MmuINT0089645 @ mm10
Intron Retention
Gene
ENSMUSG00000002900 | Lamb1
Description
laminin B1 [Source:MGI Symbol;Acc:MGI:96743]
Coordinates
chr12:31324176-31326377:+
Coord C1 exon
chr12:31324176-31324320
Coord A exon
chr12:31324321-31326169
Coord C2 exon
chr12:31326170-31326377
Length
1849 bp
Sequences
Splice sites
5' ss Seq
CTGGTCAGT
5' ss Score
6.6
3' ss Seq
GTGGTCTTTGCTTTTCACAGAGG
3' ss Score
7.58
Exon sequences
Seq C1 exon
GTCTCTGAAGCAAAAGTGAGAGCAGATGAGGCGAAGCAGAATGCGCAGGATGTCCTGTTAAAAACAAATGCTACCAAAGAAAAAGTGGACAAGAGCAACGAGGACCTGCGGAACCTCATCAAGCAGATCAGAAACTTCCTGACTG
Seq A exon
GTCAGTGGTGGCTCGGTTTTACTTGGACTTTCAGACATTGGTTCCTGTGAGATTCTGTTTGAGAGGCCAGAATTCCTGTCTGAGTTGTAGGTAAAATAAGTTTCTGGCAAGAAATAAAGTAACGGAAGAAGTTCAGCTTCATTTCAAGCTGAACGTGTAAGTGCGTGCCTGCAACCCTAGAACTTGAAAGGTAGAAGCAGCGTCAGTGATAAAAAGACGAGAGGAGACCTAGCCTGCCTTAAGGAAAACAATATGTGTGTGCATGTACGTGTACAAAGGTGCCCAGAGATGCCAGCGGGATGTCAGATCCGCTGAAGCTGTCCAATTGAATGCTGAGCTCCAAACTCTGGCTCTCTGATAGGGCTTGAAGCTAAGCCCTCTCTTTATTTAGCTCTTCCTTTCTTGAAGTATATGCTGTGATTTACCTTCCAAATGTTCTGCACTGCTGTACCTGCTGGGGCTCCTAAGCAGCCTCTCTAGAAGTGAAAACATTTGCTCTGAAAACTGAATTAGAATTTCTGTCTTGAGGACCTTGAAGGTGGTCTTCCTTTGGCAGTGCCCCCAAGGCAGAACCTAGCAGTTGGCATTTTCTGTGGAGAAATCTCTAGAATCTGGTTCAAATTTTAAGTTTTGATTATAGTACATGTTCTATCAATATGGATATTACTGGTGTAAAACACAGAAAACTCCCAACTGAATTAGAATTAAGAATTTATATCACACTGGGCAGTGGTGGTGCACACCTTTAATCCTAGCACTTGGGAGGCAGAGGCAGGTGGATTTTTGAGTTCGAGGCCAGCCTGGTCTACAGAATGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTTTTGAAAAACAAACAAAAAATTTAAATCACATAACAAGTCCAAAAGTAGTGTAAGTTCATGGGACTTTGCCTCTCCCTCTTTTGCCATATTAAGCCTATCAACTTCATTCCTGAGACAGCCCCATCATAAGTTACAGTCTGACATGGTAACAGTGGCTGATGAGGAAGAAGACGACCCCTCCCTCCCTACTCTTTTGCTAGCCCCTTTTTAGGAGGATAGAACCCTTTAGGCATTCCCATGCATCTCGGGCCAGGAATGAGTCACGGTCCATACATAGATGGCACTGAAAGTGGAACGTGCCTATAGAAATGGGCAGACAACGATTTAGTGCTTATGATTTATCTTGTCTGACTTTCAGATAGATATTCTGTTGACAGAAAGTAGAAATGACTAATAAAAACTGTTTTCCAGTGACAACTGGAAACAAGATGCGGAAGCCGTGACGTAACCATATATTTTACCCCGTTTAAGTGCTCTGGGGTCCATATTTATGTTCTTAGTCAAAAAATGAAAACACCATGGAGAGATCTGAGCTCCAGAGGTTTGCTGATGATGTTGTCTTGGCTCTTATAGCATTTAGTCCCTTCCAGAGTTCTCATAACTGGTAAGGAATATTGATACCTTTTTCCTTTTTGAGATAGGGTTTCTATGCAGTCCTAGTTATTCTCATTCACTTTGTAGACCAGGCTAGCCTTGGTCTGGGACAGTGTATATCAACCTCACTAAGTGTAAAGGTTTTTCTTCCCTTGCCGCCCCAGCTGTAAATGCTGGGCTCTTGTCTTCCATAACCTGAAACCACAGCTATACACATACAATATGCTGTCTGCCCTCTCTCCAGCCTGAAATGTTCTTCAAAACCTGCTTGGTTCCCAAACTCTGCTGGCATCTACTTCTCCATGAGAGGGGCTTGTCTCTAGCAAGGGTATGTCTCTTGAAGTGGCAGGTGCTTGCCATGCAGCTGAGTGAACCAGCTCTGTGGTCTTTGCTTTTCACAG
Seq C2 exon
AGGATAGTGCTGATCTAGACAGTATTGAAGCAGTTGCTAATGAAGTACTGAAAATGGAAATGCCTAGCACGCCACAGCAGTTACAGAACCTAACAGAAGACATTCGGGAGCGAGTTGAAACCCTCTCTCAAGTAGAGGTTATTTTGCAGCAGAGTGCAGCTGACATTGCCAGAGCTGAGCTGTTGCTTGAGGAAGCTAAGAGAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000002900:ENSMUST00000002979:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.531 A=NA C2=0.300
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCTGAAGCAAAAGTGAGAGCA
R:
TCAAGCAACAGCTCAGCTCTG
Band lengths:
334-2183
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