MmuINT0089739 @ mm9
Intron Retention
Gene
ENSMUSG00000026479 | Lamc2
Description
laminin, gamma 2 [Source:MGI Symbol;Acc:MGI:99913]
Coordinates
chr1:154990856-154991862:-
Coord C1 exon
chr1:154991644-154991862
Coord A exon
chr1:154991039-154991643
Coord C2 exon
chr1:154990856-154991038
Length
605 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
TTCTTTCTTCTACACTCCAGGAG
3' ss Score
7.2
Exon sequences
Seq C1 exon
GTACAGGGTACATTGATAACGTGACCCTGGTTTCAGCCCGCCCTGTCTCTGGAGCCCCAGCCCCTTGGGTTGAACGTTGTGTATGCCCTGCTGGGTACAAGGGACAATTCTGCCAGGAATGTGCTTCTGGTTACAAAAGAGATTCGGCAAGATTGGGGCCTTTTGGCGCCTGTGTTCCCTGTAACTGCCAAGGGGGAGGGGCCTGTGATCCAGACACGG
Seq A exon
GTGAGTGAAGTGACACCTGGACCAGTTGTCCCCAGGTAGAGGCGGAGGAGTGGGGCTCCCGGAGAAGCAAGGGCTGAGGAGGAAATATCATACCTGAATTCGCTTAGGGGATGGAGAAAGAATGGGGAGCGTGGGACCAAGGTCGAGGGAGCCAGACGTGGTGACAGTACACTTGACCTCTTTTCATTATGGAAATGACATAGGATTGTAAGTGAAAGGTGCCAGGTTACAGGAAATGACTTGTCATGCTCCGTACAAGGTGGGGGGATTGGTGTTGGGTTGCAGGAATTGTGTGGGGAGATCAAAGGCAATGCAGGCTCTAAATGAAGGTGGTGACCAAACGGTGTGACCATGAAGGATAGGGGAACAGTGCTATTCTACGGCCAGTGAGGATGTGTGTGTCTAACTGAATGTGACGCGTAAGGCTGAGATCCAAGGTGGTGGCCGTGTTTCTGTCTGGTTCAAGGGTGAGGATGAATGTCTGTCAGCGTTCAGATGCTGAGGGAGGCTCTGGGAAGGCTGGGGCCTCTGTAGACTGATCCCCACATTCCATCTACACTGACAGAACTATGTATCAGCAGTCATTTCTTTCTTCTACACTCCAG
Seq C2 exon
GAGATTGCTACTCGGGGGACGAGAATCCTGACATTGAGTGTGCTGACTGTCCCATCGGTTTCTACAATGACCCACATGACCCCCGCAGCTGCAAGCCATGTCCCTGTCACAATGGGTTCAGCTGTTCAGTGATGCCTGAGACAGAGGAGGTGGTGTGTAACAACTGTCCCCCTGGGGTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026479-Lamc2:NM_008485:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.007 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005213=Laminin_B=PD(18.3=32.4),PF121913=stn_TNFRSF12A=PD(66.3=77.0),PF0005319=Laminin_EGF=WD(100=50.0)
A:
NA
C2:
PF0005319=Laminin_EGF=PU(52.8=45.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
TAACGTGACCCTGGTTTCAGC
R:
ACCTCCTCTGTCTCAGGCATC
Band lengths:
354-959
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: