Spo06567 (gene) | SpinachBase

Overview


Name	Spo06567
Type	gene
Organism	Spinacia oleracea (Spinach)
Description	Protein Ycf2
Location	Super_scaffold_74 : 122710 .. 124076 (+)

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideexonCDS

Hold the cursor over a type above to highlight its positions in the sequence below.

ATGCACTTCTCGGCCGCGAATCCTCTTGAAAGAGAGGGGTGCCTTCGGGAACGCGGACACAGGTGGTGCATGGCTGTCGTCAGCTCGTGCCGTAAGGTGTTGGGTTAAGTCCCGCAACGAGCGCAACCCTCGTGTTTAGTTGCCAACGTTGAGTTTGGAACCCTTTTTTCCATTTTTTTTTCAATCTATAAATTGTTAATGAATACGCGGCAGAACCACTTCATTTTTCAATTAAGTGATATTATTTCGATTTCAAGATGAAAGAACTCACTTTCTACCAAAATAGAAAATATTTTAAAAAATTGCGCCGAAACACTTATGATATTAGAACTCATGCCCTATCGAGCATGTTATCCCATTTTTAAATTGATTTATTCTGCAGCAGCAAATGCTAGTCAAGACGTTCCTTTCCCCCCCCACATGGATAAAAGTAGACCCACAGTAACAATAAAGAGTGGACTAAACTATTAGCAGGAGTAGAAACTGATGCGGTTAAGAAATTGCAGCCTTCCAAATAAGAACTGGCCAATCCATGGGTATGCAGTTCCAAAAAAGCGTACTTTGATTTACAAAAAACGTAGGTCCTTCACTTTCATTACACCGATGTGGATTGCCTCGGGCCAAATAATTCTATCGGGGTAGTTGCGGAACCTGAAGCCCAATTCTTAACTGGAGGAGACACCAAAGTCCGCCGCCCTTCCATCTCTTGGATAGAGATAGATAGAGAGGTGACTCGATATCTATGTCTGTTGACAAAGCCCGAAGAGTAATTGATCAGATCCGTGGGCGTTCCTACGCCGAAACACTTATGATATTAGAACTCATGCCCTATCGAGCATGTTATCCCATTTTTAAATTGATTTATTCTGCAGCAGCAAATGCTAGTCATAATAAACAATTTAATAAAGCCAGGTAAATCCATTATATGTCAAATAAGAGATAAAAAATCGGAATGTTTCATGATCTTATTGATTTGAACAGGAAAAAAGAAGTTTATGCTTTGCTAATTGTTAAATCCTAAAGCTTGTGGTAAGAATGGGTTTCATTCTAGTGCCCTAAAATAATATTCTAAAGCTTTCGTATGTTCTCCATTACTTGTGTGAACCAAACACATCGTAAGCTAAACCTGTGTTGATTTATAACCAACCCGCAATGAATAGGGAAGGTATAGTAATGCTATGAATAACCCATGGGAATTGTTTGATTGTCTTTCTCTTTTTTTGAGGAACGTATCGAGAGAGAATTGGATTTGGCTAGACAATGTGCGGTTGGTAAATAAGGAACGGGTTTTTAGCAAGGTACGGAATGTATCGTCAAATATTCAATATGATAGCATGATATTGGGGAATCTCATTGCTATTAATTGA

mRNA sequence

ATGCACTTCTCGGCCGCGAATCCTCTTGAAAGAGAGGGGTGCCTTCGGGAACGCGGACACAGGTGGTGCATGGCTGTCGTCAGCTCGTGCCCAGCAAATGCTAGTCATAATAAACAATTTAATAAAGCCAGGAACGTATCGAGAGAGAATTGGATTTGGCTAGACAATGTGCGGTTGGTAAATAAGGAACGGGTTTTTAGCAAGGTACGGAATGTATCGTCAAATATTCAATATGATAGCATGATATTGGGGAATCTCATTGCTATTAATTGA

Coding sequence (CDS)

ATGCACTTCTCGGCCGCGAATCCTCTTGAAAGAGAGGGGTGCCTTCGGGAACGCGGACACAGGTGGTGCATGGCTGTCGTCAGCTCGTGCCCAGCAAATGCTAGTCATAATAAACAATTTAATAAAGCCAGGAACGTATCGAGAGAGAATTGGATTTGGCTAGACAATGTGCGGTTGGTAAATAAGGAACGGGTTTTTAGCAAGGTACGGAATGTATCGTCAAATATTCAATATGATAGCATGATATTGGGGAATCTCATTGCTATTAATTGA

Protein sequence

MHFSAANPLEREGCLRERGHRWCMAVVSSCPANASHNKQFNKARNVSRENWIWLDNVRLVNKERVFSKVRNVSSNIQYDSMILGNLIAIN

Relationships

The following mRNA feature(s) are a part of this gene:


Feature Name	Unique Name	Type
Spo06567.1	Spo06567.1	mRNA

Homology

[Close]

BLAST of Spo06567.1 vs. NCBI nr
Match: gi|12246|emb|CAA30743.1| (unnamed protein product [Spinacia oleracea])

HSP 1 Score: 73.6 bits (179), Expect = 2.000e-10
Identity = 34/36 (94.44%), Postives = 35/36 (97.22%), Query Frame = 1

		  
Query: 44  RNVSRENWIWLDNVRLVNKERVFSKVRNVSSNIQYD 80
           RNVSRENWIWLDNVRLVNK+R FSKVRNVSSNIQYD
Sbjct: 244 RNVSRENWIWLDNVRLVNKDRFFSKVRNVSSNIQYD 279

[Close]

BLAST of Spo06567.1 vs. NCBI nr
Match: gi|11497598|ref|NP_055004.1| (Ycf2 [Spinacia oleracea])

HSP 1 Score: 73.6 bits (179), Expect = 2.000e-10
Identity = 34/36 (94.44%), Postives = 35/36 (97.22%), Query Frame = 1

		  
Query: 44  RNVSRENWIWLDNVRLVNKERVFSKVRNVSSNIQYD 80
           RNVSRENWIWLDNVRLVNK+R FSKVRNVSSNIQYD
Sbjct: 244 RNVSRENWIWLDNVRLVNKDRFFSKVRNVSSNIQYD 279

[Close]

BLAST of Spo06567.1 vs. NCBI nr
Match: gi|340842530|gb|AEK78183.1| (hypothetical chloroplast RF2 (plastid) [Gisekia africana])

HSP 1 Score: 73.6 bits (179), Expect = 2.000e-10
Identity = 34/36 (94.44%), Postives = 35/36 (97.22%), Query Frame = 1

		  
Query: 44  RNVSRENWIWLDNVRLVNKERVFSKVRNVSSNIQYD 80
           RNVSRENWIWLDNVRLVNK+R FSKVRNVSSNIQYD
Sbjct: 343 RNVSRENWIWLDNVRLVNKDRFFSKVRNVSSNIQYD 378

[Close]

BLAST of Spo06567.1 vs. NCBI nr
Match: gi|146261228|gb|ABQ14849.1| (Ycf2 [Itea virginica])

HSP 1 Score: 72.4 bits (176), Expect = 4.500e-10
Identity = 36/48 (75.00%), Postives = 39/48 (81.25%), Query Frame = 1

		  
Query: 33  NASHNKQFNKARNVSRENWIWLDNVRLVNKERVFSKVRNVSSNIQYDS 81
           N +H   F   RNVSRENWIWLDNV LVNK+R FSKV+NVSSNIQYDS
Sbjct: 334 NNTHESDF--LRNVSRENWIWLDNVWLVNKDRFFSKVQNVSSNIQYDS 379

[Close]

BLAST of Spo06567.1 vs. NCBI nr
Match: gi|836613973|ref|YP_009143766.1| (ycf2 protein (chloroplast) [Salicornia europaea])

HSP 1 Score: 72.4 bits (176), Expect = 4.500e-10
Identity = 34/38 (89.47%), Postives = 36/38 (94.74%), Query Frame = 1

		  
Query: 44  RNVSRENWIWLDNVRLVNKERVFSKVRNVSSNIQYDSM 82
           RNVSRENWIWLDNV LVNK+R FSKVRNVSSNIQYDS+
Sbjct: 244 RNVSRENWIWLDNVWLVNKDRFFSKVRNVSSNIQYDSI 281

[Close]

BLAST of Spo06567.1 vs. UniProtKB/TrEMBL
Match: G0YEC4_9CARY (Protein Ycf2 OS=Gisekia africana GN=ycf2 PE=3 SV=1)

HSP 1 Score: 73.6 bits (179), Expect = 1.400e-10
Identity = 34/36 (94.44%), Postives = 35/36 (97.22%), Query Frame = 1

		  
Query: 44  RNVSRENWIWLDNVRLVNKERVFSKVRNVSSNIQYD 80
           RNVSRENWIWLDNVRLVNK+R FSKVRNVSSNIQYD
Sbjct: 343 RNVSRENWIWLDNVRLVNKDRFFSKVRNVSSNIQYD 378

[Close]

BLAST of Spo06567.1 vs. UniProtKB/TrEMBL
Match: A0A0G2QXF3_SALEU (Protein Ycf2 OS=Salicornia europaea GN=ycf2 PE=3 SV=1)

HSP 1 Score: 72.4 bits (176), Expect = 3.200e-10
Identity = 34/38 (89.47%), Postives = 36/38 (94.74%), Query Frame = 1

		  
Query: 44  RNVSRENWIWLDNVRLVNKERVFSKVRNVSSNIQYDSM 82
           RNVSRENWIWLDNV LVNK+R FSKVRNVSSNIQYDS+
Sbjct: 244 RNVSRENWIWLDNVWLVNKDRFFSKVRNVSSNIQYDSI 281

[Close]

BLAST of Spo06567.1 vs. UniProtKB/TrEMBL
Match: A0A0G2QY28_9CARY (Protein Ycf2 OS=Salicornia brachiata GN=ycf2 PE=3 SV=1)

HSP 1 Score: 72.4 bits (176), Expect = 3.200e-10
Identity = 34/38 (89.47%), Postives = 36/38 (94.74%), Query Frame = 1

		  
Query: 44  RNVSRENWIWLDNVRLVNKERVFSKVRNVSSNIQYDSM 82
           RNVSRENWIWLDNV LVNK+R FSKVRNVSSNIQYDS+
Sbjct: 244 RNVSRENWIWLDNVWLVNKDRFFSKVRNVSSNIQYDSI 281

[Close]

BLAST of Spo06567.1 vs. UniProtKB/TrEMBL
Match: A0A159ZSF5_9CARY (Ycf2 OS=Bienertia sinuspersici GN=ycf2 PE=4 SV=1)

HSP 1 Score: 72.4 bits (176), Expect = 3.200e-10
Identity = 34/38 (89.47%), Postives = 36/38 (94.74%), Query Frame = 1

		  
Query: 44  RNVSRENWIWLDNVRLVNKERVFSKVRNVSSNIQYDSM 82
           RNVSRENWIWLDNV LVNK+R FSKVRNVSSNIQYDS+
Sbjct: 244 RNVSRENWIWLDNVWLVNKDRFFSKVRNVSSNIQYDSI 281

[Close]

BLAST of Spo06567.1 vs. UniProtKB/TrEMBL
Match: A0A0G2QY66_SALBI (Protein Ycf2 OS=Salicornia bigelovii GN=ycf2 PE=3 SV=1)

HSP 1 Score: 72.4 bits (176), Expect = 3.200e-10
Identity = 34/38 (89.47%), Postives = 36/38 (94.74%), Query Frame = 1

		  
Query: 44  RNVSRENWIWLDNVRLVNKERVFSKVRNVSSNIQYDSM 82
           RNVSRENWIWLDNV LVNK+R FSKVRNVSSNIQYDS+
Sbjct: 244 RNVSRENWIWLDNVWLVNKDRFFSKVRNVSSNIQYDSI 281

[Close]

BLAST of Spo06567.1 vs. ExPASy Swiss-Prot
Match: YCF2_SPIOL (Protein Ycf2 OS=Spinacia oleracea GN=ycf2-A PE=3 SV=2)

HSP 1 Score: 73.6 bits (179), Expect = 1.300e-12
Identity = 34/36 (94.44%), Postives = 35/36 (97.22%), Query Frame = 1

		  
Query: 44  RNVSRENWIWLDNVRLVNKERVFSKVRNVSSNIQYD 80
           RNVSRENWIWLDNVRLVNK+R FSKVRNVSSNIQYD
Sbjct: 244 RNVSRENWIWLDNVRLVNKDRFFSKVRNVSSNIQYD 279

[Close]

BLAST of Spo06567.1 vs. ExPASy Swiss-Prot
Match: YCF2_VITVI (Protein Ycf2 OS=Vitis vinifera GN=ycf2-A PE=3 SV=1)

HSP 1 Score: 72.0 bits (175), Expect = 3.700e-12
Identity = 34/37 (91.89%), Postives = 35/37 (94.59%), Query Frame = 1

		  
Query: 44  RNVSRENWIWLDNVRLVNKERVFSKVRNVSSNIQYDS 81
           RNVSRENWIWLDNV LVNK+R FSKVRNVSSNIQYDS
Sbjct: 343 RNVSRENWIWLDNVWLVNKDRFFSKVRNVSSNIQYDS 379

[Close]

BLAST of Spo06567.1 vs. ExPASy Swiss-Prot
Match: YCF2_PLAOC (Protein Ycf2 OS=Platanus occidentalis GN=ycf2-A PE=3 SV=1)

HSP 1 Score: 72.0 bits (175), Expect = 3.700e-12
Identity = 34/37 (91.89%), Postives = 35/37 (94.59%), Query Frame = 1

		  
Query: 44  RNVSRENWIWLDNVRLVNKERVFSKVRNVSSNIQYDS 81
           RNVSRENWIWLDNV LVNK+R FSKVRNVSSNIQYDS
Sbjct: 343 RNVSRENWIWLDNVWLVNKDRFFSKVRNVSSNIQYDS 379

[Close]

BLAST of Spo06567.1 vs. ExPASy Swiss-Prot
Match: YCF2_RANMC (Protein Ycf2 OS=Ranunculus macranthus GN=ycf2-A PE=3 SV=1)

HSP 1 Score: 72.0 bits (175), Expect = 3.700e-12
Identity = 33/37 (89.19%), Postives = 36/37 (97.30%), Query Frame = 1

		  
Query: 44  RNVSRENWIWLDNVRLVNKERVFSKVRNVSSNIQYDS 81
           RNVSRENWIWLD+VRLVNK+R FSKVRNVSSN+QYDS
Sbjct: 343 RNVSRENWIWLDSVRLVNKDRFFSKVRNVSSNMQYDS 379

[Close]

BLAST of Spo06567.1 vs. ExPASy Swiss-Prot
Match: YCF2_EUCGG (Protein Ycf2 OS=Eucalyptus globulus subsp. globulus GN=ycf2-A PE=3 SV=1)

HSP 1 Score: 71.6 bits (174), Expect = 4.800e-12
Identity = 33/37 (89.19%), Postives = 35/37 (94.59%), Query Frame = 1

		  
Query: 44  RNVSRENWIWLDNVRLVNKERVFSKVRNVSSNIQYDS 81
           RN+SRENWIWLDNV LVNK+R FSKVRNVSSNIQYDS
Sbjct: 343 RNISRENWIWLDNVWLVNKDRFFSKVRNVSSNIQYDS 379

[Close]

BLAST of Spo06567.1 vs. TAIR (Arabidopsis)
Match: ATCG00860.1 (Chloroplast Ycf2;ATPase, AAA type, core)

HSP 1 Score: 69.3 bits (168), Expect = 1.400e-12
Identity = 32/37 (86.49%), Postives = 34/37 (91.89%), Query Frame = 1

		  
Query: 44  RNVSRENWIWLDNVRLVNKERVFSKVRNVSSNIQYDS 81
           R +SRENWIWLDNV LVNK+R FSKVRNVSSNIQYDS
Sbjct: 343 RKISRENWIWLDNVWLVNKDRFFSKVRNVSSNIQYDS 379

[Close]

BLAST of Spo06567.1 vs. TAIR (Arabidopsis)
Match: ATCG01280.1 (Chloroplast Ycf2;ATPase, AAA type, core)

HSP 1 Score: 69.3 bits (168), Expect = 1.400e-12
Identity = 32/37 (86.49%), Postives = 34/37 (91.89%), Query Frame = 1

		  
Query: 44  RNVSRENWIWLDNVRLVNKERVFSKVRNVSSNIQYDS 81
           R +SRENWIWLDNV LVNK+R FSKVRNVSSNIQYDS
Sbjct: 343 RKISRENWIWLDNVWLVNKDRFFSKVRNVSSNIQYDS 379

The following BLAST results are available for this feature:

BLAST of Spo06567.1 vs. NCBI nr
BLAST of Spo06567.1 vs. UniProtKB/TrEMBL
BLAST of Spo06567.1 vs. ExPASy Swiss-Prot
BLAST of Spo06567.1 vs. TAIR (Arabidopsis)

BLAST of Spo06567.1 vs. NCBI nr
Analysis Date: 2018-06-29 (blastp Spinacia oleracea peptides vs. NCBI nr)
Total hits: 5

Position :

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Match Name	E-value	Identity	Description
gi\|12246\|emb\|CAA30743.1\|	2.0e-10	94.4	unnamed protein product [Spina...	[more]
gi\|11497598\|ref\|NP_055004.1\|	2.0e-10	94.4	Ycf2 [Spinacia oleracea]	[more]
gi\|340842530\|gb\|AEK78183.1\|	2.0e-10	94.4	hypothetical chloroplast RF2 (...	[more]
gi\|146261228\|gb\|ABQ14849.1\|	4.5e-10	75.0	Ycf2 [Itea virginica]	[more]
gi\|836613973\|ref\|YP_009143766.1\|	4.5e-10	89.4	ycf2 protein (chloroplast) [Sa...	[more]

BLAST of Spo06567.1 vs. UniProtKB/TrEMBL
Analysis Date: 2018-06-29 (blastp Spinacia oleracea peptides vs. UniprotKB/TrEMBL)
Total hits: 5

Position :

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x 1


Match Name	E-value	Identity	Description
G0YEC4_9CARY	1.4e-10	94.4	Protein Ycf2 OS=Gisekia africa...	[more]
A0A0G2QXF3_SALEU	3.2e-10	89.4	Protein Ycf2 OS=Salicornia eur...	[more]
A0A0G2QY28_9CARY	3.2e-10	89.4	Protein Ycf2 OS=Salicornia bra...	[more]
A0A159ZSF5_9CARY	3.2e-10	89.4	Ycf2 OS=Bienertia sinuspersici...	[more]
A0A0G2QY66_SALBI	3.2e-10	89.4	Protein Ycf2 OS=Salicornia big...	[more]

BLAST of Spo06567.1 vs. ExPASy Swiss-Prot
Analysis Date: 2018-06-29 (blastp Spinacia oleracea peptides vs. ExPASy SwissProt)
Total hits: 5

Position :

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Match Name	E-value	Identity	Description
YCF2_SPIOL	1.3e-12	94.4	Protein Ycf2 OS=Spinacia olera...	[more]
YCF2_VITVI	3.7e-12	91.8	Protein Ycf2 OS=Vitis vinifera...	[more]
YCF2_PLAOC	3.7e-12	91.8	Protein Ycf2 OS=Platanus occid...	[more]
YCF2_RANMC	3.7e-12	89.1	Protein Ycf2 OS=Ranunculus mac...	[more]
YCF2_EUCGG	4.8e-12	89.1	Protein Ycf2 OS=Eucalyptus glo...	[more]

BLAST of Spo06567.1 vs. TAIR (Arabidopsis)
Analysis Date: 2018-06-29 (blastp Spinacia oleracea peptides vs. TAIR)
Total hits: 2

Position :

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Match Name	E-value	Identity	Description
ATCG00860.1	1.4e-12	86.4	Chloroplast Ycf2;ATPase, AAA t...	[more]
ATCG01280.1	1.4e-12	86.4	Chloroplast Ycf2;ATPase, AAA t...	[more]

InterPro

Analysis Name: InterPro Annotations of S. oleracea
Date Performed: 2018-06-29

Position :

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IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR008543	Uncharacterised protein family Ycf2	PFAM	PF05695	DUF825	coord: 34..81 score: 7.6
None	No IPR available	PANTHER	PTHR33078	FAMILY NOT NAMED	coord: 44..81 score: 2.9

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
cellular_component	GO:0009570	chloroplast stroma
cellular_component	GO:0009507	chloroplast
molecular_function	GO:0005524	ATP binding

RNA-Seq Expression

Co-expression


Gene	r value	Expression
Spo17932	0.83	Barchart \| Table
Spo19607	0.83	Barchart \| Table
Spo13650	0.81	Barchart \| Table
Spo19606	0.81	Barchart \| Table
Spo13649	0.81	Barchart \| Table
Spo20629	0.79	Barchart \| Table
Spo09675	0.69	Barchart \| Table