Advanced Search (OLGA)

Gene: Sdf2l1 (stromal cell derived factor 2 like 1) Chinchilla lanigera

Analyze

Symbol:

Sdf2l1

Name:

stromal cell derived factor 2 like 1

RGD ID:

8703970

Description:

ENCODES a protein that exhibits ATPase binding (ortholog); misfolded protein binding (ortholog); protein-folding chaperone binding (ortholog); INVOLVED IN cellular response to misfolded protein (ortholog); ERAD pathway (ortholog); protein refolding (ortholog); PARTICIPATES IN codeine and morphine pharmacodynamics pathway; codeine and morphine pharmacokinetics pathway; etoposide pharmacodynamics pathway; ASSOCIATED WITH chromosome 22q11.2 deletion syndrome, distal (ortholog); Crohn's disease (ortholog); DiGeorge syndrome (ortholog); FOUND IN endoplasmic reticulum (ortholog); endoplasmic reticulum chaperone complex (ortholog); membrane (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

stromal cell-derived factor 2-like 1; stromal cell-derived factor 2-like protein 1

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

ChiLan1.0 - Chinchilla ChiLan1.0 Assembly

Position:

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955442	17,468,302 - 17,470,296 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955442	17,468,302 - 17,470,296 (-)	NCBI	ChiLan1.0	ChiLan1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

chromosome 22q11.2 deletion syndrome, distal (ISO)

Crohn's disease (ISO)

DiGeorge syndrome (ISO)

Prostatic Neoplasms (ISO)

Spontaneous Abortions (ISO)

type 2 diabetes mellitus (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cellular response to misfolded protein (ISO)

ERAD pathway (ISO)

protein refolding (ISO)

regulation of apoptotic process (ISO)

response to endoplasmic reticulum stress (ISO)

Cellular Component

endoplasmic reticulum (ISO)

endoplasmic reticulum chaperone complex (ISO)

membrane (ISO)

protein folding chaperone complex (ISO)

Molecular Function

ATPase binding (ISO)

misfolded protein binding (ISO)

protein binding (ISO)

protein-folding chaperone binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

codeine and morphine pharmacodynamics pathway (ISO)

codeine and morphine pharmacokinetics pathway (ISO)

etoposide pharmacodynamics pathway (ISO)

etoposide pharmacokinetics pathway (ISO)

ibuprofen pharmacodynamics pathway (ISO)

ibuprofen pharmacokinetics pathway (ISO)

irinotecan pharmacodynamics pathway (ISO)

irinotecan pharmacokinetics pathway (ISO)

paracetamol pharmacokinetics pathway (ISO)

phenytoin pharmacodynamics pathway (ISO)

retinol metabolic pathway (ISO)

sorafenib pharmacokinetics pathway (ISO)

vitamin A deficiency pathway (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Transitive Annotation Pipeline	Automated assignment of GO, PW and RDO ISO annotations across species

Genomics

Comparative Map Data

Sdf2l1
(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	17,468,302 - 17,470,296 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955442	17,468,302 - 17,470,296 (-)	NCBI	ChiLan1.0	ChiLan1.0

SDF2L1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	22	21,642,302 - 21,644,299 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	22	21,642,302 - 21,644,299 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	22	21,996,591 - 21,998,588 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	22	20,326,542 - 20,328,588 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	22	20,321,095 - 20,323,142	NCBI
Celera	22	5,814,082 - 5,816,128 (+)	NCBI		Celera
Cytogenetic Map	22	q11.21	NCBI
HuRef	22	4,954,363 - 4,956,409 (+)	NCBI		HuRef
CHM1_1	22	21,996,740 - 21,998,786 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	22	22,055,802 - 22,057,799 (+)	NCBI		T2T-CHM13v2.0

Sdf2l1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	16	16,948,002 - 16,950,247 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	16	16,948,002 - 16,950,247 (-)	Ensembl		GRCm39 Ensembl
GRCm38	16	17,130,138 - 17,132,383 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	16	17,130,138 - 17,132,383 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	16	17,130,231 - 17,132,476 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	16	17,043,701 - 17,045,928 (-)	NCBI		MGSCv36	mm8
Celera	16	17,702,932 - 17,705,177 (-)	NCBI		Celera
Cytogenetic Map	16	A3	NCBI
cM Map	16	10.62	NCBI

Sdf2l1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	11	97,376,878 - 97,379,120 (+)	NCBI		GRCr8
mRatBN7.2	11	83,872,659 - 83,874,902 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	11	83,872,659 - 83,874,902 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	11	92,596,386 - 92,598,629 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	11	85,257,528 - 85,259,771 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	11	84,311,108 - 84,313,351 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	11	88,122,271 - 88,124,513 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	11	88,122,271 - 88,124,513 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	11	91,174,846 - 91,177,088 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	11	85,878,093 - 85,880,335 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	11	82,628,352 - 82,630,594 (+)	NCBI		Celera
Cytogenetic Map	11	q23	NCBI

SDF2L1
(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	23	31,187,488 - 31,189,507 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	22	33,736,220 - 33,738,236 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	22	3,764,899 - 3,766,932 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	22	20,248,566 - 20,250,607 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	22	20,248,566 - 20,250,607 (+)	Ensembl	panpan1.1		panPan2

SDF2L1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	26	30,918,788 - 30,920,873 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	26	30,918,811 - 30,920,868 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	26	30,876,092 - 30,878,133 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	26	32,324,590 - 32,326,641 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	26	32,324,324 - 32,326,636 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	26	30,373,930 - 30,375,976 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	26	29,997,658 - 29,999,698 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	26	31,087,579 - 31,089,621 (+)	NCBI		UU_Cfam_GSD_1.0

Sdf2l1
(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_024405118	140,702,130 - 140,704,142 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936619	2,049,922 - 2,051,944 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936619	2,049,920 - 2,051,944 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SDF2L1
(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	50,246,710 - 50,251,642 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	14	50,249,607 - 50,251,636 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	14	53,700,127 - 53,702,117 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SDF2L1
(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	19	4,465,795 - 4,467,882 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	19	4,465,797 - 4,467,761 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666085	2,529,331 - 2,532,763 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Sdf2l1
(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_004624747	1,195,055 - 1,197,105 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624747	1,195,043 - 1,197,105 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

RNA-SEQ Expression

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

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005391702	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01037955	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBCB01077176	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSCLAT00000022171 ⟹ ENSCLAP00000021967

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955442	17,468,302 - 17,470,296 (-)	Ensembl

RefSeq Acc Id:

XM_005391702 ⟹ XP_005391759

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955442	17,468,302 - 17,470,296 (-)	NCBI

Sequence:

show sequence

GCGCGCGGGCGCTGTCAGGGCCGGATTGGTCTTCTGGGGGACGGAAGCGGACCGCGTCGGGAGC
TGCAGGAGCCTGGCGGGGGCGATGCGGAGCGTGGGCCGTGGCGCCGCTGCGGGGCCGGTGCTGC
TGGCGCTCCTGCTAGCGCTCTTGGTACCAGGCGGTGGTGCCACCAAGACCGGCGTGGGGCCTGT
GACCTGCGGGTCAGTGCTGAAGCTGCTCAACACGCAACACAGGGTGCGGCTGCACTCGCACGAC
ATCAAATACGGGTCCGGGAGCGGCCAACAGTCTGTGACCGGTGTGGAGGCGTCGGATGACGCCA
ACAGCTACTGGCGGATCCGCGGAGGCCCGGAGGGCGGGTGCCCGCGCGGCTCCCCCGTGCGCTG
CGGCCAGGCGGTGCGGCTCACGCATGTGCTCACCGGCAAGAACCTGCACACGCACCGCTTCCCG
TCGCCGCTGTCCAACAACCAGGAAGTGAGTGCTTTTGGGGAAGATGGCGAGGGTGACGACCTGG
ACCTGTGGACAGTGCGGTGCTCCGGACAGCACTGGGAGCGTGAGGCTGCTGTGCGCTTCCAGCA
TGTAGGCACTTCTGTGTTCCTGTCCGTCACCGGTGAGCAGTACGGGAGCCCTATCCGTGGGCAG
CACGAAGTGCATGGCATGCCCGGTGCCAACACGCATAATACATGGAAGGCCATGGAAGGCATCT
TCATCAAGCCTGGTGTGGAGCCTTCTGCCGGCCACGATGAACTCTGAGTGTGTGGATGGGTGAA
TGCAAAGTGGCAGGGTAGGACATCTGTAAGGCTGCTCTTGCTGGAGACTTTGGGTGTGTAGGGG
TCCTCAAGTGCCTTTGTGATTAAAGAACGTTGGTCTGTGATTGTA

hide sequence

Protein Sequences


Protein RefSeqs	XP_005391759	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000021967
	ENSCLAP00000021967.1

RefSeq Acc Id:

XP_005391759 ⟸ XM_005391702

- UniProtKB:

A0A8C2VX76 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MRSVGRGAAAGPVLLALLLALLVPGGGATKTGVGPVTCGSVLKLLNTQHRVRLHSHDIKYGSGS
GQQSVTGVEASDDANSYWRIRGGPEGGCPRGSPVRCGQAVRLTHVLTGKNLHTHRFPSPLSNNQ
EVSAFGEDGEGDDLDLWTVRCSGQHWEREAAVRFQHVGTSVFLSVTGEQYGSPIRGQHEVHGMP
GANTHNTWKAMEGIFIKPGVEPSAGHDEL

hide sequence

Ensembl Acc Id:

ENSCLAP00000021967 ⟸ ENSCLAT00000022171

Protein Domains

MIR

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000015053	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000022171	ENTREZGENE
	ENSCLAT00000022171.1	UniProtKB/TrEMBL
Gene3D-CATH	2.80.10.50	UniProtKB/TrEMBL
InterPro	MIR_dom_sf	UniProtKB/TrEMBL
	MIR_motif	UniProtKB/TrEMBL
NCBI Gene	Sdf2l1	ENTREZGENE
PANTHER	STROMAL CELL-DERIVED FACTOR 2-LIKE PROTEIN	UniProtKB/TrEMBL
	STROMAL CELL-DERIVED FACTOR 2-LIKE PROTEIN 1	UniProtKB/TrEMBL
Pfam	MIR	UniProtKB/TrEMBL
PROSITE	MIR	UniProtKB/TrEMBL
SMART	MIR	UniProtKB/TrEMBL
Superfamily-SCOP	SSF82109	UniProtKB/TrEMBL
UniProt	A0A8C2VX76	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-08-03	Sdf2l1	stromal cell derived factor 2 like 1		stromal cell-derived factor 2-like 1	Symbol and/or name change	5135510	APPROVED

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

Imported Annotations - SMPDB

Send us a Message

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Annotations - SMPDB