MmuINT0089517 @ mm9
Intron Retention
Gene
ENSMUSG00000019846 | Lama4
Description
laminin, alpha 4 [Source:MGI Symbol;Acc:MGI:109321]
Coordinates
chr10:38785410-38787840:+
Coord C1 exon
chr10:38785410-38785526
Coord A exon
chr10:38785527-38787660
Coord C2 exon
chr10:38787661-38787840
Length
2134 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
TCCCTCTACTCTGTGTGCAGGGG
3' ss Score
8.72
Exon sequences
Seq C1 exon
GCAATGATGAAGCAGTGGCTGACACCAGCAGGCGTGTGGGTGGAGCCCTGTGGAGGAAGGGCGCCCTCAGAGACAGACTGAATGATGCTGTTAAGCAACTACAGGCAGCAGAGAGAG
Seq A exon
GTAAGGATCCAGAGCTTCAAGATCCTGTGTGTTTGTCCACTGGTGTAAAACAGCCTTGTGGGGGGGGGGGGAGATTAGGTGACTCCTTTGTCATCAGCTCCCTACTCATCTTAGGGTGTTTGTTCTCTCCTGACCAAAAAAGAAAAAAGTTCATTACTATCCAAGAACTACCCTCAGAAATAAAGCTACAACCATATCACCCAGAGATGAGCATTAAATGAAGAATTTTCTTTCCATCTTTGCTCTGTGCCGCGTGCATATGCCTGCATGTGTTTGAGTAGGATCGTGCTGTTCATACTGCTTGGTTGCCTCTCTTCTGAATGTTATTCCTTGCTTGCAGTATGCCCTAATTTGGTCATTAGATTACTCTGGCCCCCCACTGTAAACAGCATCCTTCTGTTAGATGTCAAGTTGTTCTTATCAAATAAGCAAGGAGATCAGTGTGCCAAGTAGAGAAACAAGAGTGTTTCTCTTGCCTGTTTTGGGACCTGAGTCAAGGTGTCTTGAAAGGCTGTGACTGGACGCAGATGTGCCTTCCTGGGTGCCGCTGGCTGCTGGATATGGGTGTTGTGTTGTGCTGACATGAGCTGGCCTCGGAGGCCAGGAGCCCTGACCAGGAGAGTGTGCATGTGCTGAAAAGCCTAATCGGAGCTAGAGATGACTGGGGTTTGCTGGGTCTGTGTTGTGGAGACCAGAGTCACAGTTTGCCTTCCAGATGAAGAGAATCCTGAGGTTTGCTGAGGCTGAGAACCTTTCTCCAACGGGTGCAGCTGATAGGAGGGAAATCCAGGATTCAAACCAATGTCCAGCCAGATCCGGAGCACAGAGGATTAAACAAAATGTTTCTTCACTTTAAAAACTTGAAGTTAGAAATATCAACTAAGTATTTTTATTACAAAAGTAGTGAATTACCCTTATAGAAAAAAATGTGAAAACCCACATTAGAGAGTGGAATAAAAGAAGAAAAAAATCACCTATAATCCCATCATCTAGAAAAAATTTATAGTTGTAAATTTACATTATCTTTATTTTAAATGTGCAGTAAGCTTTATCTGTGTATACAATGTATGCCTCTGTGTGTGTGTGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGCGCATATATCATAGATCATGGCTCCACTGTACACTTTGAAAGTCAAGGAACAACCTCAGGTACTGGTCTGCACAGTTCAAAACAAGGTCTCAAGTTCCCGGAACTCACCATGTTAAGGTCACCAGGTTGGCCTTGAACTTGCCTTGATCCCCCTGCCTGTACCTCAAGACTGAGATTACAGCTATGCCTCACTACACTTGGCTGTTTTATTGTTTCTGTGAGGTAGGGGCCTGGTCATGTAGCCATGGCTGGCCTAGAACTTCCTATGTCCCCTAGCTATACTGGCCTCAGACTTGTGGTAATCTCTGCTGCCCCCTGCTGGTTCACAAGCTTCTAGGGATACTTCTGTAGGCTTGCCAATTTGCTATGCCACTGGCTTGCAAATGTGCACTACCACTTCTGACCTCATGTGGGTTCTGGGAAACCCCATCCAAATATGTAATAATTTGTTAGTGAAACTTGGATCTTAACATTAAAGCTTTTCTGAACCATGTTTTTCTTTTGAAAAGAAAAACCTTTTCTTAGTAATTTACTTCTGTTCTAAATGTAGCATCATTTTTTATGGCAAAACTTCTTCCACAAGAAATTACTTTTCCATAGAAGGAAGAGGCTTTTATGGTGAAGTTCAGACGTGAACAACACAGAAGCTGAAACTTTGTATGCATTTTCTGTCACTTTCAAACCAGATTACTAACCTAAATAAATACTAAGGTTTCTTGTTTGTTGCTGCTGACTGTTGTTATTGGTTTGGTTTTGCAATTTACTTCTTAATTTTAAAACATTTTAGGTAATCATTTTTGTATTATCAGGACTGTAGGGTCTTACCAACTCATATCAATGCTGTTTATCATATTCCAGTTCATATAACTTATAACACAGTCATCATATATTTAAACGTCTTAGTCTCCTTTCACAGCCCAAAATTTGAGGTCCATTTGACCCCAGTGTTTGCAATGAGATCCATCCATGCTCTCCAGTAAAGGGAACATCCCTCTACTCTGTGTGCAG
Seq C2 exon
GGGACGCCCACCAGCGCCTGGGCCAGTCCAAGCTCTTCATTGAGGAAGCTAACAAGACGACAGCGGCTGTCCAACAGGTTACCACACCAATGGCTAACAACCTCAGCAACTGGTCCCAGAACCTGCAGACCTTTGACTCATCTGCATATAACACTGCAGTGGACTCTGCTCGGGACGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000019846-Lama4:NM_010681:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.350 A=NA C2=0.295
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF060097=Laminin_II=PU(39.8=83.6)
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:
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: