MmuINT0089453 @ mm9
Intron Retention
Gene
ENSMUSG00000024421 | Lama3
Description
laminin, alpha 3 [Source:MGI Symbol;Acc:MGI:99909]
Coordinates
chr18:12626761-12628459:+
Coord C1 exon
chr18:12626761-12626869
Coord A exon
chr18:12626870-12628361
Coord C2 exon
chr18:12628362-12628459
Length
1492 bp
Sequences
Splice sites
5' ss Seq
TTGGTATGC
5' ss Score
5.91
3' ss Seq
TTTACTTATTTTCTTGACAGTAT
3' ss Score
7.72
Exon sequences
Seq C1 exon
CATCCCGTGCAGGAGTGTGGTGATTGACAGCCTGAGTCGCACGGCTGTACATGAGCTGTTGGCAGATGCAGACATTCAGCTCAAGGCGCACATGGCCCATTTCCTTTTG
Seq A exon
GTATGCCTTCATCTAGCCCACTGAACTTTCAAAGCCTTCTTCTGTCATCTGTATTTCTCAAAAGCTTTTCAAAATTTGGGCTGCAATTGCATTGTATCTATAAATTCAACTTTGACAGTTCTCATCCTGAGCCTCCTTCATGTCACCTCATAAAGTTCAGCCATCAAATATGAAGGCATCCTACCAAAAAAAAAAAGATATTTTATTAACTTTCATTTATCACTATTGTAAATGAAGTGCCTTTTACCATTATATTTTCTACTTTATTGTTATTATGTCTAGGTACAGAATTGACACTGAACATAATTTAATTTCTGTCCATTTTACTATTCTATATAGTTCTTGGAGTGCTTTATTTAAACTTTATAACTGGTTATATAACAGTACTCTATATTTCAATATGGGTTTTCCCAACTCATTAGGTATATATTCTTAAAATTTAAATGCCAACTGTGACAGATAAATGGCATTCATACCTACCCATGTGACAGTGGAGCTTGACTACTAAGAGCAGTGGGATCTGCCTAGGAAGGGATTGTTAAGATTTACATAACTATCTCAGGGGACTTAAGATTGCCTAAGTGTGACACAGCATCCTGTTACTGCTGGCAGTAAGCATGCATCAAACTCTGGGGAATGCCAGGGGGAGTGTGCTTTAAATATTGTGCCTAACCTAACAGGAGTAAGTAAAACACTTCAAACTTAAGTAATAGTTTGAAATAAAACTTTAAAAATGATTGCTATGAAATAATGGTTTTCCTTCACAAATCTAACCTCTTCATTTTTGGAAATTATCCTGGGACTCAGTTTAAGTGTGGATTTGCCCTTTGACAAATATCCCAAGGTCACTGAAAGTCAGGCTAACTAGGATGGAGGCTCCATGGAGTAGGAATATTGTCCACCTCTGTCCTATAGATGCCTGGAGTCCCAGTGATGGTCCATACATTTTTGTTTTTGTTACTACAAATCCACTTTGTCACCAAGCTGATTACATAGTTTGACTTCAAATGCAATAAAAGACACTTTAATGGCTGAGTTTCTTCAGTGGCCCCAAAGCTAGCTGTAGAACAAATCCTTCAGGGTTGGTGTGGGCCGAGGTCTGAGCCATCCTTTACTAAGAAGGGTGCTTCTCCAGATGACGCCACGTCTTTGAACCCAGGCTCTTCCTCCTGAAGCATTTCAGATACCAGCCTTGAGCAGTAGTAGCCCCATGTCACAGAGGAAAAAAGGCACCGAAACCCACTGAACAGGCTCCTCTGACTCTGTTCTTTGTTTGGGAAAATATTCCAACAATAATGTAGTCAGCGATCCTGTACAATAAGGAAAGGGGTTTGCTGCCCGTGGAGGTTCTACATGTTTGCCACCCTGCAGTTTTATTCCTTTTATGTAATATAAATTTTCTGGATGAGTTTTTCACTTTTTAAAAAAGAGTTTGGAACGGCCATTAGTTTTACCAATAATTGTTGTGTGTTTTTACTTATTTTCTTGACAG
Seq C2 exon
TATCACATTTGTATTATACCAGCTGAAGAATTCTCAACTGAATATTTGAGACCTCAAGTCCACTGCATTGCCAGCTACAGGCAGCATGCTAATCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024421-Lama3:NM_010680:25
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
CATCCCGTGCAGGAGTGTG
R:
TTGGATTAGCATGCTGCCTGT
Band lengths:
206-1698
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: