MmuINT0089463 @ mm9
Intron Retention
Gene
ENSMUSG00000024421 | Lama3
Description
laminin, alpha 3 [Source:MGI Symbol;Acc:MGI:99909]
Coordinates
chr18:12649981-12653936:+
Coord C1 exon
chr18:12649981-12650121
Coord A exon
chr18:12650122-12653774
Coord C2 exon
chr18:12653775-12653936
Length
3653 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
CCACAATTACTGTGCTCTAGTTT
3' ss Score
4.05
Exon sequences
Seq C1 exon
GAAAATGTAGAGGGCCCCCAATGTCAACTGTGTCGAGAAGGATCATTCTACCTGGACCCAACAAACCCAAAGGGTTGTACCAAGTGCTTCTGTTTTGGAGTGAATACTGACTGTCAGAGTTCGCATAAGCAACGAGCTAAG
Seq A exon
GTATGTGAGAGATCAGTCTTTGGGTTCTTGGCCAGTATCAGCAGAAGCTGTGGCATGTTTTGTGTATTTGATTCACATAGCCACTATTGCCCTTACTGTAAATAGTAAAACTGTTCCCTCTTTCCCACCCCTGCTCCTGCAATGACAACTCTGAGACTAATTATTTATTAACAAATGCCTAGACCATGAGCTTTTGCTCATTCCCTTACTAGCTCACAACTTATTTAATCCATTCAAACCATTCTGTGTCTTCCACATGCTTAATTACCTGTCCTCAGCTTCATGCGTCCAAGTCCAGGAAAATCTCTTTATTTTATCCTGAGGTCAGCTAAAATGCTGGCTTACATCCATCTCTCAGAACTCCTGGATGAATCTCTCTTTTTATTCTATCCTGAGTTCATCTATGTGGCCAGTTACCTCTGCTGAGCTCCCATGCTTCTGACTGCCTCTCTCTTCCCCTTGCAAATATTCACACCTCTCACTGTTTCCCAGAATCCTCTCTCTTCCAGCCAGTGTTCCACTTCCTATTTCCTGCCTCTGCTCATTGGCCATCGGCTTTTTTTAATGACAGGTGATGCTTCTCGCTATACCTCACTGCACAGATATCATGATTGTTCCTCGGGTTATTCAGGTCTTTGATCCAGTGTCATGTGTTCAGGATGCTTTCTCTCAGTACTCCTTGCAAAATAGCTCATCCTGGTCACTCTCTGTATTGCTGCCCTTGATGTCTCCATAACCTGTAGCTCTTTATGCCTTTAACTTTAAGAATTATTCTTTCCTTTCTTAATCGGTAGAATGTGAGCTCCTTAACACACACCAGGGCTTAGGACAGGATTTGGTACATAAAAGATGCTCAGAAAATAGTCATTCAGTGATAGAATTTTACAAAGTATCCAGACAGACATCTGGATAGACAGACCCGCAGGGTGAGGGTTGGAAGGTCCACAAGCACACTGATTCTGTCACTGTGAAGTGACATGCCATGTCCTTGAACCTTTCCACCCCTGATGAACTTTCTAAAGAATCATTTATTGTCTTCATAGAGTTCCCATTATATAGGTATGATTATTATCTATCATTATCCATGGCTGATTGACTGGTAATTGACCTACGGGAACGTTAAGGGTGGGCTGAAAGTTCTGCCCCTCCTCATACCTACTGGTCTTTCTGGTCTCTAGTTCCCATCCTGAGGCTAACTAGGGAGCCGAATAATCAGCGTCTCACAAGCATACAGAGTAGATGTTTGCACGTGTCTGGGTTCATCTGTGTGTGCAGATATGCTGTGTGCATGTGTGGAATAGATGTTGATGTTGGTGTCTTCTCTTATGGTATTTCACCATACATATTGATGTGAGCTCGCTCTCTCTCTGTCTCTCTGTCTCTGTCTCTGTCTCTGTCTCTGTCTCTGTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGCAACTGTATATGGGTTCTAGGGATTCAGACTCTGACCCTCACGTATTGCAGTAAGCGCTTTAGTCTCTATGCTACTCCTCCAGCCCCACAGAATATGTATTTATGATGGTAACAGCATATTCTTCATTCTCTCTTTATAGTCTTCCTGTTTTACTTTCTTTCTCAAATATTTTATCACATCTTAAATTTGCCTACTTTGTGTAGTGTGTGTGTAGTATGTGCATGTGTGTGTGTTCATAGAAGGGTGTGTGTATATGTATGACGAAGCCAGAGATCAATGTCAAATGTCTTCCTCTATAATCTCCACCTCAGCTTCTGAGCTTTTCAGTTTCTCAGTTTTCCTCACTGGCCTGGATCTTGCAGAGGGAAGACTCACTGGTGCCCTCCCGTCTTCATTTCCCAAGCACTGGGAGGGACCACAGACGCATGTCACCGTTTAGCGTGGGTTCTTGGAGATCAGACTCGGGATCCCGTGCCTGTGAGACACAGGCTTTCCCAATGGAGCCCTCACTCTAGCCATCTCTGTCCACTTTTTAACTTCATAAAACTAAGACTTTTATCAACTCTATTAGTCCATGAACCAGTAGCAGCATGTGTTCTGTTTTTGTGTAATATTGGTTTATACATTTGACTACTTCCTGAATGGAGGACGGACTGGTGAGTGGAAGAAATTAGTTTGTGTATCTGTTCTGTAGCCTCCCCTTCTCAGCCCTCATGAAACCAGGAGGCTTTTATCCCTAAGCTACTCCTCGTCCAGTCTTTATCGCTCTAAATAGAGCAGGCTTCCTTGGTGACAAAGGAAATATTTTATTTTGGCAACTGTATTCCATAACACATTTTTAAAAATGTTCCATTTTTAGTGTTATTCTAAACCTTAAGAACTAAGTTAATTTATTGACCATTTTATACACGTATAGAACGAGTTCTGATTATTCCTTCCCCTCCCTCCCCCTCTTACCTCTCTCCCACAGCTACTTACCCCTTTCTTTCCTTCCTGTCCCTTTCCCAGATCAATGACCCTTGGTTTGGTTTTGTTAACCATTTAGTTTACTAGGGTCATCTGAGTGACTGTTGAATGGTAATTCCCATAGGAGCCCGATTGAGTCACTGCTGCTTCCACAGCTAATGGCAGTTGACTCCCTCTTTTCATGAATCTGTCTATAAGAAACAGTTCATCTGTGGTATTCTAAGTTTCTGGGCTAATATCCACTTATCAGTAAGTACATATCTTGTGAGATCTCTTGTGATTGGGTTACCCCACTCAGGATGATGCCCTCCAGGTCCATCCATTTGCCTAGGAATATCATAAATTCATTCTTTTTAATAGCTGAGTAGTACTCCATTGTGTAAATGTAGATACAATTTGCTAAACAAATGAAACTCAAGAAGAACGAAGACCAAAGTGTGGATACTTTGCCCCTTCTTAGAATAGGGAACAAAACACCCATGGAAGGAGTTACAGAGACAAAGTTTGGAGCTGAGACGAAAGGATGGACCATCTAGAGACTGCCATATCCGGGGATCCATCCCATAATCAGCTTCCAAACTCTGACACCATTGCATACACTAGCAAGATTTTGCTGAAAGGACCCAGATATAGCTGTCTCTTGTGAGACTATGCCGGGGCCTGGCAAACACAGAAGTGGATGCTCACAGTCAGCTATTGGATGGAACACAGGGCCCCCAATGGATGAGCTAGAGAAAGTACCCAAGGAGCTAAAGGGGTCTGCAACCCTATAGGTAGAACAACAATATGAACTACCCAGTACCCCGGAGCTCTTGTCTCTAGCTGCATATGTATCAGAAGATGGCCTAGTCGGCCATCAGTGGAAAGAGAGGCCCATTGGTCGTGCAAACTTTATATGCCTCAGTACATGGGGAATGCCAGGGCTAAGAAGTAGGAGTGGGTGGGTGGGGGAGTTGGTGGGGGAACGTGTGGGGGACTTTTGGGATAGCATTGGAAATGTAAAAGAAATAAATACCCAATTAAAAAAAAAAAGAAATAGTTCATCTGTGATAGGAATGGCCCCTTGAGGTCCTCCTATATCCTTCTTTATGTGAACCTCATCTTCTAAAGATTTATTTACTTATTACTTGTGTATATGTGTATGTGTATTCCACACGAGTGCGGGTTCCGTCAGAGGGCACTGGAGTTGCAGTTCATTGTTCGAATGATGTAGCAATCACTCTAAAAGCCACAATTACTGTGCTCTAG
Seq C2 exon
TTTGTAGACATGATGGGCTGGCGTCTGGAGACAGCAGATGGAGTTGATGTCCCTGTGTCCTTCAACCCTGGCAGCAACAGCATGGTGGCAGATCTGCAGGAGCTGCCACCCTCAGTTCACAGTGCATCCTGGGTGGCACCTCCATCCTACCTAGGTGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024421-Lama3:NM_010680:34
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=0.167
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(51.0=53.2)
A:
NA
C2:
PF0005213=Laminin_B=PU(8.1=20.4)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: