MmuINT0093495 @ mm10
Intron Retention
Gene
ENSMUSG00000055003 | Lrtm2
Description
leucine-rich repeats and transmembrane domains 2 [Source:MGI Symbol;Acc:MGI:2141485]
Coordinates
chr6:119320421-119324408:-
Coord C1 exon
chr6:119323649-119324408
Coord A exon
chr6:119321012-119323648
Coord C2 exon
chr6:119320421-119321011
Length
2637 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
TCCTCCTGACTGCTCCCTAGGGA
3' ss Score
7.54
Exon sequences
Seq C1 exon
GTCGTTGTGTCTCTCAGGCCAGCAGCAGAAGAGCAGGAAGCCCTGACCTGCGGGAGTTATAAATCGGCCAGCTGGCAGAAGACCAAGCTTGTAATTCACCTCAAGGTGATAGTGGGCTCAGAGGCAGGGGGTGGTGCAGCAGCTCACTCCCTACCTGTCAGCAGCAGCTACAAGGGAAGGGCCTCGCCTCTGCCTCCCCACAGCTATGGTAAGCTGGGCATTGGGGAGAATGACGGGACTGGTACATCTAGATGGAGGGGCACAGGTGGGAGCTGGGGTCTCACTCATTTACCTAGGAGAGATGCACCTTCATTTCTCCCCTGTGGTAAGCTTGGGGTGGTGGTAGTGGTGGTGGAGGAAGTGATATTGCAAGGGGATAATTTTTAAAGCCCCCCAGAGTGCAAAGAGGCCTCAGGGGAGTGAGGGAAAGACAGGGGGTTTAGGGGGCTGAGCTGGGGTTCAGCTGGCAGTTCTTGTGCCTTCCAGCCCACTTCTAGGACTGCTAGATCCTCTTGACCCCCTTCTTGCAGGAGCAACAGGAGAGGGAGTGAAGAATTGTAAAGAGACACCTAGGCCTTGTCCCTGACCCCTGGGCTGGAACGGGCATCAAATGCTTTGCTCTCTCTCTCAGGACTGACACGTGGCACATGCTGAGGGGCTCTCTCCAGAGCTGCGGAGAGTGTGGGTTTCACCATGTTGGCACCAGGCGGTGGCCCAGAGCAGAGGAGCAAGCTTGTCCTGCAATGGAGGCAGGTCTCCT
Seq A exon
GTGAGTATGTGCTCAGCATGGGGGGTGGGTGGGTGTGTGCATCTGACAGGGTGACAACAAGATGTCTGGACCATCCTGAATGCCCGGGGCTTTGCTTTGGAGGCCTAGACTCATGTTAACTAAAGAGAGTCCATGCAGAGTTCTTTCCAGAGGCTGGGAGGAGGCTGAACAGCCGGCTCTGCCCCTCTCCTTCCCTGGCAGTCACAAGCCAAGAGTTCTGTAAGAGAGCAACCCAGCTTCACTCCTTTATACTGGGATCTGCAATGTGTGCAGCAGGTGTGGAGAAATCAGCCCCAGGAGGGTCGCAGGGCCAGCCAGCCTCAGCTGTAAGAAAGCTACCTTCTCACATGGCCTCAGCCATCTTGCCTGCTGGATGAAACCAGAGGCCCCAGCGGGATCTGTATGCTTCAGAGTTCCCAGCCCTGTAGCGGCACTAGGGAGCTCTTAGGGTGCAGCAGTGGGAGAAGGGGTCATAGAGACTGGATCCATCACTCCCTCTACACACAGAACACCGAGGCAACGGCGCTAGTGAAAGCAGCCTTGTCCGGGAATGTCCTCTTCAAAGGGACAAGGTCAGCCATGGCTGGTTTGCTCATGGCTACACAGTAAGAAGTGAGAAATGACCAAAGGGACATTGCTCCACCTGACCTCCTCTGGCCTTCGGTCCAGTTGCCCTGACAGGGAGCTGTCTGAATTATTCACCAGGTGAATGGTTGATCCGGGGGCTCATATCCCTTTCATCCTGAGATCACTCTGACACCTCTCAGTGCAGGATTAGGTTTTCTTGTCACTAGAGCTTTGGTGCAAGTCTGAATTTGGTGATGGGGAGTGGGGGTAGGAATGAGGGGTGAGGGGGTTGTTTTCTCCTTATCCAGCTGCTAGTTTATCCACCAGAAGCTCTTGCTTCTTAAGGGGTCCATCTCCTTTCCTCCTCTCTCCCTTCTTCCCCTCTCCTTTCTTCTCCTCTCCCCCCTCTCTCCCCTATCCTTCCCTCCTGTCTCCTCTACTCCTTGGTTTCTCTCTCCTTTCTCTCTTTCTCTTCCTCCTCCCATGCTCCTTCCATGCCTTCTTTCAGTTTCTTTAGATAGTTGTTACACAGCCCAGGCTAGTCTCAAACAGTGGTCTTGCCCCAGCCTCCTTCCTAAGTGCTGAAGACGGATGTGTGCATCACACTTGGCTTCTCCTTGAGAGTAAAACATAAAGAATGTATGCACATAAAACAGTGTTTGTCATGTGTGCATGTGTATGTACATGTGTGCATGTGTGTGTATATGTGTGTGTGTGCACATAAAACTGTGTGTGCATGTGTGTGTGCATAAAACAGTATGTGCACTGTATGTGTGTTATGGGGCAGGCTGACCCTGTAGATGGGCTCAGAGGGGTTGGAGGTCATTTCGGGTGGCCTCAGGTAGCAGGGAAAGGTGACTGTATAACTAAGTTGTGCTCATTTTCCACCAAGAATAAAGTAGCTCAGGTGTCGGCCTCACAGTGTCTCCTTCACTGTCATTAATCCCACACGAAAGGGCAGGGAGAGTGTCATCTTGTCCTCCCTCAAACACTGCCTTCTGGGACTTCAGATGACCAGACACCCACCAGACAGACTGGAGACTGTCTCATCTTGGTGCCCTGGTTGGGTTGGCTGCTGGCCATCTGAGTAGGGCCAGCTGGGAGGCGACTGGCTTGAACCGCCTCAGTTCTCCATCTGGAGGCTCTCCTCCGGACTCTGGGTTGGTGTAACAGAGACAGAACTGTGTGTTCTTAGTCTCCCAGGTTCCCGGAAAGGCGGGCCTCTCTGGCACTTGGGGCAGTGGGACTGACTACAGGGCTACTGTCAGAAAGGGCTGTTTTCCAGGGCTCACTTCCAGCAGCCGTCCCCAGGCTGGACCCACATATTCTACTCAGAAGGGTCTTGGGGGAAAAAAAAAACGGACATGGCAGGAATCCGGTTACTTGATCCACCTAGAAATGCTACCTTGCCTCTAAGGCTGGAAGGACAGGATGGGCCTGGCAGCCTCAGAGTTCAAGTGCAGATGGAGCCACTGTTGGTCAGACTTCTAGTGTTGTAAGCTGTGTGCTTTACTGTGTCTTATCACAATGCTCCAACGCAGGTCCTAGCTGAGCCTTCGTCCCACTTTAGACATCGGGATCTGATAAATGGGCAGCATTTATGATACCGCAGGGGACACTCTGGACTCCCCTTTCATGACCAAAGCACATCTCAGTGTGATGTGGCTTCAGGTGGGGGTGAGGTTCCCATGGGAAGGACCCAGCCTTGTGGTCACAGACTGTGAGAAAGTTTCCCTGGCATTCTAATATTGTATATTTTATAAACAGTTGGGACATTAGGACATCTCAGTTCTGTGACACGTGAGCAGGAGCTGAGGACCTGTATGGCTTATCTAGGCTACTCTACTGACACAAGTGACTTTTTGGTCACAGTGTGATGTCACTCATGTTTAACATGAGTGTTTCAGGTTCCTAAGCACCTTCCTGTGTGGTCAATAAATATCTGTGAACTGACTGTAGCTTGTGCCAAAGGAGATGAGGCCAGGAAGGCACTTGGGTGTGAGCTGATGGGGGAAACTGAGGCAGGGGAGTCCAATAGCCTGTTATTCTCTCCTCCTGACTGCTCCCTAG
Seq C2 exon
GGATCACCTGCTGGATTGCCCTGTGTGCTGTGGAGGTGATCCCTGCCTGCCCCTTCTCCTGCACATGTGACAGTCGCAGCTTGGAGGTGGACTGCAGTGGCCTGGGTCTCACCACTGTACCCCCGGATGTGCCCGCGGCCACCCAAAGCCTTTTGCTCCTGAACAATAAGCTGAGTGCCCTACCAAGCTGGGCATTCGCCAACCTGTCCAACCTGCAGCGACTGGACCTGTCCAACAACTTTCTTGACCAGCTCCCCCGGTCCATTTTCGAGGACTTGGTCAATCTGACAGAGCTCCAGCTTCGGAATAACAGCATCAGGACCCTGGACAGGGACCTGCTCCAGCACTCCCCACTACTTAGACATCTGGATTTGTCTATCAACGGCTTGGCCCAGCTGCCCCCGGGGCTTTTTGATGGGCTCCTGGCTCTGCGCTCCTTGTCCCTCCGCTCCAATCGTCTGCAGAGCCTGGACCGGCTGACGTTCGAGCCCCTGGCAAGCCTGCAGCTGCTTCAGGTTGGGGACAACCCGTGGGAGTGTGACTGCAACCTTCGGGAATTCAAACACTGGCTGGAGTGGTTCTCCTACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000055003:ENSMUST00000068351:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.130 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0146213=LRRNT=WD(100=15.2),PF138551=LRR_8=WD(100=30.8),PF127992=LRR_4=WD(100=23.2)
Main Inclusion Isoform:
NA
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