Utp23 (UTP23 small subunit processome component) - Rat Genome Database

Utp23 (UTP23 small subunit processome component) - Rat Genome Database

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Gene: Utp23 (UTP23 small subunit processome component) Ictidomys tridecemlineatus

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Symbol:

Utp23

Name:

UTP23 small subunit processome component

RGD ID:

12602838

Description:

ENCODES a protein that exhibits mRNA 3'-UTR binding (inferred); mRNA 5'-UTR binding (inferred); INVOLVED IN endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (inferred); ribosome biogenesis (inferred); rRNA processing (inferred); PARTICIPATES IN ribosome biogenesis pathway; ASSOCIATED WITH colorectal adenocarcinoma (ortholog); Cornelia de Lange syndrome 4 (ortholog); hereditary multiple exostoses (ortholog); FOUND IN nucleolus (inferred); small-subunit processome (inferred)

Type:

protein-coding

RefSeq Status:

Previously known as:

rRNA-processing protein UTP23 homolog; UTP23, small subunit processome component

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

SpeTri2.0 - Squirrel SpeTri2.0 Assembly

Position:

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405303	22,061,464 - 22,069,089 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936470	29,486,977 - 29,495,222 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936470	29,489,354 - 29,495,171 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Utp23	Squirrel	colorectal adenocarcinoma	susceptibility	ISO	RGD:1601941	9068941	DNA:missense mutation:cds:p.P215Q (rs16888728) (human)	RGD	PMID:26553438\|REF_RGD_ID:11041896

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Utp23	Squirrel	Cornelia de Lange syndrome 4		ISO	RGD:1601941	8554872	ClinVar Annotator: match by term: Cornelia de Lange syndrome 4	ClinVar	PMID:28492532
Utp23	Squirrel	hereditary multiple exostoses		ISO	RGD:1601941	8554872	ClinVar Annotator: match by term: Multiple congenital exostosis	ClinVar	PMID:28492532
Utp23	Squirrel	trichorhinophalangeal syndrome type I		ISO	RGD:1601941	8554872	ClinVar Annotator: match by term: Trichorhinophalangeal dysplasia type I	ClinVar	PMID:25741868
Utp23	Squirrel	trichorhinophalangeal syndrome type III		ISO	RGD:1601941	8554872	ClinVar Annotator: match by term: Trichorhinophalangeal syndrome, type III	ClinVar	PMID:11112658\|PMID:25792522\|PMID:28492532

Biological Process

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Utp23	Squirrel	endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	acts_upstream_of_or_within	IEA	UniProtKB:Q9CX11\|ensembl:ENSMUSP00000119261	150520179		Ensembl	GO_REF:0000107
Utp23	Squirrel	ribosome biogenesis	involved_in	IEA	UniProtKB-KW:KW-0690	150520179		UniProt	GO_REF:0000043
Utp23	Squirrel	rRNA processing	involved_in	IEA	UniProtKB-KW:KW-0698	150520179		UniProt	GO_REF:0000043

Cellular Component

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Utp23	Squirrel	nucleolus	located_in	IEA	UniProtKB-SubCell:SL-0188	150520179		UniProt	GO_REF:0000044
Utp23	Squirrel	small-subunit processome	part_of	IEA	InterPro:IPR006984	150520179		InterPro	GO_REF:0000002

Molecular Function

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Utp23	Squirrel	mRNA 3'-UTR binding	enables	IEA	UniProtKB:Q9BRU9\|ensembl:ENSP00000308332	150520179		Ensembl	GO_REF:0000107
Utp23	Squirrel	mRNA 5'-UTR binding	enables	IEA	UniProtKB:Q9BRU9\|ensembl:ENSP00000308332	150520179		Ensembl	GO_REF:0000107
Utp23	Squirrel	protein binding	enables	ISO	UniProtKB:O76083\|UniProtKB:P14373\|UniProtKB:P15884\|UniProtKB:P36406\|UniProtKB:P60370\|UniProtKB:P60410\|UniProtKB:P60411\|UniProtKB:Q15323\|UniProtKB:Q6A162\|UniProtKB:Q7Z3S9\|UniProtKB:Q9UJV3-2	9068941	PMID:25416956	IntAct	PMID:25416956
Utp23	Squirrel	protein binding	enables	ISO	UniProtKB:A8MQ03\|UniProtKB:O76011\|UniProtKB:O76015\|UniProtKB:P0DPK4\|UniProtKB:P28799\|UniProtKB:P60328\|UniProtKB:P60410\|UniProtKB:Q08379\|UniProtKB:Q12933\|UniProtKB:Q6FHY5\|UniProtKB:Q8IUG1\|UniProtKB:Q8NI38\|UniProtKB:Q96N21\|UniProtKB:Q96RU7	9068941	PMID:32296183	IntAct	PMID:32296183

RGD Manual Annotations

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Utp23	Squirrel	ribosome biogenesis pathway		ISO	RGD:1601941	9068941		RGD	PMID:24550520\|REF_RGD_ID:9999445

PMID:22301074	PMID:30032202

Utp23
(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_024405303	22,061,464 - 22,069,089 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936470	29,486,977 - 29,495,222 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936470	29,489,354 - 29,495,171 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

UTP23
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	8	116,766,524 - 116,774,684 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	8	116,766,505 - 116,849,463 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	8	117,778,763 - 117,786,923 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	8	117,847,923 - 117,853,380 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	8	113,967,456 - 113,975,628 (+)	NCBI		Celera
Cytogenetic Map	8	q24.11	NCBI
HuRef	8	113,105,075 - 113,113,245 (+)	NCBI		HuRef
CHM1_1	8	117,818,903 - 117,827,083 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	8	117,894,649 - 117,917,286 (+)	NCBI		T2T-CHM13v2.0

Utp23
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	15	51,740,837 - 51,748,018 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	15	51,740,825 - 51,748,010 (+)	Ensembl		GRCm39 Ensembl
GRCm38	15	51,877,441 - 51,884,622 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	15	51,877,429 - 51,884,614 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	15	51,708,987 - 51,716,168 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	15	51,707,570 - 51,714,047 (+)	NCBI		MGSCv36	mm8
Celera	15	53,450,118 - 53,457,358 (+)	NCBI		Celera
Cytogenetic Map	15	C	NCBI
cM Map	15	19.49	NCBI

Utp23
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	7	85,074,713 - 85,084,766 (+)	NCBI		GRCr8
mRatBN7.2	7	83,185,187 - 83,196,652 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	7	83,189,656 - 83,196,655 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	7	85,085,326 - 85,090,474 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	7	87,286,539 - 87,291,687 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	7	87,113,439 - 87,118,619 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	7	91,384,329 - 91,389,605 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	91,384,187 - 91,389,598 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	7	92,028,550 - 92,033,826 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	88,169,421 - 88,174,702 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	7	88,190,176 - 88,195,417 (+)	NCBI
Celera	7	80,068,080 - 80,073,357 (+)	NCBI		Celera
Cytogenetic Map	7	q31	NCBI

Utp23
(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	NW_004955417	22,859,914 - 22,867,633 (+)	NCBI	ChiLan1.0	ChiLan1.0

UTP23
(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	7	134,169,273 - 134,177,751 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	8	109,688,408 - 109,695,784 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	8	113,441,014 - 113,462,103 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	8	115,984,355 - 115,990,708 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	8	115,984,167 - 116,066,606 (+)	Ensembl	panpan1.1		panPan2

UTP23
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	13	16,213,131 - 16,219,726 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	13	16,213,159 - 16,339,964 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	13	16,214,422 - 16,220,697 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	13	16,501,118 - 16,507,341 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	13	16,501,146 - 16,628,637 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	13	16,245,206 - 16,251,428 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	13	16,345,515 - 16,351,791 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	13	16,586,304 - 16,592,579 (+)	NCBI		UU_Cfam_GSD_1.0

UTP23
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	4	21,934,434 - 21,940,952 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	4	21,934,796 - 21,940,994 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	4	23,209,977 - 23,216,169 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

UTP23
(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	8	111,404,636 - 111,410,083 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	8	111,404,634 - 111,413,673 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666039	28,914,525 - 28,920,872 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Utp23
(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_004624763	15,040,390 - 15,044,532 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624763	15,040,367 - 15,044,532 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.


RefSeq Transcripts	XM_005316217	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010000362	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSSTOT00000001407 ⟹ ENSSTOP00000001261

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936470	29,486,977 - 29,495,222 (-)	Ensembl

Ensembl Acc Id:

ENSSTOT00000037969 ⟹ ENSSTOP00000026428

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936470	29,490,062 - 29,495,076 (-)	Ensembl

RefSeq Acc Id:

XM_005316217 ⟹ XP_005316274

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024405303	22,061,464 - 22,069,089 (-)	NCBI
SpeTri2.0	NW_004936470	29,489,354 - 29,495,171 (-)	NCBI

Sequence:

show sequence

CATTTCCGGGAGGAGCCGGCACTGCGGGACCCAGCCGTGCGTAAGGCTTGTGCTACGGTGTTCGGCCTGGTGGCCTCGGTCGGAGTAAGCCAGCCATGAAGATTACCAGGCAGAAACACGCCAAGAAG
CATCTTGGCTTCTTCCGCAACAATTTCGGAGTCCGCGAGCCGTACCAGATCCTGCTGGACGGCACCTTCTGTCAGGCAGCGTTGCGGGGCCGCATCCAGCTGCGGGAGCAGCTGCCCCGCTACCTTAT
GGGGGAGACGCAGCTGTGCACCACCAGATGTGTGTTAAAGGAATTAGAAACATTGGGAAAGGATTTATATGGGGCAAAACTGATTGCACAGAAATGCCAAGTTCGAAATTGTCCCCATTTCAAGAATG
CAGTGAGTGGATCAGAATGTCTGCTTTCCATGGTTGAAGAGGGAAATCCTCATCATTATTTTGTGGCAACACAGGACCAGAATTTATCTGTGAAAGTAAAGAAAAAGCCTGGGATTCCTCTGATGTTT
ATCATTCAGAACACTATAGTCTTGGACAAACCTTCTCCCAAAACAATTGCCTTTGTTAAAGCGGTAGAGTCAGGTCAGCTTGTCTCAGTGCATGAGAAAGAAAGTATCAAGCAACTCAAACAGGAACA
GGGGTTAGTGAAAAATCCTGAACAGAGAAGAAGAAAAAAGCGCAAGAAAATAAGTGGCCCCAATCCTCTTAGCTGTTTGAAGAAAAAGAAAAAAACAGAGGACACAAAATCGCCTGCTTCTAAAAAGA
AAAGAAAAAGAATAAGAATCCGGAACAGATCTACCTCCAAAGTACTTTCTGAGAAGCAGAATGCAGAAGGATAATGAATTCTTTCGATACTTTTAAAGACATTCACGTGTGAAAAATTAATTTACTTT
AAAGACTATATTTATGATTAAAGATTAAACTTATTTTTATAAATGAATAATGACCCATATGCTTTTTCCTAAAATAACTTATAAAATAGAGTAGTTAGGTTTAGGTATGATAGAGTGTACTTTTTTCA
GGGTTTTGATAGAGATTTTTCATTGTAAAATTATTGTTTCCTATCCCTCCCAAATGTTATATGCCAATGGGTTTTAAAATCAAACAGTTTTGGGCTGGGATTGTGGTTCAGTGGTAGAGTGCTCGTCT
AGCACGTCTGAGGCCCTGGGTTTGATCCTCAGC

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Protein RefSeqs	XP_005316274	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000001261.2
	ENSSTOP00000026428.1
GenBank Protein	KAG3273698	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

XP_005316274 ⟸ XM_005316217

- UniProtKB:

I3LYI8 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MKITRQKHAKKHLGFFRNNFGVREPYQILLDGTFCQAALRGRIQLREQLPRYLMGETQLCTTRCVLKELETLGKDLYGAKLIAQKCQVRNCPHFKNAVSGSECLLSMVEEGNPHHYFVATQDQNLSVK
VKKKPGIPLMFIIQNTIVLDKPSPKTIAFVKAVESGQLVSVHEKESIKQLKQEQGLVKNPEQRRRKKRKKISGPNPLSCLKKKKKTEDTKSPASKKKRKRIRIRNRSTSKVLSEKQNAEG

hide sequence

Ensembl Acc Id:

ENSSTOP00000001261 ⟸ ENSSTOT00000001407

Ensembl Acc Id:

ENSSTOP00000026428 ⟸ ENSSTOT00000037969

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000001411	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000001407.3	UniProtKB/TrEMBL
	ENSSTOT00000037969.1	UniProtKB/TrEMBL
Gene3D-CATH	5'-nuclease	UniProtKB/TrEMBL
InterPro	Fcf1/Utp23	UniProtKB/TrEMBL
	PIN-like_dom_sf	UniProtKB/TrEMBL
NCBI Gene	Utp23	ENTREZGENE
PANTHER	UNCHARACTERIZED	UniProtKB/TrEMBL
Pfam	Fcf1	UniProtKB/TrEMBL
Superfamily-SCOP	SSF88723	UniProtKB/TrEMBL
UniProt	A0A287CYT0_ICTTR	UniProtKB/TrEMBL
	I3LYI8	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2019-01-29	Utp23	UTP23 small subunit processome component		UTP23, small subunit processome component	Symbol and/or name change	5135510	APPROVED