Human Gene LLGL1 (ENST00000316843.9_6) from GENCODE V47lift37
  Description: LLGL scribble cell polarity complex component 1 (from RefSeq NM_004140.4)
Gencode Transcript: ENST00000316843.9_6
Gencode Gene: ENSG00000131899.13_11
Transcript (Including UTRs)
   Position: hg19 chr17:18,128,949-18,148,189 Size: 19,241 Total Exon Count: 23 Strand: +
Coding Region
   Position: hg19 chr17:18,128,997-18,146,135 Size: 17,139 Coding Exon Count: 22 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:18,128,949-18,148,189)mRNA (may differ from genome)Protein (1064 aa)
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-  Comments and Description Text from UniProtKB
  ID: L2GL1_HUMAN
DESCRIPTION: RecName: Full=Lethal(2) giant larvae protein homolog 1; Short=LLGL; AltName: Full=DLG4; AltName: Full=Hugl-1; AltName: Full=Human homolog to the D-lgl gene protein;
FUNCTION: Cortical cytoskeleton protein found in a complex involved in maintaining cell polarity and epithelial integrity. Involved in the regulation of mitotic spindle orientation, proliferation, differentiation and tissue organization of neuroepithelial cells. Involved in axonogenesis through RAB10 activation thereby regulating vesicular membrane trafficking toward the axonal plasma membrane.
SUBUNIT: Associated with nonmuscle myosin II heavy chain. Interacts with PRKCI/aPKC, PARD6B/Par-6 and PARD6A. Interacts with STX4A (By similarity). Interacts with RAB10 (GDP-bound form); the interaction is direct and promotes RAB10 association with membranes and activation through competition with the Rab inhibitor GDI1 (By similarity).
SUBCELLULAR LOCATION: Early endosome membrane (By similarity). Golgi apparatus, trans-Golgi network membrane (By similarity). Golgi apparatus membrane (By similarity). Cell projection, axon (By similarity). Cytoplasm, cytoskeleton. Note=Localized to the lateral membrane during the polarization and formation cell-cell contacts. Enriched in developping axons (By similarity).
TISSUE SPECIFICITY: Expressed in brain, kidney, and muscle but is barely seen in heart and placenta. Down-regulated or lost in all cell lines and in most of the tumor samples analyzed. Loss was associated with advanced stage of the disease.
PTM: Phosphorylated upon DNA damage, probably by ATM or ATR (By similarity). Phosphorylated at least at Ser-663 by PRKCI.
MISCELLANEOUS: Down-regulation of LLGL1 is associated with the progression of colorectal cancer and melanoma. Located within the Smith-Magenis syndrome region on chromosome 17; deleted in patients with this syndrome.
MISCELLANEOUS: Expression increases cell adhesion and decreases cell migration. Substitutes for Drosophila l(2)gl tumor suppressor function in vivo.
SIMILARITY: Belongs to the WD repeat L(2)GL family.
SIMILARITY: Contains 14 WD repeats.
SEQUENCE CAUTION: Sequence=BAA19516.1; Type=Frameshift; Positions=205, 216, 737, 740, 794, 799, 866, 872, 881, 945, 968, 1024;

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: LLGL1
Diseases sorted by gene-association score: smith-magenis syndrome (32), adiaspiromycosis (16), potocki-luspski syndrome (16), deafness, autosomal dominant 9 (9)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 37.26 RPKM in Brain - Spinal cord (cervical c-1)
Total median expression: 536.86 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 -25.7048-0.535 Picture PostScript Text
3' UTR -381.30969-0.393 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
IPR000664 - Lethal2_giant
IPR013577 - LLGL2
IPR015943 - WD40/YVTN_repeat-like_dom
IPR001680 - WD40_repeat
IPR019775 - WD40_repeat_CS
IPR017986 - WD40_repeat_dom

Pfam Domains:
PF00400 - WD domain, G-beta repeat
PF08366 - LLGL2

SCOP Domains:
50952 - Soluble quinoprotein glucose dehydrogenase
50956 - Thermostable phytase (3-phytase)
50960 - TolB, C-terminal domain
63825 - YWTD domain
63829 - Calcium-dependent phosphotriesterase
69304 - Tricorn protease N-terminal domain
101898 - NHL repeat
50965 - Galactose oxidase, central domain
75011 - 3-carboxy-cis,cis-mucoante lactonizing enzyme
101908 - Putative isomerase YbhE
117289 - Nucleoporin domain
50969 - YVTN repeat-like/Quinoprotein amine dehydrogenase
50974 - Nitrous oxide reductase, N-terminal domain
50978 - WD40 repeat-like
50993 - Peptidase/esterase 'gauge' domain
69322 - Tricorn protease domain 2
50998 - Quinoprotein alcohol dehydrogenase-like
51004 - C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase
82171 - DPP6 N-terminal domain-like

ModBase Predicted Comparative 3D Structure on Q15334
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-  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 Gene Details  
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005096 GTPase activator activity
GO:0005198 structural molecule activity
GO:0005515 protein binding
GO:0017137 Rab GTPase binding
GO:0019901 protein kinase binding
GO:0019905 syntaxin binding

Biological Process:
GO:0006887 exocytosis
GO:0006893 Golgi to plasma membrane transport
GO:0007409 axonogenesis
GO:0017157 regulation of exocytosis
GO:0030866 cortical actin cytoskeleton organization
GO:0043547 positive regulation of GTPase activity
GO:0050708 regulation of protein secretion
GO:0065003 macromolecular complex assembly

Cellular Component:
GO:0000137 Golgi cis cisterna
GO:0000139 Golgi membrane
GO:0005737 cytoplasm
GO:0005768 endosome
GO:0005794 Golgi apparatus
GO:0005856 cytoskeleton
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0030424 axon
GO:0030864 cortical actin cytoskeleton
GO:0031901 early endosome membrane
GO:0032588 trans-Golgi network membrane
GO:0042995 cell projection


-  Descriptions from all associated GenBank mRNAs
  LF209093 - JP 2014500723-A/16596: Polycomb-Associated Non-Coding RNAs.
BC028037 - Homo sapiens lethal giant larvae homolog 1 (Drosophila), mRNA (cDNA clone IMAGE:5247144), partial cds.
LF213982 - JP 2014500723-A/21485: Polycomb-Associated Non-Coding RNAs.
BC151838 - Homo sapiens lethal giant larvae homolog 1 (Drosophila), mRNA (cDNA clone MGC:166967 IMAGE:8860300), complete cds.
BC028214 - Homo sapiens lethal giant larvae homolog 1 (Drosophila), mRNA (cDNA clone IMAGE:5214566), partial cds.
X86371 - H.sapiens mRNA for tumour suppressor protein, HUGL.
D50550 - Homo sapiens LLGL mRNA, complete cds.
BC167831 - Synthetic construct Homo sapiens clone IMAGE:100068221, MGC:195838 lethal giant larvae homolog 1 (Drosophila) (LLGL1) mRNA, encodes complete protein.
LF326081 - JP 2014500723-A/133584: Polycomb-Associated Non-Coding RNAs.
LF326082 - JP 2014500723-A/133585: Polycomb-Associated Non-Coding RNAs.
BC051466 - Homo sapiens lethal giant larvae homolog 1 (Drosophila), mRNA (cDNA clone IMAGE:5263252), with apparent retained intron.
LF326083 - JP 2014500723-A/133586: Polycomb-Associated Non-Coding RNAs.
LF326086 - JP 2014500723-A/133589: Polycomb-Associated Non-Coding RNAs.
DL492397 - Novel nucleic acids.
DL490880 - Novel nucleic acids.
LF326087 - JP 2014500723-A/133590: Polycomb-Associated Non-Coding RNAs.
JD519778 - Sequence 500802 from Patent EP1572962.
JD341608 - Sequence 322632 from Patent EP1572962.
JD157593 - Sequence 138617 from Patent EP1572962.
JD544335 - Sequence 525359 from Patent EP1572962.
JD489517 - Sequence 470541 from Patent EP1572962.
LF326088 - JP 2014500723-A/133591: Polycomb-Associated Non-Coding RNAs.
MA449559 - JP 2018138019-A/21485: Polycomb-Associated Non-Coding RNAs.
MA561658 - JP 2018138019-A/133584: Polycomb-Associated Non-Coding RNAs.
MA561659 - JP 2018138019-A/133585: Polycomb-Associated Non-Coding RNAs.
MA561660 - JP 2018138019-A/133586: Polycomb-Associated Non-Coding RNAs.
MA561663 - JP 2018138019-A/133589: Polycomb-Associated Non-Coding RNAs.
MA561664 - JP 2018138019-A/133590: Polycomb-Associated Non-Coding RNAs.
MA561665 - JP 2018138019-A/133591: Polycomb-Associated Non-Coding RNAs.
MA444670 - JP 2018138019-A/16596: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: A7MBM7, DLG4, ENST00000316843.1, ENST00000316843.2, ENST00000316843.3, ENST00000316843.4, ENST00000316843.5, ENST00000316843.6, ENST00000316843.7, ENST00000316843.8, HUGL, HUGL1, L2GL1_HUMAN, NM_004140, O00188, Q15334, Q58F11, Q86UK6, uc317qcl.1, uc317qcl.2
UCSC ID: ENST00000316843.9_6
RefSeq Accession: NM_004140.4
Protein: Q15334 (aka L2GL1_HUMAN)

-  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.