Human Gene LMO7 (ENST00000377534.8_10) from GENCODE V47lift37
  Description: LIM domain 7, transcript variant 6 (from RefSeq NM_001366633.2)
Gencode Transcript: ENST00000377534.8_10
Gencode Gene: ENSG00000136153.21_19
Transcript (Including UTRs)
   Position: hg19 chr13:76,210,466-76,434,002 Size: 223,537 Total Exon Count: 31 Strand: +
Coding Region
   Position: hg19 chr13:76,210,794-76,432,079 Size: 221,286 Coding Exon Count: 31 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr13:76,210,466-76,434,002)mRNA (may differ from genome)Protein (1631 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: F8WD26_HUMAN
DESCRIPTION: SubName: Full=LIM domain only protein 7;
SIMILARITY: Contains 1 PDZ (DHR) domain.
CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • D013749 Tetrachlorodibenzodioxin
  • C023514 2,6-dinitrotoluene
  • D004052 Diethylnitrosamine
  • C111118 2',3,3',4',5-pentachloro-4-hydroxybiphenyl
  • C014211 2,3,7,8-tetrachlorodibenzofuran
  • C016403 2,4-dinitrotoluene
  • C548651 2-(1'H-indolo-3'-carbonyl)thiazole-4-carboxylic acid methyl ester
  • C009505 4,4'-diaminodiphenylmethane
  • D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide
  • D016604 Aflatoxin B1
          more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 26.60 RPKM in Esophagus - Mucosa
Total median expression: 325.59 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -137.70328-0.420 Picture PostScript Text
3' UTR -425.801923-0.221 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR001715 - CH-domain
IPR001478 - PDZ
IPR003096 - SM22_calponin

Pfam Domains:
PF00307 - Calponin homology (CH) domain
PF00412 - LIM domain
PF00595 - PDZ domain
PF15949 - Domain of unknown function (DUF4757)

SCOP Domains:
47576 - Calponin-homology domain, CH-domain
50156 - PDZ domain-like
57716 - Glucocorticoid receptor-like (DNA-binding domain)

ModBase Predicted Comparative 3D Structure on F8WD26
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0008022 protein C-terminus binding
GO:0042805 actinin binding
GO:0046872 metal ion binding

Biological Process:
GO:0023051 regulation of signaling
GO:0030155 regulation of cell adhesion
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0098609 cell-cell adhesion

Cellular Component:
GO:0005635 nuclear envelope
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005886 plasma membrane
GO:0005913 cell-cell adherens junction
GO:0016324 apical plasma membrane


-  Descriptions from all associated GenBank mRNAs
  AF330045 - Homo sapiens LIM domain only 7 (LMO7) mRNA, complete cds.
BC148408 - Synthetic construct Homo sapiens clone IMAGE:100015408, MGC:183022 LIM domain 7 (LMO7) mRNA, encodes complete protein.
AK092052 - Homo sapiens cDNA FLJ34733 fis, clone MESAN2006953, highly similar to LIM domain only 7 isoform c.
AX747335 - Sequence 860 from Patent EP1308459.
FJ711162 - Homo sapiens LIM domain only 7 protein (LMO7) mRNA, complete cds.
KT258904 - Homo sapiens LMO7b mRNA, complete cds.
BC036428 - Homo sapiens LIM domain 7, mRNA (cDNA clone IMAGE:4800225), with apparent retained intron.
AK304051 - Homo sapiens cDNA FLJ53272 complete cds, highly similar to Homo sapiens LIM domain 7 (LMO7), mRNA.
AB020665 - Homo sapiens KIAA0858 mRNA for KIAA0858 protein.
AK055465 - Homo sapiens cDNA FLJ30903 fis, clone FEBRA2005788, highly similar to LIM domain only 7 isoform c.
AB384019 - Synthetic construct DNA, clone: pF1KSDA0858, Homo sapiens LMO7 gene for LIM domain only protein 7, complete cds, without stop codon, in Flexi system.
AF144237 - Homo sapiens LOMP protein mRNA, complete cds.
AK074265 - Homo sapiens cDNA FLJ23685 fis, clone HEP10068, highly similar to Homo sapiens LOMP protein mRNA.
AF174600 - Homo sapiens F-box protein Fbx20 (FBX20) mRNA, partial cds.
JD339582 - Sequence 320606 from Patent EP1572962.
JD265782 - Sequence 246806 from Patent EP1572962.
JD204621 - Sequence 185645 from Patent EP1572962.
JD073842 - Sequence 54866 from Patent EP1572962.
JD239531 - Sequence 220555 from Patent EP1572962.
JD175374 - Sequence 156398 from Patent EP1572962.
JD258288 - Sequence 239312 from Patent EP1572962.
JD039311 - Sequence 20335 from Patent EP1572962.
JD200996 - Sequence 182020 from Patent EP1572962.
U90654 - Human zinc-finger domain-containing protein mRNA, partial cds.
AK123459 - Homo sapiens cDNA FLJ41465 fis, clone BRSTN2017761.
JD348824 - Sequence 329848 from Patent EP1572962.
JD566935 - Sequence 547959 from Patent EP1572962.
JD486422 - Sequence 467446 from Patent EP1572962.
JD346104 - Sequence 327128 from Patent EP1572962.
JD549113 - Sequence 530137 from Patent EP1572962.
JD434052 - Sequence 415076 from Patent EP1572962.
JD347862 - Sequence 328886 from Patent EP1572962.
JD559327 - Sequence 540351 from Patent EP1572962.
JD232289 - Sequence 213313 from Patent EP1572962.
JD493773 - Sequence 474797 from Patent EP1572962.
JD404311 - Sequence 385335 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000377534.1, ENST00000377534.2, ENST00000377534.3, ENST00000377534.4, ENST00000377534.5, ENST00000377534.6, ENST00000377534.7, F8WD26, F8WD26_HUMAN, LMO7 , NM_001366633, uc318nro.1, uc318nro.2
UCSC ID: ENST00000377534.8_10
RefSeq Accession: NM_001306080.2
Protein: F8WD26

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.