HsaINT0091940 @ hg38
Intron Retention
Gene
ENSG00000050405 | LIMA1
Description
LIM domain and actin binding 1 [Source:HGNC Symbol;Acc:HGNC:24636]
Coordinates
chr12:50192452-50195887:-
Coord C1 exon
chr12:50195830-50195887
Coord A exon
chr12:50192565-50195829
Coord C2 exon
chr12:50192452-50192564
Length
3265 bp
Sequences
Splice sites
5' ss Seq
CCCGTAAGC
5' ss Score
4.37
3' ss Seq
TCTTCCTTTTGTAACTCAAGCAG
3' ss Score
1.76
Exon sequences
Seq C1 exon
ATTTCTGCAAATGAGAATAGCCTGGCAGTCCGTTCCACCCCTGCCGAAGATGACTCCC
Seq A exon
GTAAGCATTCTTTCTTAGATCTGGAGGATGAGGTTCTTGTTTTCTATCTGTATTTGGTTCAGGGGTGTTCCCATTACTGTCAGTGCTGAGAAAATAACATAGTAAATCCTCTACTTGAATTTAAGGGCTAATGCTTGAATGTCCTTTACACACTTCATGGCTTAAGGAGAAGTTAAATTCAATTGAATATAGTTAACTTGGGACAAACTGAATACTTGTAATGCTTTTCTCATTGAATTCATCCTACTTTTTGCACCAAACCCTTTCAGAATTGAAGCTGTATAAACTAATTTTGAAGTTTCATTTTAACAGAAGTTTGGCCAATACGGATTTTATTCATTTATAATGTTATTCATAAATACCTATTCTTTAGTGAATAAGTATTTGAATAATCTGTTAAAGATACATATTTTTTCCCTGTTTATCTAAATGTATATTATAGTCAACCTCCTAGCCAGGTTCTAGGGATTTTCCTGCTGACAGTGAATTTTGTCACCTGTCATCCTATTTTGGAGTCATTTTGAGCCTCCCTTTTCCCAAAGACAAAAATGTTTTTTTTTGTTTTTTACTTGACTATGTCCACTTTTTATTCTGATTTTCAGTATAACTTTTAATTTTCATTTTTTAGAGACAGGGTCTCTTTCTGTTGCCTAGGCTGGAGTGCAGTGGTGTGATCATAGCTCACTGCAGCCTCAAACTCCTGGGCTCAAGCAGTCCTCCCACCTCAGCCTCCCAAATAGCTAGGACTACAGGCACACACCACCATACCCAGCTAATTTTCTTTGAGGGAGTCTCACTCTGTCACCCAGGTTGGAGTGCAGTGGTGCAATCTCGGCTCACTGTAACCTCCCCCTCCCAGGTTCAAGCGATTCTCCTGTCTCAGCTTCCTGAGTAGCTGGGATTACAGGCGCACACCACCATGCCTGGCTAATTTTTTGTATTTTAGTAGAGACAGGGTTTCACCATGTAGCCCAGGCTGGTCTTGAACTCCTGAGCTCAGGCAATCCACCCGCCTCGGCCTCACAAAGTGCTAGGATTACAGGCGTGAGCCACCGTGCCTGGCCGTACCCAGCTAATTTTTTAATATTTTTGTAGAGAAAAGGTCTCACTTTGTTGCCCAGGTTGGTCTCCAACTCCTGGTCTCAAGCAGTCCTACCACCGCAGCCTCTCAAAGTGTTGAGATTACGGGCGTGAGCCACTGTGCCCAGCCCATTTAAAAATATATGTTGCTGGGCCAGGCGCAGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCTAAGTGGGTGGATCACTTGAGGTCAGGAATTCAAGACCAGCCTGGCCAATATGGTGAAACCCCAAGCTCTACTAAAAATACAAAAATTAGCCAGGCGTGGTGGTGGGCGCCTGTAATCCCAGCTACTCAGGACACTGAGGCAGGAGAATTGCTTGAACCCAGGAGGTGGAGGTTGCAGTGAGCTGAGATCGCACCATCGCACTCCAGCCTGGGCTACAGAGCGAGACTCCGACTCAAAACAAAATATATATATATGTTGCTGGCCAGGCACGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGCGGGTGGATCACCTGAGGTCAGGAGTTCAAGACCAGCCTGGTCAACATGGTGAAACCCCATCTCTATTAAAAACACAAAAAGTTAGCCGGATGTGGTGGTGGGTGCCTGTAGTCCCAGCTACTCAGGAGGCTGAGACAGGAGAATTGCTTGAACCCAGGAGGTGGAGGCTGCAGTGAGCTGAGATCATGCCACTGCACTCCAGCCTGGGCAGCAGAGTGAAAATCCATCTCAAAAAAAATATATATATATATATATATGTATATATATGTTTGCTGGGCGCTATGGCTCATGCCTGTAATCCCAGCACTTCGTGAGGTTGAGGCAGGCAGTTTGCTTGAGCTCAGGAGTTGGAGACCAGCCTGGGCAACATGGTGAAACCCTGTCTCTACCAAAAGTACCAAAACTTAGCTGGGCATGGTGGCATGCATCTGTGGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGGATCACTTGAGCCCAGGAGGCAGAGGTTGCAGTGAGCCGAGATCATGCCACTGCACTCCAGCCTGGGTGACAGAGTGAGACTCTGAAAAAAAAAAAAAAAAAAAATATATATATATATATACACACACACACACACACACGTATATATATGTATATATATATACATGTATATATATATCATATATACATGTATATATATATCATATATACATATATGATATATATGTATATATATATCATATATGTGTATATATATCATATATACACATATATGATATATATATACTATATATATATAAATTTCTTGTAGGTCACAAGACAAAAAAGAAAAACATATATATGTGGATTTCTAGCATCTCCCCAGGCTAGTTTACTGGACACTGAAAACCCTACAACTGAAATAGAATGATGAATTAAACAGATCTCTAGTTAATCCTACCTTAAAATTTCGGAGAAAAACTCCTTCTGCTTGAATCCAGAAACATTCTTTTTTTGCAATCATTTTTCTGGGACTAGAAATGTTTCTGAGAAATGTTTTTGACTAGGTTTATGAAACATTTTTTTGAAAAATAAGCCTTAATATTTTAGTACTTTGTTGACTCACCTCTTCATTTTGGCAGGAAAGTAACTCATGTAGTTGGAATTTCAATGATTATGAAAAAAACTTCATGGAGCCCTTTTCCATAATCTTCATCCATTGGTATCTGCTATAGAACTGACCAAAAACAGTGTCAGGTTACATGTATACACAAATGCGCGCACGCGCGCACACACACACACACACACACACACAGAGTACAAAATTTCTGCCCTCACATCTCCCCCTTTTTCCAACTTCAGTTGAAACACTTCAGAAAAAGTTATTAGGAATGTTAATGACCAAAAAGACATCTAAGTCTATAAACGGCCTTTAAAAATGACAAATGGCACAAGGAAGAAAGTTCTTTATACAGAGTGGTTTGGATTTCTGCTACGTGTGGCAGAGGGTAAGAAAGCCTCCTCACTGAGAACCTGATTTCTGACAGGACCAGAGAATACCTGAGCCATAGTTGTTAGTGTTCGAATATTCTTCAACAGAAAAGCAGTGTTTTTCCTGGTGTTGGAAGGATCTGTCATTAATGAAAGTGCCCAAACTTTGCTTTTCGGAAGAACACTTTCCAAGACATTCCATGAGATACTGTAAAATGTCTTCCTTTTGTAACTCAAG
Seq C2 exon
CAGGTGACTCCCAGGTTAAGAGTGAGGTTCAACAGCCTGTCCATCCCAAGCCACTAAGTCCAGATTCCAGAGCCTCCAGTCTTTCTGAAAGTTCTCCTCCCAAAGCAATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000050405:ENST00000394943:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.955 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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
- Autistic and control brains
- Pre-implantation embryo development