MmuINT0089500 @ mm9
Intron Retention
Gene
ENSMUSG00000024421 | Lama3
Description
laminin, alpha 3 [Source:MGI Symbol;Acc:MGI:99909]
Coordinates
chr18:12726175-12730592:+
Coord C1 exon
chr18:12726175-12726341
Coord A exon
chr18:12726342-12730408
Coord C2 exon
chr18:12730409-12730592
Length
4067 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTT
5' ss Score
7.51
3' ss Seq
GTCTCTTTCTATACCCACAGGTT
3' ss Score
11.36
Exon sequences
Seq C1 exon
CTGTTGCAAGATGCACCTCAGGCTGCAAGGAGCATAGAGGCTTGGCAAGATGGGAAGTCCTGCCTACCACCTCTGAACACCAAGGCCACTCACAGAGCCCTGCAGTTTGGGGACAGTCCTACCAGCCACTTGCTATTCAAGCTTCCCCAGGAGCTGCTGAAACCCAG
Seq A exon
GTATTTCACCTCTTTTTCTTTTTTAAAAAATATCTCTTGTTCCATCTAACACCAACTGAGAACCAGCTTTCCAGTCTCTCCAAGGATGTCTAAGCCCGTGACATCATGCTCATGAAGGAGGTGTTGTCAGGTTTGTATGGGGGCTGTCATGTGCCCTCCCTCCCTCTACAGATGGAATAGACATGTGCCTGCTGCTGCTGACGCTGATACTCAGGACCTAAACAATTAGCTCAGCTCTGGCTGAGAACTAAAGGTGTTCTAAAAATAAGGCTGTTATCCCACCCCAAAGCTATTCATTATTTATGTGATAAATCACCTTTCTTCTCTTTAGTTCTGTACTGAATAGGAAATCATTCTCTTAGGTAGCCCTGGTGCCAGATTCCTAGAGGATGCTATTAGATTTTTTTCTTTTATGCTAACAAGTTGCATCCCTGTCGGGGGGGAGGGGCTGAGCAGAAATGCTAATGACTTCGGAAGAAAGAAGGAAAGCAAGGTTTGCCCTTCTCCGATGTCTTGAAGGAGACGTTTAGGGAAGAATGCCAACCATTCCTTCAGACTTTCATATATTTAACAGAGGCCAAGGGCCCAGGGGTCAGAAAGACCAGCTTGAACTCTGGTTCTTAGCCTTGCCTCTAACTACAAGCTGGCTGTCATCTGCCAGATCAGCTTCTCTGTGATATGGGTGCCAGGATGGGTCTGGATAGGCAAGAAGTTCAGTAATGGGAAGGCTTGCAAAAGGTGGTGGTAGGAGGAGCAGGCGTTGGCTGGGAGAGATGAAACTGGGTTGGGCCACTTGTACAGATGGAGTGGGTCTCAGGCTGCAGCTATCTTGTCCTGCAGGGCCCTGAAGGAGAGATCACCTTAGAAGAGTCAGATTTGGGCATAAGAGTCTGTGTTGTAGTGTGTCTGCCACTCTCAACAGACCCAAGGATGTGACACCTGGGGACCCCTCTATGCTCCTGTAGCAGGCCTTCTGGAAATGAGCACATCTTGGTCACCTTTGTACACAGTGTGTCATTTCTAAGTGTAAAATTCATTTCTGGGTCTGCCCGACAATTTAGAGAATGGTTATCTCTCTCCCCTCCACTTTCTCATTGGTTAAAAGAGGGCAATATTGATTTCCTGACGGTGAAGACGGGTTCATAGTTTAAATGAGGTTGGCCCTTGGTAGCCCACTCAGTGAAGCACAGGATGATTCAGGTTTGACAGTCAGGAAGACCTGAAGGAAAAGTCTGAGCAAGAGGTTTGTATGTCTCCAGTGACCCCTGCCCCCATGGAAAGTCTAAGAATCTTTCATTTGCTGAAATTGGGCTTGTAGAAGCCAGAGCAGGAGGAGGGAATGGCCTTCCACCAGTTCTTCTGATGACATCATCATTTCTGGGAAGGGAGGCCCATTGTCAGCCTTGGTCATGCTGACCTTGATAGCAACTGCTCATCTTAAAGAAATGGCATCTGTAGATGCTGCCCTGACTGCCCTGTCCCCAGCCTTCCCCGGCTTCTTCTCTCCCAGCTCCCCTGGCCCAGCATCTTCTCCCTTCCTGCATTCAGCATGTTGATTTATCTGCCTGCTTGTGAGTCAACCCTGATACTTTCTCATCCAGGTAACATTTCAGTGTGGGGTGGGGTGGGGGCAGTCACTACAGCATCAGTTACTTTTCGCATCTCTGTGACAAAAACAATATAACAACGGAGGGTTCACTTGAGTCCCAGTTTGAGGGTACAGCCCACTGTGTCAGAGAAAGCAGCAGGAACATGAGGCTGCATCGCGCCCACAGCCAGGAAGTGGGGTGGGGGTGGGGGTTATGCAGCCCGCTTTCTTCTTTTCATTTAGTCGGGGATCCTAGCCCATGGGTGGGGTTTCCTACATTCGGGATAGATCTTTCCTCAACTAAACCTCTCTGGAAGATGCTCTGGCAGTTGTGATTCTACAGCAGAATGAGCACATCTTTTTCATCTTGAAGAATGTGATTCTACAGGCTCTGTGTGATTGGAAAGCCTGTCAAGGTTAACTGTATGTTAACTGCATATTCACATTAGTGTGTGTGACTGAAAGCTCTCCAGTGCCGACTGTTTAGCAGCCATGCTGTGAGAAGTTGCCAGCTCTGCTGTGTGATGTTACCTTCACTCTGATTCACTCGGATCTGTGCTCTAGCTGTGTTTGACAGACCCCCAAGGCTGGCGCCACCACGTTCGCCTGCAATGAGTATTTAAATGTACCCTTGAGCCTCTCCGTTTTCATCCTGCAGTGAGGGGTCAGAGCTCTGCTGCCAGGTTCTTGGATGTGAATCTGCTGCTTCCTTTTTGAAATGTTAGTCTTTTCTGCAAAATGATTGCCTTAAGAAACAGTTGTGGAAAGCAAACGCCAAGTCTGATCACTGAGCCCACGTATGCAAAGTGCTGTGTGCTCTGGAGTGAGTCCCAATACTCCTTTAAGTTGACACAGGCGACAGACATGTCAGGAGAAACACGGAGTCGCGGGCCATCTGGGTGATTTCATTTAACAAATATGGGTTCTTTTTCATCTTGAAGAATGTTGCCCTCCAGGAAACCTGTTCTTTTGATGAACAAATATGCATCTTAGCCTCACAGTGTTGGAAAGCAAAGAATTAACAGTATAATGTTGCTATCCACATCCAGAGTCTATCTCTGAATTATTCATTTCCTACTTAACTCAATTTAGTCACTATTTGTTGGATGTGTACTGTGTATAGGCCCTGCTCATATAGTTACTAGCAAGATAAACCTGGTCTCTGTCCTCTAGTGGGTACTTAGACATGAACCCCAGGGAATGGGTATAAACATCTGTACTGCCTTTTCAAGTTGTTCCGCCATGAACTTGTTGGTGGCCTCACACACCATAGACTATTTCAAGAAACAAAACTCCCTGCCTGTATCCCCAGTGACCAGCACAGTGCCTTCTGCACACTGAACACTCAGTAACTATTTGTTGGACGATTAACCAGTTTTGATAAATGGTTTGATGGATGGATTCATAGGATCTTCATATATACAGTAAAGCTTGCTTGGCTCAATTTGGAAATGATTTGAAACCATCATATAAATTATGCTAGCTCTCAATTTTTGGCTCCATAATAATATTTTATAATTCCTCCTCCAGGATAGTTGAGGTCTGGGAGTCAGAGCAACGGGGAGAGCAGGAGAAGGTGAATCTCTACTCCTGTGCTTTGTGTTAAATTTGTCCCATAGAGAGAACATGCTCATCTGACGTCCAACCACGTTCTCACTAGTCAAGCTGCCCCCCCCCCCCCGTCCTCCTCCGACTTCCCCCCCTGTGCAGCTGTACAAATAGAAGGCGTGTTTGTTGGGTTTAAATAGTTTGTATTAGTAAGAGAGCTAATCTGGTCACAAAAAGAAATGCTGTGAGGTTCCATTTGCATGAGGTACCAAGAGCATCTGCTGAGGAAGAAGTAGAAGGGTGGTCTAGACACTAAGCACAGGGAGGACAGAGAGCTGCTGGGAAAGGTGGAGCCTGTGCTTCACACGAGGAGGAGCACCGCAGATGGTTTGTGTAACATTATAAATTAACTCAGTCCTAATGAACCGGACACCCAGAAGTGGTGGACATGGTAAATTCAGATGAATTGTAGCATAATTTTAATGTTGATTTAAAAGTCCAAGTATGTTTCTTCTTCCCACATGCTAGGACTTATACACTAGCTAAACTTGCCATAGAAAATCTGTGCAATTCCCTAACATAGTAAAGAAACTGTACAGCAATACTATTAACATCTAGTATGTTCTGCCTTCTGGAAGTCTCATGTCTCTGGGAAGTAGCTTACCGCCACTCTTCTTCTGAGATGCAGGGAACTGAAAGTATATATTTCCCTTCAATGGCCATTTCTTTCCTATTTATTTATTTATTTTTGGTTGGGTTGGTTTTGTTTTGTTTTGTTTTTGAGAAAAGATAACTGCTGTATACCTAAAAACCTCTAGGCAGCCCCAGTTGGTGTCACACTTGTAATCGCCCTGCCTCTGGAGTTCCTGAGAACTGGGGTTATAGGCCAGCATGCCCAAGTCTTGTTTCCTGTCTCTTTCTATACCCACAG
Seq C2 exon
GTTACAGTTTTCTTTGGACATACAGACAACTTCCTCCAGAGGGCTAGTGTTTCACACAGGCACCAGGGACTCCTTTGTGGCTCTCTATCTCTCAGAAGGCCATGTCATCTTTGCCTTGGGGGCAGGAGGGAAGAAACTGAGACTCAGAAGCAAAGAGAGATACCACGATGGGAAGTGGCACTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024421-Lama3:NM_010680:68
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0221019=Laminin_G_2=PU(44.6=87.1)
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:
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: