MmuINT0094094 @ mm9
Intron Retention
Gene
ENSMUSG00000030922 | Lyrm1
Description
LYR motif containing 1 [Source:MGI Symbol;Acc:MGI:1921169]
Coordinates
chr7:127057687-127060264:+
Coord C1 exon
chr7:127057687-127057779
Coord A exon
chr7:127057780-127059654
Coord C2 exon
chr7:127059655-127060264
Length
1875 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
ATATCATTATTCTCACTCAGATC
3' ss Score
7.14
Exon sequences
Seq C1 exon
CTCACAGACCCAGAGCTGATTAAACAATGCATAGTTGAATGCACGGCCCGGATTGAGATTGGACTGCATTACCAGATCCCTTATCCACGCCCT
Seq A exon
GTGAGTATGAGCGCCGCCCCTGGGCAGTGCAGGTCTTTCTAAGGGTGTGTACCACGAGGGCTAACATTCACAGAGGAGCAAGAGCCATGGGAGGAAGCGTGCTGGAAGTACGTTATCCTGGCATGCCACTACCCGTCACAGTAAACCACTGTCTACACGGATATAATGCCTGGTCTCTTCTGGTGCAGCTTCCCGCAAGCTGGAAGGGGAAAGCAGCTCCTAGATATAAAGCTACTCTTTGGGCCTTCACCCATAGTTTTATAGAGATGCATTTATTTTCTTTAGTATAAAAGGAAAGCTTTTTAGATACGAAAAAAGTAAAGTTCAGATATTAAAAGATTACAGAAAGAAAAAAGTGAAAATTGTCAAAAATTCTCACCTTTTGGAAGAGACCAATGTAGTTTTAAAATGTCCAGTTTTCAACTCTTTGACTTACCTGGTAATATTAGTTGGTAATATTAGTTTTACACACACACACTTTTTTTTTTTTGGTTTTTTCGAGACAGGATTTCTCTGTATAGCCCTGGCTGTCCTGGAACTCGCTCTGTAGACCAGGCTGGGCTTGAACTCAGAAATCCGCCTGCCTCTGCCTCCTGAATGCTGGGATTAAAGGCATGGGCCACCACGCCCAGCTCACGCACATTCTTTTATACATGAGATTCTAGGTATATATTTTTTAACCTACTGATTTTATTTCATCTCTTCTGAGCATCTTTGTATACAGCTCTGCCTCAATCCTAAATGTTTGCATTGTATGATATTGTAAGAATGTGCACTCATTGTACAAGTCAGGGTTCCTCCAAGAAACAGAAGGAAGGAAGGAGATCAGAAGCTATAGATTGATGGATGGATGGATGCATGGATGGATAGAAACAGATCACACAGTTATGGAGGCTGAACACCCAGGACAAAGCTAGTGACATAATTCAGCCTGATCTGGAAGGCCTAAGAATCAAAGAGGCTGATGATAGAAATCTAGAGTGGAAGCAGAAAAAATGGGATGTCTCAACTCAAATAAGATGAGCAAGAAGCAAAAGAAGTGGATTCATCCTTTGCCTTTTTCTTTTCAAGCCCCACTAGTTTGGAGGATGGCCCTCCACATTGGGGAGGGCAATTTTTTGAATCTACCACTTCATCTTATCTCCAAGTACCCTCACACATACACCCAGAAATGATTCTTAGTGAAAGTCAATCAGATTTACTCATAAAATTAGCCATGAGAGCCATACTGTAAGCGAGCCATACTGTAAACATTTTCTACCTCAGTAAACATTTGAGTTGGCCCATTGTGCATTGAACATCTTCGCACCCAAGCACCTTTTCCCTTTTTCCTTCCTTGTGTGCCCATTTTGCTGAATGGATCTGTATTTCTTTTCCTGTGTCTAGGCACAGTGGAATAGATGGATGCAAGCTCTAAACCAGATCTGGCTTTAGATCCCTTTCTACCACTTCCTGTGTGACTTTGAACAAGCTAGTATTCAGTTTCTCTGAGCCTCCATTTTTTTATCTATAAAAATTATTTTAAAATGGCTTAGGAGGGGGGCTTGAGAGATGGCTCAGAGGTTAAGAGCACTGGCTGCTCTTCCAGAGGACCTGAGTTCAATTCCCAGCTGGCTCAACCATCTGTAATGAGATCTGGTACCTCTTCTGCCTGCAGGTATACATGCAAGCAGAATGCTGTATACATAATAAATAAATTAATTTTTAATAAAGAAAAAAATGGCTTAAGAGGCTATCATAAGGATAGATCAGTGAATTCAGACATATGAATAGTAATGAGTCTGTGGTCGATTTAGCACTGAAAAACAGTAACTCCTCGGTGAATATAAGCTACACTAGTGATTAATGATTCTTCATATCATTATTCTCACTCAG
Seq C2 exon
ATCCATCTGCCTCCAATGGGTCTCACCGCACGACGAGGTCGGGGACTTCAAACCCAGGAAAAACTGAGAAAACTTTCCAAACCAGTGTATCTGAAGTCTCATGATGAAGTTTCCTAACAAAGAGGACACTTTACTTTTGAGAATGGTGAGCCAACTCAGTTTTGAATGTAAACCAGGCAATATATCCTTCTTGACTAGAAGCAAAACTACTACCTTCAGACCTCCAAAATTGGTCTTAACCTATGACATGTGGCTGCAGGCATCCCTAAGGTTTTTCAGGGTCTTGCTTGCTGCTTGAACTATGACATTGTCCCTAGAGGTCATGGACTTTACATCTTCACTGAAGTTGTCCTTGGGAGCTATCTGCGGCCTACAGAGGAAGGCTGAAGGGAATTCTTGGGGCTGCCATCCAGTGTGCATCGGATGCAAAGGGATTAGCTAATTGCTGCAAGTTCACATGGCTCCAAAGCTACCCTTCTCCCCAAAACTTGAGGTTTTTCCGCAAGTTATTTTCATTTGCTTAAAACTGGTTTCTGTATAGGCTTTTTTGTGGTCTCCTGATTCTTGTAATTTTCAGATTTACCCACTTATAAAGGACAGCTTTAGATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030922-Lyrm1:NM_029610:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.105
Domain overlap (PFAM):
C1:
PF0534710=Complex1_LYR=PD(28.4=61.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCGGATTGAGATTGGACTG
R:
GCAGCAAGCAAGACCCTGAAA
Band lengths:
342-2217
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: