CmoCh05G003200 (gene) Cucurbita moschata (Rifu) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CmoCh05G003200
Type	gene
Organism	Cucurbita moschata (Cucurbita moschata (Rifu))
Description	DNA-directed RNA polymerase subunit
Location	Cmo_Chr05 : 1419305 .. 1422830 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDSexonthree_prime_UTR

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

ATGTACAGCCAAACACAAATAAACGTAACTATTATAATTAATTATGTTTCATTAAAAAATAATTAAATATATTGGAAAAATATTTTATAGAAATACGAAGGGAAATAATCAAGTGCGAGTGGTTCCAATAGGCCCGGCCCAATAATGGCATTTTCGAAAATAACGTAAAACTCTGTTTTATGAAGAAAAAATTTATAAAAAAAAAAAAAAACGAATGCTAAACCCTACTTGGCGCCTTCTCTTCCCGGGGACTCTGATTTTCAGACCCATCGTTTTTTCTTGCCGGCTCGTCACTCACCGCCGCTGCCGCTGCCGCTGCCTCCGCCGCTGCCTCCGCCGCCGTTCGCTGTAGCTGTTCTCTAAATCTCGTCCCGACAAGTCGTCTCTAGGTAAATAGTAAACCATCTTCGTTGTTTCTCTTCTATCGATGTCGACTGAAATTGGTTGCGATGATTTTTGAATGAAATCGAAATTTTGATTGGGAGTCTGGGAGTTTGGATCGTATTTTCGCGCGGTTCGGTAGGTCTCCACACATTCGGTTCGGTCCCAGAGTTGAATGGGCGAACCCAACCGAACCAATTTCCAGTGCAGTTTCCGGAGGGTTTAAGCTTCCAAAACCATATTGTTTTCGTTCTGCTTTAGCAAGTTTTCTTTAAGGTCGATTGTTTATCCATTTGTCCGCCCAGCTCAGCTATCTTTGGCTATCCACCGTTTTCTTCCACTGGTAGCTCGCCCCTTTTCGACAATAAATCTGGGGAAGCTCTTTCTTGGGCTTGATTAAATTGTGCTTACTAATTCTTATGAGGAGCCCCCTTGTGGTTTCGGCTGCAATTTTTCTTTTTATATTCTTTTTCGTTTGGAGTTTTAGCCTTGTTTTGGTCTCTTATTTGTTGTAATTGAACTTCTTATAATTGTGTTCTAACTATTTTTTTTATGGACATTGTTTGTCAGAAGCGCTTGGGGAAGCAGCAAGGCCATTTATGGCTTATTCTGGTGGACATGACTTCTTGTTTTGCAACTTGTGTGGAACCATGTTGTCATTCAGCTCAACGAAATATGTAGAGTGTCCTTTGTGCAAGTCTAGGCGAAGTGCAAAAGGTGAACATACACATCGGAGTTAATCTTATTCACTTTTAGTTTTTCATTTTGGGTAATTTAAACATTCGAGTACACATTACTTACATGAATGAGTGCTTAATTTGTAGTCTAGTTCACTTTTTTCTTCATGTTTATGTAGCTAAAAATGTGAAAAGCATGATTATTTTGTCATTTTCTATCTCAAGTTTCGATTTTCCTTTTTAATCTTTTTACTAGAACTGAGTTGTGCAGGTTGGTTTTTCTTTAATCTATCAACTTAAATTTAAGATGATTTTGGTAGTATAATTTTTATTCTGCTCACAAACGTTTATCAAGAATTTTATAAGGGCCGATAGTTAGGGAGGATTATGGGTCCTATTGTCTTACACTTCCTTGGCTTCATTCTCCTTTGCCATAAAGGTTATAAGTCTCGGTTATATTCACACCAAGAATTCCTTTCTTAGAGAAGCCTAGATTGTTGACATGGTATCATGCTCGAAAGAGAGAATATCCCAAGTTTTGGGGAAGAACTATGGAAAAACCATCTGGACCCGTAGCTTGGCCTTGACTAAGACTAGAAATAGCCCTTGGAACTTTATGCTAAATAAAAGCCTGCGGCATATGTTATTCGGCTGTAGAGATAGAATTCCAACACAGACGGTGGAAGATTGTGTGGTCCTCTCAGAAAGACTTAGTGAGGTAGACTGCTGGGGTTTTGACAATTGGAGCCCTCAAATTCAGAAGGAAGCTGATCATGATTTTGAAAGCTTGTTCTTCAAACTAGCAAGATGGACCTTCGAAATTTTGATTTGATTTCAAACCAAATGTTGTAATAGACTAATAACAATGAAGGCTGCGTGTGAAAAATGTTTCTTTAGATTTGGCAGATGGAACCTCTGCCTTCTCATACCTGAGCTTGCTTACAATTACATGAAGAAATTGTAATTACAATTACCTGAGTTCTCTGAGAGTTCTTTCAAATGAAATCAATGATTTCTTGACCACAATTACATGAAGAAAGTGAGATAGCTATAACAATGTCTGTGGAACCAAGTACTAAGTACTAACAGCTAACCAGAGACTGAAAATTATAGAACTCATTACAATTCTCAGGCTGGTTAGTCTTATGCAAGGGCCCAAGTGCCATCATGATTTCCCTGAATATTGTTCTATGCATCTTGAAGTTGGTTTTCTGAAGGATATATATATGTATCAAATCATTTTAAAATTTGTGGGCCTTGCTTTATTTTTAATGGTTTTGTTGAAAGAACTATGCATCTTATCATCTTTGCATATTGAAATTGAATCATGATTTGAGGCATCGAAGTTGTGCAAATGCAGTTGAGAAGCTATTCTTATAATATTTCATGCACTCTTTTAGTAAATATCTTTAACCTGCGTGTTGTGCGCGGCTTATTTCAGAGATCGTCGGCAGAGAAATAAGTTACACAGTTACTGCTGAGGTATGTCTCTTGAAGCATAAACATTATCATCCCCATGCTTGTTCTATTTCTAGCTCTAAGACATCCCAGCAACATGTCATTCCTATGCTTTTGAACTTTAGGATACTCTGAAAATTTGCTAAGATTGTTTCTGGATGAATTTACCTATATGATGATTCTCCACGCTCGGCAGATCAATAAGCCTACCTAACCCCTGAAATTCATTTTGGGTCGATATCCTCTTGCGGTGAAAAGTTTTAGTATAAGCAAAAGTTCATATGATCTAATCTTGATAAGACCCCTTCTATTTGATTGCCAGACATCCAAGAAATGATTTAGTTTTTGAAATCTTCGTGTGACGATTCGCAGGAAATTAGAAAGCAGTTGGGAATTTCATTGATTGATGAAGAGAAAATGCAGCTATCAAAGGTAGTAGGAGAAAAAGAAGTGTATGGTACAAGTATTCTGCTTGAAACGTGTAAGTAGTAGGCACTAATATGAAGCTGCCATGTTTGACAGGAAAGGAGGAGATGTGAGAAATGTGGGAATGATGAAGCTTGGTTTGAGAGCAGACAGGTACTTTTCATACCAACTCATAAGCCCCCGCCCTTTAGGCTCTCTCTTTTATTCCCATTGGAAAGAGTCCCAAGTTTGAGTGTGGTTTCAATAAAAATGCAGATGAGATCGGCTGATGAAGGGCAGACCACCTTTTATACCTGCACCAAGTGCCATCATCAGACCAGAGAGAATTGATCCTCCACATAACATTATAAAATATGTATGCTTCACCATAGTTCGTCTTTTATTCTTTAGGGGGCAGCAAAGTCCTTGAGTTAGGATAGCTCTAACGCCGTCCAAAAGCTTAAATTTGACGAATTTTGTTCATTACGACGATCTCGCTCTAGATGAAGTAATTTTATTTTTAGTTTTCTGTTTAACAAGTATGCTTATTCGTTTTTTTTTTTTTAATGTTTATTCATTTTTGTGTTGTTCGATGCTAAATTTAC

mRNA sequence

ATGTACAGCCAAACACAAATAAACCTGTTCTCTAAATCTCGTCCCGACAAGTCGTCTCTAGAAGCGCTTGGGGAAGCAGCAAGGCCATTTATGGCTTATTCTGGTGGACATGACTTCTTGTTTTGCAACTTGTGTGGAACCATGTTGTCATTCAGCTCAACGAAATATGTAGAGTGTCCTTTGTGCAAGTCTAGGCGAAGTGCAAAAGAGATCGTCGGCAGAGAAATAAGTTACACAGTTACTGCTGAGGAAATTAGAAAGCAGTTGGGAATTTCATTGATTGATGAAGAGAAAATGCAGCTATCAAAGGAAAGGAGGAGATGTGAGAAATGTGGGAATGATGAAGCTTGGTTTGAGAGCAGACAGATGAGATCGGCTGATGAAGGGCAGACCACCTTTTATACCTGCACCAAGTGCCATCATCAGACCAGAGAGAATTGATCCTCCACATAACATTATAAAATATGTATGCTTCACCATAGTTCGTCTTTTATTCTTTAGGGGGCAGCAAAGTCCTTGAGTTAGGATAGCTCTAACGCCGTCCAAAAGCTTAAATTTGACGAATTTTGTTCATTACGACGATCTCGCTCTAGATGAAGTAATTTTATTTTTAGTTTTCTGTTTAACAAGTATGCTTATTCGTTTTTTTTTTTTTAATGTTTATTCATTTTTGTGTTGTTCGATGCTAAATTTAC

Coding sequence (CDS)

ATGTACAGCCAAACACAAATAAACCTGTTCTCTAAATCTCGTCCCGACAAGTCGTCTCTAGAAGCGCTTGGGGAAGCAGCAAGGCCATTTATGGCTTATTCTGGTGGACATGACTTCTTGTTTTGCAACTTGTGTGGAACCATGTTGTCATTCAGCTCAACGAAATATGTAGAGTGTCCTTTGTGCAAGTCTAGGCGAAGTGCAAAAGAGATCGTCGGCAGAGAAATAAGTTACACAGTTACTGCTGAGGAAATTAGAAAGCAGTTGGGAATTTCATTGATTGATGAAGAGAAAATGCAGCTATCAAAGGAAAGGAGGAGATGTGAGAAATGTGGGAATGATGAAGCTTGGTTTGAGAGCAGACAGATGAGATCGGCTGATGAAGGGCAGACCACCTTTTATACCTGCACCAAGTGCCATCATCAGACCAGAGAGAATTGA

Homology

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BLAST of CmoCh05G003200 vs. Swiss-Prot
Match: RPA12_MACMU (DNA-directed RNA polymerase I subunit RPA12 OS=Macaca mulatta GN=ZNRD1 PE=3 SV=1)

HSP 1 Score: 68.9 bits (167), Expect = 5.1e-11
Identity = 37/110 (33.64%), Postives = 61/110 (55.45%), Query Frame = 1


Query: 38  DFLFCNLCGTMLSFSSTK-YVECPLCKSRRSAKEIVGREISYTVTAEEIRKQLGISLIDE 97
           D  FC+ CG++L     +  V C  C    + ++  G+ +  +V   ++   + +S+ + 
Sbjct: 16  DLDFCSDCGSVLPLPGAQDTVTCTRCGFNINVRDFEGKVVKTSVVFHQLGTAMPMSVEEG 75

Query: 98  EKMQLSKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 147
            + Q     RRC +CG++   + +RQMRSADEGQT FYTCT C  Q +E+
Sbjct: 76  PECQGPVVDRRCPRCGHEGMAYHTRQMRSADEGQTVFYTCTNCKFQEKED 125

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BLAST of CmoCh05G003200 vs. Swiss-Prot
Match: RPA12_BOVIN (DNA-directed RNA polymerase I subunit RPA12 OS=Bos taurus GN=ZNRD1 PE=2 SV=1)

HSP 1 Score: 68.6 bits (166), Expect = 6.7e-11
Identity = 37/110 (33.64%), Postives = 60/110 (54.55%), Query Frame = 1


Query: 38  DFLFCNLCGTMLSFSSTK-YVECPLCKSRRSAKEIVGREISYTVTAEEIRKQLGISLIDE 97
           D  FC  CG++L     +  V C  C    + ++  G+ +  +V   ++   + +S+ + 
Sbjct: 13  DLDFCPDCGSVLPLPGVQDAVACTRCGFSINVRDFEGKVVKTSVVFNKLGTAMPLSMEEG 72

Query: 98  EKMQLSKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 147
            + Q     RRC +CG++   + +RQMRSADEGQT FYTCT C  Q +E+
Sbjct: 73  PEFQGPVVDRRCSRCGHEGMAYHTRQMRSADEGQTVFYTCTNCKFQEKED 122

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BLAST of CmoCh05G003200 vs. Swiss-Prot
Match: RPA12_PANTR (DNA-directed RNA polymerase I subunit RPA12 OS=Pan troglodytes GN=ZNRD1 PE=3 SV=1)

HSP 1 Score: 68.2 bits (165), Expect = 8.7e-11
Identity = 37/110 (33.64%), Postives = 61/110 (55.45%), Query Frame = 1


Query: 38  DFLFCNLCGTMLSFSSTK-YVECPLCKSRRSAKEIVGREISYTVTAEEIRKQLGISLIDE 97
           D  FC+ CG++L     +  V C  C    + ++  G+ +  +V   ++   + +S+ + 
Sbjct: 16  DLDFCSDCGSVLPLPGAQDTVTCIRCGFNINVRDFEGKVVKTSVVFHQLGTAMPMSVEEG 75

Query: 98  EKMQLSKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 147
            + Q     RRC +CG++   + +RQMRSADEGQT FYTCT C  Q +E+
Sbjct: 76  PECQGPVVDRRCPRCGHEGMAYHTRQMRSADEGQTVFYTCTNCKFQEKED 125

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BLAST of CmoCh05G003200 vs. Swiss-Prot
Match: RPA12_HUMAN (DNA-directed RNA polymerase I subunit RPA12 OS=Homo sapiens GN=ZNRD1 PE=2 SV=1)

HSP 1 Score: 68.2 bits (165), Expect = 8.7e-11
Identity = 37/110 (33.64%), Postives = 61/110 (55.45%), Query Frame = 1


Query: 38  DFLFCNLCGTMLSFSSTK-YVECPLCKSRRSAKEIVGREISYTVTAEEIRKQLGISLIDE 97
           D  FC+ CG++L     +  V C  C    + ++  G+ +  +V   ++   + +S+ + 
Sbjct: 16  DLDFCSDCGSVLPLPGAQDTVTCIRCGFNINVRDFEGKVVKTSVVFHQLGTAMPMSVEEG 75

Query: 98  EKMQLSKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 147
            + Q     RRC +CG++   + +RQMRSADEGQT FYTCT C  Q +E+
Sbjct: 76  PECQGPVVDRRCPRCGHEGMAYHTRQMRSADEGQTVFYTCTNCKFQEKED 125

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BLAST of CmoCh05G003200 vs. Swiss-Prot
Match: RPA12_RAT (DNA-directed RNA polymerase I subunit RPA12 OS=Rattus norvegicus GN=Znrd1 PE=3 SV=1)

HSP 1 Score: 67.8 bits (164), Expect = 1.1e-10
Identity = 41/123 (33.33%), Postives = 64/123 (52.03%), Query Frame = 1


Query: 25  EAARPFMAYSGGHDFLFCNLCGTMLSFSSTK-YVECPLCKSRRSAKEIVGREISYTVTAE 84
           E ARP   +    DF  C  CG++L     +  V CP C      ++  G+ +  +V   
Sbjct: 2   ELARPCSNFQSDLDF--CPDCGSVLPLPGVQDTVICPRCGFSIDVRDFGGKVVKTSVVFN 61

Query: 85  EIRKQLGISLIDEEKMQLSKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQT 144
           ++   + +S+ +  + Q     RRC +CG++   + +RQMRSADEGQT FYTC  C  Q 
Sbjct: 62  KLGTVIPMSVDEGPESQGPVVDRRCSRCGHEGMAYYTRQMRSADEGQTVFYTCINCKFQE 121

Query: 145 REN 147
           +E+
Sbjct: 122 KED 122

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BLAST of CmoCh05G003200 vs. TrEMBL
Match: A0A0A0LKC4_CUCSA (DNA-directed RNA polymerase subunit OS=Cucumis sativus GN=Csa_2G345940 PE=3 SV=1)

HSP 1 Score: 231.1 bits (588), Expect = 8.6e-58
Identity = 112/116 (96.55%), Postives = 113/116 (97.41%), Query Frame = 1


Query: 31  MAYSGGHDFLFCNLCGTMLSFSSTKYVECPLCKSRRSAKEIVGREISYTVTAEEIRKQLG 90
           MAYS GHDFLFCNLCGTMLSF STKYVECP CKSRRSAKEIVGREISYTVTAEEIRKQLG
Sbjct: 1   MAYSRGHDFLFCNLCGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLG 60

Query: 91  ISLIDEEKMQLSKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 147
           ISLIDEEKMQL+KERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN
Sbjct: 61  ISLIDEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 116

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BLAST of CmoCh05G003200 vs. TrEMBL
Match: B3FNK6_CUCSA (DNA-directed RNA polymerase subunit OS=Cucumis sativus PE=2 SV=1)

HSP 1 Score: 211.8 bits (538), Expect = 5.4e-52
Identity = 105/116 (90.52%), Postives = 108/116 (93.10%), Query Frame = 1


Query: 31  MAYSGGHDFLFCNLCGTMLSFSSTKYVECPLCKSRRSAKEIVGREISYTVTAEEIRKQLG 90
           MAYS GHDFLFCNL GTMLSF STKYVECP CKSRRSAKEIVGREISYTVTAEEI+KQLG
Sbjct: 1   MAYSRGHDFLFCNLGGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIKKQLG 60

Query: 91  ISLIDEEKMQLSKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 147
           ISLIDE  MQL+KERRRCEKCGNDEAWFESRQMRSADEGQTTFYTC+KC  QTREN
Sbjct: 61  ISLIDENNMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCSKCLPQTREN 116

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BLAST of CmoCh05G003200 vs. TrEMBL
Match: G7JQD3_MEDTR (DNA-directed RNA polymerase subunit OS=Medicago truncatula GN=MTR_3g102420 PE=3 SV=1)

HSP 1 Score: 159.8 bits (403), Expect = 2.4e-36
Identity = 75/114 (65.79%), Postives = 95/114 (83.33%), Query Frame = 1


Query: 33  YSGGHDFLFCNLCGTMLSFSSTKYVECPLCKSRRSAKEIVGREISYTVTAEEIRKQLGIS 92
           YS G DFLFC+LCGTML+  ST Y  CPLCK++ + K+I G+EISYT++AE+IR++LGI 
Sbjct: 2   YSRGRDFLFCHLCGTMLTVPSTDYALCPLCKTKCNIKDIKGKEISYTISAEDIRRELGID 61

Query: 93  LIDEEKMQLSKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 147
           LI+E+K+QLSK  + CEKCG+ EA F +RQMRSADEGQTTFYTCT+C HQ +EN
Sbjct: 62  LIEEQKVQLSKVNKTCEKCGHGEAAFYTRQMRSADEGQTTFYTCTRCGHQFQEN 115

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BLAST of CmoCh05G003200 vs. TrEMBL
Match: A0A151TUW7_CAJCA (DNA-directed RNA polymerase subunit OS=Cajanus cajan GN=KK1_010091 PE=3 SV=1)

HSP 1 Score: 158.7 bits (400), Expect = 5.4e-36
Identity = 72/109 (66.06%), Postives = 95/109 (87.16%), Query Frame = 1


Query: 38  DFLFCNLCGTMLSFSSTKYVECPLCKSRRSAKEIVGREISYTVTAEEIRKQLGISLIDEE 97
           DFLFCNLCGT+L+  ST+Y +CPLCK+RR+ + I  REISYT+ AE+IR++LG+ +I+E+
Sbjct: 7   DFLFCNLCGTLLTVPSTEYAQCPLCKTRRNIQHIRDREISYTIYAEDIRRELGMEVIEEQ 66

Query: 98  KMQLSKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 147
           K+QLSK  ++CEKCG+DEA F +RQMRSADEGQTTFYTCT+C HQ++EN
Sbjct: 67  KVQLSKVNKKCEKCGHDEANFYTRQMRSADEGQTTFYTCTRCGHQSQEN 115

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BLAST of CmoCh05G003200 vs. TrEMBL
Match: V7CX97_PHAVU (DNA-directed RNA polymerase subunit OS=Phaseolus vulgaris GN=PHAVU_001G175600g PE=3 SV=1)

HSP 1 Score: 150.2 bits (378), Expect = 1.9e-33
Identity = 68/109 (62.39%), Postives = 92/109 (84.40%), Query Frame = 1


Query: 38  DFLFCNLCGTMLSFSSTKYVECPLCKSRRSAKEIVGREISYTVTAEEIRKQLGISLIDEE 97
           DFLFC+LCGTML+  +++Y  CPLCK+ R  ++I  +EI YT+ AE+IR++LGI +I+E+
Sbjct: 7   DFLFCHLCGTMLTVPNSEYAVCPLCKTLRDIQDIRDKEIGYTIYAEDIRRELGIEIIEEQ 66

Query: 98  KMQLSKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 147
           K+QLSK  ++CEKCG+DEA F +RQMRSADEGQTTFYTCT+C HQ++EN
Sbjct: 67  KVQLSKVNKKCEKCGHDEANFYTRQMRSADEGQTTFYTCTRCGHQSQEN 115

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BLAST of CmoCh05G003200 vs. TAIR10
Match: AT3G25940.1 (AT3G25940.1 TFIIB zinc-binding protein)

HSP 1 Score: 130.6 bits (327), Expect = 8.0e-31
Identity = 65/118 (55.08%), Postives = 86/118 (72.88%), Query Frame = 1


Query: 31  MAYSGGHDFLFCNLCGTMLSFSSTKYVECPLCKSRRSAKEIVGREISYTVTAEEIRKQLG 90
           M  S   +FLFCNLCGTML   STKY ECP CK+ R+AK+I+ +EI+YTV+AE+IR++LG
Sbjct: 1   MEKSRESEFLFCNLCGTMLVLKSTKYAECPHCKTTRNAKDIIDKEIAYTVSAEDIRRELG 60

Query: 91  ISLIDEE---KMQLSKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTRE 146
           ISL  E+   + +L K ++ CEKC + E  + +RQ RSADEGQTT+YTC  C H+  E
Sbjct: 61  ISLFGEKTQAEAELPKIKKACEKCQHPELVYTTRQTRSADEGQTTYYTCPNCAHRFTE 118

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BLAST of CmoCh05G003200 vs. TAIR10
Match: AT1G20065.2 (AT1G20065.2 FUNCTIONS IN: molecular_function unknown)

HSP 1 Score: 70.5 bits (171), Expect = 9.9e-13
Identity = 31/53 (58.49%), Postives = 38/53 (71.70%), Query Frame = 1


Query: 31 MAYSGGHDFLFCNLCGTMLSFSSTKYVECPLCKSRRSAKEIVGREISYTVTAE 84
          M  S   D LFCNLCGTML   STKY ECPLC++ R+ KEI+ + ++YTVT E
Sbjct: 1  MEKSRESDILFCNLCGTMLVLKSTKYAECPLCETTRNGKEIIDKNLAYTVTTE 53

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BLAST of CmoCh05G003200 vs. TAIR10
Match: AT4G07950.1 (AT4G07950.1 DNA-directed RNA polymerase, subunit M, archaeal)

HSP 1 Score: 50.1 bits (118), Expect = 1.4e-06
Identity = 31/110 (28.18%), Postives = 56/110 (50.91%), Query Frame = 1


Query: 41  FCNLCGTMLSFS---STKYV--ECPLCKSRRSAKEIVGREISYTVTAEEIRKQLGISLID 100
           FC  CG +L +    S+++    CP   +     EI  +++        ++K +   +  
Sbjct: 3   FCPTCGNLLRYEGGGSSRFFCSTCPYVANIERRVEIKKKQLL-------VKKSIEPVVTK 62

Query: 101 EEKMQLSKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTRE 146
           ++    ++    C +CG+D+A+F+S Q+RSADE ++ FY C KC    RE
Sbjct: 63  DDIPTAAETEAPCPRCGHDKAYFKSMQIRSADEPESRFYRCLKCEFTWRE 105

[Close]

BLAST of CmoCh05G003200 vs. TAIR10
Match: AT1G01210.1 (AT1G01210.1 DNA-directed RNA polymerase, subunit M, archaeal)

HSP 1 Score: 48.9 bits (115), Expect = 3.1e-06
Identity = 29/107 (27.10%), Postives = 50/107 (46.73%), Query Frame = 1


Query: 41  FCNLCGTMLSFSS--TKYVECPLCKSRRSAKEIVGREISYTVTAEEIRKQLGISLIDEEK 100
           FC  CG +L +         C  C         + R++        ++K +   +  ++ 
Sbjct: 3   FCPTCGNLLRYEGGGNSRFFCSTCPY----VAYIQRQVEIKKKQLLVKKSIEAVVTKDDI 62

Query: 101 MQLSKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTRE 146
              ++    C +CG+D+A+F+S Q+RSADE ++ FY C KC    RE
Sbjct: 63  PTAAETEAPCPRCGHDKAYFKSMQIRSADEPESRFYRCLKCEFTWRE 105

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BLAST of CmoCh05G003200 vs. NCBI nr
Match: gi|449450514|ref|XP_004143007.1| (PREDICTED: DNA-directed RNA polymerase I subunit RPA12 [Cucumis sativus])

HSP 1 Score: 231.1 bits (588), Expect = 1.2e-57
Identity = 112/116 (96.55%), Postives = 113/116 (97.41%), Query Frame = 1


Query: 31  MAYSGGHDFLFCNLCGTMLSFSSTKYVECPLCKSRRSAKEIVGREISYTVTAEEIRKQLG 90
           MAYS GHDFLFCNLCGTMLSF STKYVECP CKSRRSAKEIVGREISYTVTAEEIRKQLG
Sbjct: 1   MAYSRGHDFLFCNLCGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLG 60

Query: 91  ISLIDEEKMQLSKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 147
           ISLIDEEKMQL+KERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN
Sbjct: 61  ISLIDEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 116

[Close]

BLAST of CmoCh05G003200 vs. NCBI nr
Match: gi|659089115|ref|XP_008445334.1| (PREDICTED: DNA-directed RNA polymerase I subunit RPA12-like [Cucumis melo])

HSP 1 Score: 226.9 bits (577), Expect = 2.3e-56
Identity = 110/116 (94.83%), Postives = 112/116 (96.55%), Query Frame = 1


Query: 31  MAYSGGHDFLFCNLCGTMLSFSSTKYVECPLCKSRRSAKEIVGREISYTVTAEEIRKQLG 90
           MAYS GHDFLFCNLCGTMLSF STKYVECPLCKS+RSAKEI GREISYTVTAEEIRKQLG
Sbjct: 1   MAYSRGHDFLFCNLCGTMLSFCSTKYVECPLCKSKRSAKEINGREISYTVTAEEIRKQLG 60

Query: 91  ISLIDEEKMQLSKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 147
           ISLI EEKMQL+KERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN
Sbjct: 61  ISLIGEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 116

[Close]

BLAST of CmoCh05G003200 vs. NCBI nr
Match: gi|821595252|ref|NP_001295812.1| (DNA-directed RNA polymerase I subunit RPA12 [Cucumis sativus])

HSP 1 Score: 211.8 bits (538), Expect = 7.8e-52
Identity = 105/116 (90.52%), Postives = 108/116 (93.10%), Query Frame = 1


Query: 31  MAYSGGHDFLFCNLCGTMLSFSSTKYVECPLCKSRRSAKEIVGREISYTVTAEEIRKQLG 90
           MAYS GHDFLFCNL GTMLSF STKYVECP CKSRRSAKEIVGREISYTVTAEEI+KQLG
Sbjct: 1   MAYSRGHDFLFCNLGGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIKKQLG 60

Query: 91  ISLIDEEKMQLSKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 147
           ISLIDE  MQL+KERRRCEKCGNDEAWFESRQMRSADEGQTTFYTC+KC  QTREN
Sbjct: 61  ISLIDENNMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCSKCLPQTREN 116

[Close]

BLAST of CmoCh05G003200 vs. NCBI nr
Match: gi|1009135164|ref|XP_015884839.1| (PREDICTED: DNA-directed RNA polymerase I subunit RPA12 isoform X1 [Ziziphus jujuba])

HSP 1 Score: 180.6 bits (457), Expect = 1.9e-42
Identity = 84/116 (72.41%), Postives = 103/116 (88.79%), Query Frame = 1


Query: 31  MAYSGGHDFLFCNLCGTMLSFSSTKYVECPLCKSRRSAKEIVGREISYTVTAEEIRKQLG 90
           MAYS G DFLFCNLCGT+L+F STK+ +CPLCKS++  K+I+GREISYTVTAE+IR++LG
Sbjct: 1   MAYSHGRDFLFCNLCGTVLAFGSTKHAQCPLCKSKQKLKDIIGREISYTVTAEDIRRELG 60

Query: 91  ISLIDEEKMQLSKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 147
           I LI EEK++LSK +RRCEKCG+DEA + +RQMRSADEGQTTFYTCTKC HQ ++N
Sbjct: 61  IVLIGEEKVELSKIKRRCEKCGHDEASYYTRQMRSADEGQTTFYTCTKCQHQFQDN 116

[Close]

BLAST of CmoCh05G003200 vs. NCBI nr
Match: gi|1009135166|ref|XP_015884840.1| (PREDICTED: DNA-directed RNA polymerase I subunit RPA12 isoform X2 [Ziziphus jujuba])

HSP 1 Score: 176.8 bits (447), Expect = 2.8e-41
Identity = 83/116 (71.55%), Postives = 102/116 (87.93%), Query Frame = 1


Query: 31  MAYSGGHDFLFCNLCGTMLSFSSTKYVECPLCKSRRSAKEIVGREISYTVTAEEIRKQLG 90
           MAYS G DFLFCNL GT+L+F STK+ +CPLCKS++  K+I+GREISYTVTAE+IR++LG
Sbjct: 1   MAYSHGRDFLFCNLVGTVLAFGSTKHAQCPLCKSKQKLKDIIGREISYTVTAEDIRRELG 60

Query: 91  ISLIDEEKMQLSKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 147
           I LI EEK++LSK +RRCEKCG+DEA + +RQMRSADEGQTTFYTCTKC HQ ++N
Sbjct: 61  IVLIGEEKVELSKIKRRCEKCGHDEASYYTRQMRSADEGQTTFYTCTKCQHQFQDN 116

The following BLAST results are available for this feature:

BLAST of CmoCh05G003200 vs. Swiss-Prot


Match Name	E-value	Identity	Description
RPA12_MACMU	5.1e-11	33.64	DNA-directed RNA polymerase I subunit RPA12 OS=Macaca mulatta GN=ZNRD1 PE=3 SV=1	[more]
RPA12_BOVIN	6.7e-11	33.64	DNA-directed RNA polymerase I subunit RPA12 OS=Bos taurus GN=ZNRD1 PE=2 SV=1	[more]
RPA12_PANTR	8.7e-11	33.64	DNA-directed RNA polymerase I subunit RPA12 OS=Pan troglodytes GN=ZNRD1 PE=3 SV=...	[more]
RPA12_HUMAN	8.7e-11	33.64	DNA-directed RNA polymerase I subunit RPA12 OS=Homo sapiens GN=ZNRD1 PE=2 SV=1	[more]
RPA12_RAT	1.1e-10	33.33	DNA-directed RNA polymerase I subunit RPA12 OS=Rattus norvegicus GN=Znrd1 PE=3 S...	[more]

BLAST of CmoCh05G003200 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0LKC4_CUCSA	8.6e-58	96.55	DNA-directed RNA polymerase subunit OS=Cucumis sativus GN=Csa_2G345940 PE=3 SV=1	[more]
B3FNK6_CUCSA	5.4e-52	90.52	DNA-directed RNA polymerase subunit OS=Cucumis sativus PE=2 SV=1	[more]
G7JQD3_MEDTR	2.4e-36	65.79	DNA-directed RNA polymerase subunit OS=Medicago truncatula GN=MTR_3g102420 PE=3 ...	[more]
A0A151TUW7_CAJCA	5.4e-36	66.06	DNA-directed RNA polymerase subunit OS=Cajanus cajan GN=KK1_010091 PE=3 SV=1	[more]
V7CX97_PHAVU	1.9e-33	62.39	DNA-directed RNA polymerase subunit OS=Phaseolus vulgaris GN=PHAVU_001G175600g P...	[more]

BLAST of CmoCh05G003200 vs. TAIR10


Match Name	E-value	Identity	Description
AT3G25940.1	8.0e-31	55.08	TFIIB zinc-binding protein	[more]
AT1G20065.2	9.9e-13	58.49	FUNCTIONS IN: molecular_function unknown	[more]
AT4G07950.1	1.4e-06	28.18	DNA-directed RNA polymerase, subunit M, archaeal	[more]
AT1G01210.1	3.1e-06	27.10	DNA-directed RNA polymerase, subunit M, archaeal	[more]

BLAST of CmoCh05G003200 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|449450514\|ref\|XP_004143007.1\|	1.2e-57	96.55	PREDICTED: DNA-directed RNA polymerase I subunit RPA12 [Cucumis sativus]	[more]
gi\|659089115\|ref\|XP_008445334.1\|	2.3e-56	94.83	PREDICTED: DNA-directed RNA polymerase I subunit RPA12-like [Cucumis melo]	[more]
gi\|821595252\|ref\|NP_001295812.1\|	7.8e-52	90.52	DNA-directed RNA polymerase I subunit RPA12 [Cucumis sativus]	[more]
gi\|1009135164\|ref\|XP_015884839.1\|	1.9e-42	72.41	PREDICTED: DNA-directed RNA polymerase I subunit RPA12 isoform X1 [Ziziphus juju...	[more]
gi\|1009135166\|ref\|XP_015884840.1\|	2.8e-41	71.55	PREDICTED: DNA-directed RNA polymerase I subunit RPA12 isoform X2 [Ziziphus juju...	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR001222	Znf_TFIIS

Vocabulary: **Biological Process**
Term	Definition
GO:0006351	transcription, DNA-templated

Vocabulary: **Molecular Function**
Term	Definition
GO:0003676	nucleic acid binding
GO:0008270	zinc ion 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
biological_process	GO:0006379	mRNA cleavage
cellular_component	GO:0005730	nucleolus
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0003899	DNA-directed RNA polymerase activity
molecular_function	GO:0003676	nucleic acid binding
molecular_function	GO:0008270	zinc ion binding

Relationships

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


Feature Name	Unique Name	Type
CmoCh05G003200.1	CmoCh05G003200.1	mRNA

InterPro

Analysis Name: InterPro Annotations of Cucurbita moschata
Date Performed: 2017-05-19


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR001222	Zinc finger, TFIIS-type	PFAM	PF01096	TFIIS_C	coord: 107..142 score: 1.2
IPR001222	Zinc finger, TFIIS-type	SMART	SM00440	Cys4_2	coord: 106..145 score: 3.7
IPR001222	Zinc finger, TFIIS-type	PROFILE	PS51133	ZF_TFIIS_2	coord: 104..144 score: 12
None	No IPR available	GENE3D	G3DSA:2.20.25.10		coord: 96..146 score: 3.9
None	No IPR available	PANTHER	PTHR11239	DNA-DIRECTED RNA POLYMERASE	coord: 19..146 score: 2.3
None	No IPR available	PANTHER	PTHR11239:SF14	DNA-DIRECTED RNA POLYMERASE I SUBUNIT RPA12	coord: 19..146 score: 2.3
None	No IPR available	unknown	SSF57783	Zinc beta-ribbon	coord: 85..146 score: 4.59

Synteny

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


Gene	Orthologue	Organism	Block
CmoCh05G003200	Cucsa.393870	Cucumber (Gy14) v1	cgycmoB1094
CmoCh05G003200	CmaCh05G003170	Cucurbita maxima (Rimu)	cmacmoB786
CmoCh05G003200	Csa2G345940	Cucumber (Chinese Long) v2	cmocuB780
CmoCh05G003200	MELO3C011355	Melon (DHL92) v3.5.1	cmomeB716
CmoCh05G003200	ClCG08G014170	Watermelon (Charleston Gray)	cmowcgB716
CmoCh05G003200	CSPI02G16700	Wild cucumber (PI 183967)	cmocpiB785
CmoCh05G003200	Lsi08G013060	Bottle gourd (USVL1VR-Ls)	cmolsiB731
CmoCh05G003200	Cp4.1LG11g02720	Cucurbita pepo (Zucchini)	cmocpeB720
CmoCh05G003200	MELO3C011355.2	Melon (DHL92) v3.6.1	cmomedB813
CmoCh05G003200	CsaV3_2G024260	Cucumber (Chinese Long) v3	cmocucB0921
CmoCh05G003200	Cla97C08G157730	Watermelon (97103) v2	cmowmbB802
CmoCh05G003200	Bhi04G000106	Wax gourd	cmowgoB0945
CmoCh05G003200	CsGy2G016690	Cucumber (Gy14) v2	cgybcmoB241
CmoCh05G003200	Carg09395	Silver-seed gourd	carcmoB0196

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CmoCh05G003200	Wax gourd	cmowgoB0956
CmoCh05G003200	Cucurbita maxima (Rimu)	cmacmoB483
CmoCh05G003200	Cucurbita moschata (Rifu)	cmocmoB033
CmoCh05G003200	Cucurbita moschata (Rifu)	cmocmoB156
CmoCh05G003200	Cucurbita moschata (Rifu)	cmocmoB369
CmoCh05G003200	Cucurbita maxima (Rimu)	cmacmoB064
CmoCh05G003200	Cucurbita maxima (Rimu)	cmacmoB199
CmoCh05G003200	Wild cucumber (PI 183967)	cmocpiB802
CmoCh05G003200	Melon (DHL92) v3.5.1	cmomeB732
CmoCh05G003200	Watermelon (97103) v1	cmowmB748
CmoCh05G003200	Cucurbita pepo (Zucchini)	cmocpeB727
CmoCh05G003200	Cucurbita pepo (Zucchini)	cmocpeB728
CmoCh05G003200	Cucurbita pepo (Zucchini)	cmocpeB750
CmoCh05G003200	Bottle gourd (USVL1VR-Ls)	cmolsiB710
CmoCh05G003200	Bottle gourd (USVL1VR-Ls)	cmolsiB705
CmoCh05G003200	Cucumber (Gy14) v2	cgybcmoB827
CmoCh05G003200	Cucumber (Gy14) v2	cgybcmoB951
CmoCh05G003200	Melon (DHL92) v3.6.1	cmomedB829
CmoCh05G003200	Silver-seed gourd	carcmoB1319
CmoCh05G003200	Cucumber (Chinese Long) v3	cmocucB0923
CmoCh05G003200	Cucumber (Chinese Long) v3	cmocucB0925
CmoCh05G003200	Cucumber (Chinese Long) v3	cmocucB0939
CmoCh05G003200	Watermelon (97103) v2	cmowmbB774
CmoCh05G003200	Watermelon (97103) v2	cmowmbB787