MmuINT1022225 @ mm10
Intron Retention
Gene
ENSMUSG00000023022 | Lima1
Description
LIM domain and actin binding 1 [Source:MGI Symbol;Acc:MGI:1920992]
Coordinates
chr15:99794409-99796799:-
Coord C1 exon
chr15:99796742-99796799
Coord A exon
chr15:99794519-99796741
Coord C2 exon
chr15:99794409-99794518
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:ENSMUST00000073691:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.662 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
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
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types