RPL13A (ribosomal protein L13a) - Rat Genome Database

Name: RPL13A
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: RPL13A (ribosomal protein L13a) Pan paniscus

Analyze

Symbol:

RPL13A

Name:

ribosomal protein L13a

RGD ID:

11974552

Description:

ENCODES a protein that exhibits mRNA binding (inferred); structural constituent of ribosome (inferred); INVOLVED IN cellular response to cAMP (ortholog); cellular response to gamma radiation (ortholog); cellular response to type II interferon (ortholog); PARTICIPATES IN ribosome biogenesis pathway; translation pathway; ASSOCIATED WITH Animal Disease Models (ortholog); developmental and epileptic encephalopathy 12 (ortholog); genetic disease (ortholog); FOUND IN cytoplasm (ortholog); cytosolic large ribosomal subunit (ortholog); cytosolic ribosome (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

60S ribosomal protein L13a; large ribosomal subunit protein uL13

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):	RPL13A (ribosomal protein L13a)	NCBI	Ortholog
Mus musculus (house mouse):	Rpl13a (ribosomal protein L13A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Rpl13a (ribosomal protein L13A)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Rpl13a (ribosomal protein L13a)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	RPL13A (ribosomal protein L13a)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Rpl13a (ribosomal protein L13a)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	RPL13A (ribosomal protein L13a)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	RPL13A (ribosomal protein L13a)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Rpl13a (ribosomal protein L13a)	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	20	55,602,155 - 55,607,523 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	19	57,523,611 - 57,527,867 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	19	46,485,729 - 46,504,928 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	19	55,423,867 - 55,428,598 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	19	55,423,866 - 55,428,598 (+)	Ensembl	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

Animal Disease Models (ISO)

developmental and epileptic encephalopathy 12 (ISO)

genetic disease (ISO)

lung adenocarcinoma (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cellular response to cAMP (ISO)

cellular response to gamma radiation (ISO)

cellular response to type II interferon (ISO)

cellular response to UV-B (ISO)

homeostatic process (ISO)

lung morphogenesis (ISO)

macrophage chemotaxis (ISO)

negative regulation of formation of translation preinitiation complex (ISO)

negative regulation of translation (IEA)

regulation of translation (IEA)

response to lipopolysaccharide (ISO)

translation (IEA)

Cellular Component

cytoplasm (ISO)

cytosolic large ribosomal subunit (IEA,ISO)

cytosolic ribosome (ISO)

GAIT complex (ISO)

large ribosomal subunit (IEA)

ribonucleoprotein complex (IEA)

ribosome (IEA,ISO)

synapse (ISO)

Molecular Function

mRNA binding (IEA)

structural constituent of ribosome (IEA)

Molecular Pathway Annotations Click to see Annotation Detail View

ribosome biogenesis pathway (ISO)

translation pathway (ISO)

References

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

RPL13A
(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	20	55,602,155 - 55,607,523 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	19	57,523,611 - 57,527,867 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	19	46,485,729 - 46,504,928 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	19	55,423,867 - 55,428,598 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	19	55,423,866 - 55,428,598 (+)	Ensembl	panpan1.1		panPan2

RPL13A
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	19	49,487,608 - 49,492,308 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	19	49,487,510 - 49,493,057 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	19	49,990,865 - 49,995,565 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	19	54,682,677 - 54,687,377 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	19	54,682,676 - 54,687,374	NCBI
Celera	19	46,860,188 - 46,864,887 (+)	NCBI		Celera
Cytogenetic Map	19	q13.33	NCBI
HuRef	19	46,368,350 - 46,373,103 (+)	NCBI		HuRef
CHM1_1	19	49,992,085 - 49,997,349 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	19	52,487,574 - 52,492,273 (+)	NCBI		T2T-CHM13v2.0

Rpl13a
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	7	44,774,987 - 44,778,169 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	7	44,774,982 - 44,778,185 (-)	Ensembl		GRCm39 Ensembl
GRCm38	7	45,125,563 - 45,128,745 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	7	45,125,558 - 45,128,761 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	7	52,381,146 - 52,384,105 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	7	44,993,818 - 44,996,777 (-)	NCBI		MGSCv36	mm8
Celera	7	40,578,868 - 40,581,827 (-)	NCBI		Celera
Cytogenetic Map	7	B3	NCBI
cM Map	7	29.14	NCBI

Rpl13a
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	1	104,746,223 - 104,748,975 (-)	NCBI		GRCr8
mRatBN7.2	1	95,609,374 - 95,612,557 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	95,609,370 - 95,620,463 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	100,995,152 - 100,997,842 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	109,467,819 - 109,470,509 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	102,758,226 - 102,760,916 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	101,120,325 - 101,123,401 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	101,120,325 - 101,123,402 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	102,186,220 - 102,188,910 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	95,600,814 - 95,603,504 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	1	95,678,924 - 95,681,616 (-)	NCBI
Celera	1	89,868,177 - 89,870,867 (-)	NCBI		Celera
Cytogenetic Map	1	q22	NCBI

Rpl13a
(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_004955559	1,358,486 - 1,362,663 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955559	1,358,479 - 1,362,663 (-)	NCBI	ChiLan1.0	ChiLan1.0

RPL13A
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	1	107,010,190 - 107,014,267 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	1	107,010,190 - 107,014,267 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	1	106,593,464 - 106,597,541 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	1	107,530,251 - 107,534,330 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	1	107,530,251 - 107,534,330 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	1	107,203,301 - 107,207,380 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	1	106,845,354 - 106,849,436 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	1	107,686,472 - 107,690,551 (-)	NCBI		UU_Cfam_GSD_1.0

Rpl13a
(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_024409349	21,734,487 - 21,738,006 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936664	3,352,514 - 3,356,895 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936664	3,352,535 - 3,356,196 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

RPL13A
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	6	54,551,533 - 54,561,489 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	6	54,551,772 - 54,568,752 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	6	50,280,484 - 50,297,722 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

RPL13A
(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	6	42,666,186 - 42,671,018 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666073	22,595,799 - 22,600,058 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Rpl13a
(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_004624832	4,727,899 - 4,732,367 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624832	4,728,298 - 4,732,397 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_003814327	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_034944882	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063599621	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JARIFH020000020	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSPPAT00000051504 ⟹ ENSPPAP00000028656

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
PanPan1.1 Ensembl	19	55,423,866 - 55,428,598 (+)	Ensembl

RefSeq Acc Id:

XM_003814327 ⟹ XP_003814375

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
NHGRI_mPanPan1-v2	20	55,602,155 - 55,607,523 (+)	NCBI
NHGRI_mPanPan1	19	57,523,611 - 57,527,867 (+)	NCBI
Mhudiblu_PPA_v0	19	46,485,729 - 46,504,462 (+)	NCBI
PanPan1.1	19	55,423,867 - 55,428,598 (+)	NCBI

Sequence:

show sequence

CACTTCTGCCGCCCCTGTTTCAAGGGATAAGAAACCCTGCGACAAGACCTCCTCCTTTTCCAAG
AGGCTGCCGAAGATGGCGGAGGTGCAGGTCCTGGTGCTTGATGGTCGAGGCCATCTCCTGGGCC
GCCTGGCGGCCATCGTGGCTAAACAGGTACTGCTGGGCCGGAAGGTGGTGGTCGTACGCTGTGA
AGGCATCAACATTTCTGGCAATTTCTACAGAAACAAGTTGAAGTACCTGGCTTTCCTCCGCAAG
CGGATGAACACCAACCCTTCCCGAGGCCCCTACCACTTCCGGGCCCCCAGCCGCATCTTCTGGC
GGACCGTGCGAGGTATGCTGCCCCACAAAACCAAGCGAGGCCAGGCCGCTCTGGACCGTCTCAA
GGTGTTTGACGGCATCCCACCGCCCTACGACAAGAAAAAGCGGATGGTGGTTCCTGCTGCCCTC
AAGGTCGTGCGTCTGAAGCCTACAAGAAAGTTTGCCTATCTGGGGCGCCTGGCTCACGAGGTTG
GCTGGAAGTACCAGGCAGTGACAGCCACCCTGGAGGAGAAGAGGAAAGAGAAAGCCAAGATCCA
CTACCGGAAGAAGAAACAGCTCATGAGGCTACGGAAACAGGCCGAGAAGAACGTGGAGAAGAAA
ATTGACAAATACACAGAGGTCCTCAAGACCCACGGACTCCTGGTCTGAGCCCAATAAAGACTGT
TAATTCCTCATGCGTTGCCTGCCCTTCCTCCATTGTCGCCCTGGAATGTACGGGACCCAGGGGC
AGCAGCAGTCCAGGTGCCACAGGCAGCCTGGGACATAGGAAGCTGGGAGCAAGGAAAGGGTCTT
AGTCACTGCCTCCTGAAGTTGCTTGAAAGCACTTGGAGAATTGTGCAGGTGTCATTTATCTATG
ACCAATAGGAAGAGCAACCAGTTACTATGAGTGAAAGGGAGCCAGAAGACTGATTGGAGGGCCC
TATCTTGTGAGTGGGGCATCTGTTGGACTTTCCACCTGGTCATATACTCTGCAGCTATTAGAAT
GTGCAAGCACTTGGGGACAGCATGAGCTTGCTGTTGTACACAGGGTATTTCTAGAAGCAGAAAT
AGACTGGGAAGATGCACAACCAAGGGGTTACAGGCATCACCCGTGCTCCTCACCTGTATTTTGT
AATCAGAAATAAATTGCTTTTAAA

hide sequence

RefSeq Acc Id:

XM_034944882 ⟹ XP_034800773

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
NHGRI_mPanPan1-v2	20	55,603,311 - 55,607,523 (+)	NCBI
NHGRI_mPanPan1	19	57,523,649 - 57,527,867 (+)	NCBI
Mhudiblu_PPA_v0	19	46,500,260 - 46,504,928 (+)	NCBI

RefSeq Acc Id:

XM_063599621 ⟹ XP_063455691

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
NHGRI_mPanPan1-v2	20	55,605,664 - 55,607,523 (+)	NCBI

Protein Sequences


Protein RefSeqs	XP_003814375	(Get FASTA)	NCBI Sequence Viewer
	XP_034800773	(Get FASTA)	NCBI Sequence Viewer
	XP_063455691	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSPPAP00000021657.1
	ENSPPAP00000028656
	ENSPPAP00000028656.1

RefSeq Acc Id:	XP_003814375 ⟸ XM_003814327
- Peptide Label:	isoform X1
- UniProtKB:	A0A2R9BPU7 (UniProtKB/TrEMBL)
- Sequence:	show sequence MAEVQVLVLDGRGHLLGRLAAIVAKQVLLGRKVVVVRCEGINISGNFYRNKLKYLAFLRKRMNT NPSRGPYHFRAPSRIFWRTVRGMLPHKTKRGQAALDRLKVFDGIPPPYDKKKRMVVPAALKVVR LKPTRKFAYLGRLAHEVGWKYQAVTATLEEKRKEKAKIHYRKKKQLMRLRKQAEKNVEKKIDKY TEVLKTHGLLV hide sequence

RefSeq Acc Id:	XP_034800773 ⟸ XM_034944882
- Peptide Label:	isoform X3
- UniProtKB:	A0A2R9AWN3 (UniProtKB/TrEMBL)

RefSeq Acc Id:

ENSPPAP00000028656 ⟸ ENSPPAT00000051504

RefSeq Acc Id:	XP_063455691 ⟸ XM_063599621
- Peptide Label:	isoform X2

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSPPAG00000034045	UniProtKB/TrEMBL
	ENSPPAG00000037365	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSPPAT00000044460.1	UniProtKB/TrEMBL
	ENSPPAT00000051504.1	UniProtKB/TrEMBL
Gene3D-CATH	3.90.1180.10	UniProtKB/TrEMBL
	6.10.250.3250	UniProtKB/TrEMBL
InterPro	Ribosomal_L13	UniProtKB/TrEMBL
	Ribosomal_L13_CS	UniProtKB/TrEMBL
	Ribosomal_L13_euk/arc	UniProtKB/TrEMBL
	Ribosomal_L13_sf	UniProtKB/TrEMBL
KEGG Report	pps:100973740	UniProtKB/TrEMBL
NCBI Gene	RPL13A	ENTREZGENE
PANTHER	60S RIBOSOMAL PROTEIN L13A	UniProtKB/TrEMBL
	60S RIBOSOMAL PROTEIN L13A	UniProtKB/TrEMBL
	PTHR11545	UniProtKB/TrEMBL
Pfam	Ribosomal_L13	UniProtKB/TrEMBL
PROSITE	RIBOSOMAL_L13	UniProtKB/TrEMBL
Superfamily-SCOP	SSF52161	UniProtKB/TrEMBL
UniProt	A0A2R9AWN3	ENTREZGENE, UniProtKB/TrEMBL
	A0A2R9BPU7	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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