HsaINT0092510 @ hg19
Intron Retention
Gene
ENSG00000135363 | LMO2
Description
LIM domain only 2 (rhombotin-like 1) [Source:HGNC Symbol;Acc:6642]
Coordinates
chr11:33880123-33886363:-
Coord C1 exon
chr11:33886148-33886363
Coord A exon
chr11:33881122-33886147
Coord C2 exon
chr11:33880123-33881121
Length
5026 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCC
5' ss Score
8.63
3' ss Seq
TTTTCTTTCTTTTGCCCCAGGCT
3' ss Score
10.97
Exon sequences
Seq C1 exon
GGAACCAGTGGATGAGGTGCTGCAGATCCCCCCATCCCTGCTGACATGCGGCGGCTGCCAGCAGAACATTGGGGACCGCTACTTCCTGAAGGCCATCGACCAGTACTGGCACGAGGACTGCCTGAGCTGCGACCTCTGTGGCTGCCGGCTGGGTGAGGTGGGGCGGCGCCTCTACTACAAACTGGGCCGGAAGCTCTGCCGGAGAGACTATCTCAG
Seq A exon
GTACCCTCCCCGGCACTCCACTGGGCCCTCGGAAGGGAGGCTGGGTGGTCCATGGACATCTGCAGTCGGTGTGTGTTGCCCCTTACCCTGCTCCAGGCTCGGACACCACCTATAGAAAGAGGTCAGACTGCAGAGGCTGAGTCTCAGCTCCTGTGCTGAGAAGCAGAGGGCATTTCTTCCTGTTTGAGAAGCATGTTCTCAGGGTTACGTTCCTATGTGGTAAAATACTAATATCTTTAAAGGCAAGAGAATTGTATACCCAAAATTCAGAAAAGTGCTTCCCTTGGGGAGCGGGAGAAGCTAGGGGATGGGATTGAGGAGGAGTACACACGGAGGATCAGAGGGACTGGGAGTGTTTCTAAGTTTGGAGGTGGGCTCTGAGGACCTCATTTGAATGCTTCAGAACATATATGTATGTTATAAATTTTTTTTGTATGACTCCAGTATTATATGATGAGAAATTTAAAAATAGAAAGCATATGGAGCTCCAAGCATTGACTCATAGCAGGAAGGCAGTCTTCGAAGAGCAGAAAGGCAAAGGCCCTGTAGGCAGTTGGAGGTTTGAGTCCCAATACCATTGCTTCCCAGCTTGGTGGCCTTGGGCAAGTTATTTAACCTTCCTAAGCCTCGATTTCCTTATCTGTAAAATGGGGATGATAATAGCACCTACCTCTAAGGATGTGGGGAGGATTTGATGGAATAATGCAGATAAACTACTTGGCTTGGTATGGATCAAATAGATGTTAGCTGCTCTTACATAATCATTATTTTCCAATCTAATGAGCAAAGGGATGGAAGAATGGAAGAGTAAAATAGGAACTCGACAACACCAAGTAAGACAGGAGCTGAGGACATCTCCCATGCTCTGGGCCATCCTATTGGCCATCCGAATTTTCCAGCACTGTGTGAAAGCCTTTGCCTAGAATGTACTAGTGTTTCTAGTTTCCGATGAGCTGCTGTGGAGGTAACTGTCTCTGTGCCCTCTACTGTCAGATCTGCTCAACTGTGTAGCTGTCAGTATTTCTCCGTTTTCCTGGAGCAGAGGGTCTGTGAAGCATGCTTCCCTGATACACCAGGACCATCCAACCCATGGAAGCTTGTTGAGACCTCAGCGCCCTTGGCTGCTGGGCCAGCTTTTCCTCCCAAACCTGCCCTCAGAGCATTTTACATTATAGAAACAAAACAAAACCAAAAAAACTGCAGGCAGTTTCACAGTGAAGGAAGCTTTACCTAAAGACTGTTAGAAGAAGCTTTTTGTCCTTGAATTCCCAGATAAAGTTCTTGCAGTCCTTGCAGATATGGTGGTTCCGAGAAAATAAGTAGGATTTTGCAATGATCATGCTTATAATTTTGGTCAGTTTTCTTTTTTTTAAGTCACAGAAAATAGAACTTGGATAAATACAGACCTGGTTTTGCTCACTCCCAGTTTGCCAAGTCAGTGAGAGGGCAGACGGGTAAATGATTCCCATCGGACCCTTGACTCCATCCCTGTCAAATCATTTGAATCTTATTAACTGAAGTGCAGATAGAGTAAGGTCAGAAGAGCCCCAGCTTCTCCCTATCTCTACCGTTTTATATAACATTCAGGAATAAAACCAGTGCTGCCTGGGCTTGTTAATCCTTTCCATTTTCAAAAAGGAGAGGAAAAAAAAAACAGTCTGGGAGAACCCAATGTTAATTAACTTGTGTCTTGGTGACATGAAATAATTCTTCTCCCTGCCACATTCCTAGGCAACATGTTAATTAACTCTGCATTAGTGCAGGCATTTCCAGCCATTCTTTAATATTTATATTATTGTTATTAAAATGGGCAGCAGAGAGCTTAAGATGGGACATCTCTTGACAGAGGAGAAAAATTGTCTTTTGCGTCAGGGATGGTCCTTTAGCCAAGGTCTTGTTTACTGGCATTCTTAGTATATCTGGCAGGATCTTTTAACAAGGCAAGTTGGAGGAGTAACTGAACGGGCCCTCTAATGTGTTTGAGTTCTTCACCCCTAGGATAACTTGTCCCCGTGAGGATTTCCAATGGCTGAGTTGCCTGTTACAGTTCTTTTCCGACATTTAGCTTCAAACATTCATGAGACCCCCATGCAGAACCTCAACTCTGCTGCTGTGTTGTATTGTTGGGAACCCAAGAGCAGCTGTTCATGTCTGTGCTGAGCCAGATCTCCTTGGATCCCTTTTCACTAATTCTTGTGTGCTGGGAGTGGTGGGGTGGCGGTGATGGCAGTGGTTTTGCTTTTAACAGCCAGCACCTGAATCTGTTAGAGCCAGAAGTATGCCTGCCCCAACTAGACCCCCAACGGACCTTAACCAGTGACAGACATGGTGGGAGTACCAAGCCCCGCAGCCTTGCCTGGAGCCAGGCATAACTTATATTCCAGGGTCCCTCCCCTCTGAGGGACTTTGCCTGAGGATACAACTTGGCTTGGCTTCCTCCCCTTCCCTCCAGCCTCCCCTGCTGCCTTCCAGGTTTTTCCTGAGAATGCCTCATTCATAAATCACTGGCACATCAATCCTTGCCTCAGGGGCTGCTTCTGGGATATCCAGCCTAAGATACCAATTCTTGGTGCCAGAGGTTAATGCTCAAGTTAGGTGTCAAGTCCCGGCTTATTTTTTACTAATATTAGAATCTCCGAATCCCAGAGCTGGAAGGGGCTACAGAGACCTTCTTTTTCAGTTCCCTTGCTTTATGGCTTAAGTCACAGAAGCCTGTACAGGGGACTCCATTTGCTCAGGTCACCTGGCAAGTTAGAGGTCATGCTGGGACCTGAACTTGTCTCCCACATATTCGTCCTTTGTCCTTCCCTTCATAGCTGCCTGATGTGGGTTGTAATTTACCCCCTGACTTCCCTTTAATAAGCTCCCTCCTTCCTTAAGGATCGCACACCCCAGGCAGTTGGATTCATTCCATGCACACTGTTTTCTCAGTCGTTCATCCTTGCTCAGGCCCAAACTTAACTTACAGAGCAGTCAGGAAACCAGAACTGTCTTTCCACTCTGTGACCTCCAATGTGGCGGTTACCTGCAGCTCCACCATCTGCTACGTTGGGATAAAATGTTCTCCCCCCAGTAATGAGTTTGCTCCCAGGCGGTGCTTTGAAAACACTCAGAGATCTTCAAATGGAAAGCAGGATTCAGAGGCAAATTAGCTGGCCCTGGCCCGAACAATGAGCTCTCCACTCACAGACCACCTCTTGTCAATTCCATTAATCTCGCCCAAATATTGCAAAATGTGTCAACTGCCCTTAGGTCCCCTACAACCTCTCAGAATGTACCCACTGATTCTCTGATATCCTGAAATCAACCAGAACTTCCAATAAGAGCAAGCATTCACCTAAAACTGTCCTAAAGGTTTTATGTAGAAACCACCTGCTAACATGCTATGTTTTCAGCCACGAGTGAAAATTACTTCCTGCAGCAAGACTGGCACAGCTGGGAATACACCCAAGATGTGTTAAAACATAACCAGCGTTGGCTTAGCCCTTGACCATGGGTGCCCTGACATGCTTCGTTTGGTTGTTTTAACAGCTGAGTGAGGTGGAGCCTATGATGGCTGCCATTTCACTGAGGCTCAGAGAATCAGAGGTCTCTCCAGGGTCACTCAGGGCTGGTCCGGGACATTGAAGCTGGGTCTTCTCTGCTTCCGGTACTTGTGTTACTGCACTTTTGCTGTTGATTCTCAAATGTCAGCCTGCAACCAGTCCCCCGGAAGTGTTCATTAACGCACAGACTGCTGGGCCTTCTCCCCAGGGTGTCTCAGTTGGGTAGGGAAGGAGGAGGGCTGAGAATTTGTTTTTTTGTTTGTTTGTTTAGTTTTTGCTTTTCTTTTGAGTCAAGGTATGGCTCTGTGGCCCAGGCTGGAGTGCAGTGGCATGATCTCGGCTCACTGCAACCTCCACCTCCCGGGCTAAAGCCATCCTCCCACCTCAGCCTCCCAAGTATTAATAGCTGAGACTAGAGGCATGCACCACCGCACCCGGCTAATTTTTGTATTTTTTGTAAAGACACAGTTTCACCATGTTGCCCAGGGTGGTCTCGAACTTGTGAGCTCAAGTGATTTGCCTGCCTCAGCCTCCCAAAGTGTTGGGATTACAGGTGTGAGCCACTGCGCCCAGCCTGAGAATTTGTATTTCTGTCAGGTTCCCAGGCAGTGCTGATGTCGCTGGTCCCAGGACCAACACTTTGAGAACCACTGCACTGAGCCCTGCCATGTTCTGTCTCCCACCTTGACACTGAATACTGCCTGAAATAAGTGACTGATCAACTGAGGCTTGGGAGAGTCTTGATTTAAATGTCAGAAAAGAAGTTTCCCTTTTGATTCATGCCAGTGGGCAGCGAGGGCCATGAATTAAGATCCTCCCTTCATGGTGGAGAGATGCTGTTGGTCCTCCATATCTCAGAGGCACGATTAGCTGCACCGCGTGTTTTCTGTGGAACTCCCTGTCTCCCAGCAGCTGGGGCCCCAGCGAATAATCAGGGGGAGATGTGCTTTGCAGCTTATGGAGGTATTCAAGGCCAGCTCTCCCCATGGGTAGAATCAGTGGCTGTTGACATGATAGAGTTTGGGAGCCTCAGAAGAATGCCCGTTTTATTGCATTCCTGGTCAGTACCCTCTCAAAGGGGCCCCTAGGGTCTCTCTCCAGCTGCTCTTCTGAAATGAGGGTTCCCCTGGGAGGGGACAGGTAATACTTGCCTAACTCCTTATGATAGATCACATCAGCTGAGAGCCTTGCCCACAGAGGAGGAGCCAGGGGGCAGCCTAGGGGAATGATGAGCGGTTGCTGCAGACAAGGAGAGGGCTCAGAAAAGGGAGGAGTTATGCCAGATCCAAATGCCAGTTTCATCTGAGTTCCCTCTGCCTGCTGGTGAAGACTGCACTAGCCGGCCCTCCTTCTGGAGCCGACCTTCCCTGGCTTCCTGACATCCTGAAAGTTCGGCCTCCTTTCTAGGGCTCATCCCCGAGCCCTGTCTTCCAGGATTGTCCCTTTCACTGTCTTCTTAGCTTTTCTTTCTTTTGCCCCAG
Seq C2 exon
GCTTTTTGGGCAAGACGGTCTCTGCGCATCCTGTGACAAGCGGATTCGTGCCTATGAGATGACAATGCGGGTGAAAGACAAAGTGTATCACCTGGAATGTTTCAAATGCGCCGCCTGTCAGAAGCATTTCTGTGTAGGTGACAGATACCTCCTCATCAACTCTGACATAGTGTGCGAACAGGACATCTACGAGTGGACTAAGATCAATGGGATGATATAGGCCCGAGTCCCCGGGCATCTTTGGGGAGGTGTTCACTGAAGACGCCGTCTCCATGGCATCTTCGTCTTCACTCTTAGGCACTTTGGGGGTTTGAGGGTGGGGTAAGGGATTTCTTAGGGGATGGTAGACCTTTATTGGGTATCAAGACATAGCATCCAAGTGGCATAATTCAGGGGCTGACACTTCAAGGTGACAGAAGGACCAGCCCTTGAGGGAGAACTTATGGCCACAGCCCATCCATAGTAACTGACATGATTAGCAGAAGAAAGGAACATTTAGGGGCAAGCAGGCGCTGTGCTATCATGATGGAATTTCATATCTACAGATAGAGAGTTGTTGTGTACAGACTTGTTGTGACTTTGACGCTTGCGAACTAGAGATGTGCAATTGATTTCTTTTCTTCCTGGCTTTTTAACTCCCCTGTTTCAATCACTGTCCTCCACACAAGGGAAGGACAGAAAGGAGAGTGGCCATTCTTTTTTTCTTGGCCCCCTTCCCAAGGCCTTAAGCTTTGGACCCAAGGAAAACTGCATGGAGACGCATTTCGGTTGAGAATGGAAACCACAACTTTTAACCAAACAATTATTTAAAGCAATGCTGATGAATCACTGTTTTTAGACACCTTCATTTTGAGGGGAGGAGTTCCACAGATTGTTTCTATACAAATATAAATCTTAAAAAGTTGTTCAACTATTTTATTATCCTAGATTATATCAAAGTATTTGTCGTGTGTAGAAAAAAAAACAGCTCTGCAGGCTTAATAAAAATGACAGACTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135363-LMO2:NM_005574:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.077 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0041217=LIM=PU(94.9=76.7),PF103674=Vps39_2=PU(19.6=12.3)
A:
NA
C2:
PF0041217=LIM=PD(3.4=2.7),PF103674=Vps39_2=PD(78.3=48.6),PF0041217=LIM=WD(100=79.7),PF079757=C1_4=WD(100=56.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)