Human Gene SURF6 (ENST00000372022.6_7) from GENCODE V47lift37

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Description: surfeit 6, transcript variant 3 (from RefSeq NR_103874.2)
Gencode Transcript: ENST00000372022.6_7
Gencode Gene: ENSG00000148296.7_9
Transcript (Including UTRs)
Position: hg19 chr9:136,195,612-136,203,025 Size: 7,414 Total Exon Count: 7 Strand: -
Coding Region
Position: hg19 chr9:136,198,705-136,202,969 Size: 4,265 Coding Exon Count: 5

Page Index	Sequence and Links	UniProtKB Comments	Primers	CTD	Gene Alleles
RNA-Seq Expression	RNA Structure	Protein Structure	Other Species	GO Annotations	mRNA Descriptions
Other Names	Model Information	Methods

Data last updated at UCSC: 2024-08-22 23:36:26

Sequence and Links to Tools and Databases

Genomic Sequence (chr9:136,195,612-136,203,025)			mRNA (may differ from genome)		Protein (361 aa)
Gene Sorter	Genome Browser	Other Species FASTA	Gene interactions	Table Schema	AlphaFold
BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards	HGNC
MGI	OMIM	PubMed	UniProtKB	Wikipedia	BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: SURF6_HUMAN DESCRIPTION: RecName: Full=Surfeit locus protein 6; FUNCTION: Binds to both DNA and RNA in vitro, with a stronger binding capacity for RNA. May represent a nucleolar constitutive protein involved in ribosomal biosynthesis or assembly (By similarity). SUBCELLULAR LOCATION: Nucleus, nucleoplasm (By similarity). Nucleus, nucleolus (By similarity). Note=Granular component of the nucleolus (By similarity). SIMILARITY: Belongs to the SURF6 family.

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 C016403 2,4-dinitrotoluene C023514 2,6-dinitrotoluene C009505 4,4'-diaminodiphenylmethane C547126 AZM551248 D000082 Acetaminophen D016604 Aflatoxin B1 D001564 Benzo(a)pyrene D019256 Cadmium Chloride D002509 Cephaloridine D002994 Clofibrate D019327 Copper Sulfate D004026 Dieldrin D004958 Estradiol D004997 Ethinyl Estradiol D005839 Gentamicins D007854 Lead D013749 Tetrachlorodibenzodioxin C006780 bisphenol A

Common Gene Haplotype Alleles


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RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)


	Highest median expression: 17.77 RPKM in Colon - Transverse Total median expression: 686.70 RPKM View in GTEx track of Genome Browser View at GTEx portal View GTEx Body Map

mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-16.40	56	-0.293	Picture	PostScript	Text
3' UTR	-1099.40	3083	-0.357	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
IPR007019 - Surf6

Pfam Domains:
PF04935 - Surfeit locus protein 6

ModBase Predicted Comparative 3D Structure on O75683


Front	Top	Side

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.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	Genome Browser	No ortholog
Gene Details	Gene Details			Gene Details
Gene Sorter	Gene Sorter			Gene Sorter
	RGD	Ensembl		WormBase
				Protein Sequence
				Alignment

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0003677 DNA binding GO:0003723 RNA binding GO:0005515 protein binding Biological Process: GO:0042254 ribosome biogenesis GO:0042273 ribosomal large subunit biogenesis GO:0042274 ribosomal small subunit biogenesis Cellular Component: GO:0001652 granular component GO:0005634 nucleus GO:0005654 nucleoplasm GO:0005730 nucleolus GO:0022625 cytosolic large ribosomal subunit

Descriptions from all associated GenBank mRNAs


	AF211978 - Homo sapiens LENG11 mRNA, partial sequence. JD433632 - Sequence 414656 from Patent EP1572962. JD321123 - Sequence 302147 from Patent EP1572962. JD041376 - Sequence 22400 from Patent EP1572962. JD169356 - Sequence 150380 from Patent EP1572962. JD529229 - Sequence 510253 from Patent EP1572962. JD557383 - Sequence 538407 from Patent EP1572962. JD041375 - Sequence 22399 from Patent EP1572962. JD041377 - Sequence 22401 from Patent EP1572962. JD169355 - Sequence 150379 from Patent EP1572962. JD169357 - Sequence 150381 from Patent EP1572962. JD529228 - Sequence 510252 from Patent EP1572962. JD529230 - Sequence 510254 from Patent EP1572962. JD557382 - Sequence 538406 from Patent EP1572962. JD557384 - Sequence 538408 from Patent EP1572962. JD430203 - Sequence 411227 from Patent EP1572962. JD118429 - Sequence 99453 from Patent EP1572962. JD201299 - Sequence 182323 from Patent EP1572962. JD326824 - Sequence 307848 from Patent EP1572962. JD388315 - Sequence 369339 from Patent EP1572962. JD523759 - Sequence 504783 from Patent EP1572962. JD247780 - Sequence 228804 from Patent EP1572962. JD388314 - Sequence 369338 from Patent EP1572962. JD084367 - Sequence 65391 from Patent EP1572962. JD169354 - Sequence 150378 from Patent EP1572962. BC003001 - Homo sapiens surfeit 6, mRNA (cDNA clone IMAGE:2820773), partial cds. BC006197 - Homo sapiens surfeit 6, mRNA (cDNA clone MGC:2367 IMAGE:2820773), complete cds. JD381933 - Sequence 362957 from Patent EP1572962. JD052852 - Sequence 33876 from Patent EP1572962. JD040541 - Sequence 21565 from Patent EP1572962. JD207249 - Sequence 188273 from Patent EP1572962. JD260008 - Sequence 241032 from Patent EP1572962. JD441081 - Sequence 422105 from Patent EP1572962. JD496127 - Sequence 477151 from Patent EP1572962. JD241699 - Sequence 222723 from Patent EP1572962. JD192967 - Sequence 173991 from Patent EP1572962. AK054884 - Homo sapiens cDNA FLJ30322 fis, clone BRACE2006703, highly similar to Surfeit locus protein 6. JD305224 - Sequence 286248 from Patent EP1572962. JD369228 - Sequence 350252 from Patent EP1572962. JD302269 - Sequence 283293 from Patent EP1572962. JD172820 - Sequence 153844 from Patent EP1572962. BC014878 - Homo sapiens surfeit 6, mRNA (cDNA clone MGC:17229 IMAGE:4343122), complete cds. JD423508 - Sequence 404532 from Patent EP1572962. JD563289 - Sequence 544313 from Patent EP1572962. JD060104 - Sequence 41128 from Patent EP1572962. JD247584 - Sequence 228608 from Patent EP1572962. JD492323 - Sequence 473347 from Patent EP1572962. JD219496 - Sequence 200520 from Patent EP1572962. JD109194 - Sequence 90218 from Patent EP1572962. JD219495 - Sequence 200519 from Patent EP1572962. JD167917 - Sequence 148941 from Patent EP1572962. JD214275 - Sequence 195299 from Patent EP1572962. JD173181 - Sequence 154205 from Patent EP1572962. JD395337 - Sequence 376361 from Patent EP1572962. JD086273 - Sequence 67297 from Patent EP1572962. JD287902 - Sequence 268926 from Patent EP1572962. JD064144 - Sequence 45168 from Patent EP1572962. JD456867 - Sequence 437891 from Patent EP1572962. JD533562 - Sequence 514586 from Patent EP1572962. JD373480 - Sequence 354504 from Patent EP1572962. JD339568 - Sequence 320592 from Patent EP1572962. JD544078 - Sequence 525102 from Patent EP1572962. EU831789 - Synthetic construct Homo sapiens clone HAIB:100066818; DKFZo008D0921 surfeit 6 protein (SURF6) gene, encodes complete protein. KJ892233 - Synthetic construct Homo sapiens clone ccsbBroadEn_01627 SURF6 gene, encodes complete protein. EU831867 - Synthetic construct Homo sapiens clone HAIB:100066896; DKFZo004D0922 surfeit 6 protein (SURF6) gene, encodes complete protein. JD520330 - Sequence 501354 from Patent EP1572962. JD483702 - Sequence 464726 from Patent EP1572962.

Other Names for This Gene


	Alternate Gene Symbols: ENST00000372022.1, ENST00000372022.2, ENST00000372022.3, ENST00000372022.4, ENST00000372022.5, NR_103874, O75683, Q5T8U1, Q9BRK9, Q9BTZ5, Q9UK24, SURF-6, SURF6_HUMAN, uc318jow.1, uc318jow.2 UCSC ID: ENST00000372022.6_7 RefSeq Accession: NM_006753.6 Protein: O75683 (aka SURF6_HUMAN or SUR6_HUMAN)

Gene Model Information


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Methods, Credits, and Use Restrictions


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