MmuINT0091053 @ mm9
Intron Retention
Gene
ENSMUSG00000023022 | Lima1
Description
LIM domain and actin binding 1 [Source:MGI Symbol;Acc:MGI:1920992]
Coordinates
chr15:99624840-99627230:-
Coord C1 exon
chr15:99627173-99627230
Coord A exon
chr15:99624950-99627172
Coord C2 exon
chr15:99624840-99624949
Length
2223 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGC
5' ss Score
3.69
3' ss Seq
GCCTTCTGTGACTTAACCAGGTA
3' ss Score
8.29
Exon sequences
Seq C1 exon
GTTTCTACAACTGAGAATAGTCTAGTGGCCCTCTCTGTCCCTGCTGAAGATGACACCT
Seq A exon
GTAAGCATTTGCTCCGAGCTCTGTGGCGGGGTCCTCCTCCCCCTGCTATCGTCTGTAGAGAATGTACCAAACCTAGCAACCAATCTCATCAGGGTCTGGGTGCTAAGGGCTGGTGCTGGAACACCCTTCACACATTCATAGTTTAGGGAGAAGTTAAACACTGTTAGCCAGCAGTGGTGGCACACACCGGTAACCCCAGCATTAGGAAGGGTGAGGCAGGCAGATCTCTGTGAGTTCAAGACCAGCCTGGTCTACAGAGTGAGTTCTACAGAGTGAGTTCCAAGACAGCCAGGCCTACACAGAGAAACCTCATCTTGAAAAGCCAAAAAGAAAAAGAAATTAAATATGGTTAACATGAGAGAAAAAGAATATTTTAATTTTTGAGGTTTTCATTTATTGTGCATGGGTGTTTGCCTGAAATACATTTGTGTACCACAAGCCTGTAGTATCGATCAAGGCCAGAAGATGGCATTAGATCCCTTGGGTCTGGAGGAGTAGCCAGCACTCTTAACTGCTGGGCCATTGCTCCAGCCCTCACTGAAAGAATATTTTTAACAACACTTCTCTCATTGAACTTATCCTGTTTCTGTACCAGACTCTTCCAAGTCCGAAGCTACATAAGCAGATCTTGACGTTTTACTTTGACAGAGGTTGTTCAAGAGAGATGGATTAATTTTGGAAGAACATTTTAAAGGCCTAAGGATTTTTTTCTACTTAAGTGCTAAATTTTCATACTTTTATCCTGTTTTGGAGTATTTTAAGCCTGATTTCTCAAAGATAAAAGGTTTGAGAGATGGCTCGGCGTTAAAGAGTACTGTCTGCTCTTTCAGAGGTCCTGAGTTCAATTCCCCGCAACCACACGGTGGCTCATAACCATCTGTAATGGGATCTGACGCCCTCTTTTTGTGTGTGTATATGAAAACGGATACAGTGTACTCATATATAAATAAAAATAAATACATTTTTAAAAAAAGGTTTGGGGTTGACTTGGCTCTTACCACCTCTGATTTTCTTTTTCTTTTTTTTTTTTTGTTTTTTGTTTTTTTTTTTTTTGTTTTTTTGTTTTTCGAGACAGGTTTTCTCTCTGTAGCCCAGGCTGGCCTAGAACTCACTTTGTAGACCAGGCTGGCCTCAAACTCAGAAATCTGCCTGCCTCTGCCTCCCGAGTGCTGGGATTAAAGGTGTGTGCCACCACGTTCGGCCCGCCCGCCATCTCTGATTTTGACCACGGTTTCACTACACACTGGAGCTCACTGTGTAGGTTGATCTATCCTGCCTCCCAGACCTACGTGGGCCACACGCTTATGATACTGGGACCACTTCTGATTCTAATATTTAGGGACTCCCTCTGAAGCCCTGGCTGTCCTGGAACTCACTCTGTAGATCAGGTTGGCCTCGAACTCAAACTCAAACCTGCCTCTGCCTCCCCAGTGCTGGGACTGGAGATGTGCACCACTGTGGCCAGCATGCTTTTTTTTCTTTTTTTTTTTTCCCTTGATAAAAGAATGAAAAGTTTTTCTTGATAATTATTACAGTTCTGGGCCATCCAGGGCTACACAGGAGATATCTCCTATGTCAAAAAATTTTTCAAACAATGACTGACAAAGACTCAACATGAGCCGGGTGTGGTGGCGCACGCCTTTAATCCCAGCACTTGGGAAGCAGAGGCAGGCGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAGAGCGAGTTCCAGGACAGCCAGGACTACACAGAGAAACCCTGTCTCGAAAAACCAAAAAACAAAAAAGTCCAGGACAGCCAGAAACCCTGTCTCAGAAAAAAAAAAAACAAAAAACAAACAAACAAAAACAACAACAACAACAACAAAAAAGACTCAACATGCAGTCTCTCTTTTTCCCAGCCTGGAAGTTACTAGGGTTGCAAACCACCAGGAACATATCAAAATCTATACACAGCTTCGAAGTGGCTAAGGCTTCAGAGCAGAATGTTGTTCTGCATGGTCTGGGTCCCAGCTGTGTGCTGCAGGGCAAGAAGGTCTCACTGACAGCCTGAGTCCTAGCGGGGCCCAGGACACCTTCAGTTTAGCCCTTCTTCAACAGAGAAGCAGTATTTCTCCTGATGCTAAAAGGACCAGTCAGTCCCTGGTGGGAAGTACCCATGTTTTGCTTTTTCAAAACTCTCTTCCTGAGGCTTGCGTGAGCTACTCTAATATGCCTGCCTTCTGTGACTTAACCAG
Seq C2 exon
GTAACTCCCAGGTGAAGAGCGAGGCCCAGCAGCCTATGCACCCTAAGCCGCTGAGTCCTGACGCCAGGACCTCCAGTCTTCCGGAAAGTTCTCCTTCCAAAACAGCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023022-Lima1:NM_023063:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.700 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
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: