CsGy3G035810 (gene) Cucumber (Gy14) v2 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CsGy3G035810
Type	gene
Organism	Cucumis sativus (Cucumber (Gy14) v2)
Description	Ribonucleoside-diphosphate reductase
Location	Chr3 : 34212552 .. 34212837 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDS

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

ATGTGTAATCTAAGACATAGACCCATTGGTGTTGGGGTGCAAGATCTTGCAGATACTTTCATTTTACTGGGGATGTCCTTTGATTCACCTGAGGTAATTAATTAATTCAACCTTCGTGTTAGCCTTAACTTATTCTGCTAAATTTACACATACAATGTTTTATGTAACACTTTGAACGAATATATATATATATCAGGCCCAAGAACTGAACAAGGATATATTTGAGGCCATATATTACCATGCTCTTGTGAGCTTGCTGCATGCTGTGGAAGGCCGGCCCCTATGA

mRNA sequence

ATGTGTAATCTAAGACATAGACCCATTGGTGTTGGGGTGCAAGATCTTGCAGATACTTTCATTTTACTGGGGATGTCCTTTGATTCACCTGAGGCCCAAGAACTGAACAAGGATATATTTGAGGCCATATATTACCATGCTCTTGTGAGCTTGCTGCATGCTGTGGAAGGCCGGCCCCTATGA

Coding sequence (CDS)

ATGTGTAATCTAAGACATAGACCCATTGGTGTTGGGGTGCAAGATCTTGCAGATACTTTCATTTTACTGGGGATGTCCTTTGATTCACCTGAGGCCCAAGAACTGAACAAGGATATATTTGAGGCCATATATTACCATGCTCTTGTGAGCTTGCTGCATGCTGTGGAAGGCCGGCCCCTATGA

Protein sequence

MCNLRHRPIGVGVQDLADTFILLGMSFDSPEAQELNKDIFEAIYYHALVSLLHAVEGRPL

Homology

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BLAST of CsGy3G035810 vs. NCBI nr
Match: XP_004141975.1 (PREDICTED: ribonucleoside-diphosphate reductase large subunit [Cucumis sativus] >KGN48402.1 hypothetical protein Csa_6G486750 [Cucumis sativus])

HSP 1 Score: 96.7 bits (239), Expect = 2.9e-17
Identity = 48/57 (84.21%), Postives = 51/57 (89.47%), Query Frame = 0


Query: 3   NLRHRPIGVGVQDLADTFILLGMSFDSPEAQELNKDIFEAIYYHALVSL--LHAVEG 58
           NLRHRPIG+GVQ LADTFILLGMSFDSPEAQ+LNKDIFEAIYYHAL +   L AVEG
Sbjct: 514 NLRHRPIGIGVQGLADTFILLGMSFDSPEAQQLNKDIFEAIYYHALKASCELAAVEG 570

[Close]

BLAST of CsGy3G035810 vs. NCBI nr
Match: XP_008440987.1 (PREDICTED: ribonucleoside-diphosphate reductase large subunit [Cucumis melo])

HSP 1 Score: 96.7 bits (239), Expect = 2.9e-17
Identity = 48/57 (84.21%), Postives = 51/57 (89.47%), Query Frame = 0


Query: 3   NLRHRPIGVGVQDLADTFILLGMSFDSPEAQELNKDIFEAIYYHALVSL--LHAVEG 58
           NLRHRPIG+GVQ LADTFILLGMSFDSPEAQ+LNKDIFEAIYYHAL +   L AVEG
Sbjct: 514 NLRHRPIGIGVQGLADTFILLGMSFDSPEAQQLNKDIFEAIYYHALKASCELAAVEG 570

[Close]

BLAST of CsGy3G035810 vs. NCBI nr
Match: XP_022949664.1 (ribonucleoside-diphosphate reductase large subunit-like [Cucurbita moschata])

HSP 1 Score: 94.7 bits (234), Expect = 1.1e-16
Identity = 46/57 (80.70%), Postives = 51/57 (89.47%), Query Frame = 0


Query: 3   NLRHRPIGVGVQDLADTFILLGMSFDSPEAQELNKDIFEAIYYHALVSL--LHAVEG 58
           NLRHRPIG+GVQ LADTFILLGM+FDSPEAQ+LNKDIFEAIYYHAL +   + AVEG
Sbjct: 514 NLRHRPIGIGVQGLADTFILLGMAFDSPEAQQLNKDIFEAIYYHALKASCEIAAVEG 570

[Close]

BLAST of CsGy3G035810 vs. NCBI nr
Match: XP_022148625.1 (ribonucleoside-diphosphate reductase large subunit [Momordica charantia])

HSP 1 Score: 94.0 bits (232), Expect = 1.9e-16
Identity = 46/57 (80.70%), Postives = 50/57 (87.72%), Query Frame = 0


Query: 3   NLRHRPIGVGVQDLADTFILLGMSFDSPEAQELNKDIFEAIYYHALVS--LLHAVEG 58
           NLRHRPIG+GVQ LADTFILLGM FDSPEAQ+LNKDIFEAIYYHAL +   + AVEG
Sbjct: 514 NLRHRPIGIGVQGLADTFILLGMPFDSPEAQQLNKDIFEAIYYHALKASCQIAAVEG 570

[Close]

BLAST of CsGy3G035810 vs. NCBI nr
Match: NP_001312731.1 (ribonucleoside-diphosphate reductase large subunit-like [Nicotiana tabacum] >CAA71816.1 ribonucleotide reductase [Nicotiana tabacum])

HSP 1 Score: 92.8 bits (229), Expect = 4.2e-16
Identity = 47/57 (82.46%), Postives = 49/57 (85.96%), Query Frame = 0


Query: 3   NLRHRPIGVGVQDLADTFILLGMSFDSPEAQELNKDIFEAIYYHAL--VSLLHAVEG 58
           NLRHRPIG+GVQ LADTFILLGMSFDSPEAQ+LNKDIFE IYYHAL   S L A EG
Sbjct: 514 NLRHRPIGLGVQGLADTFILLGMSFDSPEAQQLNKDIFETIYYHALKASSELAAKEG 570

[Close]

BLAST of CsGy3G035810 vs. TAIR10
Match: AT2G21790.1 (ribonucleotide reductase 1)

HSP 1 Score: 88.2 bits (217), Expect = 1.9e-18
Identity = 39/46 (84.78%), Postives = 42/46 (91.30%), Query Frame = 0


Query: 3   NLRHRPIGVGVQDLADTFILLGMSFDSPEAQELNKDIFEAIYYHAL 49
           N+RHRPIG+GVQ LAD FILLGM FDSPEAQ+LNKDIFE IYYHAL
Sbjct: 514 NMRHRPIGIGVQGLADAFILLGMPFDSPEAQQLNKDIFETIYYHAL 559

[Close]

BLAST of CsGy3G035810 vs. Swiss-Prot
Match: sp|Q9SJ20|RIR1_ARATH (Ribonucleoside-diphosphate reductase large subunit OS=Arabidopsis thaliana OX=3702 GN=RNR1 PE=1 SV=1)

HSP 1 Score: 88.2 bits (217), Expect = 3.4e-17
Identity = 39/46 (84.78%), Postives = 42/46 (91.30%), Query Frame = 0


Query: 3   NLRHRPIGVGVQDLADTFILLGMSFDSPEAQELNKDIFEAIYYHAL 49
           N+RHRPIG+GVQ LAD FILLGM FDSPEAQ+LNKDIFE IYYHAL
Sbjct: 514 NMRHRPIGIGVQGLADAFILLGMPFDSPEAQQLNKDIFETIYYHAL 559

[Close]

BLAST of CsGy3G035810 vs. Swiss-Prot
Match: sp|Q76RD8|RIR1_VACCA (Ribonucleoside-diphosphate reductase large subunit OS=Vaccinia virus (strain Ankara) OX=126794 GN=MVA065L PE=2 SV=1)

HSP 1 Score: 71.6 bits (174), Expect = 3.3e-12
Identity = 34/46 (73.91%), Postives = 36/46 (78.26%), Query Frame = 0


Query: 3   NLRHRPIGVGVQDLADTFILLGMSFDSPEAQELNKDIFEAIYYHAL 49
           N RHRPIG+GVQ LAD FILL   FDS EAQ+LNK IFE IYY AL
Sbjct: 494 NKRHRPIGIGVQGLADAFILLNYPFDSLEAQDLNKKIFETIYYGAL 539

[Close]

BLAST of CsGy3G035810 vs. Swiss-Prot
Match: sp|P20503|RIR1_VACCC (Ribonucleoside-diphosphate reductase large subunit OS=Vaccinia virus (strain Copenhagen) OX=10249 GN=I4L PE=2 SV=1)

HSP 1 Score: 71.6 bits (174), Expect = 3.3e-12
Identity = 34/46 (73.91%), Postives = 36/46 (78.26%), Query Frame = 0


Query: 3   NLRHRPIGVGVQDLADTFILLGMSFDSPEAQELNKDIFEAIYYHAL 49
           N RHRPIG+GVQ LAD FILL   FDS EAQ+LNK IFE IYY AL
Sbjct: 494 NKRHRPIGIGVQGLADAFILLNYPFDSLEAQDLNKKIFETIYYGAL 539

[Close]

BLAST of CsGy3G035810 vs. Swiss-Prot
Match: sp|P12848|RIR1_VACCW (Ribonucleoside-diphosphate reductase large subunit OS=Vaccinia virus (strain Western Reserve) OX=10254 GN=VACWR073 PE=1 SV=1)

HSP 1 Score: 71.6 bits (174), Expect = 3.3e-12
Identity = 34/46 (73.91%), Postives = 36/46 (78.26%), Query Frame = 0


Query: 3   NLRHRPIGVGVQDLADTFILLGMSFDSPEAQELNKDIFEAIYYHAL 49
           N RHRPIG+GVQ LAD FILL   FDS EAQ+LNK IFE IYY AL
Sbjct: 494 NKRHRPIGIGVQGLADAFILLNYPFDSLEAQDLNKKIFETIYYGAL 539

[Close]

BLAST of CsGy3G035810 vs. Swiss-Prot
Match: sp|P32984|RIR1_VAR67 (Ribonucleoside-diphosphate reductase large subunit OS=Variola virus (isolate Human/India/Ind3/1967) OX=587200 GN=I4L PE=2 SV=1)

HSP 1 Score: 71.6 bits (174), Expect = 3.3e-12
Identity = 34/46 (73.91%), Postives = 36/46 (78.26%), Query Frame = 0


Query: 3   NLRHRPIGVGVQDLADTFILLGMSFDSPEAQELNKDIFEAIYYHAL 49
           N RHRPIG+GVQ LAD FILL   FDS EAQ+LNK IFE IYY AL
Sbjct: 494 NKRHRPIGIGVQGLADAFILLNYPFDSLEAQDLNKKIFETIYYGAL 539

[Close]

BLAST of CsGy3G035810 vs. TrEMBL
Match: tr|A0A1S3B2F2|A0A1S3B2F2_CUCME (Ribonucleoside-diphosphate reductase OS=Cucumis melo OX=3656 GN=LOC103485237 PE=3 SV=1)

HSP 1 Score: 96.7 bits (239), Expect = 1.9e-17
Identity = 48/57 (84.21%), Postives = 51/57 (89.47%), Query Frame = 0


Query: 3   NLRHRPIGVGVQDLADTFILLGMSFDSPEAQELNKDIFEAIYYHALVSL--LHAVEG 58
           NLRHRPIG+GVQ LADTFILLGMSFDSPEAQ+LNKDIFEAIYYHAL +   L AVEG
Sbjct: 514 NLRHRPIGIGVQGLADTFILLGMSFDSPEAQQLNKDIFEAIYYHALKASCELAAVEG 570

[Close]

BLAST of CsGy3G035810 vs. TrEMBL
Match: tr|A0A0A0KJ45|A0A0A0KJ45_CUCSA (Ribonucleoside-diphosphate reductase OS=Cucumis sativus OX=3659 GN=Csa_6G486750 PE=3 SV=1)

HSP 1 Score: 96.7 bits (239), Expect = 1.9e-17
Identity = 48/57 (84.21%), Postives = 51/57 (89.47%), Query Frame = 0


Query: 3   NLRHRPIGVGVQDLADTFILLGMSFDSPEAQELNKDIFEAIYYHALVSL--LHAVEG 58
           NLRHRPIG+GVQ LADTFILLGMSFDSPEAQ+LNKDIFEAIYYHAL +   L AVEG
Sbjct: 514 NLRHRPIGIGVQGLADTFILLGMSFDSPEAQQLNKDIFEAIYYHALKASCELAAVEG 570

[Close]

BLAST of CsGy3G035810 vs. TrEMBL
Match: tr|Q9ZR56|Q9ZR56_TOBAC (Ribonucleoside-diphosphate reductase OS=Nicotiana tabacum OX=4097 GN=LOC107807190 PE=2 SV=1)

HSP 1 Score: 92.8 bits (229), Expect = 2.8e-16
Identity = 47/57 (82.46%), Postives = 49/57 (85.96%), Query Frame = 0


Query: 3   NLRHRPIGVGVQDLADTFILLGMSFDSPEAQELNKDIFEAIYYHAL--VSLLHAVEG 58
           NLRHRPIG+GVQ LADTFILLGMSFDSPEAQ+LNKDIFE IYYHAL   S L A EG
Sbjct: 514 NLRHRPIGLGVQGLADTFILLGMSFDSPEAQQLNKDIFETIYYHALKASSELAAKEG 570

[Close]

BLAST of CsGy3G035810 vs. TrEMBL
Match: tr|A0A2G5DCB4|A0A2G5DCB4_AQUCA (Ribonucleoside-diphosphate reductase OS=Aquilegia coerulea OX=218851 GN=AQUCO_02300167v1 PE=3 SV=1)

HSP 1 Score: 92.8 bits (229), Expect = 2.8e-16
Identity = 46/59 (77.97%), Postives = 49/59 (83.05%), Query Frame = 0


Query: 1   MCNLRHRPIGVGVQDLADTFILLGMSFDSPEAQELNKDIFEAIYYHAL--VSLLHAVEG 58
           M NLRHRPIG+GVQ LADT+ILLGM FDSPEAQ+LNKDIFE IYYHAL   S L A EG
Sbjct: 512 MSNLRHRPIGIGVQGLADTYILLGMPFDSPEAQQLNKDIFETIYYHALKASSQLSAKEG 570

[Close]

BLAST of CsGy3G035810 vs. TrEMBL
Match: tr|A0A166BPL2|A0A166BPL2_DAUCA (Ribonucleoside-diphosphate reductase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_011466 PE=3 SV=1)

HSP 1 Score: 92.8 bits (229), Expect = 2.8e-16
Identity = 42/46 (91.30%), Postives = 44/46 (95.65%), Query Frame = 0


Query: 3   NLRHRPIGVGVQDLADTFILLGMSFDSPEAQELNKDIFEAIYYHAL 49
           NLRHRPIG+GVQ LADTFILLGMSFDSPEAQ+LNKDIFE IYYHAL
Sbjct: 457 NLRHRPIGIGVQGLADTFILLGMSFDSPEAQQLNKDIFETIYYHAL 502

The following BLAST results are available for this feature:

BLAST of CsGy3G035810 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_004141975.1	2.9e-17	84.21	PREDICTED: ribonucleoside-diphosphate reductase large subunit [Cucumis sativus] ...	[more]
XP_008440987.1	2.9e-17	84.21	PREDICTED: ribonucleoside-diphosphate reductase large subunit [Cucumis melo]	[more]
XP_022949664.1	1.1e-16	80.70	ribonucleoside-diphosphate reductase large subunit-like [Cucurbita moschata]	[more]
XP_022148625.1	1.9e-16	80.70	ribonucleoside-diphosphate reductase large subunit [Momordica charantia]	[more]
NP_001312731.1	4.2e-16	82.46	ribonucleoside-diphosphate reductase large subunit-like [Nicotiana tabacum] >CAA...	[more]

BLAST of CsGy3G035810 vs. TAIR10


Match Name	E-value	Identity	Description
AT2G21790.1	1.9e-18	84.78	ribonucleotide reductase 1	[more]

BLAST of CsGy3G035810 vs. Swiss-Prot


Match Name	E-value	Identity	Description
sp\|Q9SJ20\|RIR1_ARATH	3.4e-17	84.78	Ribonucleoside-diphosphate reductase large subunit OS=Arabidopsis thaliana OX=37...	[more]
sp\|Q76RD8\|RIR1_VACCA	3.3e-12	73.91	Ribonucleoside-diphosphate reductase large subunit OS=Vaccinia virus (strain Ank...	[more]
sp\|P20503\|RIR1_VACCC	3.3e-12	73.91	Ribonucleoside-diphosphate reductase large subunit OS=Vaccinia virus (strain Cop...	[more]
sp\|P12848\|RIR1_VACCW	3.3e-12	73.91	Ribonucleoside-diphosphate reductase large subunit OS=Vaccinia virus (strain Wes...	[more]
sp\|P32984\|RIR1_VAR67	3.3e-12	73.91	Ribonucleoside-diphosphate reductase large subunit OS=Variola virus (isolate Hum...	[more]

BLAST of CsGy3G035810 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|A0A1S3B2F2\|A0A1S3B2F2_CUCME	1.9e-17	84.21	Ribonucleoside-diphosphate reductase OS=Cucumis melo OX=3656 GN=LOC103485237 PE=...	[more]
tr\|A0A0A0KJ45\|A0A0A0KJ45_CUCSA	1.9e-17	84.21	Ribonucleoside-diphosphate reductase OS=Cucumis sativus OX=3659 GN=Csa_6G486750 ...	[more]
tr\|Q9ZR56\|Q9ZR56_TOBAC	2.8e-16	82.46	Ribonucleoside-diphosphate reductase OS=Nicotiana tabacum OX=4097 GN=LOC10780719...	[more]
tr\|A0A2G5DCB4\|A0A2G5DCB4_AQUCA	2.8e-16	77.97	Ribonucleoside-diphosphate reductase OS=Aquilegia coerulea OX=218851 GN=AQUCO_02...	[more]
tr\|A0A166BPL2\|A0A166BPL2_DAUCA	2.8e-16	91.30	Ribonucleoside-diphosphate reductase OS=Daucus carota subsp. sativus OX=79200 GN...	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **Biological Process**
Term	Definition
GO:0055114	oxidation-reduction process
GO:0006260	DNA replication

Vocabulary: **INTERPRO**
Term	Definition
IPR000788	RNR_lg_C

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006260	DNA replication
biological_process	GO:0055114	oxidation-reduction process
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0005524	ATP binding
molecular_function	GO:0004748	ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor

Relationships

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


Feature Name	Unique Name	Type
CsGy3G035810.1	CsGy3G035810.1	mRNA

InterPro

Analysis Name: InterPro Annotations of cucumber Gy14 genome (v2)
Date Performed: 2018-09-25


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR000788	Ribonucleotide reductase large subunit, C-terminal	PRINTS	PR01183	RIBORDTASEM1	coord: 7..29 score: 45.55 coord: 35..58 score: 29.56
IPR000788	Ribonucleotide reductase large subunit, C-terminal	PFAM	PF02867	Ribonuc_red_lgC	coord: 3..49 e-value: 3.8E-11 score: 42.1
None	No IPR available	GENE3D	G3DSA:3.20.70.20		coord: 1..55 e-value: 1.4E-14 score: 55.6
None	No IPR available	PANTHER	PTHR11573:SF21	SUBFAMILY NOT NAMED	coord: 2..50
None	No IPR available	PANTHER	PTHR11573	RIBONUCLEOSIDE-DIPHOSPHATE REDUCTASE LARGE CHAIN	coord: 2..50
None	No IPR available	SUPERFAMILY	SSF51998	PFL-like glycyl radical enzymes	coord: 3..49

Synteny

The following gene(s) are orthologous to this gene:


Gene	Orthologue	Organism	Block
CsGy3G035810	CSPI03G38290	Wild cucumber (PI 183967)	cgybcpiB111

The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:


Gene	Organism	Block
CsGy3G035810	Cucurbita maxima (Rimu)	cgybcmaB306
CsGy3G035810	Cucurbita maxima (Rimu)	cgybcmaB444
CsGy3G035810	Cucurbita moschata (Rifu)	cgybcmoB279
CsGy3G035810	Cucurbita moschata (Rifu)	cgybcmoB413
CsGy3G035810	Cucurbita pepo (Zucchini)	cgybcpeB395
CsGy3G035810	Cucumber (Chinese Long) v2	cgybcuB110
CsGy3G035810	Bottle gourd (USVL1VR-Ls)	cgyblsiB171
CsGy3G035810	Melon (DHL92) v3.5.1	cgybmeB184
CsGy3G035810	Melon (DHL92) v3.6.1	cgybmedB185
CsGy3G035810	Watermelon (Charleston Gray)	cgybwcgB179
CsGy3G035810	Watermelon (97103) v1	cgybwmB187
CsGy3G035810	Silver-seed gourd	carcgybB0329
CsGy3G035810	Cucumber (Chinese Long) v3	cgybcucB117
CsGy3G035810	Watermelon (97103) v2	cgybwmbB178
CsGy3G035810	Wax gourd	cgybwgoB211