CmoCh09G004140 (gene) Cucurbita moschata (Rifu)

Overview
NameCmoCh09G004140
Typegene
OrganismCucurbita moschata (Cucurbita moschata (Rifu))
DescriptionDNA-directed RNA polymerase (2.7.7.6)
LocationCmo_Chr09 : 1811102 .. 1813502 (-)
Genome Viewer
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

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

mRNA sequence

CTCTCTCTCTCCTTCCTCAGTTCTCTACTCCATCCGTCTTTTACGCTATTGTCTCGTCGACAATGCTAATTCACTCCGTTTCCTTGCGATTCATTGCTTCTGCAGTAGAGAAAGATCGACTCCTCTCTGAAACTGGCGTCTGGCTCGAGCAAGAGCCGACGGCATTGTGTGGATGCTATATTCCGATATTTCTTCCAACGGAGCTGGCCTAGGGTTAAATCTCTAAGACCTAGAAACTAATGGGAGCATCAGGCGCAAAGGACGATATGGAGTGGAATAGTGAAGCGGAAGACTTATCACCTGAAACAGGTATGGATACAGATGATGATGATCATTATTATTCTGAGCCAGTCAACATACAGATCTGGGGGAAACGTTTCTAAAAGATTTTTGTAAGAAGACAGCAATGATATTTTTCAATCAGACGGCCTTATCAGTCACCAAATCAACTCGTACAATGACTTCATAAAAAGTGGTCTTCAGAAGGCCTTTGATTGTATGCTTCAGTGAGTATAACATGCTTCCTAGGCATGCTCGACTTCAGAATATGACTTGTTCATCAAGGATGAAAAAGAATATCAGTGTAGAGGTATATACTCGAAGGTTAGTTACAAGCGACAAAACTGGAAAAGATCAATATGTCGACGAGGATCTTATAAATCAAGATAACAGGGATGTCTTTATAGGCAGGCTACCTGTGATGGTGAATTCTGACCTTTGCTGGATGAAGGATGAGCAGAAACGTGACTCTGAATTTGATCATGGAGGTTATTTTTTAATCAAAGGCGCAGAAAAAATATTTATTGTTCAAGAGCAAATTTGTTTGAGAAGACTCTTGGTTTCTAATATTCAAGGTTGGACTGGCATACAGATCAGAAGTTAA

Coding sequence (CDS)

ATGCTTCCTAGGCATGCTCGACTTCAGAATATGACTTGTTCATCAAGGATGAAAAAGAATATCAGTGTAGAGGTATATACTCGAAGGTTAGTTACAAGCGACAAAACTGGAAAAGATCAATATGTCGACGAGGATCTTATAAATCAAGATAACAGGGATGTCTTTATAGGCAGGCTACCTGTGATGGTGAATTCTGACCTTTGCTGGATGAAGGATGAGCAGAAACGTGACTCTGAATTTGATCATGGAGGTTATTTTTTAATCAAAGGCGCAGAAAAAATATTTATTGTTCAAGAGCAAATTTGTTTGAGAAGACTCTTGGTTTCTAATATTCAAGGTTGGACTGGCATACAGATCAGAAGTTAA
Homology
[Close]
BLAST of CmoCh09G004140 vs. Swiss-Prot
Match: NRPD2_ARATH (DNA-directed RNA polymerases IV and V subunit 2 OS=Arabidopsis thaliana GN=NRPD2 PE=1 SV=1)

HSP 1 Score: 120.2 bits (300), Expect = 1.6e-26
Identity = 62/121 (51.24%), Postives = 84/121 (69.42%), Query Frame = 1 

Query: 2   LPRHARLQNMTCSSRMKKNISVEVYTRRLVTSDK--TGKDQYVDEDLINQDNRDVFIGRL 61
           LP HARLQNMT S+R+K N+ VEV+   +V SDK  TG+D YV++ +++   +D+ IG +
Sbjct: 117 LPWHARLQNMTYSARIKVNVQVEVFKNTVVKSDKFKTGQDNYVEKKILDVKKQDILIGSI 176

Query: 62  PVMVNSDLCWMKDE-----QKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLLVSNIQGW 116
           PVMV S LC   ++     +K D  FD GGYF+IKGAEK+FI QEQ+C +RL +SN   W
Sbjct: 177 PVMVKSILCKTSEKGKENCKKGDCAFDQGGYFVIKGAEKVFIAQEQMCTKRLWISN-SPW 236

[Close]
BLAST of CmoCh09G004140 vs. Swiss-Prot
Match: RPD2B_ARATH (DNA-directed RNA polymerase D subunit 2b OS=Arabidopsis thaliana GN=NRPD2b PE=2 SV=1)

HSP 1 Score: 89.0 bits (219), Expect = 3.9e-17
Identity = 41/86 (47.67%), Postives = 61/86 (70.93%), Query Frame = 1 

Query: 35  KTGKDQYVDEDLINQDNRDVFIGRLPVMVNSDLCWMKDEQKRDSE-----FDHGGYFLIK 94
           KTG+D+YV++++++   +D+ IG +PVMV S LC   ++ K + +     FD GGYF+IK
Sbjct: 98  KTGQDEYVEKEILDVKKQDILIGSIPVMVKSVLCKTSEKGKENCKKGNCAFDQGGYFVIK 157

Query: 95  GAEKIFIVQEQICLRRLLVSNIQGWT 116
           GAEK+FI QEQ+C +RL +SN   WT
Sbjct: 158 GAEKVFIAQEQMCTKRLWISN-SPWT 182

[Close]
BLAST of CmoCh09G004140 vs. Swiss-Prot
Match: RPB2_ASHGO (DNA-directed RNA polymerase II subunit RPB2 OS=Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) GN=RPB2 PE=3 SV=1)

HSP 1 Score: 66.6 bits (161), Expect = 2.1e-10
Identity = 38/109 (34.86%), Postives = 60/109 (55.05%), Query Frame = 1 

Query: 1   MLPRHARLQNMTCSSRMKKNISVEVYTRRLVTSDKTGKD---QYVDEDLINQDNRDVFIG 60
           M P+ ARL+N+T +S     + VE+  R     D  G+D   + + E+  + +   +FIG
Sbjct: 108 MYPQEARLRNLTYAS----GLFVEIKKRTYEAVDIPGRDLKYEIIQEESEDTEEGKIFIG 167

Query: 61  RLPVMVNSDLCWMKDEQKRD------SEFDHGGYFLIKGAEKIFIVQEQ 101
           R+P+M+ S  C + D  + D        FD GGYF+I G+EK+ I QE+
Sbjct: 168 RVPIMLRSKYCLLDDLSESDLYRLKECPFDMGGYFIINGSEKVLIAQER 212

[Close]
BLAST of CmoCh09G004140 vs. Swiss-Prot
Match: RPB2_CANGA (DNA-directed RNA polymerase II subunit RPB2 OS=Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) GN=RPB2 PE=3 SV=1)

HSP 1 Score: 65.9 bits (159), Expect = 3.6e-10
Identity = 36/106 (33.96%), Postives = 57/106 (53.77%), Query Frame = 1 

Query: 1   MLPRHARLQNMTCSSRMKKNISVEVYTRRLVTSDKTGKDQYVDEDLINQDNRDVFIGRLP 60
           + P+ ARL+N+T SS +  +++   Y    V           +E   + ++  VFIGRLP
Sbjct: 110 LYPQEARLRNLTYSSGLFVDVTKRTYEAVDVPGRDLNYQLIAEESEEDSESGKVFIGRLP 169

Query: 61  VMVNSDLCWMKDEQKRD------SEFDHGGYFLIKGAEKIFIVQEQ 101
           +M+ S  C++ D  + D        FD GGYF+I G+EK+ I QE+
Sbjct: 170 IMLRSKNCYLSDATESDLYKLKECPFDMGGYFIINGSEKVLIAQER 215

[Close]
BLAST of CmoCh09G004140 vs. Swiss-Prot
Match: RPB2_YEAST (DNA-directed RNA polymerase II subunit RPB2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RPB2 PE=1 SV=2)

HSP 1 Score: 64.7 bits (156), Expect = 8.0e-10
Identity = 35/106 (33.02%), Postives = 58/106 (54.72%), Query Frame = 1 

Query: 1   MLPRHARLQNMTCSSRMKKNISVEVYTRRLVTSDKTGKDQYVDEDLINQDNRDVFIGRLP 60
           + P+ ARL+N+T SS +  ++    Y    V   +   +   +E   + ++  VFIGRLP
Sbjct: 112 LYPQEARLRNLTYSSGLFVDVKKRTYEAIDVPGRELKYELIAEESEDDSESGKVFIGRLP 171

Query: 61  VMVNSDLCWMKDEQKRD------SEFDHGGYFLIKGAEKIFIVQEQ 101
           +M+ S  C++ +  + D        FD GGYF+I G+EK+ I QE+
Sbjct: 172 IMLRSKNCYLSEATESDLYKLKECPFDMGGYFIINGSEKVLIAQER 217

[Close]
BLAST of CmoCh09G004140 vs. TrEMBL
Match: A0A0A0L319_CUCSA (DNA-directed RNA polymerase subunit beta OS=Cucumis sativus GN=Csa_4G651950 PE=3 SV=1)

HSP 1 Score: 192.2 bits (487), Expect = 3.7e-46
Identity = 95/119 (79.83%), Postives = 105/119 (88.24%), Query Frame = 1 

Query: 1   MLPRHARLQNMTCSSRMKKNISVEVYTRRLVTSDK--TGKDQYVDEDLIN--QDNRDVFI 60
           MLPRHARLQNMT SSRMK NIS+E+YT++LV+SDK  TGKDQYVD++ +    DNRDVFI
Sbjct: 136 MLPRHARLQNMTYSSRMKINISLEIYTQKLVSSDKFKTGKDQYVDKEPVEGASDNRDVFI 195

Query: 61  GRLPVMVNSDLCWMKDEQKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLLVSNIQGWT 116
           GRLPVMVNSDLCWMKD QKRD EFD GGYFLIKGAEKIFI QEQICLRRL +SN+QGWT
Sbjct: 196 GRLPVMVNSDLCWMKDGQKRDCEFDRGGYFLIKGAEKIFIAQEQICLRRLWISNVQGWT 254

[Close]
BLAST of CmoCh09G004140 vs. TrEMBL
Match: B9RNV9_RICCO (DNA-directed RNA polymerase subunit beta OS=Ricinus communis GN=RCOM_0920920 PE=3 SV=1)

HSP 1 Score: 184.9 bits (468), Expect = 5.9e-44
Identity = 87/117 (74.36%), Postives = 102/117 (87.18%), Query Frame = 1 

Query: 1   MLPRHARLQNMTCSSRMKKNISVEVYTRRLVTSD--KTGKDQYVDEDLINQDNRDVFIGR 60
           MLPRHARLQNMT SS+MK N+SVEVYTR++V SD  KTGKDQYVD++++N DNR++ IG 
Sbjct: 144 MLPRHARLQNMTYSSKMKVNVSVEVYTRKVVRSDKFKTGKDQYVDKEVLNTDNRNITIGS 203

Query: 61  LPVMVNSDLCWMKDEQKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLLVSNIQGWT 116
           LPVMV SDLCWMK  +K D +FDHGGYFLIKGAEK+FI QEQICL+RL +SNIQGWT
Sbjct: 204 LPVMVKSDLCWMKTAEKGDCDFDHGGYFLIKGAEKVFIAQEQICLKRLWISNIQGWT 260

[Close]
BLAST of CmoCh09G004140 vs. TrEMBL
Match: A0A067KMJ5_JATCU (DNA-directed RNA polymerase subunit beta OS=Jatropha curcas GN=JCGZ_07086 PE=3 SV=1)

HSP 1 Score: 178.3 bits (451), Expect = 5.5e-42
Identity = 81/117 (69.23%), Postives = 101/117 (86.32%), Query Frame = 1 

Query: 1   MLPRHARLQNMTCSSRMKKNISVEVYTRRLVTSDK--TGKDQYVDEDLINQDNRDVFIGR 60
           MLPRHARLQNMT SSRMK N++VEVYT++++ SDK  TGKDQ+VD+ +++ DNRD+ IGR
Sbjct: 150 MLPRHARLQNMTYSSRMKVNVTVEVYTQKVIRSDKFKTGKDQFVDKVVLSTDNRDIIIGR 209

Query: 61  LPVMVNSDLCWMKDEQKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLLVSNIQGWT 116
           +PVMV SDLCWMK  ++ D +FDHGGYFLIKGAEK+FI QEQ+CL+RL +SNIQ WT
Sbjct: 210 IPVMVKSDLCWMKTAERSDCDFDHGGYFLIKGAEKVFIAQEQVCLKRLWISNIQSWT 266

[Close]
BLAST of CmoCh09G004140 vs. TrEMBL
Match: A0A061GIG6_THECC (DNA-directed RNA polymerase subunit beta OS=Theobroma cacao GN=TCM_036908 PE=3 SV=1)

HSP 1 Score: 168.3 bits (425), Expect = 5.7e-39
Identity = 77/117 (65.81%), Postives = 97/117 (82.91%), Query Frame = 1 

Query: 1   MLPRHARLQNMTCSSRMKKNISVEVYTRRLVTSDK--TGKDQYVDEDLINQDNRDVFIGR 60
           MLPRHARLQNMT SSRMK N+ ++VYT + V SDK  TG++++V+E+++ QDNRD+ IGR
Sbjct: 124 MLPRHARLQNMTYSSRMKVNVDLQVYTAKSVKSDKFKTGREEFVEEEVVYQDNRDIIIGR 183

Query: 61  LPVMVNSDLCWMKDEQKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLLVSNIQGWT 116
           +PVMV SDLCWM + +K D +FDHGGYFLIKG EKIFI QEQI ++RL +SN QGWT
Sbjct: 184 IPVMVRSDLCWMNEVEKADCDFDHGGYFLIKGTEKIFIAQEQISMKRLWISNSQGWT 240

[Close]
BLAST of CmoCh09G004140 vs. TrEMBL
Match: A0A061GIU5_THECC (DNA-directed RNA polymerase subunit beta OS=Theobroma cacao GN=TCM_036908 PE=3 SV=1)

HSP 1 Score: 168.3 bits (425), Expect = 5.7e-39
Identity = 77/117 (65.81%), Postives = 97/117 (82.91%), Query Frame = 1 

Query: 1   MLPRHARLQNMTCSSRMKKNISVEVYTRRLVTSDK--TGKDQYVDEDLINQDNRDVFIGR 60
           MLPRHARLQNMT SSRMK N+ ++VYT + V SDK  TG++++V+E+++ QDNRD+ IGR
Sbjct: 124 MLPRHARLQNMTYSSRMKVNVDLQVYTAKSVKSDKFKTGREEFVEEEVVYQDNRDIIIGR 183

Query: 61  LPVMVNSDLCWMKDEQKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLLVSNIQGWT 116
           +PVMV SDLCWM + +K D +FDHGGYFLIKG EKIFI QEQI ++RL +SN QGWT
Sbjct: 184 IPVMVRSDLCWMNEVEKADCDFDHGGYFLIKGTEKIFIAQEQISMKRLWISNSQGWT 240

[Close]
BLAST of CmoCh09G004140 vs. TAIR10
Match: AT3G23780.1 (AT3G23780.1 nuclear RNA polymerase D2A)

HSP 1 Score: 120.2 bits (300), Expect = 9.0e-28
Identity = 62/121 (51.24%), Postives = 84/121 (69.42%), Query Frame = 1 

Query: 2   LPRHARLQNMTCSSRMKKNISVEVYTRRLVTSDK--TGKDQYVDEDLINQDNRDVFIGRL 61
           LP HARLQNMT S+R+K N+ VEV+   +V SDK  TG+D YV++ +++   +D+ IG +
Sbjct: 117 LPWHARLQNMTYSARIKVNVQVEVFKNTVVKSDKFKTGQDNYVEKKILDVKKQDILIGSI 176

Query: 62  PVMVNSDLCWMKDE-----QKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLLVSNIQGW 116
           PVMV S LC   ++     +K D  FD GGYF+IKGAEK+FI QEQ+C +RL +SN   W
Sbjct: 177 PVMVKSILCKTSEKGKENCKKGDCAFDQGGYFVIKGAEKVFIAQEQMCTKRLWISN-SPW 236

[Close]
BLAST of CmoCh09G004140 vs. TAIR10
Match: AT3G18090.1 (AT3G18090.1 nuclear RNA polymerase D2B)

HSP 1 Score: 109.0 bits (271), Expect = 2.1e-24
Identity = 55/116 (47.41%), Postives = 81/116 (69.83%), Query Frame = 1 

Query: 7   RLQNMTCSSRMKKNISVEVYTRRLVTSDK--TGKDQYVDEDLINQDNRDVFIGRLPVMVN 66
           RLQNMT S+R+K N  VEV+ + ++  DK  TG+D+YV++++++   +D+ IG +PVMV 
Sbjct: 4   RLQNMTYSARIKVNAQVEVFKKIVIKHDKFKTGQDEYVEKEILDVKKQDILIGSIPVMVK 63

Query: 67  SDLCWMKDEQKRDSE-----FDHGGYFLIKGAEKIFIVQEQICLRRLLVSNIQGWT 116
           S LC   ++ K + +     FD GGYF+IKGAEK+FI QEQ+C +RL +SN   WT
Sbjct: 64  SVLCKTSEKGKENCKKGNCAFDQGGYFVIKGAEKVFIAQEQMCTKRLWISN-SPWT 118

[Close]
BLAST of CmoCh09G004140 vs. TAIR10
Match: AT4G21710.1 (AT4G21710.1 DNA-directed RNA polymerase family protein)

HSP 1 Score: 60.8 bits (146), Expect = 6.5e-10
Identity = 36/114 (31.58%), Postives = 63/114 (55.26%), Query Frame = 1 

Query: 1   MLPRHARLQNMTCSSRMKKNISVEVYTRRLVTSDKTGKDQYVDEDLINQDNRDVFIGRLP 60
           + P+ ARL+N+T S+ +  ++     T+R++     G++  V E    QD   VFIG++P
Sbjct: 110 LFPKAARLRNLTYSAPLYVDV-----TKRVIKKGHDGEE--VTE---TQDFTKVFIGKVP 169

Query: 61  VMVNSDLCWMKDEQKRD------SEFDHGGYFLIKGAEKIFIVQEQICLRRLLV 109
           +M+ S  C +    ++D        +D GGYF+I G+EK+ I QE++    + V
Sbjct: 170 IMLRSSYCTLFQNSEKDLTELGECPYDQGGYFIINGSEKVLIAQEKMSTNHVYV 213

[Close]
BLAST of CmoCh09G004140 vs. TAIR10
Match: AT5G45140.1 (AT5G45140.1 nuclear RNA polymerase C2)

HSP 1 Score: 55.1 bits (131), Expect = 3.6e-08
Identity = 25/64 (39.06%), Postives = 42/64 (65.62%), Query Frame = 1 

Query: 53  DVFIGRLPVMVNSDLCWM--KDEQKR----DSEFDHGGYFLIKGAEKIFIVQEQICLRRL 111
           +V IGR+P+M+ S  C +  KDE++     +   D GGYF+IKG EK+ ++QEQ+   R+
Sbjct: 139 NVIIGRMPIMLRSCRCVLHGKDEEELARLGECPLDPGGYFIIKGTEKVLLIQEQLSKNRI 198

[Close]
BLAST of CmoCh09G004140 vs. NCBI nr
Match: gi|659104213|ref|XP_008452849.1| (PREDICTED: DNA-directed RNA polymerases IV and V subunit 2-like [Cucumis melo])

HSP 1 Score: 194.9 bits (494), Expect = 8.1e-47
Identity = 96/119 (80.67%), Postives = 106/119 (89.08%), Query Frame = 1 

Query: 1   MLPRHARLQNMTCSSRMKKNISVEVYTRRLVTSDK--TGKDQYVDEDLIN--QDNRDVFI 60
           MLPRHARLQNMT SSRMK NIS+E+YT++LV+SDK  TGKDQYVD++ +    DNRDVFI
Sbjct: 136 MLPRHARLQNMTYSSRMKINISLEIYTQKLVSSDKFKTGKDQYVDKEPVEGASDNRDVFI 195

Query: 61  GRLPVMVNSDLCWMKDEQKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLLVSNIQGWT 116
           GRLPVMVNSDLCWMKDEQKRD EFD GGYFLIKGAEKIFI QEQICLRRL +SN+QGWT
Sbjct: 196 GRLPVMVNSDLCWMKDEQKRDCEFDRGGYFLIKGAEKIFIAQEQICLRRLWISNVQGWT 254

[Close]
BLAST of CmoCh09G004140 vs. NCBI nr
Match: gi|449455519|ref|XP_004145500.1| (PREDICTED: DNA-directed RNA polymerases IV and V subunit 2 [Cucumis sativus])

HSP 1 Score: 192.2 bits (487), Expect = 5.3e-46
Identity = 95/119 (79.83%), Postives = 105/119 (88.24%), Query Frame = 1 

Query: 1   MLPRHARLQNMTCSSRMKKNISVEVYTRRLVTSDK--TGKDQYVDEDLIN--QDNRDVFI 60
           MLPRHARLQNMT SSRMK NIS+E+YT++LV+SDK  TGKDQYVD++ +    DNRDVFI
Sbjct: 136 MLPRHARLQNMTYSSRMKINISLEIYTQKLVSSDKFKTGKDQYVDKEPVEGASDNRDVFI 195

Query: 61  GRLPVMVNSDLCWMKDEQKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLLVSNIQGWT 116
           GRLPVMVNSDLCWMKD QKRD EFD GGYFLIKGAEKIFI QEQICLRRL +SN+QGWT
Sbjct: 196 GRLPVMVNSDLCWMKDGQKRDCEFDRGGYFLIKGAEKIFIAQEQICLRRLWISNVQGWT 254

[Close]
BLAST of CmoCh09G004140 vs. NCBI nr
Match: gi|255548744|ref|XP_002515428.1| (PREDICTED: DNA-directed RNA polymerases IV and V subunit 2 [Ricinus communis])

HSP 1 Score: 184.9 bits (468), Expect = 8.4e-44
Identity = 87/117 (74.36%), Postives = 102/117 (87.18%), Query Frame = 1 

Query: 1   MLPRHARLQNMTCSSRMKKNISVEVYTRRLVTSD--KTGKDQYVDEDLINQDNRDVFIGR 60
           MLPRHARLQNMT SS+MK N+SVEVYTR++V SD  KTGKDQYVD++++N DNR++ IG 
Sbjct: 144 MLPRHARLQNMTYSSKMKVNVSVEVYTRKVVRSDKFKTGKDQYVDKEVLNTDNRNITIGS 203

Query: 61  LPVMVNSDLCWMKDEQKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLLVSNIQGWT 116
           LPVMV SDLCWMK  +K D +FDHGGYFLIKGAEK+FI QEQICL+RL +SNIQGWT
Sbjct: 204 LPVMVKSDLCWMKTAEKGDCDFDHGGYFLIKGAEKVFIAQEQICLKRLWISNIQGWT 260

[Close]
BLAST of CmoCh09G004140 vs. NCBI nr
Match: gi|802626339|ref|XP_012076429.1| (PREDICTED: DNA-directed RNA polymerases IV and V subunit 2-like [Jatropha curcas])

HSP 1 Score: 178.3 bits (451), Expect = 7.9e-42
Identity = 81/117 (69.23%), Postives = 101/117 (86.32%), Query Frame = 1 

Query: 1   MLPRHARLQNMTCSSRMKKNISVEVYTRRLVTSDK--TGKDQYVDEDLINQDNRDVFIGR 60
           MLPRHARLQNMT SSRMK N++VEVYT++++ SDK  TGKDQ+VD+ +++ DNRD+ IGR
Sbjct: 150 MLPRHARLQNMTYSSRMKVNVTVEVYTQKVIRSDKFKTGKDQFVDKVVLSTDNRDIIIGR 209

Query: 61  LPVMVNSDLCWMKDEQKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLLVSNIQGWT 116
           +PVMV SDLCWMK  ++ D +FDHGGYFLIKGAEK+FI QEQ+CL+RL +SNIQ WT
Sbjct: 210 IPVMVKSDLCWMKTAERSDCDFDHGGYFLIKGAEKVFIAQEQVCLKRLWISNIQSWT 266

[Close]
BLAST of CmoCh09G004140 vs. NCBI nr
Match: gi|590571885|ref|XP_007011717.1| (DNA-directed RNA polymerase isoform 1 [Theobroma cacao])

HSP 1 Score: 168.3 bits (425), Expect = 8.2e-39
Identity = 77/117 (65.81%), Postives = 97/117 (82.91%), Query Frame = 1 

Query: 1   MLPRHARLQNMTCSSRMKKNISVEVYTRRLVTSDK--TGKDQYVDEDLINQDNRDVFIGR 60
           MLPRHARLQNMT SSRMK N+ ++VYT + V SDK  TG++++V+E+++ QDNRD+ IGR
Sbjct: 124 MLPRHARLQNMTYSSRMKVNVDLQVYTAKSVKSDKFKTGREEFVEEEVVYQDNRDIIIGR 183

Query: 61  LPVMVNSDLCWMKDEQKRDSEFDHGGYFLIKGAEKIFIVQEQICLRRLLVSNIQGWT 116
           +PVMV SDLCWM + +K D +FDHGGYFLIKG EKIFI QEQI ++RL +SN QGWT
Sbjct: 184 IPVMVRSDLCWMNEVEKADCDFDHGGYFLIKGTEKIFIAQEQISMKRLWISNSQGWT 240

The following BLAST results are available for this feature:
BLAST of CmoCh09G004140 vs. Swiss-Prot
Match NameE-valueIdentityDescription
NRPD2_ARATH1.6e-2651.24DNA-directed RNA polymerases IV and V subunit 2 OS=Arabidopsis thaliana GN=NRPD2... [more]
RPD2B_ARATH3.9e-1747.67DNA-directed RNA polymerase D subunit 2b OS=Arabidopsis thaliana GN=NRPD2b PE=2 ... [more]
RPB2_ASHGO2.1e-1034.86DNA-directed RNA polymerase II subunit RPB2 OS=Ashbya gossypii (strain ATCC 1089... [more]
RPB2_CANGA3.6e-1033.96DNA-directed RNA polymerase II subunit RPB2 OS=Candida glabrata (strain ATCC 200... [more]
RPB2_YEAST8.0e-1033.02DNA-directed RNA polymerase II subunit RPB2 OS=Saccharomyces cerevisiae (strain ... [more]
BLAST of CmoCh09G004140 vs. TrEMBL
Match NameE-valueIdentityDescription
A0A0A0L319_CUCSA3.7e-4679.83DNA-directed RNA polymerase subunit beta OS=Cucumis sativus GN=Csa_4G651950 PE=3... [more]
B9RNV9_RICCO5.9e-4474.36DNA-directed RNA polymerase subunit beta OS=Ricinus communis GN=RCOM_0920920 PE=... [more]
A0A067KMJ5_JATCU5.5e-4269.23DNA-directed RNA polymerase subunit beta OS=Jatropha curcas GN=JCGZ_07086 PE=3 S... [more]
A0A061GIG6_THECC5.7e-3965.81DNA-directed RNA polymerase subunit beta OS=Theobroma cacao GN=TCM_036908 PE=3 S... [more]
A0A061GIU5_THECC5.7e-3965.81DNA-directed RNA polymerase subunit beta OS=Theobroma cacao GN=TCM_036908 PE=3 S... [more]
BLAST of CmoCh09G004140 vs. TAIR10
Match NameE-valueIdentityDescription
AT3G23780.19.0e-2851.24 nuclear RNA polymerase D2A[more]
AT3G18090.12.1e-2447.41 nuclear RNA polymerase D2B[more]
AT4G21710.16.5e-1031.58 DNA-directed RNA polymerase family protein[more]
AT5G45140.13.6e-0839.06 nuclear RNA polymerase C2[more]
BLAST of CmoCh09G004140 vs. NCBI nr
Match NameE-valueIdentityDescription
gi|659104213|ref|XP_008452849.1|8.1e-4780.67PREDICTED: DNA-directed RNA polymerases IV and V subunit 2-like [Cucumis melo][more]
gi|449455519|ref|XP_004145500.1|5.3e-4679.83PREDICTED: DNA-directed RNA polymerases IV and V subunit 2 [Cucumis sativus][more]
gi|255548744|ref|XP_002515428.1|8.4e-4474.36PREDICTED: DNA-directed RNA polymerases IV and V subunit 2 [Ricinus communis][more]
gi|802626339|ref|XP_012076429.1|7.9e-4269.23PREDICTED: DNA-directed RNA polymerases IV and V subunit 2-like [Jatropha curcas... [more]
gi|590571885|ref|XP_007011717.1|8.2e-3965.81DNA-directed RNA polymerase isoform 1 [Theobroma cacao][more]
Annotated Terms
The following terms have been associated with this gene:
Vocabulary: INTERPRO
TermDefinition
IPR007644RNA_pol_bsu_protrusion
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
CmoCh09G004140.1CmoCh09G004140.1mRNA


InterPro
Analysis Name: InterPro Annotations of Cucurbita moschata
Date Performed: 2017-05-19
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR007644RNA polymerase, beta subunit, protrusionPFAMPF04563RNA_pol_Rpb2_1coord: 1..100
score: 1.5
IPR015712DNA-directed RNA polymerase, subunit 2PANTHERPTHR20856DNA-DIRECTED RNA POLYMERASE I SUBUNIT 2coord: 1..115
score: 1.3
NoneNo IPR availableGENE3DG3DSA:3.90.1100.10coord: 3..100
score: 6.
NoneNo IPR availablePANTHERPTHR20856:SF21DNA-DIRECTED RNA POLYMERASE D SUBUNIT 2B-RELATEDcoord: 1..115
score: 1.3
NoneNo IPR availableunknownSSF64484beta and beta-prime subunits of DNA dependent RNA-polymerasecoord: 2..113
score: 1.13

Synteny
The following gene(s) are orthologous to this gene:
GeneOrthologueOrganismBlock
CmoCh09G004140Carg02839Silver-seed gourdcarcmoB0865
The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:
GeneOrganismBlock
CmoCh09G004140Cucumber (Gy14) v2cgybcmoB004
CmoCh09G004140Cucumber (Gy14) v2cgybcmoB142
CmoCh09G004140Cucumber (Gy14) v2cgybcmoB140
CmoCh09G004140Cucumber (Gy14) v2cgybcmoB433
CmoCh09G004140Melon (DHL92) v3.6.1cmomedB014
CmoCh09G004140Melon (DHL92) v3.6.1cmomedB029
CmoCh09G004140Silver-seed gourdcarcmoB0191
CmoCh09G004140Silver-seed gourdcarcmoB0687
CmoCh09G004140Silver-seed gourdcarcmoB1040
CmoCh09G004140Silver-seed gourdcarcmoB1309
CmoCh09G004140Cucumber (Chinese Long) v3cmocucB0001
CmoCh09G004140Cucumber (Chinese Long) v3cmocucB0006
CmoCh09G004140Cucumber (Chinese Long) v3cmocucB0008
CmoCh09G004140Cucumber (Chinese Long) v3cmocucB0015
CmoCh09G004140Watermelon (97103) v2cmowmbB012
CmoCh09G004140Watermelon (97103) v2cmowmbB015
CmoCh09G004140Watermelon (97103) v2cmowmbB022
CmoCh09G004140Watermelon (97103) v2cmowmbB030
CmoCh09G004140Wax gourdcmowgoB0009
CmoCh09G004140Wax gourdcmowgoB0029
CmoCh09G004140Wax gourdcmowgoB0040
CmoCh09G004140Cucurbita maxima (Rimu)cmacmoB435
CmoCh09G004140Cucurbita moschata (Rifu)cmocmoB032
CmoCh09G004140Cucurbita moschata (Rifu)cmocmoB000
CmoCh09G004140Cucurbita moschata (Rifu)cmocmoB001
CmoCh09G004140Cucurbita moschata (Rifu)cmocmoB006
CmoCh09G004140Cucurbita moschata (Rifu)cmocmoB020
CmoCh09G004140Cucumber (Gy14) v1cgycmoB0741
CmoCh09G004140Cucurbita maxima (Rimu)cmacmoB027
CmoCh09G004140Cucurbita maxima (Rimu)cmacmoB066
CmoCh09G004140Cucurbita maxima (Rimu)cmacmoB097
CmoCh09G004140Wild cucumber (PI 183967)cmocpiB011
CmoCh09G004140Cucumber (Chinese Long) v2cmocuB011
CmoCh09G004140Melon (DHL92) v3.5.1cmomeB014
CmoCh09G004140Melon (DHL92) v3.5.1cmomeB029
CmoCh09G004140Watermelon (Charleston Gray)cmowcgB016
CmoCh09G004140Watermelon (97103) v1cmowmB019
CmoCh09G004140Cucurbita pepo (Zucchini)cmocpeB004
CmoCh09G004140Cucurbita pepo (Zucchini)cmocpeB013
CmoCh09G004140Cucurbita pepo (Zucchini)cmocpeB020
CmoCh09G004140Cucurbita pepo (Zucchini)cmocpeB033
CmoCh09G004140Cucurbita pepo (Zucchini)cmocpeB034
CmoCh09G004140Cucurbita pepo (Zucchini)cmocpeB041
CmoCh09G004140Bottle gourd (USVL1VR-Ls)cmolsiB000
CmoCh09G004140Bottle gourd (USVL1VR-Ls)cmolsiB012
CmoCh09G004140Bottle gourd (USVL1VR-Ls)cmolsiB027