MmuINT1031428 @ mm10
Intron Retention
Gene
ENSMUSG00000027880 | Slc25a54
Description
solute carrier family 25, member 54 [Source:MGI Symbol;Acc:MGI:1921936]
Coordinates
chr3:109112770-109116687:+
Coord C1 exon
chr3:109112770-109112917
Coord A exon
chr3:109112918-109116336
Coord C2 exon
chr3:109116337-109116687
Length
3419 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
ACTTTTTTTTTAATTTGTAGTCA
3' ss Score
7.85
Exon sequences
Seq C1 exon
CTTCTGAAGAATCACTGGCTAGAACACTATGCAGGAAACTCGGTGAATCCTGGAATAGCAATTGTGCTGGGTTGTAGCACAGTGTCACACACTTGTGGCCAGTTAGCCAGTTTTCCACTGATTCTTGTTAGAACTCGCATGCAGGCTG
Seq A exon
GTGAGTTTATTATTATTATTATTATTATTATTATTATTACTATTATTATTATCAATCATCATCATCATTATTATTATAGTTTAATGAAGTCATCACTGAGGTGAGAAATATATTTTAAATAAATATGAACTGATAATTTTAAAGGCAGAAAACTCATACAATTGAAAAATGAAGAAGCTAACCAATTTAAAGCACTTTAAGGATTCATTTATTTATTTTATGTGTATGAAAGGGTTGCTTGCATGTATCTTACGTGTACTACATACAAGCAGTGCCTGACATGTCCAGAAGAGGGCAGTAGATCCCCAGGAACTGCAGTTATAGATGATCCCGTGCCTCCACATGGGTGCTGAGAACAGAACCTAGGTCCTCTGAAAGAGCAGCACGTGCCCTTAACCACTGAGCCACTCTCGAAACGTTTTGTAAGTTTCAGTTTTCTTTTTCTTTTAAAGTTCTGTCTGGGGCCCTCCACATTTGCTTCAGTTATCTCTTTAAGGAGATTTTAATTAAAAAGGGCATGTAGAACAATAGAAAAAAATTGCATTCTTTCAATCAAACCAACAGCTAATCTACAGAGGCACACTGTGATGGTTTGTATATTCTTGGGCCAGGGAGTGGCACCATTTGGAGGTGTGGCATTGTTGGAATAGGTGTGTCACTGTGGGCGTGGGCTTAAGATCCTCACCCTAGTTGCCTGGAAGTCAGCCTTCCACTAGCAGCCTTTGGATGAAGATGTAGAACTCTCATCTCTGCCTGTGCCATGCCTGAATGGATACTGCCATGCTTCCACCTTGATGATAATGGACTTAACCTCTGAACTTGTAAGTCATCCCCAATTAAATGTTGTTTTTATAAGACTTGCCTTGGTCATGGTGTCTGTTCACAGCAGTAAAACCCTACCTAAGACACACACCATCCTTGGTCTTGCTGTCACTGCAGTGAGCTGCTTCGGGACTCTCTGTTCTTCTGTCTGTTCAGGGAGGTAATGGCAAACACTATGTGTTTTGTTTTTTAAAAATCACTTTTCAAAGATGATCAAAGCAGCAAAACAGTGCTATTTTCTTCCTGAGTAGATCAAGGGTCTCACAGTGGGTAATATGCTTTTCCTTTCTCTCTCCCACTCTTTCTTGGTTAGGCTTTGGATTTAATTTATATTAAACTTGAGATGGAGAATTTCTTTCTCCATGATCACTCATAACATCTATTAAACTACCCTTCAGTCTAATGCCTCTGTGAAGCCTCTCATGAAAGACTTGCAAGTTGTTCCAAGGACCTTTCTGTTGTGATGGAGATCATTTCTATCTGTTCTCGCTGGTATAGAGCCATGCATTATATCCATACATGTCAGGCGTTTGAAATGTGCTAATATTACTGAGGAGTGGACATTTAATTTAATTAAATTTAAATAGCCACATATATAGTCACTACATGTGGTGGTTTGAATAAAACAGCCATCATAGACCCATGGGAAATGGCACTATTAGGAAGTGTGGCTTTGTTGGAGGAAGTGTGTGACAAGTGGTGGGCTTTGAGGTCTCAGATGTACATGTCAGGTCTAGTGGATCACAGTCCCTTCCTGCCGCCTGCAGATCCAGACATAGAACTCCCAGCTCCTTCTCCAGCACTATGTTAGTTTGCATTAACCATACTTTCCACCATGACCATATAGACTAAACCAATGAAATATAAGACAGCCCCAATTGAGTGTTTTTCTTTGTAAGAGTCTCTGTGGTCATGCTGTCTCACAGTGATAGAAATCCTAAGACAGAAGTTGGTACCAGGAGTGGGGTATTGCTGATAGGATTGACCATGCTTTTGTTTGGAGGAATGTGTACTTTTGATTTGAAAAGCAGTCAAACACTTTAAATGGGCCTTAATGGTCCATACTAGTAGGATCATAGAAAACAGTGGTGATGAGCTTGATTTGAGCCACTGAGGTTGATTTGAACTGTGGGAACCTGGCTCAAGAAGTTTCAGAGAAACCTTGGAGAATGTCGGTGTATGGCCTAAAGACTATTGTGATATTTTGGTGAAGAATATGGCTGTTTTCTGCCCTTGTTCAAAGAAAAAATCTGCCTCAGGCTAAATAGAAGAGTTTTGGGTTAACTGCATTTGCAGAGGGAGATTTCAAAATAGTCTGTGTCTATATGTGGGCTGGGTCATATGGCTATTAGTGGCCACACTTATGCAAATCTATAATGAAAAGGAGCAGACTGAGCGAGGAAAGTTACAAAAATGTACAATTTAAGGAGAAAGGAGGCATCAAGAAGTGGAATGGAGCTAAATCCTGTGTTCAGGGAGATAAACAGATTAAAGAAAATTCTGACATTTAATAGAAAAAAAGCAGTGGTGACCTCAGAGCAAGATCCTACCCAGCTAAGCTTTTAGTTGTGAAAAGGAATTAAAGAAAAGCTTAGAGCCAGATGTGATGTTGCAATGCCTTTAATCCCAGTACTCTAGAAGCAGAGGCTGGCAGATCTCTTGAGTTTGAGGCCAGCCTGGTCTACAGATTGAGTTTCAAGACAGCCAAGCTTAGGTAGTGAAGGAAACTGTTAAGCTGGTAAAGATGGAATTGAACAAGGAGGCCATGTTGCAGCCCCAGCAAGCAGCAGAACTTGGCAGCTTTGGCCATGTGGTTCTGTCTTTAGAGTCAAGGATAGAAGAAAGGGGTTATGGAATCTCCCTCTGAGACTAAGGGAAACCACTGAAGCCAGGCATGTGGCAGGGATGTTCCTACATGGAGGCCTAGAGAGGCCATTGTGTGAAGCTGTGAAGGTGAAGCCTGGATTGCCTTGGAGAGACTCCCAAGATGTTGGAGAAGCCGAGGCTGTGGGATATCTGCTTAGGAAGATGCTAATGCGGAGTGGAACCAGCCCAAAAGAAAGTGTGTGTTGAAGACAATATCCATAGAAGGAGTTGGAGGTCTGAAGACCATTTTGACATCTGACATGGAGACACAATGTTTGGAGTTTGGCCAGCAGTTTTCAATCTTACATTAGTCCAGTATTTCCTCACTGTGCTCCTTTTGGAACTGAAATATACACCTTGTGCCTGGAAGTATGTGATGCGTTTTGATTTTGATTTTATAGGGGATTGCAGTTAAGAGATTGTATGGATTTCCAAAGAGATGTTGAACTTTGGACTTTTAAACAAGTTTTCGGTTGTTATAAACTATGGGAACTTTTTAAAGTTGTACTAAATGCATTTTGCATTATGATATGGCTACAAGCCTATAGGGGCTTTATATAGCCTATAGGGCTACAGAGTGGACTGTGGGTATTACGCTATTGATGTATAGCATCATTCTGTATATGAGTATCCTGGGAAATGATTTCCATTTCTATAAGCTCTCATTATCTTTGGGCTAGATTGATATGTAAATATTAAATACTGAGTTATACTTTTTTTTTAATTTGTAG
Seq C2 exon
TCATGCTGGAAAAGGAAACAGTGCGCATGATGCAGCTCATTCAGGAAATATACACTAAAGAAGGGAAGAAGGGATTTTTCAGGGGCTTCACCCCTAATGTCCTCAAGCTGCTTCCTGCAGTGGGCATTGGCAGTGTGGCTCACGAACTAGTGAAAAGGCTTTTTGGATTAATCTAGAAGTGGAATACCAAACTGTCATCATTGCCATCATCACCAAGGTATCAGATCACACCTGGGCTAGATGGTGATCTTGCTTCTTCCTAAAAAGAAAAAGCATCAAATACTTGTACAAAATTACTTTGTCTTTGTCTATTGTAAGATATGCAAATTAAATGGTAGTTTTGGTAAAATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027880:ENSMUST00000029478:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0015322=Mito_carr=PD(9.7=18.0),PF0015322=Mito_carr=PU(37.4=68.0)
A:
NA
C2:
PF0015322=Mito_carr=PD(61.5=94.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
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
- 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