CHODL (chondrolectin) - Rat Genome Database

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

Gene: CHODL (chondrolectin) Pan paniscus

Analyze

Symbol:

CHODL

Name:

chondrolectin

RGD ID:

11891331

Description:

ENCODES a protein that exhibits hyaluronic acid binding (ortholog); INVOLVED IN regulation of neuron projection development (ortholog); ASSOCIATED WITH Alzheimer's disease (ortholog); genetic disease (ortholog); Neurodevelopmental Disorders (ortholog); FOUND IN centrosome (ortholog); cytosol (ortholog); perinuclear region of cytoplasm (ortholog)

Type:

protein-coding

RefSeq Status:

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):	CHODL (chondrolectin)	NCBI	Ortholog
Mus musculus (house mouse):	Chodl (chondrolectin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Chodl (chondrolectin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Chodl (chondrolectin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CHODL (chondrolectin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Chodl (chondrolectin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CHODL (chondrolectin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	CHODL (chondrolectin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Chodl (chondrolectin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

Latest Assembly:

Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly

Position:

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	22	14,736,373 - 14,759,574 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	21	9,565,987 - 9,588,333 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	21	4,554,608 - 5,001,725 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	21	17,919,676 - 18,365,241 (+)	NCBI	panpan1.1	PanPan1.1	panPan2

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Alzheimer's disease (ISO)

genetic disease (ISO)

Neurodevelopmental Disorders (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

positive regulation of axonogenesis (IEA)

regulation of neuron projection development (IEA,ISO)

Cellular Component

centrosome (ISO)

cytoplasm (IEA)

cytosol (ISO)

membrane (IEA)

perinuclear region of cytoplasm (ISO)

Molecular Function

hyaluronic acid binding (ISO)

protein binding (ISO)

References

Additional References at PubMed

PMID:30032202

Genomics

Comparative Map Data

CHODL
(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	22	14,736,373 - 14,759,574 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	21	9,565,987 - 9,588,333 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	21	4,554,608 - 5,001,725 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	21	17,919,676 - 18,365,241 (+)	NCBI	panpan1.1	PanPan1.1	panPan2

CHODL
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	21	17,917,340 - 18,267,370 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	21	17,901,263 - 18,267,373 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	21	19,289,657 - 19,639,687 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	21	18,539,021 - 18,561,558 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	21	18,539,020 - 18,561,556	NCBI
Celera	21	4,792,870 - 4,815,407 (+)	NCBI		Celera
Cytogenetic Map	21	q21.1	NCBI
HuRef	21	4,786,788 - 5,027,789 (+)	NCBI		HuRef
CHM1_1	21	18,961,661 - 19,201,030 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	21	16,276,723 - 16,627,191 (+)	NCBI		T2T-CHM13v2.0

Chodl
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	16	78,727,729 - 78,748,624 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	16	78,727,836 - 78,748,621 (+)	Ensembl		GRCm39 Ensembl
GRCm38	16	78,930,841 - 78,951,736 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	16	78,930,948 - 78,951,733 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	16	78,931,193 - 78,951,973 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	16	78,813,717 - 78,834,322 (+)	NCBI		MGSCv36	mm8
Celera	16	79,159,446 - 79,180,171 (+)	NCBI		Celera
Cytogenetic Map	16	C3.1	NCBI
cM Map	16	45.39	NCBI

Chodl
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	11	31,141,030 - 31,163,342 (+)	NCBI		GRCr8
mRatBN7.2	11	17,654,137 - 17,676,450 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	11	17,654,206 - 17,676,441 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	11	26,286,043 - 26,308,301 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	11	19,018,715 - 19,040,669 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	11	18,188,315 - 18,210,575 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	11	17,537,980 - 17,560,305 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	11	17,538,063 - 17,560,296 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	11	21,183,908 - 21,206,150 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	11	17,993,680 - 18,015,913 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	11	17,994,114 - 18,014,631 (+)	NCBI
Celera	11	17,622,644 - 17,644,864 (+)	NCBI		Celera
Cytogenetic Map	11	q11	NCBI

Chodl
(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_004955407	19,483,561 - 19,508,328 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955407	19,483,569 - 19,507,270 (+)	NCBI	ChiLan1.0	ChiLan1.0

CHODL
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	31	14,583,236 - 14,604,583 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	31	14,495,684 - 14,604,562 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	31	14,602,689 - 14,624,008 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	31	14,611,439 - 14,632,757 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	31	14,611,002 - 14,633,953 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	31	14,614,329 - 14,635,629 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	31	14,613,762 - 14,635,078 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	31	15,024,650 - 15,045,967 (+)	NCBI		UU_Cfam_GSD_1.0

Chodl
(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_024404971	15,503,468 - 15,684,092 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936505	10,581,393 - 10,603,861 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936505	10,581,676 - 10,603,863 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CHODL
(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	182,461,757 - 182,826,753 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	182,409,113 - 182,829,797 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	192,820,209 - 192,994,069 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CHODL
(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	2	74,328,127 - 74,349,919 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	2	74,328,133 - 74,338,821 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666050	79,430,349 - 79,674,718 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Chodl
(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_004624745	6,728,750 - 6,756,958 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624745	6,728,634 - 6,756,867 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_014343134	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_034948174	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_034948175	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_034948176	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_034948177	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_055105292	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JARIFH020000022	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

XM_014343134 ⟹ XP_014198620

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
NHGRI_mPanPan1-v2	22	14,736,373 - 14,759,574 (+)	NCBI
NHGRI_mPanPan1	21	9,565,987 - 9,588,333 (+)	NCBI
Mhudiblu_PPA_v0	21	4,978,495 - 5,001,725 (+)	NCBI
PanPan1.1	21	18,343,455 - 18,365,241 (+)	NCBI

Sequence:

show sequence

GCTGCCACCGCGCCGCGATGAGCCGCGTGGTCTCGCTGCTGCTGGGCGCCGCGCTGCTCTGCGG
CCACGGAGCCTTCTGCCGCCGCGTGGTCAGCGGCCAAAAGGTGTGTTTTGCTGACTTCAAGCAT
CCCTGCTACAAAATGGCCTACTTCCATGAACTGTCCAGCCGAGTGAGCTTTCAGGAGGCACGCC
TGGCTTGTGAGAGTGAGGGAGGAGTCCTCCTCAGCCTTGAGAATGAAGCAGAACAGAAGTTAAT
AGAGAGCATGTTGCAAAACCTGACAAAACCCGGGACAGGGATTTCTGATGGTGATTTCTGGATA
GGGCTTTGGAGGAATGGAGATGGGCAAACATCTGGTGCCTGCCCAGATCTCTACCAGTGGTCTG
ATGGAAGCAATTCCCAGTACCGAAACTGGTACACAGATGAACCTTCCTGCGGAAGTGAAAAGTG
TGTTGTGATGTATCACCAACCAACTGCCAATCCTGGCCTTGGGGGTCCCTACCTTTACCAGTGG
AATGATGACAGGTGTAACATGAAGCACAATTATATTTGCAAGTATGAACCAGAAATTAATCCAA
CAGCCCCTGTAGAAAAGCCTTATCTTACAAATCAACCAGGAGACGCCCATCAAAATGTGGTTGT
TACTGAAGCAGGTATAATTCCCAATCTAATTTATGTTGTTATACCAACAATACCCCTGCTCTTA
CTGATACTGGTTGCTTTTGGAACCTGTTGTTTCCAGATGCTGCATAAAAGTAAAGGAAGAACAA
AAACTAGTCCAAACCAGTCTACACTGTGGATTTCAAAGAGTACCAGAAAAGAAAGTGGCATGGA
AGTATAATAACTCATTGACTTGGTTCCAGAATTTTGTAATTCTGGATCTGTATAAGGAATGGCA
TCAGAACAATAGCTTGGAATGGCTTGAAATCACAAAGGATCTGCAAGATGAACTGTAAGCTCCC
CCTTGAGGCAAATATTAAAGTAATTTTTGTATGTCTATTATTTCATTTAAAGAATATGCTGTGC
TAATAATGGAGTGAGACATGCTTATTTTGCTAAAGGATGCAACCAAACTTCAAACTTCAAGCAA
ATGAAATGGACAATGCAGATAAAGTTGTTATCAACACGTCGGGAGTATGTGTGTTAGAAGCAAT
TCTTTTTATTTCTTTCACCTTTCATAAGTTGTTATCTAGTCAAGGTAATGTATATTGTATTGAA
ATTTACAGTGTGCAAAAGTATTTTACCTTTGCATAAGTGTTTGATAAAAATGAACTGTTCTAAT
ATTTATTTTTATGGCATCTCATTTTTCAATACATGCTCTTTTGATTAAAGAAACTTATTACTGT
TGTCAACTGAATTCACACACACACAAATATAGTACCATAGAAAAAGTTTGTTTTCTCGAAATAA
TTCATCTTTCAGCTTCTCTGCTTTTGGTCAATGTCTAGGAAATCTCTTCAGAAATAAGAAGCTA
TTTCATTACGTGTGATATAAACCTCCTCAAACATTTTACTTAGAGGCAAGGATTGTCTAATTTC
AATTGTGCAAGACATGTGCCTTATAATTATTTTTAGTTTAAAATTAAACAGATTTTGTAATAAT
GTAACTTTGTTAATAGGTGCATAAACACTAATGCAGTCAATTTGAACAAAAGAAGTGGCATACA
CAATATAAATCATATGTCTTCACACGTTGCCTATATAATGAGAAGCAGCTCTCTGAGGGTTCTG
AAATCAATGTGGTCCCTCTCTTGCCCACTAAACAAAGATGGTTGTTCGGGGTTTGGGATTGACA
CTGGAGGCAGATAGTTGCAAAGTTAGTCTAAGGTTTCCGTAGCTGTATTTAGCCTCTGACTATA
TTAGTATACAAAGAGGTCATGTGGTTGAGACCAGGTGAATAGTCACTATCAGTGTGGAGACAAG
CACAGCACACAGACATTTCAGGAAGGAAAGGAACTACGAAATCGTGTGAAAATGGATTGGAACC
CATCAGTGATCGCATATTCATTGATGAGGGTTTGCTTGAGATAGAAAATGGTGGCTCCTTTCTG
TCTTATCTCCTAGTTTCTTCAATGCTTATGCCTTGTTCTTCTCAAGAGAAAGTTGTAACTGTCT
GGTCTTCATATGTCCCTGTGCTCCTTTTAACCAAATAAAGAGTTCTTGTTTCTGAAGAA

hide sequence

RefSeq Acc Id:

XM_055105292 ⟹ XP_054961267

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
NHGRI_mPanPan1-v2	22	14,736,441 - 14,759,574 (+)	NCBI
NHGRI_mPanPan1	21	9,566,463 - 9,588,333 (+)	NCBI

Protein Sequences


Protein RefSeqs	XP_014198620	(Get FASTA)	NCBI Sequence Viewer
	XP_054961267	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSPPAP00000009250.1
	ENSPPAP00000009252.1
	ENSPPAP00000009257
	ENSPPAP00000009257.1
	ENSPPAP00000009259.1

RefSeq Acc Id:	XP_014198620 ⟸ XM_014343134
- Peptide Label:	isoform X2
- UniProtKB:	A0A2R8ZZZ7 (UniProtKB/TrEMBL), A0A2R8ZZZ4 (UniProtKB/TrEMBL)
- Sequence:	show sequence MSRVVSLLLGAALLCGHGAFCRRVVSGQKVCFADFKHPCYKMAYFHELSSRVSFQEARLACESE GGVLLSLENEAEQKLIESMLQNLTKPGTGISDGDFWIGLWRNGDGQTSGACPDLYQWSDGSNSQ YRNWYTDEPSCGSEKCVVMYHQPTANPGLGGPYLYQWNDDRCNMKHNYICKYEPEINPTAPVEK PYLTNQPGDAHQNVVVTEAGIIPNLIYVVIPTIPLLLLILVAFGTCCFQMLHKSKGRTKTSPNQ STLWISKSTRKESGMEV hide sequence

RefSeq Acc Id:	XP_054961267 ⟸ XM_055105292
- Peptide Label:	isoform X1
- UniProtKB:	A0A2R8ZWB0 (UniProtKB/TrEMBL)

Protein Domains

C-type lectin

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSPPAG00000027848	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSPPAT00000031891.1	UniProtKB/TrEMBL
	ENSPPAT00000031893.1	UniProtKB/TrEMBL
	ENSPPAT00000031898.1	UniProtKB/TrEMBL
	ENSPPAT00000031900.1	UniProtKB/TrEMBL
Gene3D-CATH	3.10.100.10	UniProtKB/TrEMBL
InterPro	C-type_lectin-like	UniProtKB/TrEMBL
	C-type_lectin-like/link_sf	UniProtKB/TrEMBL
	CTDL_fold	UniProtKB/TrEMBL
KEGG Report	pps:100992539	UniProtKB/TrEMBL
NCBI Gene	CHODL	ENTREZGENE
PANTHER	CHONDROLECTIN	UniProtKB/TrEMBL
	CHONDROLECTIN VARIANT CHODLFDELTAE	UniProtKB/TrEMBL
Pfam	Lectin_C	UniProtKB/TrEMBL
PROSITE	C_TYPE_LECTIN_2	UniProtKB/TrEMBL
SMART	CLECT	UniProtKB/TrEMBL
Superfamily-SCOP	SSF56436	UniProtKB/TrEMBL
UniProt	A0A2R8ZWB0	ENTREZGENE, UniProtKB/TrEMBL
	A0A2R8ZWB6_PANPA	UniProtKB/TrEMBL
	A0A2R8ZZZ4	ENTREZGENE, UniProtKB/TrEMBL
	A0A2R8ZZZ7	ENTREZGENE, 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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