Human Gene CSF3 (ENST00000394149.8_12) from GENCODE V47lift37
  Description: colony stimulating factor 3, transcript variant 2 (from RefSeq NM_172219.3)
Gencode Transcript: ENST00000394149.8_12
Gencode Gene: ENSG00000108342.13_16
Transcript (Including UTRs)
   Position: hg19 chr17:38,171,693-38,174,066 Size: 2,374 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr17:38,171,728-38,173,212 Size: 1,485 Coding Exon Count: 5 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:38,171,693-38,174,066)mRNA (may differ from genome)Protein (204 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  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: CSF3
Diseases sorted by gene-association score: felty syndrome (17), neutropenia (16), severe congenital neutropenia (13), mucositis (9), neutrophilic dermatosis, acute febrile (9), cytophagic histiocytic panniculitis (8), refractory anemia with excess blasts in transformation (8), pancytopenia (8), scedosporiosis (8), acute radiation syndrome (7), neutropenia, cyclic (7), aplastic anemia (6), hodgkin lymphoma (6), zygomycosis (6), acute leukemia (6), myelodysplastic syndrome (6), hematologic cancer (5), thrombocytopenia (5), pneumonia (5), chronic neutrophilic leukemia (5), granulocytopenia (4), neutropenia, severe congenital 3, autosomal recessive (4), lung cancer (4), deficiency anemia (4), refractory anemia with excess blasts (4), leukemia, chronic myeloid, somatic (3), lymphoma, non-hodgkin (3), bone marrow cancer (3), stomatitis (3), trichosporonosis (3), wrinkles (3), acute lymphocytic leukemia (3), engraftment syndrome (3), malaria (3), dyskeratosis congenita (3), multiple myeloma (3), leukemia, acute promyelocytic, somatic (3), chronic granulomatous disease (3), doxorubicin induced cardiomyopathy (2), myelofibrosis with myeloid metaplasia, somatic (2), leukocyte disease (2), macroglossia (2), adult lymphoma (2), ewing's family of tumors (2), desmoplastic small round cell tumor (2), immune system disease (2), trigonitis (2), middle ear carcinoma (2), core binding factor acute myeloid leukemia (2), small cell cancer of the lung, somatic (2), corticobasal degeneration (2), localized osteosarcoma (2), hemorrhagic disease (2), ovarian cancer, somatic (2), blood platelet disease (2), breast cancer (2), blood coagulation disease (2), refractory hematologic cancer (2), orbital granuloma (1), refractory hairy cell leukemia (1), leukemia, acute myeloid (1), cerebral neuroblastoma (1), ecthyma (1), anemia of prematurity (1), jaw cancer (1)

-  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: 7.21 RPKM in Lung
Total median expression: 35.58 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 -3.6035-0.103 Picture PostScript Text
3' UTR -329.10854-0.385 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
IPR009079 - 4_helix_cytokine-like_core
IPR012351 - 4_helix_cytokine_core
IPR003573 - IL6_MGF_GCSF

Pfam Domains:
PF16647 - Granulocyte colony-stimulating factor

SCOP Domains:
47266 - 4-helical cytokines
54637 - Thioesterase/thiol ester dehydrase-isomerase

ModBase Predicted Comparative 3D Structure on Q6FH65
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 orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005125 cytokine activity

Biological Process:
GO:0006955 immune response
GO:0010469 regulation of receptor activity

Cellular Component:
GO:0005576 extracellular region


-  Descriptions from all associated GenBank mRNAs
  AK290247 - Homo sapiens cDNA FLJ76606 complete cds, highly similar to Homo sapiens colony stimulating factor 3 (granulocyte) (CSF3), transcript variant 3, mRNA.
AK298116 - Homo sapiens cDNA FLJ52903 complete cds, moderately similar to Granulocyte colony-stimulating factor precursor.
JD301655 - Sequence 282679 from Patent EP1572962.
M17706 - Human granulocyte colony stimulating factor mRNA, complete cds.
AK313509 - Homo sapiens cDNA, FLJ94067, Homo sapiens colony stimulating factor 3 (granulocyte) (CSF3),transcript variant 2, mRNA.
JD317480 - Sequence 298504 from Patent EP1572962.
X03438 - Human mRNA for granulocyte colony-stimulating factor (G-CSF).
E01224 - cDNA encoding human granulocyte clone stimulating factor(G-CSF).
E01916 - cDNA encoding granulocyte colony stimulating factor(G-CSF).
E08531 - cDNA encoding Granulocyte-Colony stimulating factor.
E09569 - cDNA encoding a polypeptide having granulocyte colony stimulating factor activity.
X03655 - Human mRNA for granulocyte colony-stimulating factor (G-CSF) (pBRV-2).
E01219 - cDNA encoding human G-CSF.
BC033245 - Homo sapiens colony stimulating factor 3 (granulocyte), mRNA (cDNA clone MGC:45931 IMAGE:5434958), complete cds.
JD329358 - Sequence 310382 from Patent EP1572962.
JD329359 - Sequence 310383 from Patent EP1572962.
AB591019 - Synthetic construct DNA, clone: pFN21AE1702, Homo sapiens CSF3 gene for colony stimulating factor 3, without stop codon, in Flexi system.
AB102881 - Homo sapiens CSF3 mRNA for colony stimulating factor 3 nirs variant 1, complete cds.
CR541891 - Homo sapiens full open reading frame cDNA clone RZPDo834D0733D for gene CSF3, colony stimulating factor 3 (granulocyte); complete cds, without stopcodon.
JD203411 - Sequence 184435 from Patent EP1572962.
KJ901095 - Synthetic construct Homo sapiens clone ccsbBroadEn_10489 CSF3 gene, encodes complete protein.
E08529 - DNA encoding Granulocyte-Colony stimulating factor.
E01731 - cDNA encoding hG-CSF form human periferal macrophage.
E02573 - DNA encoding human colony-stimulating factor(hG-CSF).
E07164 - cDNA encoding human G-CSF.
E09431 - cDNA encoding hG-CSF.
HM132049 - Homo sapiens clone shicr89 granulocyte colony-stimulating factor (CSF3) mRNA, partial cds, alternatively spliced.
KP271008 - Homo sapiens clone shicr89-2 granulocyte-colony stimulating factor mRNA, partial cds.
JD411744 - Sequence 392768 from Patent EP1572962.
JD188779 - Sequence 169803 from Patent EP1572962.
LP886328 - Sequence 220 from Patent WO2017201352.
LP978085 - Sequence 220 from Patent WO2017120612.
JD290642 - Sequence 271666 from Patent EP1572962.
JD093598 - Sequence 74622 from Patent EP1572962.
JD464335 - Sequence 445359 from Patent EP1572962.
JD401323 - Sequence 382347 from Patent EP1572962.
JD467232 - Sequence 448256 from Patent EP1572962.
JD368650 - Sequence 349674 from Patent EP1572962.
JD193191 - Sequence 174215 from Patent EP1572962.
JD433507 - Sequence 414531 from Patent EP1572962.
JD215428 - Sequence 196452 from Patent EP1572962.
JD484295 - Sequence 465319 from Patent EP1572962.
JD482409 - Sequence 463433 from Patent EP1572962.
JD177806 - Sequence 158830 from Patent EP1572962.
JD074053 - Sequence 55077 from Patent EP1572962.
JD171486 - Sequence 152510 from Patent EP1572962.
JD437068 - Sequence 418092 from Patent EP1572962.
JD337947 - Sequence 318971 from Patent EP1572962.
JD133372 - Sequence 114396 from Patent EP1572962.
JD324224 - Sequence 305248 from Patent EP1572962.
JD324225 - Sequence 305249 from Patent EP1572962.
MB419107 - JP 2019519516-A/69: MRNA COMBINATION THERAPIES FOR THE TREATMENT OF CANCER.
MB419972 - JP 2019519516-A/934: MRNA COMBINATION THERAPIES FOR THE TREATMENT OF CANCER.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_stemPathway - Regulation of hematopoiesis by cytokines
h_erythPathway - Erythrocyte Differentiation Pathway
h_inflamPathway - Cytokines and Inflammatory Response
h_granulocytesPathway - Adhesion and Diapedesis of Granulocytes
h_il17Pathway - IL 17 Signaling Pathway

-  Other Names for This Gene
  Alternate Gene Symbols: CSF3 , ENST00000394149.1, ENST00000394149.2, ENST00000394149.3, ENST00000394149.4, ENST00000394149.5, ENST00000394149.6, ENST00000394149.7, hCG_30013 , NM_172219, Q6FH65, Q6FH65_HUMAN, uc318wko.1, uc318wko.2
UCSC ID: ENST00000394149.8_12
RefSeq Accession: NM_172219.3
Protein: Q6FH65

-  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.