MmuINT0147196 @ mm10
Intron Retention
Gene
ENSMUSG00000060961 | Slc4a4
Description
solute carrier family 4 (anion exchanger), member 4 [Source:MGI Symbol;Acc:MGI:1927555]
Coordinates
chr5:89232764-89234876:+
Coord C1 exon
chr5:89232764-89232860
Coord A exon
chr5:89232861-89234796
Coord C2 exon
chr5:89234797-89234876
Length
1936 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
TATATTTTTTTTCTTCCCAGGAG
3' ss Score
9.5
Exon sequences
Seq C1 exon
TCTGACTGCCCATACTCAGAAAAGGTCCCCAGTATTAAAATTCCAATGGACATCATGGAACAGCAACCTTTCCTAAGTGATAACAAACCCTTGGACA
Seq A exon
GTGAGTAGAACTAACCGCCTTGCATGCTTGCCTGACTCTGATCCACGCTTTTCCCAGGATCCTCTAGGGCTATCCTCAACTTAACTTTCCCCTACTCTATCTTTTTTCTCTTCTGGGTGAAGATTTAAGCAACTTGCTTCTTTTTTAAAAAAATGTTATCTTTTCTGTTCCTTAAACTCTACCTCCTTCCTCTTATTCATAACCTCTTACACTTCCGTTCAATAATCTCTTGCCTAAGTCATTGCCAGGGTTCTTTTCTTTGATTATTTTGTTTTCAAGAGCTAAACCTATAACCATGTTTTTTTTTAATTGTTTTTTTCCCAATTATATTTAGAATTGCAGCTTACATAGTACTACATCACTGTCTGTTACTGTTTGTCCTCCTTAGGTTTCAGTCAATCATGAAGTTTGTTAAAAGAGAGAAGTAATACCTTGGGTCTCTCTGTGATCAATGGATTGATTGTTAATATTTAGAATTTGGAATAGTTTCAATTAAATTGGGAGTCGTAAAATATTAGCAAAACTAGATTTGAGTGAAATATGTTTTTCTTCCCAACTTCTTTATTTCTCTTCTGTTATTTCATATTCACAGCTATAAGTGCTCTGGTCTTTCCTGAGTAATAGGCTCGTAGCTACATTCTGTAGTGTGTCTCGACCTAAAGGGACACATTTTCTTCCCATGAAAACTCAAAGCCTAAAGTGCTTTGGAGACAATTACCTTATGCTGTTGGGAAAGCTTCATATGGTCACTAATGTTACTATGAAATGGAGTGTCAATCGCAGGGGAAAAGATAACATGTCACAAGCTATTACACTGTAGCCACCAGCCTATTACTAGTCAAGAAAGACTTGAATGTACTATGAGCAACAACAGAGACAGCTTTATTTCTGGTATATAATATCACCCATTGTCAGTAAGAGGGTTACCAAGAAAACTTGAATTGAAACTTTTGATTAAATATGGGGAATACATATACATATGCAGATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTGCTCAGTAACAAATTATCCCAGAATATAGCACAAACATGTATTTTCTCTCACATTTTGAAATTTTAAGATCTGTTGAGTTGGTTCTTCTAGCCCAGATTCTCGGGCGGTTACATATCAGTTGGGGCTAGTTGGGACTGGAGAAGACTTGGTTGGGTGGGCCTGAGCATCGTTTCCAGCCAATGGTATTGGGCAGGAAGCTTCAGTCCCTTGGCCTATAGAGATTCCTATAGAACCGCCATGTCGGTGTGGCATGGTTCTTCTAAAGTTGCTTTAATTGTCAGTCCAGTACTTTAAGACGTGTGTTAAAAACGTAGGTACCAGCTGTTTGCCCTGTCAAAAATCTCTTTACAAGTTAATTGGCAGCTGATATAGAAGCTGATACATGACCATTTTTTGACTGAACCTTTTCTAATAATGTGGTAATCTTTGTAGGCCAAGGAAGAACGGAATTGATTAAACTGGAGTTTTAATACCGTACCTTTAAAGTCTCCTTTCTTCTTGAGTAGCAATAGCCACAGAAGACTGAATGTTGAGCGTGGAGGGAAGCTCACGGACATGCAGGGGATTTACAGGAGCTGTTGTAGTCCCACGGCAGGAATTATGCTTTCATAATTAAAGCGTAGAGAGAGAGGAACTGATTTGGGCTCTATCCTGCAGCTTGCATGTTTAGCTTGATACAATGTTACAATATCCATCGCCACATGCTTACCTCGATACAATGTTGCAATGTTCATTGCCACTGTCGGAACCTGATCTTCCTACTCTTCTCAGTTCTGAAAGGTGCCTTGATTTGCATGGAGATTTTCATATTCACTCTACTTTTACATTTTTACAAAAAGAGCTACATCTTTTCATTTGATATATTTTTTTTCTTCCCAG
Seq C2 exon
GAGAAAGATCCTCAACATTCCTCGAACGCCACACATCATGCTGATAAAATTCCTTTCCTTGAGTCGCTGGGTTTACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000060961:ENSMUST00000148750:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.126 A=NA C2=0.289
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF103594=Fmp27_WPPW=PD(27.3=77.8)
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