MmuINT0042012 @ mm10
Intron Retention
Gene
ENSMUSG00000026853 | Crat
Description
carnitine acetyltransferase [Source:MGI Symbol;Acc:MGI:109501]
Coordinates
chr2:30412983-30415442:-
Coord C1 exon
chr2:30415312-30415442
Coord A exon
chr2:30413247-30415311
Coord C2 exon
chr2:30412983-30413246
Length
2065 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
GGCTGTTCTGCATCCCACAGGTA
3' ss Score
9.37
Exon sequences
Seq C1 exon
AACCGGAGCCGCGAACCCACTGACCCCAGCACCCCAGCAGTGGCGCAGTCTTTACCCAGCGCGAGGGGCGGAGCGGACCAAGTGTCCGCAAACAGACTGGGACGATGTTAGCCTTTGCTGCCAGAACCGTG
Seq A exon
GTGAGTTCGCCCAGCAGGGCCATGGACGGGACAAGACGGGCGGGCCTCCAGCAACGGTCAAGAAAACCCCAGACCGGCTGGTAGGGTGCGATCTGCAAGGTGGATAAAGGAGACCAGGTAAGGGGTGGGTTCGATCCCAGAAGAAGACTGAGAAACCTAGGTTCAAGTCTTTTGTACCTTTCCACTCCACTCCTCCCTAATGCTCCCAGTTATTCGGACTCAGACACCTGTCGGGGCTACTGGTTAGAGAGCTCAGCCCTAGGCTATGCTTCTGCCCGACTAGAGCCACTTCTCCAAGCCTACCCAGTCTCCTTGAGTTCATCAGATGCCCACCCTCCCCATTGCATATTGCTAAGAGAACCTCAGGTGGAGACTAGTACTGAAAATCCCCCAAACAGGCAGGAGGAGGCAGGAGGTGGCAGGCTGCCCCTCACCATCCTTATCTAAAGCAGCTATCCTAATGGTGAGCTCCTGTCCTCTCTGATTCAGGCTGTCTATCCAGCTGTGAACTGGACTGCCCTGTCAGACACTGGGTTGGCAGCTAAGACTGAGATTCTACTAAGAGTCCTGGCAGCACCTGAGACCCTCCTCCAAGTCGTCCCGCCTTCCGTCACCCTCTGGGACCACCTTACTGCATAAGCATTTTAATGCTAGGGAGACTGAAACAAGGAGACAATCAAATCCCATGGTTGTGCTAATAAACTGAGCCCAAATGGGGTCTTTTGGCTTATTACTCACAGCAGAAGCACAAAAGTGTATTTCCCCCACTATTGATCCCAACCTGGATGATCCAGAACTCATTTAGAAAAAACAAACAAACCACCAAAAGAGGGGTGGCCACCAAGGCCCTGAGGTCTGGAAGGGAAACAGCTGGGCAGGTGTGTGGCAATCGTTGGTTGTCCACTAGTGGCCCTTCCCTGGCATCTCCTGTCTTGCACCATTCCCAAGCAGGGCTGATTTCAGGGCCACAGGTTAGCGGCCAGCCTGTTTCCACCCTCCAGCCAAGTTTTCCCACATCAAAAAGATCTATGAAGATTTTGACAGGTGGATTTTTTAATACCTCTCTTGGCTTGCCTCCCTGGCACTGGGCCCATCTAAAGAAGACAGGAGAGAGCTCCCAGTCTCCTCTTACCTCAGTACCTACTTCCAGCCCACTTACCTGCCTTACTCCTCCTCTTCTGGAGGCTAGCGAGAGGCAGAGCGGCATCTGCAGCCCCACAGCTACCACTGCTCCAGCCTTAGATGCTACCACGCCAGTGGCTACTGCCTCACCACCCTTCACGCCTGAATTGTGAGTCTTGTCTTCTCTTTCCAGTCCAGGCAGGTGGCCGCTCTTGCTAGTTTCTGCTCATCCAATTGGTAGCACAGTTAGGCTTAGAGGTCCAGCCCAGGCAGACAGACAGGGCTCACATCCTCAGTCCTGCCATGGAGGACGAGCAGCAGAGAGAGAAGGTATGGAATGGCGCTACTGCCGCTTGCCTGCCACTGTGCCAGCAGCCTGGGCCCTTCCTGTCTTGCTTTCTGCCACCTCCAGAGTCTCCGGGACTCCCTCTTCCTGCCTCTCTCTGCCACCTCTCATCCTCCATGCCAGGCCACTCAGCGCTCTTGCTGCAGCACTACCCACGCCCCTCACCACCGCCCCACAGTGGAGAGAAAGCACAGAGGCTGAAGCCTCCCCCAGAGGTGCTGTCACCAGCTTACCCATTTCCAGTTCTCTCCGATTTCTTAAGCTGGAAGCGGGGGGGGGGGGGGTGAGACATGGGGGGGCTTCGCTTAAAGAGTCAGCTGCCATCTCTCTCGTGCGTCCTGACAGGTGGGAGGTCCCCTTACCTCTGCCACCCCAATAATGTGACTCATCTACACCCCCACCCTTTCCTAGCCTTCCTGCATATATAGGCCCCTGAGAGACGGTACTCCTGTACCTTGAGGGCTGGGCATCTAGGGCAGGCCCCACCCATGAAGCTGTCTTTGCCTCCAGGGGATGGCATATAAGGCCTAGGAGTGTAGTTTAGAAAGAGCTGTGCTTCAGTCTGAGAGAATGAGTAGGCTGTTCTGCATCCCACAG
Seq C2 exon
GTAAAACCCCTGGGCCTCCTCAAGCCCTCCTCCTTGATGAAGGTTTCTGGTCGCTTCAAGGCCCACCAAGATGCACTGCCAAGGCTGCCTGTGCCCCCACTTCAGCAATCCCTGGACTATTACCTCAAGGCACTGCAGCCCATCGTGAGTGAGGAAGAATGGGCTCACACCAAGCAACTGGTGGATGAGTTTCAGACCTCAGGGGGCGTAGGGGAACGCCTACAGAAGGGACTGGAGCGCAGGGCCAAGAAAATGGAGAACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026853:ENSMUST00000102855:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.072
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0075515=Carn_acyltransf=PU(10.8=71.6)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
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
- 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