CCNJL

Summary

CCNJL (cyclin J like, HGNC:25876) is a protein-coding gene on chromosome 5q33.3, encoding Cyclin-J-like protein (Q8IV13).

Predicted to enable cyclin-dependent protein serine/threonine kinase regulator activity. Predicted to be involved in G1/S transition of mitotic cell cycle. Predicted to be part of cyclin-dependent protein kinase holoenzyme complex. Predicted to be active in cytoplasm; microtubule organizing center; and nucleus.

Source: NCBI Gene 79616 — RefSeq curated summary.

At a glance

• GWAS associations: 2
• Clinical variants (ClinVar): 77 total
• MANE Select transcript: NM_001308173

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:25876
Approved symbol	CCNJL
Name	cyclin J like
Location	5q33.3
Locus type	gene with protein product
Status	Approved
Aliases	FLJ14166
Ensembl gene	ENSG00000135083
Ensembl biotype	protein_coding
Entrez	79616

Gene structure

Transcript identifiers

Ensembl transcripts: 16 — 10 protein_coding, 3 protein_coding_CDS_not_defined, 3 nonsense_mediated_decay

ENST00000257536, ENST00000377503, ENST00000393977, ENST00000518764, ENST00000519673, ENST00000520748, ENST00000521643, ENST00000643539, ENST00000643836, ENST00000644313, ENST00000644926, ENST00000870722, ENST00000870723, ENST00000870724, ENST00000917493, ENST00000917494

RefSeq mRNA: 2 — MANE Select: NM_001308173 NM_001308173, NM_024565

CCDS: CCDS4350, CCDS78082

Canonical transcript exons

ENST00000257536 — 6 exons

Exon	Start	End
ENSE00003559236	160255549	160255708
ENSE00003576798	160259469	160259771
ENSE00003632363	160311858	160311972
ENSE00003638862	160280525	160280738
ENSE00003900014	160312364	160312564
ENSE00003901787	160249083	160253798

Expression profiles

Bgee: expression breadth ubiquitous, 167 present calls, max score 88.31.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 4.2053 / max 280.9875, expressed in 997 samples.

FANTOM5 promoters (7 alternative TSS)

Promoter ID	TPM avg	Samples expressed
64623	3.5404	944
64624	0.2306	40
64622	0.2158	85
64621	0.1108	27
64619	0.0431	12
64620	0.0365	9
64625	0.0280	5

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
blood	UBERON:0000178	88.31	gold quality
cerebellar hemisphere	UBERON:0002245	87.33	gold quality
cerebellar cortex	UBERON:0002129	87.28	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	86.86	gold quality
right hemisphere of cerebellum	UBERON:0014890	86.50	gold quality
cerebellum	UBERON:0002037	85.83	gold quality
mucosa of transverse colon	UBERON:0004991	85.81	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	82.63	gold quality
right testis	UBERON:0004534	77.48	gold quality
upper lobe of left lung	UBERON:0008952	77.14	gold quality
left testis	UBERON:0004533	77.10	gold quality
testis	UBERON:0000473	77.04	gold quality
ventricular zone	UBERON:0003053	76.84	gold quality
apex of heart	UBERON:0002098	76.29	gold quality
upper lobe of lung	UBERON:0008948	75.88	gold quality
transverse colon	UBERON:0001157	75.42	gold quality
rectum	UBERON:0001052	75.31	gold quality
ganglionic eminence	UBERON:0004023	75.30	gold quality
body of stomach	UBERON:0001161	75.06	gold quality
granulocyte	CL:0000094	74.15	gold quality
heart left ventricle	UBERON:0002084	73.47	gold quality
cardiac ventricle	UBERON:0002082	72.96	gold quality
cerebellar vermis	UBERON:0004720	72.96	silver quality
spleen	UBERON:0002106	72.43	gold quality
stomach	UBERON:0000945	72.28	gold quality
right ovary	UBERON:0002118	72.27	gold quality
right lung	UBERON:0002167	71.63	gold quality
tendon of biceps brachii	UBERON:0008188	71.21	silver quality
left adrenal gland	UBERON:0001234	71.12	gold quality
left ovary	UBERON:0002119	71.01	gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 1.

Experiment	Marker?	Max mean expression
E-ANND-3	yes	9.05
E-MTAB-7303	no	243.89

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

62 targeting CCNJL, 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-30A-5P	100.00	76.31	3233
HSA-MIR-30B-5P	100.00	76.29	3248
HSA-MIR-30C-5P	100.00	76.29	3248
HSA-MIR-30D-5P	100.00	76.32	3233
HSA-MIR-30E-5P	100.00	76.32	3242
HSA-MIR-196A-1-3P	99.99	72.15	2772
HSA-MIR-32-5P	99.98	75.21	1964
HSA-MIR-92A-3P	99.98	75.21	1960
HSA-MIR-92B-3P	99.98	75.25	1955
HSA-MIR-23B-5P	99.98	66.07	587
HSA-MIR-25-3P	99.98	74.60	1817
HSA-MIR-363-3P	99.98	74.72	1821
HSA-MIR-367-3P	99.98	74.83	1819
HSA-MIR-545-3P	99.95	70.74	2783
HSA-MIR-23A-5P	99.94	65.39	468
HSA-MIR-651-3P	99.94	73.48	5177
HSA-MIR-22-3P	99.93	68.13	917
HSA-MIR-515-5P	99.92	69.82	2343
HSA-MIR-519E-5P	99.92	69.62	2358
HSA-MIR-497-5P	99.92	71.83	2674
HSA-MIR-4648	99.91	67.00	710
HSA-MIR-1297	99.91	73.41	3162
HSA-MIR-3529-3P	99.90	73.55	3045
HSA-MIR-15A-5P	99.90	72.80	2787
HSA-MIR-15B-5P	99.90	72.78	2798
HSA-MIR-16-5P	99.90	72.80	2780
HSA-MIR-195-5P	99.90	72.81	2805
HSA-MIR-4302	99.89	67.94	1187
HSA-MIR-424-5P	99.89	71.90	2641
HSA-MIR-6838-5P	99.89	71.94	2690

Cross-species orthologs

11 orthologs

Organism	Symbol	Gene ID
danio_rerio	ccnjl	ENSDARG00000077116
mus_musculus	Ccnjl	ENSMUSG00000044707
rattus_norvegicus	Ccnjl	ENSRNOG00000003893
drosophila_melanogaster	CycB	FBGN0000405
drosophila_melanogaster	CycD	FBGN0010315
drosophila_melanogaster	CycE	FBGN0010382
caenorhabditis_elegans		WBGENE00000865
caenorhabditis_elegans		WBGENE00000866
caenorhabditis_elegans	cyb-2.2	WBGENE00000867
caenorhabditis_elegans		WBGENE00000870
caenorhabditis_elegans	cye-1	WBGENE00000871

Paralogs (18): CCNE1 (ENSG00000105173), CCNP (ENSG00000105219), CCNJ (ENSG00000107443), CCND1 (ENSG00000110092), CCND3 (ENSG00000112576), CCNG1 (ENSG00000113328), CCNI (ENSG00000118816), CCND2 (ENSG00000118971), CCNA1 (ENSG00000133101), CCNB1 (ENSG00000134057), CCNG2 (ENSG00000138764), CCNA2 (ENSG00000145386), CCNB3 (ENSG00000147082), CCNO (ENSG00000152669), CCNB2 (ENSG00000157456), CCNF (ENSG00000162063), CCNE2 (ENSG00000175305), CCNI2 (ENSG00000205089)

Protein

Protein identifiers

Cyclin-J-like protein — Q8IV13 (reviewed: Q8IV13)

All UniProt accessions (7): A0A2R8Y754, A0A2R8Y7P8, A0A2R8YFU1, B4DZA8, E5RFJ6, E7EN43, Q8IV13

UniProt curated annotations — full annotation on UniProt →

Similarity. Belongs to the cyclin family. Cyclin J subfamily.

Isoforms (2)

UniProt ID	Names	Canonical?
Q8IV13-1	1	yes
Q8IV13-2	2

RefSeq proteins (2): NP_001295102, NP_078841 (=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR004367	Cyclin_C-dom	Domain
IPR006671	Cyclin_N	Domain
IPR013763	Cyclin-like_dom	Domain
IPR036915	Cyclin-like_sf	Homologous_superfamily
IPR039361	Cyclin	Family

Pfam: PF00134, PF02984

UniProt features (7 total): splice variant 3, chain 1, domain 1, region of interest 1, sequence variant 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q8IV13-F1	68.40	0.35

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 118 (showing top): GSE45365_NK_CELL_VS_CD11B_DC_UP, GOBP_CELL_CYCLE_PHASE_TRANSITION, GOCC_MICROTUBULE_ORGANIZING_CENTER, MYOD_01, SHEDDEN_LUNG_CANCER_GOOD_SURVIVAL_A4, GOBP_CELL_CYCLE_G1_S_PHASE_TRANSITION, GOBP_MITOTIC_CELL_CYCLE, MYOD_Q6, AACTTT_UNKNOWN, RYTTCCTG_ETS2_B, E12_Q6, APPIERTO_RESPONSE_TO_FENRETINIDE_UP, ACEVEDO_METHYLATED_IN_LIVER_CANCER_DN, GOCC_TRANSFERASE_COMPLEX_TRANSFERRING_PHOSPHORUS_CONTAINING_GROUPS, GOCC_TRANSFERASE_COMPLEX

GO Biological Process (3): G1/S transition of mitotic cell cycle (GO:0000082), mitotic cell cycle phase transition (GO:0044772), cell division (GO:0051301)

GO Molecular Function (2): cyclin-dependent protein serine/threonine kinase regulator activity (GO:0016538), protein binding (GO:0005515)

GO Cellular Component (4): cyclin-dependent protein kinase holoenzyme complex (GO:0000307), nucleus (GO:0005634), cytoplasm (GO:0005737), microtubule organizing center (GO:0005815)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
mitotic cell cycle	2
cellular anatomical structure	2
mitotic cell cycle phase transition	1
cell cycle G1/S phase transition	1
cell cycle phase transition	1
mitotic cell cycle process	1
cellular process	1
cyclin-dependent protein serine/threonine kinase activity	1
cyclin-dependent protein kinase regulator activity	1
binding	1
serine/threonine protein kinase complex	1
intracellular membrane-bounded organelle	1
intracellular anatomical structure	1
microtubule cytoskeleton	1

Protein interactions and networks

STRING

814 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
CCNJL	CCNC	P24863	387
CCNJL	CNPPD1	Q9BV87	377
CCNJL	TMEM217	Q8N7C4	363
CCNJL	TMEM217B	A0A494BZU4	363
CCNJL	CDK18	Q07002	355
CCNJL	WDR86	Q86TI4	349
CCNJL	EID3	Q8N140	348
CCNJL	TMEM117	Q9H0C3	324
CCNJL	RASSF6	Q6ZTQ3	322
CCNJL	CCNF	P41002	315
CCNJL	CCNH	P51946	312
CCNJL	DBF4B	Q8NFT6	305
CCNJL	CDK19	Q9BWU1	293
CCNJL	SHROOM1	Q2M3G4	290
CCNJL	CDK17	Q00537	286

IntAct

31 interactions, top by confidence:

A	B	Type	Score
CCNJL	KRTAP10-8	psi-mi:“MI:0915”(physical association)	0.670
KRTAP26-1	CCNJL	psi-mi:“MI:0915”(physical association)	0.670
KRTAP10-8	CCNJL	psi-mi:“MI:0915”(physical association)	0.670
CCNJL	KRTAP26-1	psi-mi:“MI:0915”(physical association)	0.670
REL	CCNJL	psi-mi:“MI:0915”(physical association)	0.560
TLE5	CCNJL	psi-mi:“MI:0915”(physical association)	0.560
TRAF2	CCNJL	psi-mi:“MI:0915”(physical association)	0.560
C1orf94	CCNJL	psi-mi:“MI:0915”(physical association)	0.560
CCNJL	TLE5	psi-mi:“MI:0915”(physical association)	0.560
CCNJL	TRAF2	psi-mi:“MI:0915”(physical association)	0.560
CCNJL	C1orf94	psi-mi:“MI:0915”(physical association)	0.560
CCNJL	REL	psi-mi:“MI:0915”(physical association)	0.560
PKN1	CCNJL	psi-mi:“MI:0915”(physical association)	0.560
UQCRC1	CCNJL	psi-mi:“MI:0915”(physical association)	0.560
CCNJL	PIK3C2A	psi-mi:“MI:0914”(association)	0.530
CCNJL	HSPA5	psi-mi:“MI:0914”(association)	0.530

BioGRID (76): CCNJL (Two-hybrid), CCNJL (Two-hybrid), CCNJL (Two-hybrid), C1orf94 (Two-hybrid), KRTAP10-8 (Two-hybrid), KRTAP26-1 (Two-hybrid), TUBB8 (Affinity Capture-MS), HSPA5 (Affinity Capture-MS), STIL (Affinity Capture-MS), TUBA4A (Affinity Capture-MS), TUBA1A (Affinity Capture-MS), MTO1 (Affinity Capture-MS), DNAJA1 (Affinity Capture-MS), DDX11L8 (Affinity Capture-MS), WDR34 (Affinity Capture-MS)

ESM2 similar proteins: A2VE78, A5PK16, A6QP29, B1AVH7, B5DFA1, C0HAC0, D2H0G5, D2HNY3, O15040, P31152, P41002, P51944, Q13615, Q2YDQ5, Q32NM1, Q3UMR0, Q400C9, Q5F479, Q5M9H0, Q5PQT2, Q5REW9, Q5RF77, Q5XGG5, Q69ZT1, Q6NYX6, Q6R653, Q6ZW76, Q7T0L6, Q7TNH6, Q80TI1, Q810L3, Q86XL3, Q8BVF9, Q8C2S5, Q8IV13, Q8IV45, Q8JZL1, Q8K296, Q8K4F8, Q8NFM7

Diamond homologs: A0A096LPI5, A6NIU2, A6NJG6, F2Z398, P0DTE4, P51957, Q09FC8, Q5H9K5, Q5T7P6, Q68CZ1, Q6B4Z3, Q6UX73, Q86U02, Q8IV13, Q8N7M2, Q8N9N2, Q8NDZ0, Q8NEM8, Q8TDM0, Q92918, Q96J02, Q96MD7, Q9BUA6, Q9NXG0, Q8N2A0, Q96M98, Q96T75, Q9UHC9, P0C242, P24865, P25009, P51945, P78396, Q147G5, Q38819, Q39071, Q3TZI6, Q5SCB5, Q5SRT8, Q5T5M9

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	65
Likely benign	5
Benign	2

Top pathogenic / likely-pathogenic (0)

SpliceAI

1417 predictions. Top by Δscore:

Variant	Effect	Δscore
5:160253795:CACT:C	acceptor_gain	1.0000
5:160253797:CT:C	acceptor_gain	1.0000
5:160253799:C:CC	acceptor_gain	1.0000
5:160255547:A:AC	donor_gain	1.0000
5:160255548:C:CC	donor_gain	1.0000
5:160255548:CA:C	donor_gain	1.0000
5:160255705:TGAT:T	acceptor_gain	1.0000
5:160255708:TC:T	acceptor_loss	1.0000
5:160255709:C:CA	acceptor_loss	1.0000
5:160259502:A:AC	donor_gain	1.0000
5:160259502:ACT:A	donor_gain	1.0000
5:160259503:C:CC	donor_gain	1.0000
5:160259503:CTC:C	donor_gain	1.0000
5:160259505:C:CA	donor_gain	1.0000
5:160280519:GCTT:G	donor_loss	1.0000
5:160280520:CTTAC:C	donor_loss	1.0000
5:160280521:TTA:T	donor_loss	1.0000
5:160280522:TACT:T	donor_loss	1.0000
5:160280523:A:AC	donor_gain	1.0000
5:160280523:A:C	donor_loss	1.0000
5:160280524:C:A	donor_loss	1.0000
5:160280524:C:CA	donor_gain	1.0000
5:160280524:CTTG:C	donor_gain	1.0000
5:160280737:TC:T	acceptor_gain	1.0000
5:160280738:CC:C	acceptor_gain	1.0000
5:160280738:CCTGG:C	acceptor_loss	1.0000
5:160280739:C:CA	acceptor_loss	1.0000
5:160280739:C:CC	acceptor_gain	1.0000
5:160280740:T:C	acceptor_loss	1.0000
5:160253794:ACACT:A	acceptor_gain	0.9900

AlphaMissense

0 scored. Top likely-pathogenic:

dbSNP variants (sampled 300 via entrez): RS1000032667 (5:160259311 T>C), RS1000072348 (5:160341145 C>T), RS1000088370 (5:160270421 G>C), RS1000090505 (5:160265358 C>A,T), RS1000091299 (5:160314730 A>T), RS1000123145 (5:160265083 T>C), RS1000132011 (5:160301855 G>A,T), RS1000159794 (5:160276524 G>A,T), RS1000226921 (5:160281683 C>T), RS1000254551 (5:160324877 T>C), RS1000285836 (5:160339624 G>A,T), RS1000392163 (5:160312352 G>A), RS1000414271 (5:160323838 G>A), RS1000451154 (5:160306670 T>A,C), RS1000487410 (5:160310370 C>T)

Disease associations

OMIM: gene `` | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

2 associations (top):

Study	Trait	p-value
GCST004063_92	Waist circumference adjusted for body mass index	4.000000e-08
GCST009391_12	Metabolite levels	6.000000e-06

EFO canonical traits (2, from GWAS)

EFO ID	Trait name
EFO:0007789	BMI-adjusted waist circumference
EFO:0007813	cotinine measurement

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

37 total (human), top 30 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Tetrachlorodibenzodioxin	increases expression	2
Cyclosporine	increases expression	2
GSK-J4	decreases expression	1
triphenyl phosphate	affects expression	1
alpha-pinene	affects cotreatment, increases oxidation, increases abundance	1
bisphenol A	affects cotreatment, decreases methylation	1
sodium arsenate	increases abundance, increases expression	1
2,5,2’,5’-tetrachlorobiphenyl	decreases expression	1
sulforaphane	increases expression	1
sodium arsenite	decreases expression	1
ferrous chloride	decreases expression	1
methacrylaldehyde	affects cotreatment, increases oxidation, increases abundance	1
di-n-butylphosphoric acid	affects expression	1
perfluorooctane sulfonic acid	increases expression	1
abrine	decreases expression	1
4-(4-((5-(4,5-dimethyl-2-nitrophenyl)-2-furanyl)methylene)-4,5-dihydro-3-methyl-5-oxo-1H-pyrazol-1-yl)benzoic acid	decreases expression	1
Temozolomide	increases expression	1
Sunitinib	decreases expression	1
Fulvestrant	affects cotreatment, decreases methylation	1
Leflunomide	increases expression	1
Norethindrone Acetate	affects cotreatment, increases expression	1
Acetaminophen	increases expression	1
Acrolein	increases oxidation, increases abundance, affects cotreatment	1
Air Pollutants	affects cotreatment, increases abundance, increases oxidation	1
Arsenic	increases abundance, increases expression	1
Benzo(a)pyrene	decreases methylation	1
Doxorubicin	decreases expression	1
Estradiol	increases expression, affects cotreatment	1
Fluorouracil	affects expression	1
Lead	affects expression	1

Clinical trials (associated diseases)

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