MmuINT0147194 @ mm10
Intron Retention
Gene
ENSMUSG00000060961 | Slc4a4
Description
solute carrier family 4 (anion exchanger), member 4 [Source:MGI Symbol;Acc:MGI:1927555]
Coordinates
chr5:89225800-89228987:+
Coord C1 exon
chr5:89225800-89225973
Coord A exon
chr5:89225974-89228825
Coord C2 exon
chr5:89228826-89228987
Length
2852 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGC
5' ss Score
7.42
3' ss Seq
TCTTCTGATTGCCTCTCCAGATC
3' ss Score
9.55
Exon sequences
Seq C1 exon
TTCATGGACCGTCTCAAGCTGCTGCTGATGCCCTTGAAGCATCAGCCCGACTTCATCTACCTGCGCCACGTCCCCCTCCGCCGAGTCCACCTGTTCACCTTCCTGCAGGTGTTGTGCCTGGCTCTGCTCTGGATCCTCAAGTCAACAGTGGCTGCAATTATTTTTCCTGTTATG
Seq A exon
GTAGGCTTTCAAAATTAAAACTATCCCTGACTGGATGTCTATCACATAGTTACTGTGACATGTGTGTGGCTAGTCTTTTCTAGCTTTCGACTCAACACGTTGACTGGTTGTAATAAGATTCCCATGGCAATAGCTGCTTAGAATCATGTTCACTTGAGTTCAATAACTGGCACAGGTTCCTGCTGGTCAGCAAACACCCTTGAGCCACCATGAACTCATCTGTGGGAGGGTAGCATTATTATTGTTCTGAGCATTGATAATGAATACCAAGTGAGTAACACAATGTCTGGCAGGCAGTAGACACCAGAACATGTGGTTTTTCAAGGTATTGTATAATAGACTCTAAGGAAGAGTAAAGTGCACTTCCATCCAAATAGAAGCTTTTGTAAACTCCTGAGAAAAGGTGGAATTCACTAGAGATAGAGTTTTTGAGATTTGTTTGGTTTACATCATTTTTACGATATGGTTGGACTAGTCTTCCTGTATACTTACAAGATGAAGCAAATAATTGTCCCCCCTCCCCCCACCACCACCCCAAATCAAAATGGAAAGAGAAAATGCAAGCTCTATTTCTTGATTCATTATTGATTTTTTTTTTTTACTTTACTTTACTGTAATTCCATTTCTTGCAAGAAACTGCCTACATGCACTCTTTTTGTGACAAAACTTTTCCTGGGGAGACTTCTACCCCCAGATAGAAAATCTACAACAGACCAAAGGACAGATAAAACCAAAGTCCAATTTAGTGAACCACTTAGTTTTATTGGGGCTACTTTCAGGAATTTGGGTGAGATGTTACTTAGAAACAGAAAATACTCAAAGACAGCGGCATGACCATTACCAGCATGGCTGACAGCTCACAAAGCTGGGAATGTGGAGCACACTGCACAGCCTGCAGGCAGCTCAGCAGGCTGCAGTCTTTTCCAGGTGCTCAGCTGCTCTGAATCTCTTCCAGGCAGGTGGTGTGGGCTTGGAGTCTCTGCAGTTTGGCTTGTTTGAGAGCCTTCTTTGCAGCTTAGCTCTTTGGTTTGTGAGGGATTTACAGCTCCTATTGCGTACTCTGACTGGGTGTGGCCTAGTGAATCTGGTCAGTTTTAGGGACTTCCTGAAGCTATTTCAAGTTGTTTACCTTCCTATTTAAGGATCTTCTCTGTAGGATGGAATGTTTCCGTCTTGGAGGAAACTGTTACACTTCAAAGATGTTTCCATCTTGTTTTGTCATCCCTACAATCTGATAAAACAAAAACATAACAAAACCAAAACAAAACATTTTCTATACCATACATTTATTGTATTTTGTTTTTAAAACCAATTGACTCATAACAGGGCTTATTATTTTATTCTGTTTTATATTTGCTGTTTATAATTGTATTTCTACCCCCTACCCCAACTAAGACATAGAAAAAATGGTTTAAAAAAATAACTGATAGTTTTGAGCAAGATTTTTTTTTTAATTGATGGTCCCTTACATGACTTTTTCCTCTTAAGCTGTATTAACACACTGTAAAACAAATTGAATGTAAGAAGTGACTCCCATTTATTTACCTAGCAGGGCTTTCTACCTATATATTAATTTGTTAATATCAGGCGAGTGAAGCCTCCCCAAATAAATTTGAAATACATCCGATAAATTACATATTACCCGTACTAAATATAAGAAAACACTTTGCTTTTGTAAAGTGTGTTTTCCCAGGGATTTCCTTCAGCTCAGAGATGGTTTTGGAATGTTAGCAGTGCAGATATTACTGATTTCTTCAGGAGACGGATGCCTCCAGTACGGAGTGTAGTGTGGATGGAGCCCACTGTCAAGTGGAAGGCCACCCCACTCCCCACTTTGGGAACTTGACTGTGTGTGACTTTTGTTGTTGAGCATGTGGTGTTAACGAACCTCCATAGGGAAAAGGAAAGCGAAGCAAGCAAACGTTACACAGCAGACAAGACATTTAATAGAGCTTGGTATTTGTATGCTGACTAAAAGAAATTAACAAAATGGTCCATAGAACCAAAGAATCAGAGGTTAAAAAAAAATGTTAGCCTGAAAAGCAGGACCCTGGAGCTCAAGAGATTAAATACAGACTATAAATCACTCATGGTCGGAAATCATTGAACTAATGTCTCATTGATTGAGAGTGCTTTCTGTACTTACACCTGCCTATACTTCTGACACCCTCTTCTGGTCTCCACTGGTACTTGCACACATTTATACACACACAAACATACATATAAATAAAAACAAAATAGAAGAAAATTAAAAAGCAGGTAGACTGTATGCTTTGCATTCTTTATTGGTATCACAGCCTTGGAAAACGTAGAGTTTATGTTTCAGTTTGTTCAGTGATAATATGAAAACAAAATATTTCTTGAGTTTGTTATAAAGAATAAATGAACTCATATTGCCTAAGTGTTCAGCAAGGATCATTTAATTTAAAATAATGACTAATTTTTAGAAACCTGTATAATTTCTAAATTTTCAATAATTAGGAATCTATGCAAGCTAATTTTTACCTATCAGCTTTTATAATTATTTTTTTAAAAAAACTCAGCATGGAAGAAAATGATTTTGGAAAATAATTACCTTTCATTCATATTCTGATTGAGCATGATCATGCATCTCTATGAACAGAACAACGTGGATTTTGACTGACACTTTCTTCAAACTGACTGTCACTAAACTGGGAAGACTGTTGGGGGGTGGGGGGTCACTCAGTGAGCAGTCTGTCTGGCGCTGTACCTGTAAGGATTTCTGCTGGGGTTCTAGCTGTGGGGAGGGCGGGGGTGGGGCTGGCGGTAGCAACAGCAGCATCCCTATAATGTTGTCCTCTGATGTGCCTGTCTTCTGATTGCCTCTCCAG
Seq C2 exon
ATCCTGGCCCTGGTAGCAGTCAGAAAAGGTATGGATTACCTCTTCTCCCAGCACGACCTCAGCTTCCTTGATGATGTCATTCCAGAAAAGGACAAGAAAAAGAAGGAGGACGAGAAGAAAAAGAAAAAGAAGAAAGGAAGTTTGGATAGCGACAATGACGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000060961:ENSMUST00000148750:22
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=0.378
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PD(6.5=58.6),PF103594=Fmp27_WPPW=PU(0.1=0.0)
A:
NA
C2:
PF103594=Fmp27_WPPW=FE(68.8=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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