CLDN5 (claudin 5) - Rat Genome Database

Name: CLDN5
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: CLDN5 (claudin 5) Pan paniscus

Analyze

Symbol:

CLDN5

Name:

claudin 5

RGD ID:

11966443

Description:

INVOLVED IN cell-cell junction assembly (ortholog); establishment of blood-retinal barrier (ortholog); establishment of endothelial barrier (ortholog); ASSOCIATED WITH autism spectrum disorder (ortholog); autistic disorder (ortholog); DiGeorge syndrome (ortholog); FOUND IN apicolateral plasma membrane (ortholog); bicellular tight junction (ortholog); cell-cell junction (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Also known as:

claudin-5

RGD Orthologs

Human

Mouse

Rat

Chinchilla

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

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):	CLDN5 (claudin 5)	NCBI	Ortholog
Mus musculus (house mouse):	Cldn5 (claudin 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Cldn5 (claudin 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Cldn5 (claudin 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CLDN5 (claudin 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Cldn5 (claudin 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CLDN5 (claudin 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	CLDN5 (claudin 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Cldn5 (claudin 5)	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
PanPan1.1	22	17,957,605 - 17,962,121 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	22	17,958,182 - 17,959,093 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	22	2,282,215 - 2,286,724 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autism spectrum disorder (ISO)

autistic disorder (ISO)

DiGeorge syndrome (ISO)

Intestinal Reperfusion Injury (ISO)

middle cerebral artery infarction (ISO)

Neurodevelopmental Disorders (ISO)

respiratory allergy (ISO)

schizophrenia (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cell-cell junction assembly (ISO)

establishment of blood-retinal barrier (ISO)

establishment of endothelial barrier (ISO)

maintenance of blood-brain barrier (ISO)

myelination (ISO)

negative regulation of angiogenesis (ISO)

negative regulation of cell migration (ISO)

negative regulation of complement-dependent cytotoxicity (ISO)

negative regulation of gene expression (ISO)

negative regulation of vascular permeability (ISO)

positive regulation of bicellular tight junction assembly (ISO)

positive regulation of cell population proliferation (ISO)

positive regulation of establishment of endothelial barrier (ISO)

positive regulation of gene expression (ISO)

positive regulation of protein binding (ISO)

response to ethanol (ISO)

tight junction assembly (ISO)

transforming growth factor beta receptor signaling pathway (ISO)

Cellular Component

apicolateral plasma membrane (ISO)

bicellular tight junction (ISO)

cell-cell junction (ISO)

cortical actin cytoskeleton (ISO)

lateral plasma membrane (ISO)

paranode region of axon (ISO)

plasma membrane (ISO)

Schmidt-Lanterman incisure (ISO)

tight junction (ISO)

Molecular Function

protein binding (ISO)

References

Genomics

Comparative Map Data

CLDN5
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	22	17,957,605 - 17,962,121 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	22	17,958,182 - 17,959,093 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	22	2,282,215 - 2,286,724 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

CLDN5
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	22	19,523,024 - 19,527,545 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	22	19,523,024 - 19,525,337 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	22	19,510,547 - 19,512,860 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
GRCh37	22	19,510,547 - 19,515,068 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	22	17,890,550 - 17,892,860 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	22	17,885,103 - 17,887,414	NCBI
Celera	22	3,362,807 - 3,365,120 (-)	NCBI
Cytogenetic Map	22	q11.21	NCBI
HuRef	22	3,131,378 - 3,133,692 (-)	NCBI		HuRef
CHM1_1	22	19,510,114 - 19,512,427 (-)	NCBI		CHM1_1

Cldn5
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	16	18,595,597 - 18,597,012 (+)	NCBI	GRCm39		mm39
GRCm38	16	18,776,847 - 18,778,262 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	16	18,776,847 - 18,778,262 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	16	18,776,940 - 18,778,353 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	16	18,690,410 - 18,691,823 (+)	NCBI			mm8
Celera	16	19,350,901 - 19,352,314 (+)	NCBI		Celera
Cytogenetic Map	16	A3	NCBI
cM Map	16	11.63	NCBI

Cldn5
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	11	82,212,822 - 82,214,248 (-)	NCBI
Rnor_6.0 Ensembl	11	86,356,294 - 86,357,718 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	11	86,356,292 - 86,357,718 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	11	89,458,258 - 89,459,684 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	11	80,993,136 - 80,994,562 (-)	NCBI		Celera
Cytogenetic Map	11	q23	NCBI

Cldn5
(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_004955442	18,509,676 - 18,510,332 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955442	18,509,501 - 18,511,267 (+)	NCBI	ChiLan1.0	ChiLan1.0

CLDN5
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	26	29,703,683 - 29,704,339 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	26	29,702,464 - 29,704,950 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Cldn5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936619	3,455,508 - 3,457,053 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CLDN5
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	14	51,161,032 - 51,163,482 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	14	51,161,490 - 51,162,382 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	14	54,778,542 - 54,779,434 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CLDN5
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	19	6,227,881 - 6,230,199 (+)	NCBI
ChlSab1.1 Ensembl	19	6,228,965 - 6,229,621 (+)	Ensembl

Cldn5
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624747	164,113 - 166,502 (-)	NCBI

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_014343226	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	SSBP01000401	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSPPAT00000058074 ⟹ ENSPPAP00000035186

RefSeq Status:

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
PanPan1.1 Ensembl	22	17,958,182 - 17,959,093 (-)	Ensembl

RefSeq Acc Id:

XM_014343226 ⟹ XP_014198712

RefSeq Status:

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
PanPan1.1	22	17,957,605 - 17,962,121 (-)	NCBI
Mhudiblu_PPA_v0	22	2,282,215 - 2,286,724 (-)	NCBI

Sequence:

show sequence

AAAGCAGAACAATGGCTAGGGGTGAGCAGGTGGCCTTGGCCAGTGCTCTGCCCCAAGGGCCCTT
TACCAGAGATCAGGGGTTTGTGTCCCTGCCTAACCAGGACACCTCCGATCTCTACCTGCAGGCC
CTGGACCACTGTAGCACTGTGGACACAAGGCCGCTTCTGCCCCTTGGACGCCGAGCCCCTTCCC
ACCTCTGGGATCTTGCACTGGCTATTGCTTCTGCTCTGCCTGGAACTTCTTCCCCGGATCCCTG
TGAAATGTCACCTCTTCAGAGAGGCCTTCACCACTGTCTTTCCTGCCCAGTTCTTGGTTGATAG
GTTCCTGTCAGCTCCTTCTGGGCAGGAGCTTCTTGTGCTGTGTGCTCTGCCTAGAGACAGTGCT
TGCCACGAAGTAGGTGGGCAGACCCTCCATGAGCAGGAAAGGTGGGTGCACCCTCATGCCCCTC
CAGAGTCTGGCTTGGGCCACTCAGAGGCCAGCCTCCATCTGAGGTGGGTTTGTCTGGGGTAGCG
TCAGCCCCTGCGGCCCTCTCTGGGCCTCTCTGCATTGGCATTGTTCCACTGCAGCCTGGGGCCT
CGACCAACATAGTGGGGTCAGGGTAGAAACCAGATTGTGAAAGGTGAAGCCTGAGACTCCTCTG
CCACGTCCCTGAGATGCTGTGAGGCTGCTGCCAAAGAAACATGAGCTTCCTGGGGCCACCCTAG
GGTGACAGCTAGGAGAGAAGAAAAACAGGCAGCCAGGTGAGAAGGGAGAGCCTTGGGCTGGCTG
CAGCTCCAAGCTGGCTAGAGGGCGACAGGCAGCCTCCTGTGCAGGACAGACGCATGAAGACAGC
CACCCTGTGGAGGTTATTCCTGGATACTGGGTGGGAAAGTCGGCAAGCAAAAGGACAGGTCCAA
CTCAAGCTTCTAAAAGCAATGCTGGGGGACGGTGCAGCAAGGTGTTCCTGGAAATGACCTCGGC
AACACATCTTAGAAGATGAGCAGGACCCAACCTGACAGATACACGCTGCAGGCAGAAGAGGCCA
AGCTGCCAGAGGCTCTGTGATTGGCTGCGGGACGATGACCCGCGCACGGATTGGCTGCTTCGGG
CCGGGGGGCCGGGCCCGGGGGACAGAATCCGCCCCCGAACCTTCAAAGAGGGTACCCCCCGGCA
GGAGCTGGCAGACCTAGGAGGTGCGACAGACCCGCGGGGCAAACGGACTGGGGCCAAGAGCCAG
GAGCGCGGGCGCAAAGGCACCAGGGCCCGCCCAGGGCGCCGCGCAGCACGGCCTTGGGGGTTCT
GCGGGCCTTCGGGTGCGCGTCTCGCCTCTAGCCATGGGGTCCGCAGCGTTGGAGATCCTGGGCC
TGGTGCTGTGCCTGGTGGGCTGGGGGGGTCTGATCCTGGCGTGCGGGCTGCCCATGTGGCAGGT
GACCGCCTTCCTGGACCACAACATCGTGACGGCGCAGACCACCTGGAAGGGGCTGTGGATGTCG
TGCGTGGTGCAGAGCACGGGGCACATGCAGTGCAAAGTGTACGACTCGGTGCTGGCTCTGAGCA
CCGAGGTGCAGGCGGCGCGGGCGCTCACCGTGAGCGCCGTGCTGCTGGCGTTCGTTGCGCTCTT
CGTGACCCTGGCGGGCGCGCAGTGCACCACCTGCGTGGCCCCGGGCCCGGCCAAGGCGCGTGTG
GCCCTCACGGGAGGCGTGCTCTACCTGTTTTGCGGGCTGCTGGCGCTCGTGCCACTCTGCTGGT
TCGCCAACATTGTCGTCCGCGAGTTCTACGACCCGTCTGTGCCCGTGTCGCAGAAGTACGAGCT
GGGCGCAGCGCTGTACATCGGCTGGGCGGCCACCGCGCTGCTCATGGTAGGCGGCTGCCTCTTG
TGCTGCGGCGCCTGGGTCTGCACCGGCCGTCCCGACCTCAGCTTCCCCGTGAAGTACTCAGCGC
CGCGGCGGCCCACGGCCACCGGCGACTACGACAAGAAGAACTACGTCTGAGGGCGCTGGGCACG
GCCGGGCCCCTCCTGCCAGCCACGCCTGCGAGGCGTTGGATAAGCCTGGGGAGCCCCGCATGGA
CCGCGGCTTCCGCCGGGTAGCGCGGCGCGCAGGCTCCTCGGAACGTCCGGCTCTGCGCCCCGAC
GCGGCTCCTGGATCGGCTCCTGCCTGCCCCCGCAGCTGGCCTTCTCCTGCCACTAGCCCGGCCC
TGCCCTTAACAGACGGACTGAACAGTTTCCTTTTCTGTGCGCGGCGCTGTTTCCATAGGCAGAG
CGGGTGTCAGACTGAGGATTTCGCTTCCCCTCCAAGACGCTGGGGGTCTTGGCTGCTGCCTTAC
TTCCCAGAGGCTCCTGCTGACTTCGGAGGGGCGGATGCAGAGCCCAGGGCCCCCACCGGAGAGA
TGTGTACAGCTGGTCTTTACTCCATCGGCAGGGCCCGAGCCCAGGGACCAGTGACTTGGCCTGG
ACCTCCCGGTCTCACTCCAGCATCTCCCCAGGCAAGGCTTGTGGGCACTGGAGCTTGAGAGAGG
GCGGGAGTGGGAAGGCTAAGAATCTGCTTAGTAAATGGTTTGAACTCTCTC

hide sequence

Protein Sequences


Protein RefSeqs	XP_014198712	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

XP_014198712 ⟸ XM_014343226

- Sequence:

show sequence

MGSAALEILGLVLCLVGWGGLILACGLPMWQVTAFLDHNIVTAQTTWKGLWMSCVVQSTGHMQC
KVYDSVLALSTEVQAARALTVSAVLLAFVALFVTLAGAQCTTCVAPGPAKARVALTGGVLYLFC
GLLALVPLCWFANIVVREFYDPSVPVSQKYELGAALYIGWAATALLMVGGCLLCCGAWVCTGRP
DLSFPVKYSAPRRPTATGDYDKKNYV

hide sequence

RefSeq Acc Id:

ENSPPAP00000035186 ⟸ ENSPPAT00000058074

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSPPAG00000040414	Ensembl, UniProtKB/TrEMBL
Ensembl Protein	ENSPPAP00000035186	UniProtKB/TrEMBL
Ensembl Transcript	ENSPPAT00000058074	UniProtKB/TrEMBL
InterPro	Claudin	UniProtKB/TrEMBL
	Claudin5	UniProtKB/TrEMBL
	Claudin_CS	UniProtKB/TrEMBL
	PMP22/EMP/MP20/Claudin	UniProtKB/TrEMBL
NCBI Gene	CLDN5	ENTREZGENE
PANTHER	PTHR12002	UniProtKB/TrEMBL
Pfam	PMP22_Claudin	UniProtKB/TrEMBL
PRINTS	CLAUDIN5	UniProtKB/TrEMBL
PROSITE	CLAUDIN	UniProtKB/TrEMBL
UniProt	A0A2R9C0D5_PANPA	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)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD