Ccnl1 (cyclin L1) - Rat Genome Database

Name: Ccnl1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Ccnl1 (cyclin L1) Chinchilla lanigera

Analyze

Symbol:

Ccnl1

Name:

cyclin L1

RGD ID:

8770648

Description:

INVOLVED IN regulation of RNA splicing (ortholog); ASSOCIATED WITH genetic disease (ortholog); FOUND IN cyclin-dependent protein kinase holoenzyme complex (ortholog); nuclear speck (ortholog); nucleus (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

cyclin-L1

RGD Orthologs

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	CCNL1 (cyclin L1)	NCBI	Ortholog
Mus musculus (house mouse):	Ccnl1 (cyclin L1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Ccnl1 (cyclin L1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CCNL1 (cyclin L1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CCNL1 (cyclin L1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Ccnl1 (cyclin L1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CCNL1 (cyclin L1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	CCNL1 (cyclin L1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Ccnl1 (cyclin L1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

Latest Assembly:

ChiLan1.0 - Chinchilla ChiLan1.0 Assembly

NCBI Annotation Information:

Annotation category: partial on reference assembly

Position:

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955448	8,113,216 - 8,124,628 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955448	8,112,774 - 8,125,912 (-)	NCBI	ChiLan1.0	ChiLan1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

regulation of RNA splicing (ISO)

Cellular Component

cyclin-dependent protein kinase holoenzyme complex (ISO)

nuclear speck (ISO)

nucleus (ISO)

Molecular Function

protein binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Transitive Annotation Pipeline	Automated assignment of GO, PW and RDO ISO annotations across species

Additional References at PubMed

PMID:30032202

Genomics

Comparative Map Data

Ccnl1
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955448	8,113,216 - 8,124,628 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955448	8,112,774 - 8,125,912 (-)	NCBI	ChiLan1.0	ChiLan1.0

CCNL1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	3	157,143,121 - 157,160,147 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	3	157,146,508 - 157,160,760 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	3	156,860,910 - 156,877,936 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	3	158,348,279 - 158,361,176 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	3	158,348,286 - 158,361,184	NCBI
Celera	3	155,289,188 - 155,302,097 (-)	NCBI		Celera
Cytogenetic Map	3	q25.31	NCBI
HuRef	3	154,261,958 - 154,274,873 (-)	NCBI		HuRef
CHM1_1	3	156,828,587 - 156,841,484 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	3	159,917,663 - 159,934,689 (-)	NCBI		T2T-CHM13v2.0

Ccnl1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	3	65,853,333 - 65,869,451 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	3	65,853,572 - 65,865,670 (-)	Ensembl		GRCm39 Ensembl
GRCm38	3	65,945,908 - 65,962,029 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	3	65,946,151 - 65,958,249 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	3	65,750,073 - 65,762,147 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	3	66,034,080 - 66,046,148 (-)	NCBI		MGSCv36	mm8
Celera	3	66,084,322 - 66,096,395 (-)	NCBI		Celera
Cytogenetic Map	3	E1	NCBI
cM Map	3	30.25	NCBI

Ccnl1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	2	152,495,169 - 152,508,855 (-)	NCBI		GRCr8
mRatBN7.2	2	150,184,865 - 150,199,524 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	2	150,184,798 - 150,197,368 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	2	157,294,697 - 157,307,010 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	2	155,345,203 - 155,357,516 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	2	149,977,917 - 149,990,230 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	2	157,747,295 - 157,759,838 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	2	157,747,542 - 157,759,838 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	2	177,110,678 - 177,122,977 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	2	155,757,335 - 155,769,633 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	2	155,707,300 - 155,719,596 (-)	NCBI
Celera	2	144,599,445 - 144,611,743 (-)	NCBI		Celera
Cytogenetic Map	2	q31	NCBI

CCNL1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	2	155,055,162 - 155,075,647 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	3	155,062,940 - 155,080,377 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	3	154,192,971 - 154,210,468 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	3	162,250,825 - 162,264,645 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	3	162,251,326 - 162,263,174 (-)	Ensembl	panpan1.1		panPan2

CCNL1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	23	50,639,851 - 50,643,777 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
Dog10K_Boxer_Tasha	23	50,512,891 - 50,525,567 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	23	51,273,830 - 51,286,528 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	23	51,273,791 - 51,287,522 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	23	50,857,079 - 50,869,721 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	23	50,909,267 - 50,921,953 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	23	51,194,168 - 51,206,919 (-)	NCBI		UU_Cfam_GSD_1.0

Ccnl1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405602	85,676,959 - 85,689,190 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936519	4,044,708 - 4,056,993 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936519	4,044,762 - 4,056,987 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CCNL1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	96,986,266 - 97,002,467 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	96,984,542 - 97,004,401 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	105,143,782 - 105,161,937 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CCNL1
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	15	33,592,391 - 33,608,124 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	15	33,593,500 - 33,609,195 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666041	6,181,869 - 6,195,601 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Ccnl1
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624730	34,754,581 - 34,768,879 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624730	34,712,248 - 34,768,236 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_013518630	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01041436	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AGCD01041437	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBCQ01070200	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBDK01003148	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSCLAT00000004063 ⟹ ENSCLAP00000003983

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955448	8,113,216 - 8,124,628 (-)	Ensembl

RefSeq Acc Id:

XM_013518630 ⟹ XP_013374084

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955448	8,112,774 - 8,125,912 (-)	NCBI

Sequence:

show sequence

CCGAGCCCGGCTTCCTCCGAGGGCGAGCTTTTCACCGGACCGACCCAGGCGCGTCCCTGTTTCC
GCGCGACGCTCCGGGGCGGCGCCGTCCGGGCCGCTCGCCCGCCGCCCGCAGTCCGTCCCCAGGC
CGTCCCCGCACGGAAGCTGACAGCGCCGGGCCCGCGGGCGAAGGTAGGAGCCGGCCCGACGGGA
CGCAGGCCTCGAAGGGACGCCACCCTGACAACTCTCAGGGGAAGGTATTTTCGTGACACTCCCT
CATTCCGGCACCGAAACGCGTCCGAGCCGGGCGGCCTCGCCCCGAGCCCACACTGGGCGCGCCG
GCCGGGAGGGACTAGCTGGCGCGCCGGCCGGCGCGGTGACGTCAGGGCGGACGCGCACGCGGCG
TGCAGCGGACGCCCCGGCGGTCACGGGAATATCCGTCGCGCCGAGAACACTGGTTAGTCTCGCT
CCGGGTTCCGGCTGCGTCGGGCGTGCGTGCAGCTCGCGGACACCATGGCGTCCGGGCCTCACCC
GACTTCGACCGCCGCGGCCGCCGCCGCCGCCTCGGCCGCCCCGAGCGCGGGCGGGTCCAGCTCG
GGCACGACGACCACCACGACGACCGCGACGGGCGGCATCCTGATCGGCGACCGCCTGTACTCGG
AAGTGTCGCTCACCATCGACCACTCGCTGATTCCGGAGGAGCGGCTGTCGCCCACCCCGTCCAT
GCAGGACGGGCTGGACCTGCCCAGCGAGACGGACCTGCGCATCCTGGGCTGCGAGCTCATCCAG
GCCGCCGGCATCCTCCTCCGGCTGCCGCAGGTGGCGATGGCGACGGGGCAGGTGCTGTTCCACC
GTTTCTTCTACTCCAAGTCCTTCGTCAAGCACAGCTTCGAGATTGTTGCCATGGCCTGCATTAA
TCTTGCATCAAAAATCGAAGAAGCACCTAGAAGAATAAGAGACGTGATTAATGTGTTTCATCAC
CTCCGCCAGTTAAGAGGAAAAAGGACTCCAAGCCCCTTGATTCTTGATCAGAACTACATTAACA
CCAAAAACCAAGTTATCAAGGCAGAGAGGAGGGTGCTAAAGGAGTTGGGATTTTGTGTTCATGT
CAAGCATCCTCATAAGATCATTGTTATGTATTTACAAGTCTTAGAATGTGAACGTAATCAAACC
CTGGTTCAAACTGCCTGGAATTATATGAATGACAGTCTTCGAACCAATGTTTTTGTTCGCTTTC
AACCAGAGACTATAGCATGTGCTTGCATCTACCTTGCAGCTAGAGCACTTCAGATTCCATTGCC
AACGCGGCCCCATTGGTTTCTTCTTTTTGGTACTACAGAAGAGGAGATCCAGGAAATCTGTATA
GAGACGCTTAGGCTTTATACCAGAAAAAAGCCTAATTATGAACTGCTGGAAAAAGAAGTAGAAA
AAAGAAAAGTAGCCTTGCAGGAAGCCAAATTAAAAGCAAAGGGATTGAATCCTGATGGAACTCC
TGCCCTTTCAACACTTGGTGGATTTTCTCCAGCCTCTAAACCATCATCACCAAGAGAAGTAAAG
GCTGAAGAGAAGTCTCCAGTCTCTATCAGTGTGAAGACAGTCAAAAAAGAACCTGAGGATAGAC
AGCAGGCTTCCAAAAGCCCTTACAATGGTGTAAGAAAAGACAGCAAGAGAAGTAGAAATAGTAG
AAGTGCAAGTCGGTCAAGGTCGAGAACACGATCGCGTTCTAGATCACATACTCCAAGAAGACAT
TACAATAATAGGCGGAGTCGATCTGGAACATACAGCTCAAGATCAAGAAGCAGGTCCCGCAGTC
ACAGTGCAAGCCCTCGAAGACATCATAATCATGGTTCTCCTCACCTTAAGGCCAAGCATGCCAG
AGATGATTTAAAAAGTTCAAATAGACATGGTCATAAAAGGAAAAAATCCCGTTCTCGATCTCAG
AGCAAGTCTCGGGATCACTCAGATGCCGCCAAGAAACACAGGCATGAAAGGGGACATCACAGGG
ACAGGCGTGAAAGATCTCGGTCTTTTGAGAGGTCCCACAAAGGCAAGCACCATGGTGGCAGTCG
CTCAGGACACGGCAGGCACAGGCGCTGACTTTCTTCCTTGGAGCCTGCATCACTTCCTGGTTTT
ACGTATCTGCAGTATGATGTATGGACTCACAAACCATTAAGAGCAAACTGATTAGGATTTGATT
TCTTAAAACCCTCTAGGTCTCTACAAACACTGAGGACATTTTCTTTTGAAAAAACTATGTTAAA
TTTTTTTGCACATTGAAATGCCCTAGCAGTATCTAATTGAAAACCATGGTCAGGTTCAATTGTA
CTTTATTATAGTTGTGTATCGTTTATTGCTATACAAACTGGAGCGTGAATTCTGTACAAATGTA
TCTTATTTTTATACAGATAAAAATTGCAGACATTGTTCTATTTAAGTGGTTATTTGTTTAAATG
ATGGTGAATACTTTCTTAACACTGGTTTGTCTGCATGTGTAAAAGATTTTTACAAGGAAATAAA
ATGCAAATCTTGTTTTTCTAAA

hide sequence

Protein Sequences


Protein RefSeqs	XP_013374084	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000003983.1

RefSeq Acc Id:

XP_013374084 ⟸ XM_013518630

- Sequence:

show sequence

MASGPHPTSTAAAAAAASAAPSAGGSSSGTTTTTTTATGGILIGDRLYSEVSLTIDHSLIPEER
LSPTPSMQDGLDLPSETDLRILGCELIQAAGILLRLPQVAMATGQVLFHRFFYSKSFVKHSFEI
VAMACINLASKIEEAPRRIRDVINVFHHLRQLRGKRTPSPLILDQNYINTKNQVIKAERRVLKE
LGFCVHVKHPHKIIVMYLQVLECERNQTLVQTAWNYMNDSLRTNVFVRFQPETIACACIYLAAR
ALQIPLPTRPHWFLLFGTTEEEIQEICIETLRLYTRKKPNYELLEKEVEKRKVALQEAKLKAKG
LNPDGTPALSTLGGFSPASKPSSPREVKAEEKSPVSISVKTVKKEPEDRQQASKSPYNGVRKDS
KRSRNSRSASRSRSRTRSRSRSHTPRRHYNNRRSRSGTYSSRSRSRSRSHSASPRRHHNHGSPH
LKAKHARDDLKSSNRHGHKRKKSRSRSQSKSRDHSDAAKKHRHERGHHRDRRERSRSFERSHKG
KHHGGSRSGHGRHRR

hide sequence

RefSeq Acc Id:

ENSCLAP00000003983 ⟸ ENSCLAT00000004063

Protein Domains

Cyclin C-terminal Cyclin-like

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000002842	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000004063.1	UniProtKB/TrEMBL
Gene3D-CATH	Cyclin-like	UniProtKB/TrEMBL
InterPro	Cyclin-like	UniProtKB/TrEMBL
	Cyclin-like_sf	UniProtKB/TrEMBL
	Cyclin/Ssn8	UniProtKB/TrEMBL
	Cyclin_C-dom	UniProtKB/TrEMBL
	Cyclin_N	UniProtKB/TrEMBL
NCBI Gene	Ccnl1	ENTREZGENE
PANTHER	PTHR10026	UniProtKB/TrEMBL
	PTHR10026:SF64	UniProtKB/TrEMBL
Pfam	Cyclin_C	UniProtKB/TrEMBL
	Cyclin_N	UniProtKB/TrEMBL
PIRSF	Cyclin_L	UniProtKB/TrEMBL
SMART	CYCLIN	UniProtKB/TrEMBL
	Cyclin_C	UniProtKB/TrEMBL
Superfamily-SCOP	SSF47954	UniProtKB/TrEMBL
UniProt	A0A8C2YJV4_CHILA	UniProtKB/TrEMBL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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