MmuINT0089746 @ mm9
Intron Retention
Gene
ENSMUSG00000026479 | Lamc2
Description
laminin, gamma 2 [Source:MGI Symbol;Acc:MGI:99913]
Coordinates
chr1:154978953-154980878:-
Coord C1 exon
chr1:154980729-154980878
Coord A exon
chr1:154979098-154980728
Coord C2 exon
chr1:154978953-154979097
Length
1631 bp
Sequences
Splice sites
5' ss Seq
AAAGTACGT
5' ss Score
7.99
3' ss Seq
TTCACTTTTCCTCGCCACAGATT
3' ss Score
9.9
Exon sequences
Seq C1 exon
CCACGCTGAGTCAGCTAACGCAATGAAGCAACTAGCAAGGGAAACTGAGGACTACTCCAAACAAGCACTTTCATTGGCCCGCAAGGCTCTGAGTGGAGGAGGCGGAAGTGGCGTCTTGGACAGCTCCGTGGTACAAGGTCTTATGGGAAA
Seq A exon
GTACGTTCAACCTGTCCTCATCTGGGGAGCCATAAAAGCTGACAGCTCCCAGTATATAATGCAAACCACACTTGAGAGGCACGAGAAACTATACACTTGCAGCAAGTGAGACTTAGAAGGCAGTAAGAAGGTACAACTGACTACTGTGCTGGGAAATGGCTGGTAACCCAGGATAAAAATAAGTACAGCACACCTAAATACAGGGTGATGGTTCACGTACCTACCAGATCTCACCTGTCAGGTTCCGTGTGTCCGCAGAGAGGGGATATGGCGGTCTGCACAGCGTACGCACATGAACTACCAAAGCACAGTGTAGAAGTTGGCCTACCAAATCAGGTTGCAGCCTTTTGTGCTAGCCTGCTGCTGGCCCACAGGCTTCTCAGTAGGATTGGCATGGAGAAGCTCGTGGAAGTGACTGGATTGGAGTGCAATGTGGGAAGCACCGGTGGCCAACCTGCTGGTACCGTCGTTTGCTATTTGGATGCAGGTCTTGTTTGAACTATGACTGGCCACAAAACTTTGAGGGTCATGAAGGGAGCCGTGGATGGAGGCTTGTCTATCCTCATCGTGCCTAACGATTCCCTGGTTATGACTCGGAAAGCAAATTCACTGCAGAAGTACATCGGAAGCACAGCATGGGTCAGACCGTTACAGACGACATGCGTTGCCTAGTGGGGGGAGATCAGGACGCTCCTAAGAAAGAGTTCTCTCAGTACACAAAGAACTCTGGAGCTCCAGACGTGACAGAGGGAGGAGATGGAGAATACTGCTCAAGCTGCAACCTGAGAGGATCCAGCCTAAGAGACAAAGCCTAAGAGAGCCGTGAGGAGGAGGCGGTGGAACCATCACAGATCAGGGTGCTCAGAAGAGGGCAAGCTCCCTTGGAGCTCAGGAACAGGCTGTAGAGAACTAAAGCAATTATTGATGTAATAATAATAATGATGATGATAATAATAATAATAACAGCAACAACATAGGCAAGAGAATGAGTATTTACTTTGGGGAAAGTATTTTTAAGACTAGGAAAAGAAAGGTTATGGTATCTAAGTAAAACTCGCATTCTTACTGAGATATGACAATACAGGGGGAGATGGTCCCCCTCCAGCTTATGAAGGCGTATATAAAACCATCTGACAGGGCCAGCGACAGAAAAATAGCACTTAGATTATCAGCAGTTGGGAAGCTTGAGTTGAATTTTTCTGACCAAACCTATACACAAACACACGCACATATACACACTGCCTGAGGAGGATGGGGAGAGGGAGTGTGAGTCACTAAGTCGCCAGCTTCTGGCTGACCTTCAACTCAGAGATCTACTTGTCTCTGCCTCCTAAACACTTTGATAATCATGCCTCCTGGCCCAACTACATATTTTTAAAAACAACAAGATGAATTTTATATATACATATATATGTGTTTGTAAACAAATCATATATATACATATACATATATATATGTGTGTGTGTGTGTGTGTGTATACATATATATAATATGTTTGTATTTGTAATCCTAGTTCTTGGAGGCAGGATAGCAGTAAGTTTCAGACCTGTCAAAGCTATATCGTAAGGTCTTGTCTTCCCCCTCCATTATTGCTATTATTATTATTAACCATTCACTTTTCCTCGCCACAG
Seq C2 exon
ATTAGAGAAAACCAAGTCCCTGAGCCAGCAGCTGTCAAGGGAGGGCACCCAAGCCGACATTGAAGCTGATAGGTCGTATCAGCACAGTCTCCGCCTCCTGGATTCTGCCTCTCAGCTTCAGGGAGTCAGTGATCTGTCCTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026479-Lamc2:NM_008485:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.314 A=NA C2=0.408
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CTGAGTCAGCTAACGCAATGA
R:
AAGGACAGATCACTGACTCCCT
Band lengths:
286-1917
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: