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Gene: Lcn15 (lipocalin 15) Ictidomys tridecemlineatus

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Symbol:

Lcn15

Name:

lipocalin 15

RGD ID:

12622781

Description:

ENCODES a protein that exhibits small molecule binding (inferred); ASSOCIATED WITH Adams-Oliver Syndrome 5 (ortholog); autosomal dominant intellectual developmental disorder 8 (ortholog); autosomal dominant nocturnal frontal lobe epilepsy 5 (ortholog); FOUND IN extracellular region (inferred)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

lipocalin-15

RGD Orthologs

Alliance Orthologs

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):	LCN15 (lipocalin 15)	NCBI	Ortholog
Mus musculus (house mouse):	Lcn15 (lipocalin 15)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	LCN15 (lipocalin 15)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	LCN15 (lipocalin 15)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	LCN15 (lipocalin 15)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	LCN15 (lipocalin 15)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Lcn15 (lipocalin 15)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

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_024404947	202,246,042 - 202,249,727 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936669	1,125,316 - 1,130,443 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936669	1,125,407 - 1,129,016 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Lcn15	Squirrel	Adams-Oliver Syndrome 5		ISO	RGD:1603824	8554872	ClinVar Annotator: match by term: Adams-Oliver syndrome 5	ClinVar	PMID:16025100\|PMID:19597493\|PMID:19668216\|PMID:21457232\|PMID:22318994\|PMID:23034536\|PMID:23386033\|PMID:25132448\|PMID:25516202\|PMID:25963545\|PMID:26820064\|PMID:28125082\|PMID:28492532
Lcn15	Squirrel	autosomal dominant intellectual developmental disorder 8		ISO	RGD:1603824	8554872	ClinVar Annotator: match by term: Neurodevelopmental disorder with or without hyperkinetic movements and seizures, autosomal more ...	ClinVar	PMID:28492532
Lcn15	Squirrel	autosomal dominant nocturnal frontal lobe epilepsy 5		ISO	RGD:1603824	8554872	ClinVar Annotator: match by term: Autosomal dominant nocturnal frontal lobe epilepsy 5	ClinVar	PMID:28492532
Lcn15	Squirrel	developmental and epileptic encephalopathy 14		ISO	RGD:1603824	8554872	ClinVar Annotator: match by term: Developmental and epileptic encephalopathy, 14 \| ClinVar Annotator: match by more ...	ClinVar	PMID:19264732\|PMID:27891178\|PMID:28492532
Lcn15	Squirrel	developmental and epileptic encephalopathy 14		ISO	RGD:1603824	8554872	ClinVar Annotator: match by term: Developmental and epileptic encephalopathy, 14 \| ClinVar Annotator: match by more ...	ClinVar	PMID:16025100\|PMID:19264732\|PMID:19597493\|PMID:19668216\|PMID:21457232\|PMID:22318994\|PMID:23034536\|PMID:23386033\|PMID:25132448\|PMID:25516202\|PMID:25963545\|PMID:26820064\|PMID:27891178\|PMID:28125082\|PMID:28492532
Lcn15	Squirrel	Joubert syndrome 1		ISO	RGD:1603824	8554872	ClinVar Annotator: match by term: Familial aplasia of the vermis	ClinVar	PMID:16025100\|PMID:19597493\|PMID:19668216\|PMID:21457232\|PMID:22318994\|PMID:23034536\|PMID:23386033\|PMID:25132448\|PMID:25516202\|PMID:25963545\|PMID:26820064\|PMID:28125082\|PMID:28492532
Lcn15	Squirrel	Kleefstra syndrome 1		ISO	RGD:1603824	8554872	ClinVar Annotator: match by term: Kleefstra syndrome 1	ClinVar	PMID:19264732\|PMID:22318994\|PMID:22890305\|PMID:25741868\|PMID:27891178\|PMID:28492532\|PMID:31209758
Lcn15	Squirrel	Leigh disease		ISO	RGD:1603824	8554872	ClinVar Annotator: match by term: Leigh syndrome	ClinVar	PMID:28492532
Lcn15	Squirrel	primary coenzyme Q10 deficiency 7		ISO	RGD:1603824	8554872	ClinVar Annotator: match by term: Neonatal encephalomyopathy-cardiomyopathy-respiratory distress syndrome	ClinVar	PMID:28492532
Lcn15	Squirrel	Rafiq syndrome		ISO	RGD:1603824	8554872	ClinVar Annotator: match by term: Rafiq syndrome	ClinVar	PMID:24566669\|PMID:28492532\|PMID:30982612
Lcn15	Squirrel	tuberous sclerosis 1		ISO	RGD:1603824	8554872	ClinVar Annotator: match by term: Tuberous sclerosis 1	ClinVar	PMID:28492532

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)
Lcn15	Squirrel	extracellular region	located_in	IEA	UniProtKB-KW:KW-0964	150520179		UniProt	GO_REF:0000043
Lcn15	Squirrel	extracellular region	located_in	IEA	UniProtKB-SubCell:SL-0243	150520179		UniProt	GO_REF:0000044

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)
Lcn15	Squirrel	protein binding	enables	ISO	UniProtKB:Q6FHY5	9068941	PMID:32296183	IntAct	PMID:32296183
Lcn15	Squirrel	protein binding	enables	ISO	UniProtKB:P0DTD1-PRO_0000449633	9068941	PMID:36217029	IntAct	PMID:36217029
Lcn15	Squirrel	small molecule binding	enables	IEA	InterPro:IPR002345	150520179		InterPro	GO_REF:0000002

PMID:30032202

Lcn15
(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_024404947	202,246,042 - 202,249,727 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936669	1,125,316 - 1,130,443 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936669	1,125,407 - 1,129,016 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LCN15
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	9	136,759,634 - 136,764,518 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	9	136,759,634 - 136,766,255 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	9	139,654,086 - 139,658,970 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	9	138,773,907 - 138,778,786 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	9	110,167,242 - 110,172,130 (-)	NCBI		Celera
Cytogenetic Map	9	q34.3	NCBI
HuRef	9	109,113,328 - 109,118,218 (-)	NCBI		HuRef
CHM1_1	9	139,802,651 - 139,807,541 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	9	148,992,812 - 148,997,698 (-)	NCBI		T2T-CHM13v2.0

Lcn15
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	2	25,534,156 - 25,538,813 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm38	2	25,644,144 - 25,648,801 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
Celera	2	25,372,476 - 25,377,086 (+)	NCBI		Celera
Cytogenetic Map	2	A3	NCBI

LCN15
(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	11	2,630,959 - 2,641,356 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	9	2,633,294 - 2,643,691 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	9	107,818,230 - 107,828,652 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	9	136,788,329 - 136,798,392 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	9	136,788,329 - 136,794,304 (-)	Ensembl	panpan1.1		panPan2

LCN15
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	9	48,784,995 - 48,789,272 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	9	48,769,526 - 48,794,188 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	9	47,997,264 - 48,002,681 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	9	49,661,795 - 49,667,210 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	9	49,649,902 - 49,666,109 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	9	48,437,938 - 48,443,353 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	9	48,737,922 - 48,742,008 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	9	48,784,448 - 48,789,020 (+)	NCBI		UU_Cfam_GSD_1.0

LCN15
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa10.2	1	313,866,956 - 313,880,267 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LCN15
(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	12	1,426,428 - 1,433,627 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	12	1,427,420 - 1,431,282 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666058	3,838,467 - 3,845,836 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Lcn15
(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 1.0	NW_004624760	1,047,585 - 1,050,735 (+)	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_013363590	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_040286646	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_040286647	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010000006	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSSTOT00000023059 ⟹ ENSSTOP00000018368

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936669	1,125,316 - 1,130,443 (+)	Ensembl

RefSeq Acc Id:

XM_013363590 ⟹ XP_013219044

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024404947	202,246,042 - 202,249,727 (-)	NCBI
SpeTri2.0	NW_004936669	1,125,407 - 1,129,016 (+)	NCBI

Sequence:

show sequence

TGGAGGTCAGGCCTGAGGATGAGGCTGGTCCTGCTGAGCTGGGTTCTGCTGCTCTGGGTGTCCGCAACTCTCGCCGAGGTCCTGGTTCAACCTGACTTTGATGCCAAAAAGTTCTCGGGCCTCTGGTA
TGTTGTCTCCATGGTGTCTGACTGCAAGGTGTTCTTGGGCAAGAAGGATCATCTGCTGATGTCCACCAGGGACATCAATGCCACCAAGGGGGGCTGTCTCAACGTCCACATGGAATTCCCACGGGCTG
ATGGCTGTGCCCAGGTGGATGCCACGTTCCTGAAGGTGGGCTCCGAGGGCCACTTCAGAGTTCCAGCCTTGGGCTACCTGGATGTGCGTGTGGCGGACACGGACTATGGCTCCTTTGCGGTGGTCTAC
ATCTACAAGGAGCTGGAGGGGGCTCTCAGCACCATGGTGCAGCTCTACAGTCGGGCTCAGGATGCCATCCCCCAGGCTCTGAAGGCCTTCCAGGACTTCTACCCCACAGTGGGGCTCCAGGATGACAT
GATGGTCATGCTGCCCAAGTCAGATGCTTGCTCCCCATCTCAGGGGAGCACCTTGGCCACCCCGGAGTCCCATCCCAGCCCTGCCGAGACAGGGGACAGGGGCGAGGCCACAGCAGCAAACCTCACCT
CCCCAGGCGTGGACGTGCAGTGAGCCCACCGCCCTCGGGCCACCCAGAGCTGTCCCTCATCCTCCCTCCCTGCCTCCCCTGATCCGGGGCCTCTTCCCACCCAATAAACAGATCCTGCAGCCTC

hide sequence

RefSeq Acc Id:

XM_040286646 ⟹ XP_040142580

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024404947	202,246,066 - 202,249,685 (-)	NCBI

RefSeq Acc Id:

XM_040286647 ⟹ XP_040142581

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024404947	202,246,066 - 202,249,668 (-)	NCBI


Protein RefSeqs	XP_013219044	(Get FASTA)	NCBI Sequence Viewer
	XP_040142580	(Get FASTA)	NCBI Sequence Viewer
	XP_040142581	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000018368.2
GenBank Protein	KAG3288376	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	XP_013219044 ⟸ XM_013363590
- Peptide Label:	isoform X1
- UniProtKB:	I3N1X2 (UniProtKB/TrEMBL)
- Sequence:	show sequence MRLVLLSWVLLLWVSATLAEVLVQPDFDAKKFSGLWYVVSMVSDCKVFLGKKDHLLMSTRDINATKGGCLNVHMEFPRADGCAQVDATFLKVGSEGHFRVPALGYLDVRVADTDYGSFAVVYIYKELE GALSTMVQLYSRAQDAIPQALKAFQDFYPTVGLQDDMMVMLPKSDACSPSQGSTLATPESHPSPAETGDRGEATAANLTSPGVDVQ hide sequence

RefSeq Acc Id:	XP_040142580 ⟸ XM_040286646
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_040142581 ⟸ XM_040286647
- Peptide Label:	isoform X2

Ensembl Acc Id:

ENSSTOP00000018368 ⟸ ENSSTOT00000023059

Protein Domains

Lipocalin/cytosolic fatty-acid binding

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000024610	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000023059.2	UniProtKB/TrEMBL
Gene3D-CATH	2.40.128.20	UniProtKB/TrEMBL
InterPro	Calycin	UniProtKB/TrEMBL
	Lipocalin	UniProtKB/TrEMBL
	Lipocalin_CS	UniProtKB/TrEMBL
	Lipocln_cytosolic_FA-bd_dom	UniProtKB/TrEMBL
NCBI Gene	Lcn15	ENTREZGENE
PANTHER	LIPOCALIN-15	UniProtKB/TrEMBL
	PTHR11430	UniProtKB/TrEMBL
Pfam	Lipocalin	UniProtKB/TrEMBL
PRINTS	LIPOCALIN	UniProtKB/TrEMBL
	PGNDSYNTHASE	UniProtKB/TrEMBL
PROSITE	LIPOCALIN	UniProtKB/TrEMBL
Superfamily-SCOP	SSF50814	UniProtKB/TrEMBL
UniProt	I3N1X2	ENTREZGENE, UniProtKB/TrEMBL

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


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


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