Human Gene MEGF9 (uc022bms.1)
  Description: Homo sapiens multiple EGF-like-domains 9 (MEGF9), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr9:123,363,196-123,476,765 Size: 113,570 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chr9:123,367,468-123,476,636 Size: 109,169 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:123,363,196-123,476,765)mRNA (may differ from genome)Protein (602 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
OMIMPubMedTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: MEGF9_HUMAN
DESCRIPTION: RecName: Full=Multiple epidermal growth factor-like domains protein 9; Short=Multiple EGF-like domains protein 9; AltName: Full=Epidermal growth factor-like protein 5; Short=EGF-like protein 5; Flags: Precursor;
SUBCELLULAR LOCATION: Membrane; Single-pass type I membrane protein (Potential).
POLYMORPHISM: The poly-Ala stretch (positions 24 to 31) may be polymorphic and varies from 6 to 8 Ala residues.
SIMILARITY: Contains 5 laminin EGF-like domains.
CAUTION: It is uncertain whether Met-1 or Met-9 is the initiator.
SEQUENCE CAUTION: Sequence=AAQ88736.1; Type=Miscellaneous discrepancy; Note=Intron retention;

-  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           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: 22.59 RPKM in Whole Blood
Total median expression: 403.30 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 -48.00129-0.372 Picture PostScript Text
3' UTR -1224.414272-0.287 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
IPR013032 - EGF-like_CS
IPR002049 - EGF_laminin
IPR001368 - TNFR/NGFR_Cys_rich_reg

Pfam Domains:
PF00053 - Laminin EGF domain

SCOP Domains:
57196 - EGF/Laminin
57184 - Growth factor receptor domain

ModBase Predicted Comparative 3D Structure on Q9H1U4
FrontTopSide
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 orthologGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
  Protein Sequence   
  Alignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Biological Process:
GO:0008150 biological_process

Cellular Component:
GO:0005575 cellular_component
GO:0005604 basement membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AK295380 - Homo sapiens cDNA FLJ54425 complete cds, highly similar to Multiple epidermal growth factor-like domains 9 precursor.
BC156248 - Synthetic construct Homo sapiens clone IMAGE:100061692, MGC:190075 multiple EGF-like-domains 9 (MEGF9) mRNA, encodes complete protein.
BC157029 - Synthetic construct Homo sapiens clone IMAGE:100063290, MGC:190731 multiple EGF-like-domains 9 (MEGF9) mRNA, encodes complete protein.
AY358370 - Homo sapiens clone DNA64952 EGFL5 (UNQ671) mRNA, complete cds.
AB011542 - Homo sapiens mRNA for MEGF9, partial cds.
BC016989 - Homo sapiens multiple EGF-like-domains 9, mRNA (cDNA clone IMAGE:4396752), with apparent retained intron.
AJ420444 - Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 1622317.
JD241516 - Sequence 222540 from Patent EP1572962.
JD486556 - Sequence 467580 from Patent EP1572962.
JD224401 - Sequence 205425 from Patent EP1572962.
JD067358 - Sequence 48382 from Patent EP1572962.
JD368334 - Sequence 349358 from Patent EP1572962.
JD253594 - Sequence 234618 from Patent EP1572962.
JD519974 - Sequence 500998 from Patent EP1572962.
JD416845 - Sequence 397869 from Patent EP1572962.
JD171741 - Sequence 152765 from Patent EP1572962.
BC008313 - Homo sapiens multiple EGF-like-domains 9, mRNA (cDNA clone IMAGE:3050303).
JD461460 - Sequence 442484 from Patent EP1572962.
JD478145 - Sequence 459169 from Patent EP1572962.
JD541989 - Sequence 523013 from Patent EP1572962.
JD355625 - Sequence 336649 from Patent EP1572962.
JD449830 - Sequence 430854 from Patent EP1572962.
JD333099 - Sequence 314123 from Patent EP1572962.
JD176197 - Sequence 157221 from Patent EP1572962.
JD545651 - Sequence 526675 from Patent EP1572962.
JD426930 - Sequence 407954 from Patent EP1572962.
JD111889 - Sequence 92913 from Patent EP1572962.
JD328600 - Sequence 309624 from Patent EP1572962.
JD080078 - Sequence 61102 from Patent EP1572962.
JD546150 - Sequence 527174 from Patent EP1572962.
JD093013 - Sequence 74037 from Patent EP1572962.
JD236232 - Sequence 217256 from Patent EP1572962.
JD372967 - Sequence 353991 from Patent EP1572962.
JD436478 - Sequence 417502 from Patent EP1572962.
JD368738 - Sequence 349762 from Patent EP1572962.
JD504094 - Sequence 485118 from Patent EP1572962.
JD554314 - Sequence 535338 from Patent EP1572962.
JD508350 - Sequence 489374 from Patent EP1572962.
JD082956 - Sequence 63980 from Patent EP1572962.
JD126344 - Sequence 107368 from Patent EP1572962.
JD508461 - Sequence 489485 from Patent EP1572962.
JD096134 - Sequence 77158 from Patent EP1572962.
JD556720 - Sequence 537744 from Patent EP1572962.
JD350453 - Sequence 331477 from Patent EP1572962.
JD155294 - Sequence 136318 from Patent EP1572962.
JD205536 - Sequence 186560 from Patent EP1572962.
JD074765 - Sequence 55789 from Patent EP1572962.
JD334049 - Sequence 315073 from Patent EP1572962.
JD072978 - Sequence 54002 from Patent EP1572962.
JD237191 - Sequence 218215 from Patent EP1572962.
JD448994 - Sequence 430018 from Patent EP1572962.
JD167249 - Sequence 148273 from Patent EP1572962.
JD154828 - Sequence 135852 from Patent EP1572962.
JD280293 - Sequence 261317 from Patent EP1572962.
JD530537 - Sequence 511561 from Patent EP1572962.
JD444093 - Sequence 425117 from Patent EP1572962.
JD069469 - Sequence 50493 from Patent EP1572962.
JD088737 - Sequence 69761 from Patent EP1572962.
JD370937 - Sequence 351961 from Patent EP1572962.
JD492892 - Sequence 473916 from Patent EP1572962.
JD249041 - Sequence 230065 from Patent EP1572962.
JD263257 - Sequence 244281 from Patent EP1572962.
JD370733 - Sequence 351757 from Patent EP1572962.
JD044649 - Sequence 25673 from Patent EP1572962.
JD434093 - Sequence 415117 from Patent EP1572962.
JD308629 - Sequence 289653 from Patent EP1572962.
JD063344 - Sequence 44368 from Patent EP1572962.
JD543570 - Sequence 524594 from Patent EP1572962.
DQ584459 - Homo sapiens piRNA piR-51571, complete sequence.
JD384737 - Sequence 365761 from Patent EP1572962.
JD389760 - Sequence 370784 from Patent EP1572962.
JD211087 - Sequence 192111 from Patent EP1572962.
JD157727 - Sequence 138751 from Patent EP1572962.
JD460669 - Sequence 441693 from Patent EP1572962.
JD059233 - Sequence 40257 from Patent EP1572962.
JD458517 - Sequence 439541 from Patent EP1572962.
JD056229 - Sequence 37253 from Patent EP1572962.
JD271292 - Sequence 252316 from Patent EP1572962.
JD458514 - Sequence 439538 from Patent EP1572962.
JD056228 - Sequence 37252 from Patent EP1572962.
JD458513 - Sequence 439537 from Patent EP1572962.
JD458511 - Sequence 439535 from Patent EP1572962.
JD458512 - Sequence 439536 from Patent EP1572962.
JD271291 - Sequence 252315 from Patent EP1572962.
JD458510 - Sequence 439534 from Patent EP1572962.
JD406055 - Sequence 387079 from Patent EP1572962.
JD272537 - Sequence 253561 from Patent EP1572962.
JD057274 - Sequence 38298 from Patent EP1572962.
JD406801 - Sequence 387825 from Patent EP1572962.
JD461601 - Sequence 442625 from Patent EP1572962.
JD272536 - Sequence 253560 from Patent EP1572962.
JD461600 - Sequence 442624 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B7Z315, EGFL5, KIAA0818, MEGF9_HUMAN, NM_001080497, NP_001073966, O75098, Q9H1U4, UNQ671/PRO1305
UCSC ID: uc022bms.1
RefSeq Accession: NM_001080497
Protein: Q9H1U4 (aka MEGF9_HUMAN)
CCDS: CCDS48010.2

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001080497.2
exon count: 6CDS single in 3' UTR: no RNA size: 6227
ORF size: 1809CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3637.00frame shift in genome: no % Coverage: 99.73
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.