCTCACAGAGGGTCCGACCTTATCACAGTTAGGCTTGGCCGACAGGCTTCTGGGAGAGCCTGGAATCCTTTCTGGGTATTGGCTGCTGGCTTGCTCTTCTGTTGTGGGGATTCCTTTACAACTCCATGAAGGAGCCTGCTTTTCCCAGGAGCCCTCTCCTGCAAGTGAGAAGAGGATCCACGTGGAGATCTTAGTCGGGGTTAGTAGCAGGTGATATCCAGTGAAGTGAGGAGACTCTCTGGCCTCAGAACAAAAGGTGAGAACAATATGAAAGTTGAGTCGGGTTGCCATAACAACCAATATGAAATGGATAACACGAGGATACTGGAGCTATAGGGGATGGGCTGAAGTTTAGGAGGAACCTCGCAGAAGATGCAATTCTGGGGTGGGGCCCTGGGCAGGGCTTTTTCCACAGCTCTAAATGTCACCAGGAAGGGTGCTGCTAGGGAGCGGAGTGGAGACTAGGATGATTCTGTAAGAGACAGGATGTCGAGACCATGACATACATCCAGGCTTGGGCCTGGGTGACTAGACTGAATGTCATTAGAGGACATTTGGAATTTATCCCAAAGTCCCATGTTTCAACTGACCATTCCTTGACTGAGCCTTTGGCGCCATATCCTCTCAAGGGCCTGGGACCTTTGAGAACATTAAAAAAAAAAAAAAAAAAAAAGCATAGCGGGACATCAGTAGAGAGGTGTTCTGTTCCTATGGCATAGCTTGAGGGGGAATGGGTATTATAAGGCAGGTGTTCTGGAGTATGCCCCCCCCAAAAAAAAACCAGCTGCCATGATCAGATGAGTTGTACCTGCTTGCAAGAAACCAACAGGAGAGGCCTGTGGGCCGTTGACCTTTCCTCAGAACAGCGTTTGGGCAAGGTCATTAGAGACTGTAACCTCTTCTCAAAGCCATCTGTGTGCAGTTCTGCCTTGATTGTGCTTAGTGTGTTCAGGGGGCCCAACCTCAAGGTATTGGGAGATGCTAGGTCTCTAGCAGGGAGAGTATGTCTGCTGGGAAAGGCTAACAGAAGGGTGCTTTGTTTATTTGCCTATGTATGGGAAAGCCATCCTCCATGCTGGGTTCCTTGCCAGCTTGTACCCTGTGACCAATAAACTCAGGCGGGTTCCCCAGAGTGAACTTTGTGGGATCCTACTTCAGTTTGTTGTTGGGACCTTGTAAGGTGGGGGTAGACTTTGTTTGTGTCTCCTAAAGGAAGGGATTCTTCCAACAGGAGTTGAGGAAGGAGGTAAAGGTCGTGGTCTATTAAACACCCAGCCCAGCTTCCTTGGAAAAGGCTTAGGGAGTAAGCATGTGTGAAGTGTTGGGGTCAGGGTTGGGGGTAACAATCTATACTCTTTTCTTTTGTAACTTTCAGAGTCAGATTATGGGCAAGAGTCACACCTTGGCCAAGTGCCCAGGGTTTTCATTATCCTTGGACAAGTTCAAGCCCATTTCCAATCTAGAGTTCTAACACGTTTTCTTTGTATAAAGAAGGTGGCTGTCCCTGCCCTCCTGCTGAGGATTCAGCTCACTTAGACAGCTGAGGATCCTGTGACAGCCTCTGACTGTCGGAGCAGTGGACCATCTGCTCATATTGCCCTACACACCTCCTTTAGGGTACAGAAGCTGGCAATGATGTGTACCATTTGGCAGGCCAGGTGACATCTCTTCTTGTATCATATCAGCTGACTCAAATGATCACCATGGCTGTTGACACTTGGAGCTCTCAAAGGGAATTCTAAGCAGCAACGGGGGAGACAAAGCTAAACTCAAGGGCACTGGTACTAAACACAGCCTGCTGCTCAGCTCTCAATGAAGCCATTGCTGATAACCAGCAAAAACAGGTTCTGGCAGTGCCCACCAGTGGCCTGAATCCAAGGTGGCAAATTAGAAAATGCAGAGTGAGGAATTTGGTTTCCAGATAAATTATTCAATCATTTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006576:ENSMUST00000124341:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.360
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PD(3.7=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:
CTGCATTGCACTTCTCTGGGT
R:
CTGGGCTGTGAAAGTCAAGGG
Band lengths:
358-1370
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