Human Gene SNRPN (ENST00000390687.9_4) from GENCODE V47lift37

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Description: small nuclear ribonucleoprotein polypeptide N, transcript variant 1 (from RefSeq NM_003097.6)
Gencode Transcript: ENST00000390687.9_4
Gencode Gene: ENSG00000128739.23_13
Transcript (Including UTRs)
Position: hg19 chr15:25,200,134-25,223,870 Size: 23,737 Total Exon Count: 10 Strand: +
Coding Region
Position: hg19 chr15:25,219,601-25,223,591 Size: 3,991 Coding Exon Count: 7

Page Index	Sequence and Links	Primers	MalaCards	CTD	Gene Alleles
RNA-Seq Expression	Microarray Expression	RNA Structure	Other Species	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 (chr15:25,200,134-25,223,870)			mRNA (may differ from genome)		Protein (240 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	Malacards	MGI	OMIM	PubMed	UniProtKB
Wikipedia	BioGrid 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: SNRPN Diseases sorted by gene-association score: prader-willi syndrome* (397), autistic disorder* (52), autism spectrum disorder* (39), angelman syndrome (26), prader-willi syndrome due to translocation* (25), prader-willi syndrome due to imprinting mutation* (25), prader-willi syndrome due to maternal uniparental disomy of chromosome 15* (25), prader-willi syndrome due to paternal deletion of 15q11q13 type 1* (18), prader-willi syndrome due to paternal deletion of 15q11q13 type 2* (18), angelman syndrome due to imprinting defect in 15q11-q13* (18), chromosomal disease (4), systemic lupus erythematosus (3) * = Manually curated disease association

Comparative Toxicogenomics Database (CTD)


	The following chemicals interact with this gene D003993 Dibutyl Phthalate C016403 2,4-dinitrotoluene D000643 Ammonium Chloride D001262 Atenolol D002251 Carbon Tetrachloride D002857 Chromium D019327 Copper Sulfate D005419 Flavonoids D004397 Fonofos D006861 Hydrogen Peroxide D016912 Levonorgestrel D008731 Methoxychlor D008769 Methylnitronitrosoguanidine D010278 Parathion D013749 Tetrachlorodibenzodioxin C000188 alachlor C044946 benazepril C018021 cobaltous chloride C039281 furan C016517 indole-3-carbinol C047806 monomethylpropion C012568 terbufos C004648 testosterone enanthate C010792 testosterone undecanoate C025643 vinclozolin

Common Gene Haplotype Alleles


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


	Highest median expression: 7.14 RPKM in Brain - Nucleus accumbens (basal ganglia) Total median expression: 108.73 RPKM View in GTEx track of Genome Browser View at GTEx portal View GTEx Body Map

Microarray Expression Data


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mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-145.20	466	-0.312	Picture	PostScript	Text
3' UTR	-52.00	279	-0.186	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.

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	No ortholog	No ortholog
Gene Details	Gene Details
Gene Sorter	Gene Sorter
	RGD

Descriptions from all associated GenBank mRNAs


	L80005 - Homo sapiens u1B-IC/SNRPN transcript, mRNA sequence. L80004 - Homo sapiens u1A-IC/SNRPN transcript, mRNA sequence. AK222633 - Homo sapiens mRNA for small nuclear ribonucleoprotein polypeptide N variant, clone: CBL04839. BC035280 - Homo sapiens, small nuclear ribonucleoprotein polypeptide N, clone IMAGE:5179670, mRNA. U41303 - Human small nuclear ribonuleoprotein particle N (SNRPN) mRNA, complete cds. AF101044 - Homo sapiens SNRPN upstream reading frame protein (SNURF) mRNA, complete cds. AK098563 - Homo sapiens cDNA FLJ25697 fis, clone TST04565, highly similar to SMALL NUCLEAR RIBONUCLEOPROTEIN ASSOCIATED PROTEIN N. J04615 - Human lupus autoantigen (small nuclear ribonuclepoprotein, snRNP, SM-D) mRNA, complete cds. BC000445 - Homo sapiens cDNA clone IMAGE:2820873, ** WARNING: chimeric clone . BC018809 - Homo sapiens cDNA clone IMAGE:2820501. BC010057 - Homo sapiens cDNA clone IMAGE:3945980, WARNING: chimeric clone . BC003180 - Homo sapiens small nuclear ribonucleoprotein polypeptide N, mRNA (cDNA clone MGC:4420 IMAGE:2958068), complete cds. BC063608 - Homo sapiens cDNA clone IMAGE:4940200, WARNING: chimeric clone . BC025178 - Homo sapiens small nuclear ribonucleoprotein polypeptide N, mRNA (cDNA clone MGC:34180 IMAGE:4158469), complete cds. AF319522 - Homo sapiens RT-LII mRNA, complete sequence. AF319523 - Homo sapiens RT-LI mRNA, complete sequence. AB590506 - Synthetic construct DNA, clone: pFN21AE1101, Homo sapiens SNURF gene for SNRPN upstream reading frame, without stop codon, in Flexi system. BC024777 - Homo sapiens small nuclear ribonucleoprotein polypeptide N, mRNA (cDNA clone MGC:29886 IMAGE:3907606), complete cds. BC113069 - Homo sapiens cDNA clone IMAGE:40024120, WARNING: chimeric clone **. DQ571397 - Homo sapiens piRNA piR-31509, complete sequence. X15892 - Human hcerN3 gene mRNA for N snRNP associated protein. JD106997 - Sequence 88021 from Patent EP1572962. JD038469 - Sequence 19493 from Patent EP1572962. JD237060 - Sequence 218084 from Patent EP1572962. AK123119 - Homo sapiens cDNA FLJ41124 fis, clone BRACE2014850, highly similar to Small nuclear ribonucleoprotein-associated protein N. BC000611 - Homo sapiens small nuclear ribonucleoprotein polypeptide N, mRNA (cDNA clone MGC:1613 IMAGE:3347412), complete cds. AF400432 - Homo sapiens small nuclear ribonucleoprotein polypeptide N (SNRPN) mRNA, complete cds. DQ896135 - Synthetic construct Homo sapiens clone IMAGE:100010595; FLH190652.01L; RZPDo839C0866D small nuclear ribonucleoprotein polypeptide N (SNRPN) gene, encodes complete protein. DQ892886 - Synthetic construct clone IMAGE:100005516; FLH190656.01X; RZPDo839C0876D small nuclear ribonucleoprotein polypeptide N (SNRPN) gene, encodes complete protein. AB528328 - Synthetic construct DNA, clone: pF1KB0983, Homo sapiens SNRPN gene for small nuclear ribonucleoprotein polypeptide N, without stop codon, in Flexi system. CR450350 - Homo sapiens full open reading frame cDNA clone RZPDo834H032D for gene SNRPN, small nuclear ribonucleoprotein polypeptide N; complete cds; without stopcodon. KJ534946 - Homo sapiens clone SNRPN_iso-A_adult-A01 small nuclear ribonucleoprotein polypeptide N isoform A (SNRPN) mRNA, partial cds, alternatively spliced. CU692934 - Synthetic construct Homo sapiens gateway clone IMAGE:100016860 5' read SNURF mRNA. HQ447144 - Synthetic construct Homo sapiens clone IMAGE:100070432; CCSB003905_01 SNRPN upstream reading frame (SNURF) gene, encodes complete protein. KJ892181 - Synthetic construct Homo sapiens clone ccsbBroadEn_01575 SNRPN gene, encodes complete protein. JD450123 - Sequence 431147 from Patent EP1572962. X16163 - Human mRNA for SmB/B' autoimmune antigene (K5-1). JD452185 - Sequence 433209 from Patent EP1572962. JD531125 - Sequence 512149 from Patent EP1572962. JD440400 - Sequence 421424 from Patent EP1572962. JD381859 - Sequence 362883 from Patent EP1572962. JD431947 - Sequence 412971 from Patent EP1572962. JD465871 - Sequence 446895 from Patent EP1572962. JD225640 - Sequence 206664 from Patent EP1572962. JD453020 - Sequence 434044 from Patent EP1572962. JD547320 - Sequence 528344 from Patent EP1572962. JD108258 - Sequence 89282 from Patent EP1572962. JD346064 - Sequence 327088 from Patent EP1572962. JD548723 - Sequence 529747 from Patent EP1572962. U81001 - Human SNRPN mRNA, 3' UTR, partial sequence.

Other Names for This Gene


	Alternate Gene Symbols: ENST00000390687.1, ENST00000390687.2, ENST00000390687.3, ENST00000390687.4, ENST00000390687.5, ENST00000390687.6, ENST00000390687.7, ENST00000390687.8, hCG_15924 , NM_003097, SNRPN , uc318tyc.1, uc318tyc.2, X5DP00, X5DP00_HUMAN UCSC ID: ENST00000390687.9_4 RefSeq Accession: NM_005678.5

Gene Model Information


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Methods, Credits, and Use Restrictions


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