CmoCh04G013850 (gene) Cucurbita moschata (Rifu)

Overview
NameCmoCh04G013850
Typegene
OrganismCucurbita moschata (Cucurbita moschata (Rifu))
DescriptionDNA-directed RNA polymerase (2.7.7.6)
LocationCmo_Chr04 : 7050794 .. 7053121 (-)
Genome Viewer
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonfive_prime_UTRCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
AATGTTTTCGCTCTCTCCGAAACAAGTCGGTTTTCTTGTTCCTTCGAGTCTCGATCTCAGAAGCCATGGTTGTGAAGCCATCGGGAGACGCTTCGATGTTAAGCCATCCGCATTCTCTCATTATCTTCGTCTCTTTTGGCTGTATCGAAGCTGAATTGCAGTTTTCTGCCATTGTTAGTTACTGATCAGTTACTTGTTAACATCAAAAAAATTTGTAGGAACGGGAAGCAAGTCGACGATCCTAATCCAATCGATTCCGTTAACGATAAGCAATTCTTTGGCCTTCCTATCAAGACAGCCGTCGATAAGTTTCAACTTCTTCCTGAATTTTTGAAGGTGTAAATCATCACACTGCTTTTGTTTGTTACGATTCTCAGTTTAATATGCAGATGCACTACAACAGTATTTCTGTACAATGCGTTTGTTACAGCCTATGATTATTGATGAACGATCTGGTTGCAGGTAAGAGGTCTGGTTAAGCGGCACTTGGATTCCTTTAACTACTTCGCGAATATTGAGATAAAAAAGATTGTCAAGGCCAATTACCTCATTGACTCCAGCACTGATCCGAGTATTTTATCCTAGGTAAACATTTATTCATCGTATATAACTGTCCTCCTTCAGAGAATTGAGTCATTAAGTTGTAAATATCTTTGTTTACTCCTCTGTTCATCTTTACGTATGTTTATTTTAATATCCCTGTGGTTTACAATCGAGTTTTTTTTTTGTCTAGACCCCTGGCATTGTGGAATGGATTTCAGTGGTTCAAATTGAGTAGTTCTTCCCGATTTTTGCAGGTTTCCAGATGTAAGAATCGGTGAGCCTTATGTGACCGTGAATGCTGTCAGTGAAACTTTCAAGCCTCATACATGCTGCTTGTCCGACCTGACGTATGGTTCCTTTGTGATTTTTTCCATTTAGTCGAGCCTCTACATTGATTTCCAAAATATTTATGATCCCTGACTGTTCTATTGTTTCAAAATTTCAATTGAATCTACATTTTTCATCGTGTTAATTGACCTAAGTTGATATTGTACTCTGCTGCAGTCAATCTTGTTTATTATAGTTTAATCATATTGATTGAATGGTAGATCATACAAGGAATTTAAATCTTTGTTATTTTTCTGCTGAAATTCCTTTGTATTTATGCATACTAGTTGATATAGAGTACATCGAAGAAAGTCATTCACAAAGGGAGGAGGTCAAAATGTATATGTCGAACGTCATGCACAAGTAAAAGTCATGTGACGTCAAAAGTTGAAATGTATATTTCGAAACATAGAGAACACTTCATCCAGATCAGCTGAATGATATGGATTGACTTCAACCTTTCTCACACGAACCGCTGCAAATTCAAATACTTGAAAGATTAGATACAAATCTAATCTCTAGATAAACTTTTTAGGATTAACTAAAGATAGATAACTACAAGATAAAGAATATGGATATATTGGGACAGATTCTGTATCCCTTGTCAAACATTATGAAAATTTGAAGGTTTAATCCTATTTTCAGTCCATTTTGGTCTTTATACTTTCCGTTTTTGTTCAATATGATTGTTGTGCTTTCAAAATATCCATTTGGTCTATGTACTTTAAAGAAATGGTCATTTGGTTCCTGTTTGTAAATGTTAACACACCTTTTATACACAGGGAAAACCTGTACAAAGTTATAGCTATATTTCACACATACTTAAACAAAAACACTTTTGGAATGTGCGCTTAATTTTCTCAAGAATACATGACCTCTAGAGCCAAAGATATGGGCAAAGCAAACCTATTTTTGGCAATACACACTCTGCATGCTAAATAGTTGAAATGCGGAAAGGACATTTCCCATACTATTATTCTCTGAACCCAAAATTTGGCGCTTTTCCTGTTAGAAGCTGATATGTTCTTTAATTGTCTAGGTACAACAGGTTGCCCATTACAAGCGTATATATTTATGGGACCAATTTACTACCAAAAGTTAAAACACAGGGTAAGCTTCTGTCCCTCTTCTATTGATTCCTGTTTTCTACCCTGTTGTGAATTACTGTTACCTTTTAAAAAAAGCTTGCATAATTTCATGATACATTGGTCTTGGACAAAATGCATGCTAGAGGTAATGGTCTGCGAGTCATGTTAACTAGACAACCAACAGAAGGGAGAGCTAGGAATGGAGGTTTGATATCTTTCAAATTACTATTTTCAAGTCTCCTTAGTGTAAGAGCTGCATGGTTAGATAGCTGTCTATTTCCCAGGACTGCGAGTAGGAGAAATGGAACGCAATTGTTCGATTGCTTATGGTGCGCACGCTGATTTTCGAACGCTTAATGATCTCAAATGA

mRNA sequence

AATGTTTTCGCTCTCTCCGAAACAAGTCGGTTTTCTTGTTCCTTCGAGTCTCGATCTCAGAAGCCATGGTTGTGAAGCCATCGGGAGACGCTTCGATGAACGGGAAGCAAGTCGACGATCCTAATCCAATCGATTCCGTTAACGATAAGCAATTCTTTGGCCTTCCTATCAAGACAGCCGTCGATAAGTTTCAACTTCTTCCTGAATTTTTGAAGGTAAGAGCACTGATCCGAGTATTTTATCCTAGGTTTCCAGATGTAAGAATCGGTGAGCCTTATGTGACCGTGAATGCTGTCAGTGAAACTTTCAAGCCTCATACATGCTGCTTGTCCGACCTGACGTACAACAGGTTGCCCATTACAAGCGTATATATTTATGGGACCAATTTACTACCAAAAGTTAAAACACAGGGTAATGGTCTGCGAGTCATGTTAACTAGACAACCAACAGAAGGGAGAGCTAGGAATGGAGGACTGCGAGTAGGAGAAATGGAACGCAATTGTTCGATTGCTTATGGTGCGCACGCTGATTTTCGAACGCTTAATGATCTCAAATGA

Coding sequence (CDS)

ATGGTTGTGAAGCCATCGGGAGACGCTTCGATGAACGGGAAGCAAGTCGACGATCCTAATCCAATCGATTCCGTTAACGATAAGCAATTCTTTGGCCTTCCTATCAAGACAGCCGTCGATAAGTTTCAACTTCTTCCTGAATTTTTGAAGGTAAGAGCACTGATCCGAGTATTTTATCCTAGGTTTCCAGATGTAAGAATCGGTGAGCCTTATGTGACCGTGAATGCTGTCAGTGAAACTTTCAAGCCTCATACATGCTGCTTGTCCGACCTGACGTACAACAGGTTGCCCATTACAAGCGTATATATTTATGGGACCAATTTACTACCAAAAGTTAAAACACAGGGTAATGGTCTGCGAGTCATGTTAACTAGACAACCAACAGAAGGGAGAGCTAGGAATGGAGGACTGCGAGTAGGAGAAATGGAACGCAATTGTTCGATTGCTTATGGTGCGCACGCTGATTTTCGAACGCTTAATGATCTCAAATGA
Homology
[Close]
BLAST of CmoCh04G013850 vs. Swiss-Prot
Match: NRPC2_ARATH (DNA-directed RNA polymerase III subunit 2 OS=Arabidopsis thaliana GN=NRPC2 PE=2 SV=1)

HSP 1 Score: 68.6 bits (166), Expect = 7.4e-11
Identity = 31/45 (68.89%), Postives = 40/45 (88.89%), Query Frame = 1 

Query: 108  LLPKVKTQGNGLRVMLTRQPTEGRARNGGLRVGEMERNCSIAYGA 153
            +L K+  +G+G RVM+TRQPTEG+++NGGLRVGEMER+C IAYGA
Sbjct: 1040 VLDKMHARGSGPRVMMTRQPTEGKSKNGGLRVGEMERDCLIAYGA 1084

[Close]
BLAST of CmoCh04G013850 vs. Swiss-Prot
Match: RPC2_YEAST (DNA-directed RNA polymerase III subunit RPC2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RET1 PE=1 SV=2)

HSP 1 Score: 62.8 bits (151), Expect = 4.1e-09
Identity = 29/45 (64.44%), Postives = 37/45 (82.22%), Query Frame = 1 

Query: 108  LLPKVKTQGNGLRVMLTRQPTEGRARNGGLRVGEMERNCSIAYGA 153
            +L K+  +  G R +LTRQPTEGR+R+GGLR+GEMER+C IAYGA
Sbjct: 1031 VLDKMHARARGPRAVLTRQPTEGRSRDGGLRLGEMERDCVIAYGA 1075

[Close]
BLAST of CmoCh04G013850 vs. Swiss-Prot
Match: RPC2_SCHPO (DNA-directed RNA polymerase III subunit RPC2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpc2 PE=2 SV=1)

HSP 1 Score: 62.0 bits (149), Expect = 7.0e-09
Identity = 28/45 (62.22%), Postives = 37/45 (82.22%), Query Frame = 1 

Query: 108  LLPKVKTQGNGLRVMLTRQPTEGRARNGGLRVGEMERNCSIAYGA 153
            ++ K+  +  G R +LTRQPTEGR+R+GGLR+GEMER+C IAYGA
Sbjct: 1047 VMDKMHARARGPRAVLTRQPTEGRSRDGGLRLGEMERDCLIAYGA 1091

[Close]
BLAST of CmoCh04G013850 vs. Swiss-Prot
Match: RPC2_MOUSE (DNA-directed RNA polymerase III subunit RPC2 OS=Mus musculus GN=Polr3b PE=1 SV=2)

HSP 1 Score: 61.2 bits (147), Expect = 1.2e-08
Identity = 28/45 (62.22%), Postives = 36/45 (80.00%), Query Frame = 1 

Query: 108  LLPKVKTQGNGLRVMLTRQPTEGRARNGGLRVGEMERNCSIAYGA 153
            +L K+  +  G R +LTRQPTEGR+R+GGLR+GEMER+C I YGA
Sbjct: 1016 VLDKMHARARGPRAVLTRQPTEGRSRDGGLRLGEMERDCLIGYGA 1060

[Close]
BLAST of CmoCh04G013850 vs. Swiss-Prot
Match: RPC2_HUMAN (DNA-directed RNA polymerase III subunit RPC2 OS=Homo sapiens GN=POLR3B PE=1 SV=2)

HSP 1 Score: 61.2 bits (147), Expect = 1.2e-08
Identity = 28/45 (62.22%), Postives = 36/45 (80.00%), Query Frame = 1 

Query: 108  LLPKVKTQGNGLRVMLTRQPTEGRARNGGLRVGEMERNCSIAYGA 153
            +L K+  +  G R +LTRQPTEGR+R+GGLR+GEMER+C I YGA
Sbjct: 1016 VLDKMHARARGPRAVLTRQPTEGRSRDGGLRLGEMERDCLIGYGA 1060

[Close]
BLAST of CmoCh04G013850 vs. TrEMBL
Match: A0A061FXT3_THECC (DNA-directed RNA polymerase subunit beta OS=Theobroma cacao GN=TCM_044750 PE=3 SV=1)

HSP 1 Score: 79.3 bits (194), Expect = 4.7e-12
Identity = 51/112 (45.54%), Postives = 60/112 (53.57%), Query Frame = 1 

Query: 27  DKQFFGLPIKTAVDKFQLLPEFLK-----------------------VRALIRV------ 86
           DKQ    PIK+AVDKFQLLPEFLK                       VRA  R+      
Sbjct: 25  DKQKLAAPIKSAVDKFQLLPEFLKVRGLVKQHLDSFNYFVNTGIKKIVRANDRIVSGVDP 84

Query: 87  -FYPRFPDVRIGEPYVTVNAVSETFKPHTCCLSDLTYNRLPITSV-YIYGTN 108
             Y RF DVRIGEP +T+NAVSE   PHTC LSD+TY      ++ YI G++
Sbjct: 85  SIYLRFKDVRIGEPSMTINAVSEKINPHTCRLSDMTYAAPIFVNIEYIQGSH 136

[Close]
BLAST of CmoCh04G013850 vs. TrEMBL
Match: A0A061FRB5_THECC (DNA-directed RNA polymerase subunit beta OS=Theobroma cacao GN=TCM_044750 PE=3 SV=1)

HSP 1 Score: 79.3 bits (194), Expect = 4.7e-12
Identity = 51/112 (45.54%), Postives = 60/112 (53.57%), Query Frame = 1 

Query: 27  DKQFFGLPIKTAVDKFQLLPEFLK-----------------------VRALIRV------ 86
           DKQ    PIK+AVDKFQLLPEFLK                       VRA  R+      
Sbjct: 25  DKQKLAAPIKSAVDKFQLLPEFLKVRGLVKQHLDSFNYFVNTGIKKIVRANDRIVSGVDP 84

Query: 87  -FYPRFPDVRIGEPYVTVNAVSETFKPHTCCLSDLTYNRLPITSV-YIYGTN 108
             Y RF DVRIGEP +T+NAVSE   PHTC LSD+TY      ++ YI G++
Sbjct: 85  SIYLRFKDVRIGEPSMTINAVSEKINPHTCRLSDMTYAAPIFVNIEYIQGSH 136

[Close]
BLAST of CmoCh04G013850 vs. TrEMBL
Match: A0A061FQL9_THECC (DNA-directed RNA polymerase subunit beta OS=Theobroma cacao GN=TCM_044750 PE=3 SV=1)

HSP 1 Score: 79.3 bits (194), Expect = 4.7e-12
Identity = 51/112 (45.54%), Postives = 60/112 (53.57%), Query Frame = 1 

Query: 27  DKQFFGLPIKTAVDKFQLLPEFLK-----------------------VRALIRV------ 86
           DKQ    PIK+AVDKFQLLPEFLK                       VRA  R+      
Sbjct: 25  DKQKLAAPIKSAVDKFQLLPEFLKVRGLVKQHLDSFNYFVNTGIKKIVRANDRIVSGVDP 84

Query: 87  -FYPRFPDVRIGEPYVTVNAVSETFKPHTCCLSDLTYNRLPITSV-YIYGTN 108
             Y RF DVRIGEP +T+NAVSE   PHTC LSD+TY      ++ YI G++
Sbjct: 85  SIYLRFKDVRIGEPSMTINAVSEKINPHTCRLSDMTYAAPIFVNIEYIQGSH 136

[Close]
BLAST of CmoCh04G013850 vs. TrEMBL
Match: A0A061FRT9_THECC (DNA-directed RNA polymerase subunit beta OS=Theobroma cacao GN=TCM_044750 PE=3 SV=1)

HSP 1 Score: 79.3 bits (194), Expect = 4.7e-12
Identity = 51/112 (45.54%), Postives = 60/112 (53.57%), Query Frame = 1 

Query: 27  DKQFFGLPIKTAVDKFQLLPEFLK-----------------------VRALIRV------ 86
           DKQ    PIK+AVDKFQLLPEFLK                       VRA  R+      
Sbjct: 25  DKQKLAAPIKSAVDKFQLLPEFLKVRGLVKQHLDSFNYFVNTGIKKIVRANDRIVSGVDP 84

Query: 87  -FYPRFPDVRIGEPYVTVNAVSETFKPHTCCLSDLTYNRLPITSV-YIYGTN 108
             Y RF DVRIGEP +T+NAVSE   PHTC LSD+TY      ++ YI G++
Sbjct: 85  SIYLRFKDVRIGEPSMTINAVSEKINPHTCRLSDMTYAAPIFVNIEYIQGSH 136

[Close]
BLAST of CmoCh04G013850 vs. TrEMBL
Match: A0A061FSJ1_THECC (DNA-directed RNA polymerase subunit beta OS=Theobroma cacao GN=TCM_044750 PE=3 SV=1)

HSP 1 Score: 79.3 bits (194), Expect = 4.7e-12
Identity = 51/112 (45.54%), Postives = 60/112 (53.57%), Query Frame = 1 

Query: 27  DKQFFGLPIKTAVDKFQLLPEFLK-----------------------VRALIRV------ 86
           DKQ    PIK+AVDKFQLLPEFLK                       VRA  R+      
Sbjct: 25  DKQKLAAPIKSAVDKFQLLPEFLKVRGLVKQHLDSFNYFVNTGIKKIVRANDRIVSGVDP 84

Query: 87  -FYPRFPDVRIGEPYVTVNAVSETFKPHTCCLSDLTYNRLPITSV-YIYGTN 108
             Y RF DVRIGEP +T+NAVSE   PHTC LSD+TY      ++ YI G++
Sbjct: 85  SIYLRFKDVRIGEPSMTINAVSEKINPHTCRLSDMTYAAPIFVNIEYIQGSH 136

[Close]
BLAST of CmoCh04G013850 vs. TAIR10
Match: AT5G45140.1 (AT5G45140.1 nuclear RNA polymerase C2)

HSP 1 Score: 68.6 bits (166), Expect = 4.2e-12
Identity = 31/45 (68.89%), Postives = 40/45 (88.89%), Query Frame = 1 

Query: 108  LLPKVKTQGNGLRVMLTRQPTEGRARNGGLRVGEMERNCSIAYGA 153
            +L K+  +G+G RVM+TRQPTEG+++NGGLRVGEMER+C IAYGA
Sbjct: 1040 VLDKMHARGSGPRVMMTRQPTEGKSKNGGLRVGEMERDCLIAYGA 1084

[Close]
BLAST of CmoCh04G013850 vs. TAIR10
Match: AT4G21710.1 (AT4G21710.1 DNA-directed RNA polymerase family protein)

HSP 1 Score: 58.2 bits (139), Expect = 5.7e-09
Identity = 36/96 (37.50%), Postives = 53/96 (55.21%), Query Frame = 1 

Query: 72   VTVNAVSETFKPHTCCLSDLTYNRL-------PITSVYIYGTNLLPKVK--------TQG 131
            VTV+ +S+    H C      + R+       P+T++   G     ++K        ++G
Sbjct: 1011 VTVDNISKAL--HKCGYQMRGFERMYNGHTGRPLTAMIFLGPTYYQRLKHMVDDKIHSRG 1070

Query: 132  NGLRVMLTRQPTEGRARNGGLRVGEMERNCSIAYGA 153
             G   +LTRQP EGR+R+GGLR GEMER+C IA+GA
Sbjct: 1071 RGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGA 1104

[Close]
BLAST of CmoCh04G013850 vs. TAIR10
Match: AT3G18090.1 (AT3G18090.1 nuclear RNA polymerase D2B)

HSP 1 Score: 48.5 bits (114), Expect = 4.5e-06
Identity = 28/55 (50.91%), Postives = 34/55 (61.82%), Query Frame = 1 

Query: 111 KVKTQGNGLRVMLTRQPTEGRARNGGLRVGEMERNCSIAYGAHADFR----TLND 162
           KVK +  G    LTRQP   R R GG+R GEMER+C IA+GA A+      TL+D
Sbjct: 930 KVKFRNTGPVHPLTRQPVADRKRFGGIRFGEMERDCLIAHGASANLHERLFTLSD 984

[Close]
BLAST of CmoCh04G013850 vs. TAIR10
Match: AT3G23780.1 (AT3G23780.1 nuclear RNA polymerase D2A)

HSP 1 Score: 47.4 bits (111), Expect = 1.0e-05
Identity = 27/55 (49.09%), Postives = 34/55 (61.82%), Query Frame = 1 

Query: 111  KVKTQGNGLRVMLTRQPTEGRARNGGLRVGEMERNCSIAYGAHADFR----TLND 162
            KVK +  G    LTRQP   R R GG++ GEMER+C IA+GA A+      TL+D
Sbjct: 1047 KVKFRNTGPVHPLTRQPVADRKRFGGIKFGEMERDCLIAHGASANLHERLFTLSD 1101

[Close]
BLAST of CmoCh04G013850 vs. NCBI nr
Match: gi|659124980|ref|XP_008462447.1| (PREDICTED: DNA-directed RNA polymerase III subunit RPC2 [Cucumis melo])

HSP 1 Score: 117.9 bits (294), Expect = 1.7e-23
Identity = 70/123 (56.91%), Postives = 73/123 (59.35%), Query Frame = 1 

Query: 1   MVVKPSGDASMNGKQVDDPNPIDSVNDKQFFGLPIKTAVDKFQLLPEFLKVRALIR---- 60
           MVVK   DAS N KQ DD NPIDS  DKQF GLPIK+AVDKFQLLPEFLKVR L++    
Sbjct: 1   MVVKLPEDASKNEKQGDDSNPIDSDIDKQFIGLPIKSAVDKFQLLPEFLKVRGLVKQHLD 60

Query: 61  --------------------------VFYPRFPDVRIGEPYVTVNAVSETFKPHTCCLSD 94
                                       Y RF DVRIGEP VTVNAVSET  PH C LSD
Sbjct: 61  SFNYFVNTEIKKIVKANDRIESSTDPSIYLRFLDVRIGEPSVTVNAVSETINPHMCRLSD 120

[Close]
BLAST of CmoCh04G013850 vs. NCBI nr
Match: gi|778730035|ref|XP_004141655.2| (PREDICTED: DNA-directed RNA polymerase III subunit RPC2 [Cucumis sativus])

HSP 1 Score: 113.2 bits (282), Expect = 4.2e-22
Identity = 68/123 (55.28%), Postives = 72/123 (58.54%), Query Frame = 1 

Query: 1   MVVKPSGDASMNGKQVDDPNPIDSVNDKQFFGLPIKTAVDKFQLLPEFLKVRALIR---- 60
           MVVK   DAS N K  D+ NPIDS  DKQF GLPIK+AVDKFQLLPEFLKVR L++    
Sbjct: 1   MVVKLPEDASKNEKLGDNSNPIDSDIDKQFIGLPIKSAVDKFQLLPEFLKVRGLVKQHLD 60

Query: 61  --------------------------VFYPRFPDVRIGEPYVTVNAVSETFKPHTCCLSD 94
                                       Y RF DVRIGEP VTVNAVSET  PH C LSD
Sbjct: 61  SFNYFVNTEIKKIVKANDRIESSTDPSIYLRFLDVRIGEPSVTVNAVSETINPHMCRLSD 120

[Close]
BLAST of CmoCh04G013850 vs. NCBI nr
Match: gi|590568469|ref|XP_007010802.1| (DNA-directed RNA polymerase isoform 4 [Theobroma cacao])

HSP 1 Score: 79.3 bits (194), Expect = 6.7e-12
Identity = 51/112 (45.54%), Postives = 60/112 (53.57%), Query Frame = 1 

Query: 27  DKQFFGLPIKTAVDKFQLLPEFLK-----------------------VRALIRV------ 86
           DKQ    PIK+AVDKFQLLPEFLK                       VRA  R+      
Sbjct: 25  DKQKLAAPIKSAVDKFQLLPEFLKVRGLVKQHLDSFNYFVNTGIKKIVRANDRIVSGVDP 84

Query: 87  -FYPRFPDVRIGEPYVTVNAVSETFKPHTCCLSDLTYNRLPITSV-YIYGTN 108
             Y RF DVRIGEP +T+NAVSE   PHTC LSD+TY      ++ YI G++
Sbjct: 85  SIYLRFKDVRIGEPSMTINAVSEKINPHTCRLSDMTYAAPIFVNIEYIQGSH 136

[Close]
BLAST of CmoCh04G013850 vs. NCBI nr
Match: gi|590568463|ref|XP_007010800.1| (DNA-directed RNA polymerase isoform 2 [Theobroma cacao])

HSP 1 Score: 79.3 bits (194), Expect = 6.7e-12
Identity = 51/112 (45.54%), Postives = 60/112 (53.57%), Query Frame = 1 

Query: 27  DKQFFGLPIKTAVDKFQLLPEFLK-----------------------VRALIRV------ 86
           DKQ    PIK+AVDKFQLLPEFLK                       VRA  R+      
Sbjct: 25  DKQKLAAPIKSAVDKFQLLPEFLKVRGLVKQHLDSFNYFVNTGIKKIVRANDRIVSGVDP 84

Query: 87  -FYPRFPDVRIGEPYVTVNAVSETFKPHTCCLSDLTYNRLPITSV-YIYGTN 108
             Y RF DVRIGEP +T+NAVSE   PHTC LSD+TY      ++ YI G++
Sbjct: 85  SIYLRFKDVRIGEPSMTINAVSEKINPHTCRLSDMTYAAPIFVNIEYIQGSH 136

[Close]
BLAST of CmoCh04G013850 vs. NCBI nr
Match: gi|590568475|ref|XP_007010804.1| (DNA-directed RNA polymerase isoform 6 [Theobroma cacao])

HSP 1 Score: 79.3 bits (194), Expect = 6.7e-12
Identity = 51/112 (45.54%), Postives = 60/112 (53.57%), Query Frame = 1 

Query: 27  DKQFFGLPIKTAVDKFQLLPEFLK-----------------------VRALIRV------ 86
           DKQ    PIK+AVDKFQLLPEFLK                       VRA  R+      
Sbjct: 25  DKQKLAAPIKSAVDKFQLLPEFLKVRGLVKQHLDSFNYFVNTGIKKIVRANDRIVSGVDP 84

Query: 87  -FYPRFPDVRIGEPYVTVNAVSETFKPHTCCLSDLTYNRLPITSV-YIYGTN 108
             Y RF DVRIGEP +T+NAVSE   PHTC LSD+TY      ++ YI G++
Sbjct: 85  SIYLRFKDVRIGEPSMTINAVSEKINPHTCRLSDMTYAAPIFVNIEYIQGSH 136

The following BLAST results are available for this feature:
BLAST of CmoCh04G013850 vs. Swiss-Prot
Match NameE-valueIdentityDescription
NRPC2_ARATH7.4e-1168.89DNA-directed RNA polymerase III subunit 2 OS=Arabidopsis thaliana GN=NRPC2 PE=2 ... [more]
RPC2_YEAST4.1e-0964.44DNA-directed RNA polymerase III subunit RPC2 OS=Saccharomyces cerevisiae (strain... [more]
RPC2_SCHPO7.0e-0962.22DNA-directed RNA polymerase III subunit RPC2 OS=Schizosaccharomyces pombe (strai... [more]
RPC2_MOUSE1.2e-0862.22DNA-directed RNA polymerase III subunit RPC2 OS=Mus musculus GN=Polr3b PE=1 SV=2[more]
RPC2_HUMAN1.2e-0862.22DNA-directed RNA polymerase III subunit RPC2 OS=Homo sapiens GN=POLR3B PE=1 SV=2[more]
BLAST of CmoCh04G013850 vs. TrEMBL
Match NameE-valueIdentityDescription
A0A061FXT3_THECC4.7e-1245.54DNA-directed RNA polymerase subunit beta OS=Theobroma cacao GN=TCM_044750 PE=3 S... [more]
A0A061FRB5_THECC4.7e-1245.54DNA-directed RNA polymerase subunit beta OS=Theobroma cacao GN=TCM_044750 PE=3 S... [more]
A0A061FQL9_THECC4.7e-1245.54DNA-directed RNA polymerase subunit beta OS=Theobroma cacao GN=TCM_044750 PE=3 S... [more]
A0A061FRT9_THECC4.7e-1245.54DNA-directed RNA polymerase subunit beta OS=Theobroma cacao GN=TCM_044750 PE=3 S... [more]
A0A061FSJ1_THECC4.7e-1245.54DNA-directed RNA polymerase subunit beta OS=Theobroma cacao GN=TCM_044750 PE=3 S... [more]
BLAST of CmoCh04G013850 vs. TAIR10
Match NameE-valueIdentityDescription
AT5G45140.14.2e-1268.89 nuclear RNA polymerase C2[more]
AT4G21710.15.7e-0937.50 DNA-directed RNA polymerase family protein[more]
AT3G18090.14.5e-0650.91 nuclear RNA polymerase D2B[more]
AT3G23780.11.0e-0549.09 nuclear RNA polymerase D2A[more]
BLAST of CmoCh04G013850 vs. NCBI nr
Match NameE-valueIdentityDescription
gi|659124980|ref|XP_008462447.1|1.7e-2356.91PREDICTED: DNA-directed RNA polymerase III subunit RPC2 [Cucumis melo][more]
gi|778730035|ref|XP_004141655.2|4.2e-2255.28PREDICTED: DNA-directed RNA polymerase III subunit RPC2 [Cucumis sativus][more]
gi|590568469|ref|XP_007010802.1|6.7e-1245.54DNA-directed RNA polymerase isoform 4 [Theobroma cacao][more]
gi|590568463|ref|XP_007010800.1|6.7e-1245.54DNA-directed RNA polymerase isoform 2 [Theobroma cacao][more]
gi|590568475|ref|XP_007010804.1|6.7e-1245.54DNA-directed RNA polymerase isoform 6 [Theobroma cacao][more]
Annotated Terms
The following terms have been associated with this gene:
Vocabulary: INTERPRO
TermDefinition
IPR007641RNA_pol_Rpb2_7
IPR015712DNA-dir_RNA_pol_su2
Vocabulary: Biological Process
TermDefinition
GO:0006351transcription, DNA-templated
Vocabulary: Molecular Function
TermDefinition
GO:0003677DNA binding
GO:0003899DNA-directed RNA polymerase activity
GO:0032549ribonucleoside binding
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
molecular_function GO:0032549 ribonucleoside binding
Relationships

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

Feature NameUnique NameType
CmoCh04G013850.1CmoCh04G013850.1mRNA


InterPro
Analysis Name: InterPro Annotations of Cucurbita moschata
Date Performed: 2017-05-19
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR007641RNA polymerase Rpb2, domain 7PFAMPF04560RNA_pol_Rpb2_7coord: 135..154
score: 1.
IPR015712DNA-directed RNA polymerase, subunit 2PANTHERPTHR20856DNA-DIRECTED RNA POLYMERASE I SUBUNIT 2coord: 111..152
score: 7.1
NoneNo IPR availablePANTHERPTHR20856:SF8DNA-DIRECTED RNA POLYMERASE III SUBUNIT RPC2coord: 111..152
score: 7.1
NoneNo IPR availableunknownSSF64484beta and beta-prime subunits of DNA dependent RNA-polymerasecoord: 111..154
score: 9.77

Synteny
The following gene(s) are orthologous to this gene:
GeneOrthologueOrganismBlock
CmoCh04G013850CmaCh18G008230Cucurbita maxima (Rimu)cmacmoB425
CmoCh04G013850Lsi04G000080Bottle gourd (USVL1VR-Ls)cmolsiB660
CmoCh04G013850Cp4.1LG09g04880Cucurbita pepo (Zucchini)cmocpeB648
CmoCh04G013850Carg14444Silver-seed gourdcarcmoB0986
The following gene(s) are paralogous to this gene:
GeneParalogueOrganismBlock
CmoCh04G013850CmoCh18G008260Cucurbita moschata (Rifu)cmocmoB343
The following block(s) are covering this gene:
GeneOrganismBlock
CmoCh04G013850Cucurbita pepo (Zucchini)cmocpeB651
CmoCh04G013850Cucurbita pepo (Zucchini)cmocpeB673
CmoCh04G013850Bottle gourd (USVL1VR-Ls)cmolsiB669
CmoCh04G013850Silver-seed gourdcarcmoB0987
CmoCh04G013850Silver-seed gourdcarcmoB1138
CmoCh04G013850Wax gourdcmowgoB0891
CmoCh04G013850Cucurbita moschata (Rifu)cmocmoB336
CmoCh04G013850Cucurbita maxima (Rimu)cmacmoB420
CmoCh04G013850Cucurbita maxima (Rimu)cmacmoB728