SPDYE2

Summary

SPDYE2 (speedy/RINGO cell cycle regulator family member E2, HGNC:33841) is a protein-coding gene on chromosome 7q22.1, encoding Speedy protein E2 (Q495Y8).

Predicted to enable protein kinase binding activity.

Source: NCBI Gene 441273 — RefSeq curated summary.

At a glance

• MANE Select transcript: NM_001396242

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:33841
Approved symbol	SPDYE2
Name	speedy/RINGO cell cycle regulator family member E2
Location	7q22.1
Locus type	gene with protein product
Status	Approved
Aliases	MGC119295
Ensembl gene	ENSG00000205238
Ensembl biotype	protein_coding
OMIM	617624
Entrez	441273

Gene structure

Transcript identifiers

Ensembl transcripts: 3 — 3 protein_coding

ENST00000341656, ENST00000507918, ENST00000691607

RefSeq mRNA: 2 — MANE Select: NM_001396242 NM_001031618, NM_001396242

CCDS: CCDS34716

Canonical transcript exons

ENST00000691607 — 9 exons

Exon	Start	End
ENSE00002447635	102562056	102563538
ENSE00002453327	102561116	102561220
ENSE00002469808	102557164	102557222
ENSE00002472738	102558467	102558552
ENSE00002536162	102560600	102560993
ENSE00003472020	102552835	102553415
ENSE00003744425	102554359	102554577
ENSE00003748361	102555900	102556130
ENSE00003931381	102551226	102551288

Expression profiles

Bgee: expression breadth ubiquitous, 134 present calls, max score 81.29.

Top tissues by expression

134 total, by Bgee expression score (0-100, higher = more expressed):

Tissue	Anatomy ID	Expression score	Quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	81.29	gold quality
sural nerve	UBERON:0015488	80.42	gold quality
skeletal muscle tissue	UBERON:0001134	76.26	gold quality
stromal cell of endometrium	CL:0002255	75.30	gold quality
testis	UBERON:0000473	74.34	gold quality
left testis	UBERON:0004533	74.07	gold quality
right testis	UBERON:0004534	72.43	gold quality
gastrocnemius	UBERON:0001388	72.02	gold quality
muscle of leg	UBERON:0001383	71.72	gold quality
muscle tissue	UBERON:0002385	71.57	gold quality
granulocyte	CL:0000094	71.26	gold quality
mucosa of transverse colon	UBERON:0004991	71.16	gold quality
apex of heart	UBERON:0002098	70.75	gold quality
blood	UBERON:0000178	70.65	gold quality
bone marrow	UBERON:0002371	69.91	gold quality
right lobe of thyroid gland	UBERON:0001119	69.71	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	69.02	gold quality
hindlimb stylopod muscle	UBERON:0004252	69.00	gold quality
leukocyte	CL:0000738	67.91	gold quality
bone marrow cell	CL:0002092	67.78	silver quality
monocyte	CL:0000576	67.67	gold quality
right ovary	UBERON:0002118	67.55	gold quality
adrenal tissue	UBERON:0018303	67.48	gold quality
tonsil	UBERON:0002372	67.20	gold quality
metanephros cortex	UBERON:0010533	67.06	gold quality
left lobe of thyroid gland	UBERON:0001120	66.87	gold quality
heart left ventricle	UBERON:0002084	66.75	gold quality
upper lobe of left lung	UBERON:0008952	66.60	gold quality
thyroid gland	UBERON:0002046	66.56	gold quality
vermiform appendix	UBERON:0001154	66.42	gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 1.

Experiment	Marker?	Max mean expression
E-ANND-3	yes	7.93

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

12 targeting SPDYE2, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNA	Max score	Avg score	miRNA target_count
HSA-MIR-4659A-3P	99.80	72.62	4248
HSA-MIR-4659B-3P	99.80	72.62	4248
HSA-MIR-6745	99.74	65.33	1321
HSA-MIR-6505-5P	99.73	69.25	1595
HSA-MIR-363-5P	99.46	64.51	1015
HSA-MIR-4769-3P	97.95	68.17	1002
HSA-MIR-6817-5P	97.95	67.86	1026
HSA-MIR-6747-3P	97.73	64.84	1596
HSA-MIR-22-5P	97.67	68.92	1355
HSA-MIR-7154-3P	97.65	65.02	985
HSA-MIR-346	97.01	66.97	662
HSA-MIR-6736-3P	96.98	65.22	1342

Cross-species orthologs

3 orthologs

Organism	Symbol	Gene ID
mus_musculus	Spdye4b	ENSMUSG00000029586
mus_musculus	Spdye4a	ENSMUSG00000039296
rattus_norvegicus	Spdye4	ENSRNOG00000058563

Paralogs (18): SPDYE1 (ENSG00000136206), SPDYE5 (ENSG00000170092), SPDYE2B (ENSG00000173678), SPDYE4 (ENSG00000183318), SPDYE12 (ENSG00000184616), SPDYE16 (ENSG00000185040), SPDYE17 (ENSG00000186645), SPDYE18 (ENSG00000205482), SPDYE3 (ENSG00000214300), SPDYE21 (ENSG00000230358), SPDYE6 (ENSG00000260097), SPDYE9 (ENSG00000262461), SPDYE8 (ENSG00000273520), SPDYE10 (ENSG00000274570), SPDYE11 (ENSG00000275976), SPDYE15 (ENSG00000286014), SPDYE13 (ENSG00000286038), SPDYE14 (ENSG00000286137)

Protein

Protein identifiers

Speedy protein E2 — Q495Y8 (reviewed: Q495Y8)

All UniProt accessions (2): Q495Y8, I6XC90

UniProt curated annotations — full annotation on UniProt →

Similarity. Belongs to the Speedy/Ringo family.

Isoforms (2)

UniProt ID	Names	Canonical?
Q495Y8-1	1	yes
Q495Y8-2	2

RefSeq proteins (2): NP_001026789, NP_001383171* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR020984	Speedy	Family
IPR057742	Speedy_E	Family

Pfam: PF11357

UniProt features (7 total): compositionally biased region 2, sequence conflict 2, chain 1, region of interest 1, splice variant 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q495Y8-F1	60.74	0.24

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 5 (showing top): GOMF_KINASE_BINDING, MIR6736_3P, MIR346, chr7q22, PULVER_FOREY_PERTURB_ACCUMULATION_G2_M

GO Biological Process (1): positive regulation of cyclin-dependent protein serine/threonine kinase activity (GO:0045737)

GO Molecular Function (2): protein kinase binding (GO:0019901), protein binding (GO:0005515)

GO Cellular Component (0):

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
regulation of cyclin-dependent protein serine/threonine kinase activity	1
cyclin-dependent protein serine/threonine kinase activity	1
positive regulation of cell cycle	1
positive regulation of protein serine/threonine kinase activity	1
positive regulation of cyclin-dependent protein kinase activity	1
kinase binding	1
binding	1

Protein interactions and networks

STRING

110 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
SPDYE2	POLR2J3	Q9H1A7	583
SPDYE2	POLR2J2	Q9GZM3	582
SPDYE2	ZNF841	Q6ZN19	542
SPDYE2	ZNF117	Q03924	447
SPDYE2	UTP14C	Q5TAP6	447
SPDYE2	PRKRIP1	Q9H875	446
SPDYE2	NME9	Q86XW9	432
SPDYE2	FRRS1	Q6ZNA5	417
SPDYE2	ALKBH4	Q9NXW9	400
SPDYE2	ARMC10	Q8N2F6	394
SPDYE2	GON4L	Q3T8J9	393
SPDYE2	FBXL13	Q8NEE6	391
SPDYE2	USP40	Q9NVE5	377
SPDYE2	PMPCB	O75439	352
SPDYE2	DGKD	Q16760	311

IntAct

4 interactions, top by confidence:

A	B	Type	Score
MAPRE1	SPDYE2	psi-mi:“MI:0915”(physical association)	0.560

BioGRID (8): SPDYE2 (Two-hybrid), SPDYE2 (Two-hybrid), SPDYE2 (Two-hybrid), SPDYE2 (Two-hybrid), SPDYE2 (Two-hybrid), SPDYE2 (Negative Genetic), SPDYE2 (Negative Genetic), SPDYE2 (Negative Genetic)

ESM2 similar proteins: A0A0J9YY54, A0A494C086, A0A494C0Z2, A0A494C191, A6NHP3, A6NIY4, A6NJR5, A6NNV3, B4DH59, F6SZT2, P0C6Y7, P0CI01, P0DKJ7, P0DKJ8, P0DTA3, P0DUD1, P0DUD2, P0DUD3, P0DUD4, P0DUX0, P0DUX1, P0DV79, P79386, Q08AG5, Q13342, Q16666, Q3BBV2, Q495Y8, Q587J8, Q5JRC9, Q5QGU6, Q5RD14, Q5RKG3, Q63HK3, Q6ITT4, Q7TQI8, Q86T75, Q8IWY8, Q8N660, Q8NFV5

Diamond homologs: A0A494C086, A0A494C0Z2, A0A494C191, A6NHP3, A6NIY4, A6NJR5, A6NKU9, A6NLX3, A6NNV3, P0CI01, P0DTA3, P0DUD1, P0DUD2, P0DUD3, P0DUD4, P0DUX0, P0DUX1, P0DV79, Q495Y7, Q495Y8, Q5IBH6, Q5IBH7, Q5MJ68, Q5MJ70, Q8NFV5, Q8R496, Q9PU13, Q9YGL1

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

0 variants total. Per-class counts are floors (≥ shown; pagination cap):

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	0
Likely benign	0
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1370 predictions. Top by Δscore:

Variant	Effect	Δscore
7:102560598:A:AG	acceptor_gain	1.0000
7:102560599:G:GG	acceptor_gain	1.0000
7:102553382:G:GT	donor_gain	0.9900
7:102557162:A:AG	acceptor_gain	0.9900
7:102557162:AGAG:A	acceptor_gain	0.9900
7:102557163:G:GG	acceptor_gain	0.9900
7:102557163:GAGG:G	acceptor_gain	0.9900
7:102560594:CCTCA:C	acceptor_loss	0.9900
7:102560595:CTCA:C	acceptor_loss	0.9900
7:102560596:TCA:T	acceptor_loss	0.9900
7:102560597:CAGCT:C	acceptor_loss	0.9900
7:102560598:AG:A	acceptor_loss	0.9900
7:102560599:G:A	acceptor_loss	0.9900
7:102560599:GCT:G	acceptor_gain	0.9900
7:102560599:GCTAC:G	acceptor_gain	0.9900
7:102560669:G:GT	donor_gain	0.9900
7:102560990:GGAG:G	donor_gain	0.9900
7:102560991:GAGG:G	donor_gain	0.9900
7:102560992:AGG:A	donor_loss	0.9900
7:102560993:GGT:G	donor_loss	0.9900
7:102560994:G:GC	donor_loss	0.9900
7:102560995:T:G	donor_loss	0.9900
7:102552889:GCTT:G	donor_gain	0.9800
7:102553386:T:TA	donor_gain	0.9800
7:102553387:G:GA	donor_gain	0.9800
7:102556079:C:T	donor_gain	0.9800
7:102556123:GCTGC:G	donor_gain	0.9800
7:102557161:CAG:C	acceptor_gain	0.9800
7:102557162:AGA:A	acceptor_gain	0.9800
7:102557163:GA:G	acceptor_gain	0.9800

AlphaMissense

0 scored. Top likely-pathogenic:

dbSNP variants (sampled 300 via entrez): RS1002471973 (7:102550291 G>C), RS1002503265 (7:102554940 C>T), RS1005063621 (7:102549933 T>C), RS1011487240 (7:102550573 T>C,G), RS1011929442 (7:102555405 G>A,C), RS1019712452 (7:102556785 G>A,C), RS10259412 (7:102550215 T>C), RS10266347 (7:102564415 C>A,T), RS1034234250 (7:102550351 T>C), RS1036057813 (7:102549946 G>C), RS1036089588 (7:102554788 A>G), RS1048636898 (7:102554747 A>G), RS1054292 (7:102563080 G>A,C,T), RS1055423745 (7:102554993 A>G), RS112527352 (7:102552583 G>C)

Disease associations

OMIM: gene MIM:617624 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

0 associations (top):

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

CTD chemical–gene interactions

13 total (human), top 13 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
alpha-pinene	increases expression, increases abundance, affects cotreatment	1
methacrylaldehyde	affects cotreatment, increases expression, increases abundance	1
cordycepin	increases expression	1
Resveratrol	decreases expression, affects cotreatment	1
Acrolein	increases abundance, affects cotreatment, increases expression	1
Air Pollutants	affects cotreatment, increases abundance, increases expression	1
Cadmium	decreases expression	1
Copper	affects cotreatment, decreases expression	1
Ozone	affects cotreatment, increases expression, increases abundance	1
Tobacco Smoke Pollution	decreases expression	1
Lactic Acid	increases expression	1
Acrylamide	decreases expression	1
Volatile Organic Compounds	affects cotreatment, increases expression	1

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.