MmuINT0089649 @ mm9
Intron Retention
Gene
ENSMUSG00000002900 | Lamb1
Description
laminin B1 [Source:MGI Symbol;Acc:MGI:96743]
Coordinates
chr12:32012510-32014134:+
Coord C1 exon
chr12:32012510-32012686
Coord A exon
chr12:32012687-32013974
Coord C2 exon
chr12:32013975-32014134
Length
1288 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
GTCTTAAACTCTATCTGCAGACT
3' ss Score
8.56
Exon sequences
Seq C1 exon
ATTGAATCTGAAACGGCAGCTTCTGAGGAAACCCTGACCAACGCCTCCCAGCGCATCAGCAAGCTTGAGAGGAACGTGGAAGAGCTTAAGCGTAAAGCTGCCCAGAACTCTGGGGAGGCAGAATATATCGAAAAAGTAGTATATTCTGTAAAACAGAATGCAGACGATGTTAAGAAG
Seq A exon
GTAAGTAGATCTTTGCAACTTCATAGCTAAGGTGGTAAAACGGTAATTAAGTTTTTTTCCTTACCTTCCTTGACATTAATAAGATACAAACAGCCCAATGACCTATTTTAAAACAGAAGTCTTTTGGATAAATGAGTAAAGAATGGAATATGGGATAAAACTGTAAACATAGGCCCTTAGATCTCTACATGGGTATGAGTTTAGAAGAATGAATTATATCTGGGGTGTGCTCTAAAAGTATACACTAGTTATTTCTGTACTGTAGGTTCAGAGAGGACTTTTTGACATGGCAGTTAGCCACCCATTTGAGAATAATTTAAAGACAGGATGGGAAAAGCTTAAGAGTCCCTTACACAGAGTAGCTAGTAGGAAATCAAATTGCTACCTTTTCTCTCTCCTTAGAAGGTGATGTATTTAGCAAATTTATGTTTCACATATATATTTCATTTCTAAATTTACTTCCAGAGACTGCTTGTTAAACTTGGAAGTGAAGTTAGGAATGTTAAATCTGGCATGTAACCTAATTCTGATTTCTTCCAATTGGAGAAGGAAAAAAAAAAAGTTGCCAGGCAGTGGTGGCCCACGCCTTTAATCCCAGCACTTGGGAGGCAGAAGCAGGCAGATTTCTGATTTCGAGGACAGCCAGGGCTACACAGACAGAAAGGAGAGGGGAGGGGTGGAGAGAAGGGAAGGAGGGAAGAAAGAAAAACAAAGAAAAAGGAAGGAAAGAAAGAAAAGAAGGAAAAGTAATACTTTATAGCTTCCCAGTATAACATAAAAATAATTTCAGTGCACCTGAATTGGGAAGACAGGCAAACCTAAGAGAAATTCTTGCCAGGTCAGACTACTCTTTCCTGATCTTGGTTCTGTACAGTCTGAAGGCACAAATCTCCCAGACATTTTCATGGCACTGAGAAAAATGACACTATTAAAAATATCAAAGCTCTATATGGGGGGGGGGGGGGGGGGAAGCGGTGACCAGGCTGGCCTCAGACTCAGATCTCCCTCCTGCTCCTTAAATCTGGAATGCTGGAATGCCCAGATTTAAGTGTGTACACAACTAGCATCACCTTGTTTTATGTGTAGGCTACAGTGCGGACTTATAATTCCTAATTTTTCTTGCATTGTAAATTTTAAAAACAACTTAATATGAAGCCCAAGTACTTTGATATTCCTCTTTGATAAGAAGCTTGCTTGTCCGGAAAAAAGAACTGTCTTTCATCTAGGGCTCTTGAATGTAATTACTGACATACCCGTTTCATCTTTCTGTCTTAAACTCTATCTGCAG
Seq C2 exon
ACTCTAGATGGCGAACTTGATGAAAAGTATAAGAAGGTAGAAAGTTTAATTGCCCAAAAAACTGAAGAGTCAGCAGATGCCAGGAGGAAAGCTGAGCTGCTACAAAATGAAGCAAAAACACTCTTGGCTCAAGCTAACAGCAAGCTCCAGCTGTTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000002900-Lamb1:NM_008482:31
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.508 A=NA C2=0.111
Domain overlap (PFAM):
C1:
NO
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:
TGAATCTGAAACGGCAGCTTCT
R:
GCTGGAGCTTGCTGTTAGC
Band lengths:
326-1614
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: