Csa3G642650 (gene) Cucumber (Chinese Long) v2

Overview
NameCsa3G642650
Typegene
OrganismCucumis. sativus (Cucumber (Chinese Long) v2)
DescriptionDNA-directed RNA polymerase
LocationChr3 : 25124607 .. 25125202 (-)
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.
ATGGGTCGAGTTTTGAGCTCGCTTGAAGAACGGGTGAAGGGAGGGAGACGTAGGTTTAAGGAGGGTTTAATGGCACCCACCCTGATTCTCTTCTCCATTTTCCCACTACTTTGAAAATTTTAACTTCGCTTTGAGTTCTTCGTCTTCAAGTTTGTTTGCTCAGCTTCTCACTTTTCGAAACTTCTTCGGAGAAACTACATATGTTTACCATCACATTTTTTTCTTTTTCTTATCCATCAACTGCCTTTTGAAGTTTTGAAGAAGAAACTGAGCCTGTGGCCGAACAGCAGGAGAAGCTAGCCAAAGATCATGACAGATTGAAGAAAAAAGTCACCAAGCTGATGAAACAATAGAAATTGCAGCAAGTAAATTTGATAGTCAAGGAGCACGATGATTTAAAGCTTTGGGGCCAGGAGGCTCATGTGAAGGTTTTTGTTTTTCATTTTCTGTCCACTGTCTCAATTCTGGTTCGTATTACCTTCCAGCTTGGATGCTGTTTGGTTCAGTTGTTGATGGAAACAGCCTATATTCAACCTCCAGTTGATCAGTTAGGGGATGGTCTACTTGATATTCGCCCTGCCTTTGTCAACTATTAA

mRNA sequence

ATGGGTCGAGTTTTGAGCTCGCTTGAAGAACGGGTGAAGGGAGGGAGACGTAGTTTTGAAGAAGAAACTGAGCCTGTGGCCGAACAGCAGGAGAAGCTAGCCAAAGATCATGACAGATTGAAGAAAAAAGAGGCTCATGTGAAGGTTTTTGTTTTTCATTTTCTGTCCACTGTCTCAATTCTGGTTCGTATTACCTTCCAGCTTGGATGCTGTTTGGTTCAGTTGTTGATGGAAACAGCCTATATTCAACCTCCAGTTGATCAGTTAGGGGATGGTCTACTTGATATTCGCCCTGCCTTTGTCAACTATTAA

Coding sequence (CDS)

ATGGGTCGAGTTTTGAGCTCGCTTGAAGAACGGGTGAAGGGAGGGAGACGTAGTTTTGAAGAAGAAACTGAGCCTGTGGCCGAACAGCAGGAGAAGCTAGCCAAAGATCATGACAGATTGAAGAAAAAAGAGGCTCATGTGAAGGTTTTTGTTTTTCATTTTCTGTCCACTGTCTCAATTCTGGTTCGTATTACCTTCCAGCTTGGATGCTGTTTGGTTCAGTTGTTGATGGAAACAGCCTATATTCAACCTCCAGTTGATCAGTTAGGGGATGGTCTACTTGATATTCGCCCTGCCTTTGTCAACTATTAA

Protein sequence

MGRVLSSLEERVKGGRRSFEEETEPVAEQQEKLAKDHDRLKKKEAHVKVFVFHFLSTVSILVRITFQLGCCLVQLLMETAYIQPPVDQLGDGLLDIRPAFVNY*
Homology
[Close]
BLAST of Csa3G642650 vs. Swiss-Prot
Match: RPO1B_TOBAC (DNA-directed RNA polymerase 1B, mitochondrial OS=Nicotiana tabacum GN=RPOT1-TOM PE=2 SV=2)

HSP 1 Score: 56.6 bits (135), Expect = 1.9e-07
Identity = 26/36 (72.22%), Postives = 29/36 (80.56%), Query Frame = 1 

Query: 67  QLGCCLVQLLMETAYIQPPVDQLGDGLLDIRPAFVN 103
           ++GC L+Q+LMETAYIQPP DQL DG  DIRPAFV+
Sbjct: 357 KVGCRLIQILMETAYIQPPNDQLDDGPPDIRPAFVH 392

[Close]
BLAST of Csa3G642650 vs. Swiss-Prot
Match: RPOT1_NICSY (DNA-directed RNA polymerase 1, mitochondrial OS=Nicotiana sylvestris GN=RPOT1 PE=2 SV=1)

HSP 1 Score: 53.1 bits (126), Expect = 2.1e-06
Identity = 25/36 (69.44%), Postives = 28/36 (77.78%), Query Frame = 1 

Query: 67  QLGCCLVQLLMETAYIQPPVDQLGDGLLDIRPAFVN 103
           ++GC L+Q+LMETAYIQPP DQL D   DIRPAFV+
Sbjct: 357 KVGCRLIQILMETAYIQPPNDQLDDCPPDIRPAFVH 392

[Close]
BLAST of Csa3G642650 vs. Swiss-Prot
Match: RPOT2_ARATH (DNA-directed RNA polymerase 2, chloroplastic/mitochondrial OS=Arabidopsis thaliana GN=RPOT2 PE=1 SV=1)

HSP 1 Score: 52.4 bits (124), Expect = 3.5e-06
Identity = 35/104 (33.65%), Postives = 56/104 (53.85%), Query Frame = 1 

Query: 3   RVLSSLEERVKG--GRRSFEEETEPVAEQQEKLAKDHDRLKKKE--AHVKVFVFHFLSTV 62
           R+ + L+++ KG     S   E E   ++Q+KL K  + L KK+  + V+  +     T 
Sbjct: 297 RICTFLDKKKKGDDNEESGGVENETSMKEQDKLRKKVNELIKKQKLSAVRKILQSHDYTK 356

Query: 63  SILVRITFQLGCCLVQLLMETAYIQPPVDQLGDGLLDIRPAFVN 103
             +  +  ++G  L++LL+ TAYIQ P DQ  + L D+RPAFV+
Sbjct: 357 PWIADVRAKVGSRLIELLVRTAYIQSPADQQDNDLPDVRPAFVH 400

[Close]
BLAST of Csa3G642650 vs. TrEMBL
Match: A0A0A0LBV4_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_3G642650 PE=4 SV=1)

HSP 1 Score: 206.5 bits (524), Expect = 1.6e-50
Identity = 103/103 (100.00%), Postives = 103/103 (100.00%), Query Frame = 1 

Query: 1   MGRVLSSLEERVKGGRRSFEEETEPVAEQQEKLAKDHDRLKKKEAHVKVFVFHFLSTVSI 60
           MGRVLSSLEERVKGGRRSFEEETEPVAEQQEKLAKDHDRLKKKEAHVKVFVFHFLSTVSI
Sbjct: 1   MGRVLSSLEERVKGGRRSFEEETEPVAEQQEKLAKDHDRLKKKEAHVKVFVFHFLSTVSI 60

Query: 61  LVRITFQLGCCLVQLLMETAYIQPPVDQLGDGLLDIRPAFVNY 104
           LVRITFQLGCCLVQLLMETAYIQPPVDQLGDGLLDIRPAFVNY
Sbjct: 61  LVRITFQLGCCLVQLLMETAYIQPPVDQLGDGLLDIRPAFVNY 103

[Close]
BLAST of Csa3G642650 vs. TrEMBL
Match: M5XKH1_PRUPE (DNA-directed RNA polymerase OS=Prunus persica GN=PRUPE_ppa000780mg PE=3 SV=1)

HSP 1 Score: 72.0 bits (175), Expect = 4.8e-10
Identity = 42/92 (45.65%), Postives = 58/92 (63.04%), Query Frame = 1 

Query: 22  ETEPVAEQQEKLAKDHDRLKKKEAHVKVFVFHFLSTVSILVR-----------ITFQLGC 81
           E E +A++QEKL K+ +RL+KK    K+     +  V  +V+              ++GC
Sbjct: 305 EQEKLADEQEKLTKEQERLRKKVN--KLIKRQKMQQVRGIVKEQEDLKPWGQEAHVKVGC 364

Query: 82  CLVQLLMETAYIQPPVDQLGDGLLDIRPAFVN 103
            L+QLLM+TAYIQPPVDQ+GDG  DIRPAFV+
Sbjct: 365 RLIQLLMDTAYIQPPVDQIGDGPPDIRPAFVH 394

[Close]
BLAST of Csa3G642650 vs. TrEMBL
Match: A0A061EA94_THECC (DNA-directed RNA polymerase OS=Theobroma cacao GN=TCM_011418 PE=3 SV=1)

HSP 1 Score: 71.2 bits (173), Expect = 8.1e-10
Identity = 42/90 (46.67%), Postives = 55/90 (61.11%), Query Frame = 1 

Query: 22  ETEPVAEQQEKLAKDHDRLKKKEAH---------VKVFVFHFLSTVSILVRITFQLGCCL 81
           E+EPV  +QEKL KD ++L+KK            V+  V    ++ S       ++GC L
Sbjct: 295 ESEPVTNKQEKLVKDQEKLRKKVTQLLKKQKVHQVRKIVKGHDTSKSWGQEAHVKVGCRL 354

Query: 82  VQLLMETAYIQPPVDQLGDGLLDIRPAFVN 103
           +QLL+E AYIQPPVDQLGD   DIRPAFV+
Sbjct: 355 IQLLIENAYIQPPVDQLGDCPPDIRPAFVH 384

[Close]
BLAST of Csa3G642650 vs. TrEMBL
Match: A0A061E977_THECC (DNA-directed RNA polymerase OS=Theobroma cacao GN=TCM_011418 PE=3 SV=1)

HSP 1 Score: 71.2 bits (173), Expect = 8.1e-10
Identity = 42/90 (46.67%), Postives = 55/90 (61.11%), Query Frame = 1 

Query: 22  ETEPVAEQQEKLAKDHDRLKKKEAH---------VKVFVFHFLSTVSILVRITFQLGCCL 81
           E+EPV  +QEKL KD ++L+KK            V+  V    ++ S       ++GC L
Sbjct: 295 ESEPVTNKQEKLVKDQEKLRKKVTQLLKKQKVHQVRKIVKGHDTSKSWGQEAHVKVGCRL 354

Query: 82  VQLLMETAYIQPPVDQLGDGLLDIRPAFVN 103
           +QLL+E AYIQPPVDQLGD   DIRPAFV+
Sbjct: 355 IQLLIENAYIQPPVDQLGDCPPDIRPAFVH 384

[Close]
BLAST of Csa3G642650 vs. TrEMBL
Match: A0A068TYR1_COFCA (DNA-directed RNA polymerase OS=Coffea canephora GN=GSCOC_T00032448001 PE=3 SV=1)

HSP 1 Score: 71.2 bits (173), Expect = 8.1e-10
Identity = 40/85 (47.06%), Postives = 56/85 (65.88%), Query Frame = 1 

Query: 20  EEETEPVAEQQEKLAKDHDRLKKKEA--HVKVFVFHFLSTVSILVRITFQLGCCLVQLLM 79
           E+ETEPVA+ +++L K  + L KK+    V+  V H  ++         ++GC L+Q++M
Sbjct: 114 EKETEPVAKAEDRLRKKVNVLMKKQKLHQVREIVKHHDASKPWGQDAQVKVGCRLIQIMM 173

Query: 80  ETAYIQPPVDQLGDGLLDIRPAFVN 103
           ETAYIQPPVDQ  DG  DIRPAFV+
Sbjct: 174 ETAYIQPPVDQFEDGPPDIRPAFVH 198

[Close]
BLAST of Csa3G642650 vs. TAIR10
Match: AT5G15700.2 (AT5G15700.2 DNA/RNA polymerases superfamily protein)

HSP 1 Score: 52.4 bits (124), Expect = 2.0e-07
Identity = 35/104 (33.65%), Postives = 56/104 (53.85%), Query Frame = 1 

Query: 3   RVLSSLEERVKG--GRRSFEEETEPVAEQQEKLAKDHDRLKKKE--AHVKVFVFHFLSTV 62
           R+ + L+++ KG     S   E E   ++Q+KL K  + L KK+  + V+  +     T 
Sbjct: 297 RICTFLDKKKKGDDNEESGGVENETSMKEQDKLRKKVNELIKKQKLSAVRKILQSHDYTK 356

Query: 63  SILVRITFQLGCCLVQLLMETAYIQPPVDQLGDGLLDIRPAFVN 103
             +  +  ++G  L++LL+ TAYIQ P DQ  + L D+RPAFV+
Sbjct: 357 PWIADVRAKVGSRLIELLVRTAYIQSPADQQDNDLPDVRPAFVH 400

[Close]
BLAST of Csa3G642650 vs. TAIR10
Match: AT1G68990.2 (AT1G68990.2 male gametophyte defective 3)

HSP 1 Score: 50.4 bits (119), Expect = 7.5e-07
Identity = 35/79 (44.30%), Postives = 39/79 (49.37%), Query Frame = 1 

Query: 24  EPVAEQQEKLAKDHDRL--KKKEAHVKVFVFHFLSTVSILVRITFQLGCCLVQLLMETAY 83
           E VA++ EK  K    L  K K   VK  V    S          ++G  L+QLLME AY
Sbjct: 284 EIVAKETEKARKQVTVLMEKNKLRQVKALVRKHDSFKPWGQEAQVKVGARLIQLLMENAY 343

Query: 84  IQPPVDQLGDGLLDIRPAF 101
           IQPP +Q  DG  DIRPAF
Sbjct: 344 IQPPAEQFDDGPPDIRPAF 362

[Close]
BLAST of Csa3G642650 vs. NCBI nr
Match: gi|700203291|gb|KGN58424.1| (hypothetical protein Csa_3G642650 [Cucumis sativus])

HSP 1 Score: 206.5 bits (524), Expect = 2.3e-50
Identity = 103/103 (100.00%), Postives = 103/103 (100.00%), Query Frame = 1 

Query: 1   MGRVLSSLEERVKGGRRSFEEETEPVAEQQEKLAKDHDRLKKKEAHVKVFVFHFLSTVSI 60
           MGRVLSSLEERVKGGRRSFEEETEPVAEQQEKLAKDHDRLKKKEAHVKVFVFHFLSTVSI
Sbjct: 1   MGRVLSSLEERVKGGRRSFEEETEPVAEQQEKLAKDHDRLKKKEAHVKVFVFHFLSTVSI 60

Query: 61  LVRITFQLGCCLVQLLMETAYIQPPVDQLGDGLLDIRPAFVNY 104
           LVRITFQLGCCLVQLLMETAYIQPPVDQLGDGLLDIRPAFVNY
Sbjct: 61  LVRITFQLGCCLVQLLMETAYIQPPVDQLGDGLLDIRPAFVNY 103

[Close]
BLAST of Csa3G642650 vs. NCBI nr
Match: gi|1000976157|ref|XP_015572040.1| (PREDICTED: DNA-directed RNA polymerase 1B, mitochondrial isoform X2 [Ricinus communis])

HSP 1 Score: 72.0 bits (175), Expect = 6.8e-10
Identity = 44/90 (48.89%), Postives = 58/90 (64.44%), Query Frame = 1 

Query: 20  EEETEPVAEQQEKLAKDHDRLKKKEAHV----KVFVFHFLSTV---SILVRITFQLGCCL 79
           E + EPV    EKLAK+ ++L+KK   +    KV     L+     S+      Q+GC L
Sbjct: 294 EGKLEPVTSDAEKLAKEQEKLRKKVTELMKKQKVQQVRGLTKGHDDSMPWGQEAQVGCRL 353

Query: 80  VQLLMETAYIQPPVDQLGDGLLDIRPAFVN 103
           +QLL+ETAYIQPPV+QLGDGL DIRPAF++
Sbjct: 354 IQLLIETAYIQPPVNQLGDGLPDIRPAFMH 383

[Close]
BLAST of Csa3G642650 vs. NCBI nr
Match: gi|596284970|ref|XP_007225383.1| (hypothetical protein PRUPE_ppa000780mg [Prunus persica])

HSP 1 Score: 72.0 bits (175), Expect = 6.8e-10
Identity = 42/92 (45.65%), Postives = 58/92 (63.04%), Query Frame = 1 

Query: 22  ETEPVAEQQEKLAKDHDRLKKKEAHVKVFVFHFLSTVSILVR-----------ITFQLGC 81
           E E +A++QEKL K+ +RL+KK    K+     +  V  +V+              ++GC
Sbjct: 305 EQEKLADEQEKLTKEQERLRKKVN--KLIKRQKMQQVRGIVKEQEDLKPWGQEAHVKVGC 364

Query: 82  CLVQLLMETAYIQPPVDQLGDGLLDIRPAFVN 103
            L+QLLM+TAYIQPPVDQ+GDG  DIRPAFV+
Sbjct: 365 RLIQLLMDTAYIQPPVDQIGDGPPDIRPAFVH 394

[Close]
BLAST of Csa3G642650 vs. NCBI nr
Match: gi|659091310|ref|XP_008446483.1| (PREDICTED: DNA-directed RNA polymerase 1B, mitochondrial isoform X2 [Cucumis melo])

HSP 1 Score: 71.6 bits (174), Expect = 8.9e-10
Identity = 42/99 (42.42%), Postives = 60/99 (60.61%), Query Frame = 1 

Query: 16  RRSFEEETEPVAEQQEKLAKDHDRLKKKEAHVKVFVFHFLSTVSILVR-----------I 75
           R  FE++ +P     EKLA+D D+L+KK    K+     L  V+ +V+           +
Sbjct: 272 RHFFEKKKQP-----EKLAEDQDKLRKKVT--KLMKQQKLQKVNFIVKKHDDLKPWGTDV 331

Query: 76  TFQLGCCLVQLLMETAYIQPPVDQLGDGLLDIRPAFVNY 104
             ++GC L++ L+ETAYIQPPVDQLGD   D+RPAFV+Y
Sbjct: 332 HVKVGCTLIKFLIETAYIQPPVDQLGDAPPDLRPAFVHY 363

[Close]
BLAST of Csa3G642650 vs. NCBI nr
Match: gi|568861573|ref|XP_006484275.1| (PREDICTED: DNA-directed RNA polymerase 1B, mitochondrial [Citrus sinensis])

HSP 1 Score: 71.6 bits (174), Expect = 8.9e-10
Identity = 43/94 (45.74%), Postives = 54/94 (57.45%), Query Frame = 1 

Query: 18  SFEEETEPVAEQQEKLAKDHDRLKK---------KEAHVKVFVFHFLSTVSILVRITFQL 77
           + E ++EPV    EKL K+ D+LKK         K   V+  V   +           ++
Sbjct: 276 NLEGDSEPVTNDPEKLIKEQDKLKKRVTSLIKKQKLRQVRGIVKGHVDLKPWGQDALVKV 335

Query: 78  GCCLVQLLMETAYIQPPVDQLGDGLLDIRPAFVN 103
           GC L+QLLMETAYIQPPVDQLGD   DIRPAFV+
Sbjct: 336 GCRLIQLLMETAYIQPPVDQLGDSPPDIRPAFVH 369

The following BLAST results are available for this feature:
BLAST of Csa3G642650 vs. Swiss-Prot
Match NameE-valueIdentityDescription
RPO1B_TOBAC1.9e-0772.22DNA-directed RNA polymerase 1B, mitochondrial OS=Nicotiana tabacum GN=RPOT1-TOM ... [more]
RPOT1_NICSY2.1e-0669.44DNA-directed RNA polymerase 1, mitochondrial OS=Nicotiana sylvestris GN=RPOT1 PE... [more]
RPOT2_ARATH3.5e-0633.65DNA-directed RNA polymerase 2, chloroplastic/mitochondrial OS=Arabidopsis thalia... [more]
BLAST of Csa3G642650 vs. TrEMBL
Match NameE-valueIdentityDescription
A0A0A0LBV4_CUCSA1.6e-50100.00Uncharacterized protein OS=Cucumis sativus GN=Csa_3G642650 PE=4 SV=1[more]
M5XKH1_PRUPE4.8e-1045.65DNA-directed RNA polymerase OS=Prunus persica GN=PRUPE_ppa000780mg PE=3 SV=1[more]
A0A061EA94_THECC8.1e-1046.67DNA-directed RNA polymerase OS=Theobroma cacao GN=TCM_011418 PE=3 SV=1[more]
A0A061E977_THECC8.1e-1046.67DNA-directed RNA polymerase OS=Theobroma cacao GN=TCM_011418 PE=3 SV=1[more]
A0A068TYR1_COFCA8.1e-1047.06DNA-directed RNA polymerase OS=Coffea canephora GN=GSCOC_T00032448001 PE=3 SV=1[more]
BLAST of Csa3G642650 vs. TAIR10
Match NameE-valueIdentityDescription
AT5G15700.22.0e-0733.65 DNA/RNA polymerases superfamily protein[more]
AT1G68990.27.5e-0744.30 male gametophyte defective 3[more]
BLAST of Csa3G642650 vs. NCBI nr
Match NameE-valueIdentityDescription
gi|700203291|gb|KGN58424.1|2.3e-50100.00hypothetical protein Csa_3G642650 [Cucumis sativus][more]
gi|1000976157|ref|XP_015572040.1|6.8e-1048.89PREDICTED: DNA-directed RNA polymerase 1B, mitochondrial isoform X2 [Ricinus com... [more]
gi|596284970|ref|XP_007225383.1|6.8e-1045.65hypothetical protein PRUPE_ppa000780mg [Prunus persica][more]
gi|659091310|ref|XP_008446483.1|8.9e-1042.42PREDICTED: DNA-directed RNA polymerase 1B, mitochondrial isoform X2 [Cucumis mel... [more]
gi|568861573|ref|XP_006484275.1|8.9e-1045.74PREDICTED: DNA-directed RNA polymerase 1B, mitochondrial [Citrus sinensis][more]
GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006144 purine nucleobase metabolic process
biological_process GO:0006206 pyrimidine nucleobase metabolic process
biological_process GO:0006351 transcription, DNA-templated
cellular_component GO:0005730 nucleolus
molecular_function GO:0003677 DNA binding
molecular_function GO:0003899 DNA-directed RNA polymerase activity
Unigene
This gene is associated with the following unigenes:
Unigene NameAnalysis NameSequence type in Unigene
CU153587cucumber EST collection version 3.0transcribed_cluster
Relationships

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

Feature NameUnique NameType
Csa3G642650.1Csa3G642650.1mRNA


The following transcribed_cluster feature(s) are associated with this gene:

Feature NameUnique NameType
CU153587CU153587transcribed_cluster


Synteny
The following gene(s) are orthologous to this gene:
GeneOrthologueOrganismBlock
Csa3G642650CSPI03G28180Wild cucumber (PI 183967)cpicuB120
The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:
GeneOrganismBlock
Csa3G642650Cucurbita maxima (Rimu)cmacuB447
Csa3G642650Cucurbita moschata (Rifu)cmocuB230
Csa3G642650Cucurbita moschata (Rifu)cmocuB434
Csa3G642650Melon (DHL92) v3.5.1cumeB209
Csa3G642650Watermelon (Charleston Gray)cuwcgB253
Csa3G642650Cucurbita pepo (Zucchini)cpecuB559
Csa3G642650Cucurbita pepo (Zucchini)cpecuB601
Csa3G642650Bottle gourd (USVL1VR-Ls)culsiB233
Csa3G642650Cucumber (Gy14) v2cgybcuB111
Csa3G642650Melon (DHL92) v3.6.1cumedB195
Csa3G642650Silver-seed gourdcarcuB0223
Csa3G642650Watermelon (97103) v2cuwmbB239
Csa3G642650Wax gourdcuwgoB276
Csa3G642650Cucumber (Gy14) v1cgycuB216
Csa3G642650Cucurbita maxima (Rimu)cmacuB243