MmuINT0089757 @ mm9
Intron Retention
Gene
ENSMUSG00000026479 | Lamc2
Description
laminin, gamma 2 [Source:MGI Symbol;Acc:MGI:99913]
Coordinates
chr1:154997874-154999303:-
Coord C1 exon
chr1:154999167-154999303
Coord A exon
chr1:154997997-154999166
Coord C2 exon
chr1:154997874-154997996
Length
1170 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAAG
5' ss Score
5.2
3' ss Seq
AGCAGTGTCTTGTCTTGCAGATG
3' ss Score
9.22
Exon sequences
Seq C1 exon
GTGCCGACCAGGCTACTATCATCTGGACCGGGCAAACCCTGAGGGCTGTACCCAGTGTTTCTGCTATGGGCATTCAGCCAGCTGCCACGCCTCTGCCGACTTCAGTGTCCACAAAATCACTTCAACTTTCAGTCAGG
Seq A exon
GTAAAGTATCTCTACAAAGGGTTTTGCTGGGGTTTTTTTGTTTTGTCTTCTTTTTTTTTTTTAATTTAGCATTGTACAAAGATCTGTGACTTGTGTCTAGGACAGTGGCTTCCCTAGTCATAGGATGGCTTCTCAAGTCATGGTTCTCCACTTCCCAGGTCCTGGGATTACAAAGCTGTCCCATCACATGCAGTTCAATTCTGTGCCAGGGATCGAACCCAGGACCCTGGGTATGCTAGGCAGACACCTTCCTAACTGAGCTACATCTCTAGCCCTCTTGTATTATTCTTTTTAATGTACATTATATTGTCGGGATAAGACAAAACATATATCTTTAAAAAAATTACAGTGGAACAACATATAAATAACTTAAAAATAACTAAAAGGGAGACAAGCTATTAACATCCCTCTACTTCCCACCCATATCTATTTTAAAACCTCAAAGAATCACTCATGTGGAAGAGGGGTTTATGAGAACATCTCAGAATCCACACTCACTAATAACACCCTATCGAATTGAGTTAATATATATCTTTAGCTTGCTTCAGAACACAACAAAAATATTGGAAATTGATATTATTTTTAGCTAGATTGAATTTTTGCCTCACTCCATTAAGGCCCGATCTTGTTTTGTTGAGCACCGTAAAAACCACAAATTATAGGCAGGTGAGAGCAAGCATAGAATCACAGGAGTCCAAAGATAAGAGCCAGATAGAGATAAGACAAAGAAAGGGCCATCAAGAGGGCTGGGGCTAAGTGCACTTGCCACCAAGTCTGAGGACTCGAGTTCTACTCCTAGGATCCTCATAGTGGTAGAAGAGATCTGACTGGGACAAGTTGTCCTCTAACCTTCACACACACACACACACACACACACACACACACACACACTATGGCATGCACACACATATATACACACACATACTGTGGCATGTGCACACACATACACATGAAATATTATATAGATATAGATATATATTTAAAAAGGCAAAGCTGCTGAGGCCAGGGCCTGGTGGATAGGAGTGACTGGGGAATTCTGAAAACTCTAAAAGAAAGCTAAAATGCTGAGCAAACCCCTTTCTACTCCTGGGGCTTTTTGATCAGTGAGCCTTGCCATGCCTAATTCAAGGGACAATGGGATCAGTCTCATAGCAGTGTCTTGTCTTGCAG
Seq C2 exon
ATGTGGATGGTTGGAAGGCGGTTCAGAGAAACGGGGCACCTGCAAAACTCCACTGGTCACAGCGCCATCGGGACGTGTTTAGTTCTGCCCGAAGATCAGACCCCGTCTATTTCGTGGCCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026479-Lamc2:NM_008485:6
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(34.8=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:
ACCAGGCTACTATCATCTGGACC
R:
CAGGGGCCACGAAATAGACG
Band lengths:
254-1424
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: