Cucsa.356530 (gene) Cucumber (Gy14) v1

Overview
NameCucsa.356530
Typegene
OrganismCucumis sativus (Cucumber (Gy14) v1)
DescriptionRNA-dependent RNA polymerase 2
Locationscaffold03577 : 1339340 .. 1340250 (+)
Genome Viewer
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.
ATGATTTTGGAGGCACTTAATTGCATAGAATCTTCAAAGAGAGCTGCCAAGTCACTCATTTTGCCCTCAGTTTACCATCTTTGTATGGTGGATAATGAAGATTGTCAGCACATCTTTGATTGTCAATTCTCTAAAGAATTTTTGGAGAAAATTATTCTCCTGTTTTATCTCCAATGGGTTTTGTGCAATGACTTCATGAAAAATGTGACTCAACTCTAAGTAGGCCATCCTTAGCCCATTTTCATTTGTTGTGGGATAATGGTGTTAAAGCTATTGTTTTAGAAATATGGTTTGGAAAGAATCCGCACATTTTTCACAACTTATTTCCTTTGTTTGATCGTAATCAGATTGCTCCTGTCAAAGCTTCTTCACAGTGCTCTCTTTTAAATCGGAATGGATTTATTTCTCCTTCTATCCGTTAGTTTGTAATTTAGTCTTGTTCTCTTGCTATGTTCTTGAATATTCTCTTCTTCTTTTTTTTTtCCTAAGTAGACTAATTTCATTAATAAAATGAAAAGTGTTGTTTTCATTTTTCATAATATTAAAAAAaTTACAATTAAAAAAaCCTGCATTTTGAAAATGATTTAAATGGAAATAGGGCAAACAATACTGTCAAGAAAGAGAACGCAGAAAATCAGAACTCAAATTAATTTGTTTTAACCAAAAAAGTGCAGAATGATCTGTGAAGTAGTGCAATGTAATCCTTTCGATGATTCAAAGCAATCTTGAGTAACCACAAAGAGCCTATGCAAGGAAGTCAAAGAGTGGTTCGAGAATAGCTGCGCCGTGCAAGAACACAGATGATGGTTTCTGCATGGTATCATGCAACTTATCATCCTTCTTACTTCAAAGAAGACGTGTTCTACTTCAGCTTCCCATGGACTGTATCTGATGTTTTATTCAACATATAG

mRNA sequence

atgattttggaggcacttaattgcatagaatcttcaaagagagctgccaagtcactcattttgccctcagtttaccatctttgtatggtggataatgaagattgtcagcacatctttgattgtcaattctctAAAGAATTTTTGGAGAAAATTATTCTCCTGTTTTATCTCCAATGGCTGCGCCGTGCAAGAACACAGATGATGGTTTCTGCATGGTATCATGCAACTTATCATCCTTCTTACTTCAAAGAAGACGTGTTCTACTTCAGCTTCCCATGGACTGTATCTGATGTTTTATTCAACATATAG

Coding sequence (CDS)

ATGATTTTGGAGGCACTTAATTGCATAGAATCTTCAAAGAGAGCTGCCAAGTCACTCATTTTGCCCTCAGTTTACCATCTTTGTATGGTGGATAATGAAGATTGTCAGCACATCTTTGATTGTCAATTCTCTAAAGAATTTTTGGAGAAAATTATTCTCCTGTTTTATCTCCAATGGCTGCGCCGTGCAAGAACACAGATGATGGTTTCTGCATGGTATCATGCAACTTATCATCCTTCTTACTTCAAAGAAGACGTGTTCTACTTCAGCTTCCCATGGACTGTATCTGATGTTTTATTCAACATATAG

Protein sequence

MILEALNCIESSKRAAKSLILPSVYHLCMVDNEDCQHIFDCQFSKEFLEKIILLFYLQWLRRARTQMMVSAWYHATYHPSYFKEDVFYFSFPWTVSDVLFNI*
Homology
[Close]
BLAST of Cucsa.356530 vs. TrEMBL
Match: E9NWK9_CUCSA (RNA-dependent RNA polymerase 2 OS=Cucumis sativus GN=Csa_1G005580 PE=2 SV=1)

HSP 1 Score: 75.9 bits (185), Expect = 3.3e-11
Identity = 31/37 (83.78%), Postives = 33/37 (89.19%), Query Frame = 1 

Query: 66   QMMVSAWYHATYHPSYFKEDVFYFSFPWTVSDVLFNI 103
            +MM SAWYH TYHPSYFKED+FYFSFPW VSDVL NI
Sbjct: 1071 RMMASAWYHVTYHPSYFKEDMFYFSFPWAVSDVLLNI 1107

[Close]
BLAST of Cucsa.356530 vs. TrEMBL
Match: M5WGW0_PRUPE (Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa000513mg PE=4 SV=1)

HSP 1 Score: 60.8 bits (146), Expect = 1.1e-06
Identity = 24/37 (64.86%), Postives = 28/37 (75.68%), Query Frame = 1 

Query: 66   QMMVSAWYHATYHPSYFKEDVFYFSFPWTVSDVLFNI 103
            Q M SAWYH TYHPSYF++D+   SFPW V D+L NI
Sbjct: 1072 QRMASAWYHVTYHPSYFQQDMNCLSFPWIVGDILLNI 1108

[Close]
BLAST of Cucsa.356530 vs. TrEMBL
Match: B9RB56_RICCO (RNA-dependent RNA polymerase, putative OS=Ricinus communis GN=RCOM_1511600 PE=4 SV=1)

HSP 1 Score: 59.7 bits (143), Expect = 2.4e-06
Identity = 23/37 (62.16%), Postives = 28/37 (75.68%), Query Frame = 1 

Query: 66  QMMVSAWYHATYHPSYFKEDVFYFSFPWTVSDVLFNI 103
           Q + SAWYH TYHPSYF+E +   SFPW V+D+L NI
Sbjct: 921 QRLASAWYHVTYHPSYFQEGITCLSFPWIVADILLNI 957

[Close]
BLAST of Cucsa.356530 vs. NCBI nr
Match: gi|659105491|ref|XP_008453109.1| (PREDICTED: RNA-dependent RNA polymerase 2 [Cucumis melo])

HSP 1 Score: 75.9 bits (185), Expect = 4.7e-11
Identity = 31/37 (83.78%), Postives = 33/37 (89.19%), Query Frame = 1 

Query: 66   QMMVSAWYHATYHPSYFKEDVFYFSFPWTVSDVLFNI 103
            +MM SAWYH TYHPSYFKED+FYFSFPW VSDVL NI
Sbjct: 1071 RMMASAWYHVTYHPSYFKEDMFYFSFPWAVSDVLLNI 1107

[Close]
BLAST of Cucsa.356530 vs. NCBI nr
Match: gi|525507142|ref|NP_001267608.1| (RNA-dependent RNA polymerase 2-like [Cucumis sativus])

HSP 1 Score: 75.9 bits (185), Expect = 4.7e-11
Identity = 31/37 (83.78%), Postives = 33/37 (89.19%), Query Frame = 1 

Query: 66   QMMVSAWYHATYHPSYFKEDVFYFSFPWTVSDVLFNI 103
            +MM SAWYH TYHPSYFKED+FYFSFPW VSDVL NI
Sbjct: 1071 RMMASAWYHVTYHPSYFKEDMFYFSFPWAVSDVLLNI 1107

[Close]
BLAST of Cucsa.356530 vs. NCBI nr
Match: gi|595861321|ref|XP_007211312.1| (hypothetical protein PRUPE_ppa000513mg [Prunus persica])

HSP 1 Score: 60.8 bits (146), Expect = 1.6e-06
Identity = 24/37 (64.86%), Postives = 28/37 (75.68%), Query Frame = 1 

Query: 66   QMMVSAWYHATYHPSYFKEDVFYFSFPWTVSDVLFNI 103
            Q M SAWYH TYHPSYF++D+   SFPW V D+L NI
Sbjct: 1072 QRMASAWYHVTYHPSYFQQDMNCLSFPWIVGDILLNI 1108

[Close]
BLAST of Cucsa.356530 vs. NCBI nr
Match: gi|645268874|ref|XP_008239735.1| (PREDICTED: LOW QUALITY PROTEIN: RNA-dependent RNA polymerase 2 [Prunus mume])

HSP 1 Score: 60.8 bits (146), Expect = 1.6e-06
Identity = 24/37 (64.86%), Postives = 28/37 (75.68%), Query Frame = 1 

Query: 66   QMMVSAWYHATYHPSYFKEDVFYFSFPWTVSDVLFNI 103
            Q M SAWYH TYHPSYF++D+   SFPW V D+L NI
Sbjct: 1054 QRMASAWYHVTYHPSYFQQDMNCLSFPWIVGDILLNI 1090

[Close]
BLAST of Cucsa.356530 vs. NCBI nr
Match: gi|255540733|ref|XP_002511431.1| (PREDICTED: RNA-dependent RNA polymerase 2 isoform X1 [Ricinus communis])

HSP 1 Score: 59.7 bits (143), Expect = 3.5e-06
Identity = 23/37 (62.16%), Postives = 28/37 (75.68%), Query Frame = 1 

Query: 66  QMMVSAWYHATYHPSYFKEDVFYFSFPWTVSDVLFNI 103
           Q + SAWYH TYHPSYF+E +   SFPW V+D+L NI
Sbjct: 921 QRLASAWYHVTYHPSYFQEGITCLSFPWIVADILLNI 957

The following BLAST results are available for this feature:
BLAST of Cucsa.356530 vs. TrEMBL
Match NameE-valueIdentityDescription
E9NWK9_CUCSA3.3e-1183.78RNA-dependent RNA polymerase 2 OS=Cucumis sativus GN=Csa_1G005580 PE=2 SV=1[more]
M5WGW0_PRUPE1.1e-0664.86Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa000513mg PE=4 SV=1[more]
B9RB56_RICCO2.4e-0662.16RNA-dependent RNA polymerase, putative OS=Ricinus communis GN=RCOM_1511600 PE=4 ... [more]
BLAST of Cucsa.356530 vs. NCBI nr
Match NameE-valueIdentityDescription
gi|659105491|ref|XP_008453109.1|4.7e-1183.78PREDICTED: RNA-dependent RNA polymerase 2 [Cucumis melo][more]
gi|525507142|ref|NP_001267608.1|4.7e-1183.78RNA-dependent RNA polymerase 2-like [Cucumis sativus][more]
gi|595861321|ref|XP_007211312.1|1.6e-0664.86hypothetical protein PRUPE_ppa000513mg [Prunus persica][more]
gi|645268874|ref|XP_008239735.1|1.6e-0664.86PREDICTED: LOW QUALITY PROTEIN: RNA-dependent RNA polymerase 2 [Prunus mume][more]
gi|255540733|ref|XP_002511431.1|3.5e-0662.16PREDICTED: RNA-dependent RNA polymerase 2 isoform X1 [Ricinus communis][more]
GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006342 chromatin silencing
biological_process GO:0098542 defense response to other organism
biological_process GO:0007275 multicellular organism development
biological_process GO:0030422 production of siRNA involved in RNA interference
biological_process GO:0006144 purine nucleobase metabolic process
biological_process GO:0001172 transcription, RNA-templated
cellular_component GO:0031379 RNA-directed RNA polymerase complex
molecular_function GO:0003676 nucleic acid binding
molecular_function GO:0003968 RNA-directed RNA polymerase activity
Relationships

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

Feature NameUnique NameType
Cucsa.356530.1Cucsa.356530.1mRNA


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

None

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

None

The following block(s) are covering this gene:
GeneOrganismBlock
Cucsa.356530Cucurbita maxima (Rimu)cgycmaB0969
Cucsa.356530Cucurbita maxima (Rimu)cgycmaB0970
Cucsa.356530Cucurbita moschata (Rifu)cgycmoB0972
Cucsa.356530Cucurbita moschata (Rifu)cgycmoB0973
Cucsa.356530Wild cucumber (PI 183967)cgycpiB528
Cucsa.356530Cucumber (Chinese Long) v2cgycuB500
Cucsa.356530Melon (DHL92) v3.5.1cgymeB574
Cucsa.356530Watermelon (Charleston Gray)cgywcgB605
Cucsa.356530Watermelon (97103) v1cgywmB638
Cucsa.356530Cucurbita pepo (Zucchini)cgycpeB0927
Cucsa.356530Cucurbita pepo (Zucchini)cgycpeB0928
Cucsa.356530Bottle gourd (USVL1VR-Ls)cgylsiB573
Cucsa.356530Melon (DHL92) v3.6.1cgymedB575
Cucsa.356530Silver-seed gourdcarcgyB0613
Cucsa.356530Silver-seed gourdcarcgyB1085
Cucsa.356530Cucumber (Chinese Long) v3cgycucB542
Cucsa.356530Watermelon (97103) v2cgywmbB608
Cucsa.356530Wax gourdcgywgoB711