MmuINT0089736 @ mm9
Intron Retention
Gene
ENSMUSG00000026478 | Lamc1
Description
laminin, gamma 1 [Source:MGI Symbol;Acc:MGI:99914]
Coordinates
chr1:155096975-155097653:-
Coord C1 exon
chr1:155097517-155097653
Coord A exon
chr1:155097098-155097516
Coord C2 exon
chr1:155096975-155097097
Length
419 bp
Sequences
Splice sites
5' ss Seq
TTGGTAATG
5' ss Score
4.83
3' ss Seq
GTCTTCATTCCTACCTGCAGATG
3' ss Score
11.13
Exon sequences
Seq C1 exon
ATGCAAACCTGGATTTTTTAATCTGGAGTCATCTAATCCTAAGGGCTGCACACCCTGCTTCTGCTTTGGCCATTCTTCTGTGTGCACAAATGCTGTTGGCTACAGTGTTTATGACATCTCCTCCACCTTTCAGATTG
Seq A exon
GTAATGTAGCCCTTATGCACCACCTCACAGGCCTCTAGAACTCCCAAGACCATTCCTATATGGGTAGTTTGGTTTTTTGTTTTTTGTTTTTTTTTATCAGTAACTTGGGAGTGTTTTTGATACTAGGGATATTTGATGTTACTAATATGCATAGTTTTTCTCTTGTGTGGCCCTTTAATGAGGACATACATATGATTTTAGAGAATGTATTGTAGTAAGCAGTGTCTGTAAATATTTTATTAAAAAATACAGCAAAATGTATCTTTCAAGGAACAGTATATATAGGTTCTGTTACAGGGTCTTTTTTGTTGGTGGTAGTGGTAATTTCCTTATAGAAAGTGCAGTTCATACACTTTGTGGGGCCTGGGTATAGGATGCTTGTCATCTGAACGTGCTCTGGTCTTCATTCCTACCTGCAG
Seq C2 exon
ATGAGGATGGGTGGCGCGTGGAGCAGAGAGATGGCTCGGAGGCGTCTCTGGAGTGGTCCTCAGACAGGCAAGATATTGCCGTAATCTCAGACAGTTACTTTCCTAGATACTTCATCGCCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026478-Lamc1:NM_010683:8
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=PD(33.3=34.0)
A:
NA
C2:
PF0005213=Laminin_B=PU(3.8=11.9)
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:
CTGGAGTCATCTAATCCTAAGGGC
R:
CAGGGGCGATGAAGTATCTAGGA
Band lengths:
238-657
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: