MmuINT0089627 @ mm9
Intron Retention
Gene
ENSMUSG00000002900 | Lamb1
Description
laminin B1 [Source:MGI Symbol;Acc:MGI:96743]
Coordinates
chr12:31973068-31974286:+
Coord C1 exon
chr12:31973068-31973180
Coord A exon
chr12:31973181-31974206
Coord C2 exon
chr12:31974207-31974286
Length
1026 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGT
5' ss Score
8.37
3' ss Seq
ATTCATCTTCTGATCTGCAGCCG
3' ss Score
6.5
Exon sequences
Seq C1 exon
CATGTGCTTGCAATCCTCTGGGAACAATTCCTGGTGGGAATCCTTGTGATTCTGAGACTGGCTACTGCTACTGTAAGCGCCTGGTGACAGGACAGCGCTGTGACCAGTGCCTG
Seq A exon
GTAGGTAATCCTGATCTCTGCAGATGAGAAGGTAGTGACTCTGACATGTTTGTTTTGTTTTTGAGGTAGGGTCTCAGTATGTAGCCAAGGCTGGCTTTGAACCCACAATCCTCCCGACCCTGCCATCCAGGCCCTTGTATGTGCATACCCCATACCTGGCAGATGAGGAATGTCTTTCCCATTTTTATTTTTTAACCCATAATTTTTACTTTTACATTTTAATGTTAAGGAGAAAAGTCAAAATGAGGGATTCTAGTGAATCATTTGACAAACTGCAATGAATGCTGCTTATGAAGACAAGTGAACAAGTCTGTCTTTTTTTTAATGGCATTGCTAACAGCTGGGTAAGGACATGAGTTAGGACTTGTTAGCTTCGAACAGAAACAGGTCAACTTACACTGTGAAAAGTGTTTCAGAGAGGTGTCTCAGGAACTACTAAAAATGTAATATTCCTAAGCTAGTGACCTCACTTCTAAGGCTCCTCATGAGATCCTCAGAGAACTGGACAAAGGGGCATTCCTGATAGACTCATTGCACCCTTATTAATTATGGCAGGAAACTGTAATCGATAGTGGGGAAAATGGTTGCCTAAAGTTGGGGATTTCCATACAATGTGATATTCAGTTGTGGAAAATGACATTAATGCAAAGAAGTGTTTACTTCATTGCATTTACAAACAAAACAGACTCGAGGTGTGAATAACACTTTATGTAGGAAAAAATTTCATCAAGACAGACAAAAATTTGGAGGAAGCACACCAATAATACTGGCCGTAATTGTTCTTTCTGCCAGAGCCACTTGAATGAGGAAAACCGATCCCTGTCTGCTCACTCCGAGCCAGGCAGGCCTTTCTTTCATGTGGCACAAAGCTGAGTTTCTTTAGTAAGATTATTCCTACTCCGGGTCTGTTCCCTTGGTTGGAAGAAATACTTGGGCTAATCCAGGCAGGCTGCAGCTTGTTCTTTGCTGAGTCTCTTGTACAGCCAGAGGAGCCGTCCTTTACACGATTCATCTTCTGATCTGCAG
Seq C2 exon
CCGCAGCACTGGGGTTTAAGCAATGATTTGGATGGGTGTCGACCTTGTGACTGTGACCTTGGAGGGGCGCTGAACAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000002900-Lamb1:NM_008482:11
Average complexity
IR-S
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=PU(72.0=94.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(24.0=44.4),PF0005319=Laminin_EGF=PU(23.9=40.7)
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:
ATGTGCTTGCAATCCTCTGGG
R:
TATTGTTCAGCGCCCCTCCAA
Band lengths:
191-1217
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: