HsaINT0091938 @ hg38
Intron Retention
Gene
ENSG00000050405 | LIMA1
Description
LIM domain and actin binding 1 [Source:HGNC Symbol;Acc:HGNC:24636]
Coordinates
chr12:50200777-50204700:-
Coord C1 exon
chr12:50204552-50204700
Coord A exon
chr12:50200885-50204551
Coord C2 exon
chr12:50200777-50200884
Length
3667 bp
Sequences
Splice sites
5' ss Seq
ACAGTATGT
5' ss Score
6.05
3' ss Seq
CAGTTATTTTTATTTTGTAGAAT
3' ss Score
7.66
Exon sequences
Seq C1 exon
GTCAGTTGTCATCTTCTACATTTGACTCGGAGAAAAATGAGAGTAGACGAAATCTGGAACTTCCACGCCTCTCAGAAACCTCTATAAAGGATCGAATGGCCAAGTACCAGGCAGCTGTGTCCAAACAAAGCAGCTCAACCAACTATACA
Seq A exon
GTATGTGTTCTGCATCATTCATTCATTCATTCATTCCATCATCCAGCAGATGGTCACTGAGTACTGGAATTAGGAAATGTCACCAGACCCTTGTATCTGAGCCCTGGTCCCCTAGCTGTTCTCTTTTCACATGAACCCTACCCTCGCTGGATTTGCAGTTCTTACCATGGTCTAATCCTGACTTTGCTTTCTTAGTCCTGGTTCCCACCCCACTCACTTTTTTTGTGATGTTACCAGTGAGTATCATTGAGAGTTTCCCTGGCTCTTCTACTTAATCTTTGTGTTGTTAAAGAAGTAGTATTTTATTAGTTTTAATATAACTCTTATTTTATCTTGGTTGTTGAGGGAAGAAGGAAGAAGACTGAAGAGCTTATTTTGGCTTTTGAGGGAAGAAAGAAGAAGACTGGAGAGAAATATCAGCTGTGTTCATTAACGAGGGTTTTTTTTGTGATTTTTTACTGAGATATAACTCACATAATATAAAATCACCATTTTAAAGTATACAATCTTGTGATACTTAGCATATTCACAAGGTTGTACAACCATTACCACTGTTTAATTCCAGAACCTTTCCATCACCCTGAAAAGAAACTTCATACCTGTGTAGTCACTCCCAACTTCCCCTGCTCTCATCCCCTGGCAACCACTTAGCTACTTCCTGTCTTTATGTATCTGCCTATTTTGGAAATTTCATATGAAGGAGTCATACAGTAGATCTTCTACTTAATCTTTAATCCTTACGATGTACTGTTTTCCTAAAGAAGTAGAATAGTAGATAAGGAAAAGGGAGAGATCACAAGAAGGTGACGTGCTCAGTAAGCATGAAAATTTTGATATTCAGCTGGGTGTGATGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGCAGATTGCCTGAGGTCAGGAGTTCAAGACCAGCTTGGCTAACGTGGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCCAGCATGGTGGCAGGCACCTGTAATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCGCTGGAACCCAGGAGGCAGAGGTTGCAGTGAGGCAAGATTGCGCCACTACACTCCAGCCTGGGCGACACAGCAAGACTCCGTCTCCAGGAAAAAAAAAAAAGATTGGTATTCAAAATACAATGGAGGGTCCTTCCCCTTTACGTTGTCCTGTGCTTAACGGGTAAGCTGATGCTACAGAACTGCTAAATTGAAGTTACCTTATAGCCAGGCGCAGGAGCTCACACCGTAATCCCAACACTTTGGGAGCCTGAGGTGGGTGGGTCATTTGAAGTCAGGAGTTCAGAACCAGCCTGGCCAACATGGTGAAATCCCGTCTCTACTAAAAATACAAAAAAAAAATTAGCCAGGTGTAGTGGCACACACCTGTAATCCCAGCTACTAGGGAGGCTGAGGCAGGAGAATCACTTGAACCTAGGAGATGGAGGTTACAGTGAGCTGAGATCACACCACTGTACTCCAGCCTGGGTGACAGGGTGAGACTCCATCTCAAAAAAAAAAAAAAAAAAAGGAAGTTACCTTTCAAATGCCATTTATTCACATATATATGTATACACACACATAGATACAAATGTACACACACATATTTTTGTATCCTTCAAGCATTTGTTCTAAGATTTCAAATTACAAACCATTAATCTCTTGATGTCCTAATTGTCTAACAAAATCAAAAAGAACAATATTGAATTTTATTTGTTCTTAGGCAGATCGAAATTGGTGCATATTGGAAACCATAATGAGTATTCTGGGAGTTAAGCCTTCTCTTCCCCACATTATTAAGTATACATTCTCTAATAATATTTGGTGGACTAATTCTCTGGGCAATGAATAATTTCATCTTGGTTTTTTAACTGTAATTTTAACAACTTTATGTTTTAAGAAGAGATGATGTGTGTAAATCAATTAGCAAAGTGGAGTATCACAGGCTGATTATGCACCGTGAATGTGAAAAGCGAGCAAATTTAGACTTCCCTTAGAAGGCAGGTCAGGAGATACAGCAAATTGGGATCTGCGAAGCTGAACTTCCTCTTGTTACCAGATTTTACTGCTTCTCAGTGCCCTCCTGCTGTAAACATTCCCACCAGGTGACTCCCTATGTGGGGAAACCTGTTGAGTAACTTTTTTTTTTTAACTCCTAACCATTTCTGCATTACAGTTCTCCTGCTCTGGAGATTTTAAGAGTTGAAAACTCTTTGGGAATTCTTGTAAAAAGTACATTTTGTCTCATCCCCAAAGAATTTCCCAGGCCCCTTACAGAATATGGTTGTAACAAGGCACATACATACTCTCTGGCAGCAGTTCTGGAGGTGGGGCTTTGAGATGGGGTCAGGAATGAGTTGTTGGGCTATATAATGTTCTGCAGTGCTAGCTGCCAGCTCCTCCTCACAGATGCACCTCCGGTGCTGTGGGTCGTAATCTAGAATACCATCACTAGGTGACTAAGTCATACTCACATTCCTTTCATTGACCTGGTGGCCATAAATTGTTTCCTCCCATGCCTAAAGATTCACAGAGAACAGAAAAGTACTAGATTACTACATTATTAGCAGACTAATGGTGGGAAATGTCTATAGTCATCGACCTCTATGTTTATTTTATTTTATTTTATTTTTTTATTTTGAGATGGAGTTTCACTCTTGTTCCCCAGGCTGGAGTGCAGTGGCGTGATCTCGGCTCACTGCAACCTCTGCCTCCCTGATTCAAGCGATTCTCCTGCCTCAGCCTCCCAAGTAACTGGGATTACAAGTGTGCACCACCACACGTGGCTAATTTTTTGTATTTTTAGTAGAGACAGGATTTCACCATGTTCGCCAGGCTGGTCTTGAACTCCTGACCTCAGGCGATCCACCCGCCTCAGCTTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACTGCACCCAGGTTCTATGTTGATTTTAGATGTAATAGATGAGTTAATTGTAATATTCACCCCAGTGTCCTTTGCAAGGAAAAAAATGCAATTATCCTTATTCCTTATGACAATAAAATGCATGTTCTTTTATGTTGAGGCTCTGTTTTGAGAAGTAAAATAAATTATGTCTTTAGTACAATATATGAATTGTATATGGAAAAACATGCTTTTTGAAAGTCCCACCAAAAAGGTTTCTTTATGGTATCATTAAATATAATTTCAGTTTTTATATGTATACATCATCCCTGTCTCTCTTTCCAGGCCGGGCATTTATATATGTATGGTCAGTATATTTTCTATTATTGGCACTTGGCATCTCCTTTCCCCTGCTCCAGAATGGTCTTTTCTGATAAAACTCACAAGCTTTGCATTACCACAAGCTCTGCTGCTAGAAGAGTGAATCACAAGAATGTTGTATGCTTGGGGTGTTCTGTGTGCCTGTGTTGATGTGTCTGTATTCTAATGAGCAATCCAGTTTTACACTAGCATACAGATATTTAACTCTGAGGTATGTGTCCACAAAGCTGCTTTTGTCATTTCACTAGTCAGTGGGTTTTGCTTGTGAGAGTTAGGGGGTTGATTTGACCCGAGGCTTCTTAGAAGAATTTTTTAACATTCCAAGTTTATCTAATAGATGTGCTATGAAGAGAACAGAATGATGGGACTTTAAAAAAATTTTTACAGTTATTTTTATTTTGTAG
Seq C2 exon
AATGAGCTGAAAGCCAGTGGTGGCGAAATCAAAATTCATAAAATGGAGCAAAAGGAGAATGTGCCCCCAGGTCCTGAGGTCTGCATCACCCATCAGGAAGGGGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000050405:ENST00000394943:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.978 A=NA C2=0.975
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
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
- Autistic and control brains
- Pre-implantation embryo development