Q9CY97 (SSU72_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
RNA polymerase II subunit A C-terminal domain phosphatase SSU72
Short name=CTD phosphatase SSU72
EC=3.1.3.16

Gene names

Name:

Ssu72

Organism

Mus musculus (Mouse) [Reference proteome]

Taxonomic identifier

10090 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Mus › Mus

Protein attributes

Sequence length	194 AA.
Sequence status	Complete.
Protein existence	Evidence at transcript level

General annotation (Comments)

Function	Protein phosphatase that catalyzes the dephosphorylation of the C-terminal domain of RNA polymerase II. Plays a role in RNA processing and termination. Plays a role in pre-mRNA polyadenylation via its interaction with SYMPK. Ref.4
Catalytic activity	A phosphoprotein + H2O = a protein + phosphate.
Subunit structure	Interacts with RB1. Interacts with GTF2B and CD226. Interacts with SYMPK By similarity.
Subcellular location	Nucleus By similarity. Cytoplasm By similarity. Note: Predominantly in the cytosol By similarity.
Tissue specificity	Highly expressed in the brain. Expressed at low level in most tissues. Ref.4
Developmental stage	At E10.5, low level expression detected throughout the embryo with relative accumulation in spinal cord and brain folds. At E13.5, highly expressed in the CNS both in the ventricular (mitotic) and marginal (post mitotic) zones, in the PNS in dorsal root and trigeminal ganglia, and the developing gut. During development, expression in the central nervous system and peripheral nervous system persists, and expression in the intestine is further induced. Expression in the intestine is observed throughout the mucosal villi, which contains epithelial cells and other cell types. High expression is also detected in the lens. No expression is seen in other tissues such as liver, lung, bone, cardiac and skeletal muscles. Ref.4
Sequence similarities	Belongs to the SSU72 phosphatase family.

Ontologies

Keywords
Biological process	mRNA processing
Cellular component	Cytoplasm Nucleus
Coding sequence diversity	Alternative splicing
Domain	Coiled coil
Molecular function	Hydrolase Protein phosphatase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	dephosphorylation of RNA polymerase II C-terminal domain Inferred from sequence or structural similarity. Source: UniProtKB mRNA polyadenylation Inferred from sequence or structural similarity. Source: UniProtKB
Cellular_component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	CTD phosphatase activity Inferred from sequence or structural similarity. Source: UniProtKB
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q9CY97-1)

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

Isoform 2 (identifier: Q9CY97-2)

The sequence of this isoform differs from the canonical sequence as follows:
     162-194: IQHTEDMENEIDELLQEFEEKSGRAFLHTVCFY → VSLSSWVLLGLLIATYKNKIK

Note: No experimental confirmation available.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 194	194	RNA polymerase II subunit A C-terminal domain phosphatase SSU72		PRO_0000330013
Regions
	Coiled coil	160 – 187	28	Potential
Natural variations
	Alternative sequence	162 – 194	33	IQHTE…TVCFY → VSLSSWVLLGLLIATYKNKI K in isoform 2.		VSP_033006
Experimental info
	Sequence conflict	59	1	T → P in BAB23890. Ref.1

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified June 1, 2001. Version 1. Checksum: 51B89AC7BCD79486	FASTA	194	22,517
	10 20 30 40 50 60 MPSSPLRVAV VCSSNQNRSM EAHNILSKRG FSVRSFGTGT HVKLPGPAPD KPNVYDFKTT 70 80 90 100 110 120 YDQMYNDLLR KDKELYTQNG ILHMLDRNKR IKPRPERFQN CTDLFDLILT CEERVYDQVV 130 140 150 160 170 180 EDLNSREQET CQPVHVVNVD IQDNHEEATL GAFLICELCQ CIQHTEDMEN EIDELLQEFE 190 EKSGRAFLHT VCFY
	Isoform 2 [UniParc]. Checksum: 5F3F793A72405661	FASTA	182	20,862
	10 20 30 40 50 60 MPSSPLRVAV VCSSNQNRSM EAHNILSKRG FSVRSFGTGT HVKLPGPAPD KPNVYDFKTT 70 80 90 100 110 120 YDQMYNDLLR KDKELYTQNG ILHMLDRNKR IKPRPERFQN CTDLFDLILT CEERVYDQVV 130 140 150 160 170 180 EDLNSREQET CQPVHVVNVD IQDNHEEATL GAFLICELCQ CVSLSSWVLL GLLIATYKNK IK

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The transcriptional landscape of the mammalian genome." Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J. , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y. Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). Strain: C57BL/6J. Tissue: Cerebellum, Embryo and Sympathetic ganglion.
[2]	"Lineage-specific biology revealed by a finished genome assembly of the mouse." Church D.M., Goodstadt L., Hillier L.W., Zody M.C., Goldstein S., She X., Bult C.J., Agarwala R., Cherry J.L., DiCuccio M., Hlavina W., Kapustin Y., Meric P., Maglott D., Birtle Z., Marques A.C., Graves T., Zhou S. , Teague B., Potamousis K., Churas C., Place M., Herschleb J., Runnheim R., Forrest D., Amos-Landgraf J., Schwartz D.C., Cheng Z., Lindblad-Toh K., Eichler E.E., Ponting C.P. PLoS Biol. 7:E1000112-E1000112(2009) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: C57BL/6J.
[3]	"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)." The MGC Project Team Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2). Strain: FVB/N. Tissue: Mammary tumor.
[4]	"Conserved and specific functions of mammalian ssu72." St Pierre B., Liu X., Kha L.C., Zhu X., Ryan O., Jiang Z., Zacksenhaus E. Nucleic Acids Res. 33:464-477(2005) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AK005220 mRNA. Translation: BAB23890.1. AK019168 mRNA. Translation: BAB31582.1. AK148783 mRNA. Translation: BAE28662.1. AL670236 Genomic DNA. Translation: CAM18380.1. AL670236 Genomic DNA. Translation: CAM18381.1. BC016544 mRNA. Translation: AAH16544.1.
IPI	IPI00318564. IPI00460332.
RefSeq	NP_081175.2. NM_026899.3.
UniGene	Mm.294770. Mm.483261.
3D structure databases
ProteinModelPortal	Q9CY97.
SMR	Q9CY97. Positions 5-194.
ModBase	Search...
Protein-protein interaction databases
STRING	10090.ENSMUSP00000030905.
PTM databases
PhosphoSite	Q9CY97.
Proteomic databases
PaxDb	Q9CY97.
PRIDE	Q9CY97.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENSMUST00000030905; ENSMUSP00000030905; ENSMUSG00000029038. ENSMUST00000105595; ENSMUSP00000101220; ENSMUSG00000029038.
GeneID	68991.
KEGG	mmu:68991.
UCSC	uc008wek.2. mouse. uc008wel.2. mouse.
Organism-specific databases
CTD	29101.
MGI	MGI:1916241. Ssu72.
Phylogenomic databases
eggNOG	COG5211.
GeneTree	ENSGT00390000010165.
HOGENOM	HOG000183445.
HOVERGEN	HBG059831.
InParanoid	Q9CY97.
KO	K15544.
OMA	SMEAHNF.
OrthoDB	EOG49PB0D.
Gene expression databases
Bgee	Q9CY97.
Genevestigator	Q9CY97.
Family and domain databases
InterPro	IPR006811. RNA_pol_II_suA. [Graphical view]
PANTHER	PTHR20383. PTHR20383. 1 hit.
Pfam	PF04722. Ssu72. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	328359.
SOURCE	Search...

Entry information

Entry name

SSU72_MOUSE

Accession

Primary (citable) accession number: Q9CY97
Secondary accession number(s): Q3UF99, Q91YL1, Q9DB51

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 29, 2008
Last sequence update:	June 1, 2001
Last modified:	April 3, 2013
This is version 74 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program