MmuALTA1034858-2/3 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000045776 | Lrtm1
Description
leucine-rich repeats and transmembrane domains 1 [Source:MGI Symbol;Acc:MGI:2442106]
Coordinates
chr14:29021620-29027531:+
Coord C1 exon
chr14:29021620-29022216
Coord A exon
chr14:29027324-29027430
Coord C2 exon
chr14:29027431-29027531
Length
107 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGT
5' ss Score
8.54
3' ss Seq
CTTTGCTTTGTTTCTTGAAGGGG
3' ss Score
8.16
Exon sequences
Seq C1 exon
CTGCAGTGGTCAGGGGCTGTCAAAGGTCCCCCGTGATTTACCCCCATGGACAGTTACACTGCTCTTACAAGATAACCGGATCCACTGGCTTCCTGCTCTTGCATTTCAATCTGTATCACTGCTTTCCACCTTAAATTTATCTAACAACTCTCTTTCAAATCTGGCTGCAGAGGCTTTCTATGGACTTCCACATTTGCGGGTTTTAAATGTAACCCAAAATTCCCTGCTTTCCATAGAAAGCAGCTTTGCCCATGCCCTTCCTGGGCTCAGGGAGCTAGATCTTTCATCCAACAGCCTCAGGATCCTCCCCACGTCTCTGGGGAAGCCTTGGGAGAACCTGACTGTGTTTGCTGTGCAGCAGAACCATCTTCTCCATCTGGATCGTGAACTTCTAGAGGCCATGCCCAAGGTGAGGCTGGTACTTCTTAAGGACAACCCTTGGATTTGTGACTGCCACTTACTGGGTCTGAAACTCTGGCTGGAGAGATTCACCTTTCAAG
Seq A exon
GGGGAGAAACAGATGGTGCCATCTGCAGGCTGCCTGAACCCTGGCAGGGAAAGGCTCTCCTCTCCATTCCTCACGAACTGTACCAACCCTGTTCTCTACCTTCTCAG
Seq C2 exon
GATTTGGCACCCTCACTAGTCCAGCAGCCTGGTTCTGCCCCGCAAGATGCCCAGAAGTCTCATGAGAATAGCTCAGGACAGCAAGATCCCTTGGAGTGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000045776-6-6,6-5,6-4-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.385
Domain overlap (PFAM):
C1:
PF0146213=LRRNT=WD(100=15.0),PF138551=LRR_8=WD(100=29.5),PF138551=LRR_8=WD(100=30.0)
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAGCAGAACCATCTTCTCC
R:
TCCAAGGGATCTTGCTGTCCT
Band lengths:
242-349
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