MmuINT0089655 @ mm10
Intron Retention
Gene
ENSMUSG00000002900 | Lamb1
Description
laminin B1 [Source:MGI Symbol;Acc:MGI:96743]
Coordinates
chr12:31285626-31287604:+
Coord C1 exon
chr12:31285626-31285746
Coord A exon
chr12:31285747-31287415
Coord C2 exon
chr12:31287416-31287604
Length
1669 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
ACTTTGGTCTTGTCACACAGAAT
3' ss Score
6.74
Exon sequences
Seq C1 exon
GTTCACGGGCACTGCATGTGCAGACACAACACCAAAGGCCTGAACTGTGAGCTGTGCATGGATTTCTACCACGATTTGCCGTGGAGACCTGCTGAAGGCCGGAACAGCAACGCCTGCAAAA
Seq A exon
GTAAGTTGTCAGTGGGAGGGCTGCTGGAGGCCGGGGTTCCAGGCTCCGTTTCCTGGGGAGCTGCGGTCTGCAATTGCACTCTTTGCAGAAGGGAGGAGGATTGTGTCGTTCTCCTGGCTGTGTCTGTTCCAGAGCTGTAATATGTATGCACTGAGGCCAAGTTAAAAAAAAAAATTAGTATGTTTGGCATTGACTCGGGGAAATGGCAACGGGGTGTCCATGATGTTATATCTGCCTTTAAGACAAGAGGACGACAGGGCAACTGAACGGCAGATACGGTGCCTTTCATGCACTGAAGGCTTGGTCCCCAGCTGGTAGCACTATTGAGAAGTAATTGGGTCCCCAAGACAGTCACTCGATCAGTGGGTTAGTTCACTGATGACTGGCTGACTAGGTTAGTGGGTTAGTTCACTGATGGGTTCCTAGATAACTGGTTGTCTAGATTAGGCCTACTTGGAGGAGGTGCTTCTCAGAGGTGGGCCTTTGATGTTGCTTCTTGTTCCCAACCCTTTCTGATTGTTCTTCTGCTTCCTGGCTGCGGTTCCATGCCTTTCTGCCATCACATTCTGCCTTAGCGCAGAGCCAGCAGTGAGAGCTAGCCAGCTGTGGAGTCTAACCTCTCAAAACTGTGACCCCAAGGAAACCCTCCTTGAAGTCATATTCCTCAAGTGTTTTGTCACAGGGAGGGAAGAAGTCTGGCTCATTGTTAAGCTGCCCATGTGCCTGGAGTACAGGATATGTCACCTGCCTGTCACTGTCATCCCCCCCGACATCCTGTCATAGTCTTCAAATACGAAACCCCAAAAGGCTTCTCTAGGAATACATCAACCTGCAGAGTAGAGAGGATGTCAATCAGTTTCTACCCTGGGCGGGGCCAAAGCTACCTTCAGGGGAGTGGCATCCCTCCTAGCCAAGTAAATCAACATAAAGCAGGAAGGATCCATCAGACCGAGGTCACTTGGCTGTGCTGTTTCAGATCTGTGGGAAAGCAGAAGCATCATAGAAGAAGATAGCAGGGTAAAGCAGGGAGACAGAGCTTTCAGAGGTCACCCCAAGGACCTACTCTCTCCAGCCAGACCACACCTCCTACTTACCACCATCTTCCAGTAAGGCCTTTATGAGTCCATCAGGGGACTAAGCAACCCATGGACCAGGGCCTGCATGATCCCATCATTTCCCAACCAAGTCTTTTACACATGAACCTCATCCTGATTGGGGATTTTGTCCAAGAGTTTCCCGTTTATGATAACAGTATTTGTTTATTTATTTGGATTTTTGAGACAGGGTTTCTCTGTGTAGCGCTGCCTGTCTGCCCTGGCTAGTTACTCCATAGATCACATTGGCCCCAGACTCACAGATCTACCAGCATCTGCCTCCCGAGTGCTAGGATAAAGAGTGTGAGTCACCACGGTCCAGCCTAGCAATATCTGTTTATTATATAGAGTCCACGTTTTAAAAGTTGCTAACCTGATTTGAGGTCTTCGTCAGGATCAACGAGAAAGGCCAAGCCCTGTCTCATCACCAGAGGCTTCTTGCTGTTTGACTCACACACACACACACACACACACACACACACGCTCTGTTCAGTGAGCTTCCTTCCCGCCACATCTGCCCTGCATTGGTAGACAGGTTTTAAATTCTTGTTCTTGACTTTGGTCTTGTCACACAG
Seq C2 exon
AATGTAACTGCAATGAACATTCCAGCTCGTGTCACTTTGACATGGCAGTCTTCCTGGCTACTGGCAACGTCAGCGGGGGAGTGTGTGATAACTGTCAGCACAACACCATGGGGCGCAACTGTGAACAGTGCAAACCGTTCTACTTCCAGCACCCTGAGAGGGACATCCGGGACCCCAATCTCTGTGAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000002900:ENSMUST00000002979:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(61.3=92.7)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=95.3)
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:
GTTCACGGGCACTGCATGT
R:
GTTCACAGAGATTGGGGTCCC
Band lengths:
310-1979
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