Cucsa.393870.1 (mRNA) Cucumber (Gy14) v1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Cucsa.393870.1
Type	mRNA
Organism	Cucumis sativus (Cucumber (Gy14) v1)
Description	DNA-directed RNA polymerase subunit
Location	scaffold04100 : 23106 .. 26913 (-)
Sequence length	581

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.

GCCCAACCCTATGTAATGGCGTATGGGAAAATAATGGAAAACCAAATTCTCTTGAAGGAAAAAAGAAAAGCAAAACCCTATTTTCTCACCTTCTAGCCCCAGGCCTTCGTGATTTTTCAGACTTACCTTTCTTGCTGGTTCGTCACCCGCCTCCGCCGCTCGTTACTGGATCTCGCCCCGACAAGTCGTCTCTAGGTAAAACAGTAAACCATATTCATCGTTTCTCTTCCATCAATGATCCACCGACCTTGGTGGCGATCATTTTGAATGAAATCGAAATTCTGATATCCGACTGTTGGCTTCCGTCCGCTTCCAATTTCCGCGCGGTTCGATGAATATCCACACATTCTAGAGGTCGGTTCGGTCCAGATTTCTTTTTCGAACCGGACCGACTTTGCAGTGCTGCTCCTTGGCCTCGAGGGTTCTAGCTTCCAAAACTCAAAACCCAGGATGATACCATCATGTTTTCACTCTTCTGCTTTAGCAAGTTTTCTCTAAGGTCGATCATTGATCCATATCTCCGACCATCTCTGCTTTCCTTGGCTAACTTTTCGACAAGAACTCTGTAAAAGCTCTTTCTCGAGCTTCATTCATTTTAGCAGAAATATTGAACTATAGAGGATATCTGGGCTAGTTCGAGGTTATCAAACCGATCAAATTGAGCTTTCTACTTGTTATCTTTCGGATATCTGAATGACCCATCTTAAGTTGTTATTTTGATACATTATGTTCGTTTTAGTCTATTGTGGGTATGAGTTTCTTCATGCTTTTCCATTGAGGTTTTAGTTTATTGACTGGTTCTAGGTTTTTTGAAATGGAAACAAATTTTGAGAATTGACTGGTTCTAGGTGAAGCTCCAATTGTTTACCCAAATCCCCTTTTTGCTATTACGATTCTACCACCCTTTTTAGTCTCAAATTTCCTGTCTTTTAGAGTGTTAGCAATTTTCTACTCTTACTTGCTGTACTTGAACTTCTTATGGTTATTCTAACTCTCTCTTTTTTTTCTTTTTTTTACTATGGACATTGTTAGGTAGGAAGCTATCGGGGAACCGGCAAGCACCACTCATGGCTTATTCTCGTGGACATGACTTCTTGTTTTGCAATTTGTGCGGAACCATGTTGTCGTTCTGCTCAACGAAATATGTTGAGTGTCCTTCGTGCAAGTCTAGGCGAAGTGCAAAAGGTGGCCATAAACATTGGACTTAAGCTTATTGCATTGTAGTGATTTACTTTTATTCTTTTGTTTTGGATAATTTAAACATTCCAACACTCATTACGTATATGAATAAGTTTTTAGTCTGGTATGTCTTGCTACACGTAAACTCTGTTTTTATCTGATTAAATTGTGGTTTAGTTTATTTCCCCTTCATATTTATACGAGTAAAATGTGAACTATCGCCTATTTTTCCATTTCCTATCTTGAGTTTCTGTATTTCTTTTTAATACTTTTACTAGAATAGACTGTGTCTGGGTTGTGCAGGTTGGTTGTTCTTAATCTATCAACTTCAATTTTTTTAAAAAAACTTATTGTAGATAGGAGAGTAAGAGTTTCTATATGGGAATTTGCAGCATCTTCTGCTTTGAGTGTTCAGCTTTGAAAACATGGTTTCTTACGCAACATCAGTGTTCATCTGTTTAACAGGAGTAGTAGTTTTTTGTTTGAGAAGGTTATTGCTGCGCTGATTGCTTATGCATTTTGGTTTGAATCAAAGCATAGATAAGTTGACTATCATTATTTTGATGAAAAGCTAGCTTCCATTAGGATGGATGATTGTAAAAAAAAAAAAAAAAACTATCTCAAATAGGACACAAAGAATCTTCCACTTAGAGTAAGCAGTTGAAGCCATCTGCGGATAAAAAAAGGGTGAAAGATAATCCCTTGATGTGGCCAAACCTTTCATTTAGTTTTTCTATTCAGAAAAGAACCAAGAAGTCCACAGACGAGAGTCATTCTTTAATTCATATTATCATTCTCTGCCAACACATTACCCCTGAGGATTGAATATAATTTGGAACGATACAGCAAAAGCCAGAGGAATTTTTGAGATGATTTTAGAGAGGATAGTTTTGAACCTATTTTCAAACATTTATCAAGAATTTTGTAAGAGCCCATGGCTAGGGAGGCTTGTGGGTCGGTTGCCTTTCACTGGTCATCCGTAGCCATAAAGGCAGTATAAATCTTGGAAAATTCACACCAAGAATTCCTTTCTTAAAGAAGCCTAGATGTTGACATGGTATCATGCTAGAGAGTATCCCACAGGAGTAGAAATAGCCGTTGGAACTTTATGCTAAATAAAAGCCTACAGGAGTAGAGAACCGGCTGTAAAAATAGAATTCCAACAAACCATTGAAGATTATGTCGTCCTCTCTGCTTAGTACAGTAGACTGCTGGGGCTTCGACTATTGGAGCCTTTGATTTCTTCTGAAACCTATTTTACTACTATGGATGACTTTTATAACTTTTCCATTAAAAATGCTAAAGGGAAAAAGAGATACCCTGAGAAGGTTAAATTCTCTGTTTGGGACGTTGATCTTTCAGATGTCCTCCCTCTCTCTGACTCAGTTATTTAACTAATCAGTTAGCTTCCTTTTACAAATAAGAACTGAACCTGTATCGTAGGTATAGAAATTAACATAAATACTGCTTAATAAGACTTCTACTCATCTCCTCATACACTATCGTTCTTGGTAGTATTGCGCCCAAGATGTGTGACAACTCATTTAAAATTTTCAGGCTGGTTACTCGTCTTATACAAGGGCCCAAGTGCCATCATGATTTCCCTTAATGGTATTCAATTATACATCTTGAAATTGGTGTTCTGAAGGGCGTATACCAAATTATTTTAGAAGTTGATGCTATGTTTTCGTGATTGGAGATATTGAAGTTGAGAAAATGCAATTGAGAAACTACTGTTGTAATATTTTAAGCACTCTTGTATTTGACATCTCTAACCGAATTTTTGTGGCTTATTTCAGAGATCGTCGGTAGAGAAATAAGTTACACAGTAACTGCTGAGGTATGTCTTTTAAATCATACACATTAATATGTTATCCCCATGCTTTCTAGGTCTAAGGCACAGTATCCTCTCTGCAACACGACCTTAGCAATGCTTTTAAACTTGAGCATTCTCTTATAATTTCTGCTACTTTTATGATGCTTTCTAGGATTGTTTCTGGATGAATTATTTGTAGATTGTGAGAAGGGCTTAAACAACTGTATAATGTTCTCTAGGTCCAGGCAAATCAATAAACCAGACCCTGGAAATTCTTATTCGGTCAACATCTGGAACTGTGAAAATTTTTAGTATTAGCAAACGTTCATAATGATCTATTATTGATACGATGCTCCCTTATGAGTTGTCTGATATCAAAGAAATGTTTCATTTTGAAATCCTCGTGTGGCAATTTGCAGGAAATTAGAAAGCAGTTGGGAATTTCATTAATTGATGAAGAGAAAATGCAGTTAGCAAAGGTAGTAGGAGAAAATAAGGTGTATGTATGGTATTCAATTTTGCTTGAGATACAGTCCACTAATATGAAGCTTTGTGATGTTTGGCAGGAAAGGAGAAGATGTGAAAAATGTGGAAATGATGAAGCTTGGTTTGAGAGCAGACAGGTACACTTTACAAACATTAACAAAATTAGAATTGTGGGTTATTTAGGGTTTATTTCTGTCTTTTCTTCCATTAGAAAGAGTAATAAGTTTGAGTGTGGTTTGAATAAAAATGCAGATGAGATCGGCTGATGAAGGCCAGACCACATTTTATACCTGCACTAAATGTCATCATCAGACTAGAGAGAATTGA

mRNA sequence

GCCCAACCCTATGTAATGGCGTATGGGAAAATAATGGAAAACCAAATTCTCTTGAAGGAAAAAAGAAAAGCAAAACCCTATTTTCTCACCTTCTAGCCCCAGGCCTTCGTGATTTTTCAGACTTACCTTTCTTGCTGGTTCGTCACCCGCCTCCGCCGCTCGTTACTGGATCTCGCCCCGACAAGTCGTCTCTAGGTAGGAAGCTATCGGGGAACCGGCAAGCACCACTCATGGCTTATTCTCGTGGACATGACTTCTTGTTTTGCAATTTGTGCGGAACCATGTTGTCGTTCTGCTCAACGAAATATGTTGAGTGTCCTTCGTGCAAGTCTAGGCGAAGTGCAAAAGAGATCGTCGGTAGAGAAATAAGTTACACAGTAACTGCTGAGGAAATTAGAAAGCAGTTGGGAATTTCATTAATTGATGAAGAGAAAATGCAGTTAGCAAAGGAAAGGAGAAGATGTGAAAAATGTGGAAATGATGAAGCTTGGTTTGAGAGCAGACAGATGAGATCGGCTGATGAAGGCCAGACCACATTTTATACCTGCACTAAATGTCATCATCAGACTAGAGAGAATTGA

Coding sequence (CDS)

GCCCAACCCTATGTAATGGCGTATGGGAAAATAATGGAAAACCAAATTCTCTTGAAGGAAAAAAGAAAAGCAAAACCCTATTTTCTCACCTTCTAGCCCCAGGCCTTCGTGATTTTTCAGACTTACCTTTCTTGCTGGTTCGTCACCCGCCTCCGCCGCTCGTTACTGGATCTCGCCCCGACAAGTCGTCTCTAGGTAGGAAGCTATCGGGGAACCGGCAAGCACCACTCATGGCTTATTCTCGTGGACATGACTTCTTGTTTTGCAATTTGTGCGGAACCATGTTGTCGTTCTGCTCAACGAAATATGTTGAGTGTCCTTCGTGCAAGTCTAGGCGAAGTGCAAAAGAGATCGTCGGTAGAGAAATAAGTTACACAGTAACTGCTGAGGAAATTAGAAAGCAGTTGGGAATTTCATTAATTGATGAAGAGAAAATGCAGTTAGCAAAGGAAAGGAGAAGATGTGAAAAATGTGGAAATGATGAAGCTTGGTTTGAGAGCAGACAGATGAGATCGGCTGATGAAGGCCAGACCACATTTTATACCTGCACTAAATGTCATCATCAGACTAGAGAGAATTGA

Protein sequence

PTLCNGVWENNGKPNSLEGKKKSKTLFSHLLAPGLRDFSDLPFLLVRHPPPPLVTGSRPDKSSLGRKLSGNRQAPLMAYSRGHDFLFCNLCGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLGISLIDEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN*

Homology

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BLAST of Cucsa.393870.1 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: 74.3 bits (181), Expect = 1.6e-12
Identity = 37/110 (33.64%), Postives = 61/110 (55.45%), Query Frame = 1


Query: 84  DFLFCNLCGTMLSFCSTK-YVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLGISLIDE 143
           D  FC+ CG++L     +  V C  C    + ++  G+ +  +V   ++   + +S+ + 
Sbjct: 16  DLDFCSDCGSVLPLPGAQDTVTCTRCGFNINVRDFEGKVVKTSVVFHQLGTAMPMSVEEG 75

Query: 144 EKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 193
            + Q     RRC +CG++   + +RQMRSADEGQT FYTCT C  Q +E+
Sbjct: 76  PECQGPVVDRRCPRCGHEGMAYHTRQMRSADEGQTVFYTCTNCKFQEKED 125

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BLAST of Cucsa.393870.1 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: 73.9 bits (180), Expect = 2.1e-12
Identity = 37/110 (33.64%), Postives = 60/110 (54.55%), Query Frame = 1


Query: 84  DFLFCNLCGTMLSFCSTK-YVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLGISLIDE 143
           D  FC  CG++L     +  V C  C    + ++  G+ +  +V   ++   + +S+ + 
Sbjct: 13  DLDFCPDCGSVLPLPGVQDAVACTRCGFSINVRDFEGKVVKTSVVFNKLGTAMPLSMEEG 72

Query: 144 EKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 193
            + Q     RRC +CG++   + +RQMRSADEGQT FYTCT C  Q +E+
Sbjct: 73  PEFQGPVVDRRCSRCGHEGMAYHTRQMRSADEGQTVFYTCTNCKFQEKED 122

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BLAST of Cucsa.393870.1 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: 73.6 bits (179), Expect = 2.7e-12
Identity = 37/110 (33.64%), Postives = 61/110 (55.45%), Query Frame = 1


Query: 84  DFLFCNLCGTMLSFCSTK-YVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLGISLIDE 143
           D  FC+ CG++L     +  V C  C    + ++  G+ +  +V   ++   + +S+ + 
Sbjct: 16  DLDFCSDCGSVLPLPGAQDTVTCIRCGFNINVRDFEGKVVKTSVVFHQLGTAMPMSVEEG 75

Query: 144 EKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 193
            + Q     RRC +CG++   + +RQMRSADEGQT FYTCT C  Q +E+
Sbjct: 76  PECQGPVVDRRCPRCGHEGMAYHTRQMRSADEGQTVFYTCTNCKFQEKED 125

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BLAST of Cucsa.393870.1 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: 73.6 bits (179), Expect = 2.7e-12
Identity = 37/110 (33.64%), Postives = 61/110 (55.45%), Query Frame = 1


Query: 84  DFLFCNLCGTMLSFCSTK-YVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLGISLIDE 143
           D  FC+ CG++L     +  V C  C    + ++  G+ +  +V   ++   + +S+ + 
Sbjct: 16  DLDFCSDCGSVLPLPGAQDTVTCIRCGFNINVRDFEGKVVKTSVVFHQLGTAMPMSVEEG 75

Query: 144 EKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 193
            + Q     RRC +CG++   + +RQMRSADEGQT FYTCT C  Q +E+
Sbjct: 76  PECQGPVVDRRCPRCGHEGMAYHTRQMRSADEGQTVFYTCTNCKFQEKED 125

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BLAST of Cucsa.393870.1 vs. Swiss-Prot
Match: RPA12_SCHPO (DNA-directed RNA polymerase I subunit RPA12 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpa12 PE=3 SV=1)

HSP 1 Score: 72.4 bits (176), Expect = 6.1e-12
Identity = 34/111 (30.63%), Postives = 58/111 (52.25%), Query Frame = 1


Query: 86  LFCNLCGTMLSFCSTKYVECPSCKS----RRSAKEIVGREISYTVTAEEIRKQLGISLID 145
           +FC+ CG +L   + ++  C  C+S     + A  +V  + S +     ++ +  I  ++
Sbjct: 8   IFCSECGNLLESTTAQWTTCDQCQSVYPSEQFANLVVETKSSASAFPSALKLKHSIVQVE 67

Query: 146 EEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 193
            +K + A    +C KCGND   F + Q+RSADEG T FY C +C ++   N
Sbjct: 68  SQKEEAATIEEKCPKCGNDHMTFHTLQLRSADEGSTVFYECPRCAYKFSTN 118

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BLAST of Cucsa.393870.1 vs. TrEMBL
Match: A0A0A0LKC4_CUCSA (DNA-directed RNA polymerase subunit OS=Cucumis sativus GN=Csa_2G345940 PE=3 SV=1)

HSP 1 Score: 246.9 bits (629), Expect = 2.0e-62
Identity = 116/116 (100.00%), Postives = 116/116 (100.00%), Query Frame = 1


Query: 77  MAYSRGHDFLFCNLCGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLG 136
           MAYSRGHDFLFCNLCGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLG
Sbjct: 1   MAYSRGHDFLFCNLCGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLG 60

Query: 137 ISLIDEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 193
           ISLIDEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN
Sbjct: 61  ISLIDEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 116

[Close]

BLAST of Cucsa.393870.1 vs. TrEMBL
Match: B3FNK6_CUCSA (DNA-directed RNA polymerase subunit OS=Cucumis sativus PE=2 SV=1)

HSP 1 Score: 227.6 bits (579), Expect = 1.3e-56
Identity = 109/116 (93.97%), Postives = 111/116 (95.69%), Query Frame = 1


Query: 77  MAYSRGHDFLFCNLCGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLG 136
           MAYSRGHDFLFCNL GTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEI+KQLG
Sbjct: 1   MAYSRGHDFLFCNLGGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIKKQLG 60

Query: 137 ISLIDEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 193
           ISLIDE  MQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTC+KC  QTREN
Sbjct: 61  ISLIDENNMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCSKCLPQTREN 116

[Close]

BLAST of Cucsa.393870.1 vs. TrEMBL
Match: G7JQD3_MEDTR (DNA-directed RNA polymerase subunit OS=Medicago truncatula GN=MTR_3g102420 PE=3 SV=1)

HSP 1 Score: 164.1 bits (414), Expect = 1.7e-37
Identity = 74/114 (64.91%), Postives = 95/114 (83.33%), Query Frame = 1


Query: 79  YSRGHDFLFCNLCGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLGIS 138
           YSRG DFLFC+LCGTML+  ST Y  CP CK++ + K+I G+EISYT++AE+IR++LGI 
Sbjct: 2   YSRGRDFLFCHLCGTMLTVPSTDYALCPLCKTKCNIKDIKGKEISYTISAEDIRRELGID 61

Query: 139 LIDEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 193
           LI+E+K+QL+K  + CEKCG+ EA F +RQMRSADEGQTTFYTCT+C HQ +EN
Sbjct: 62  LIEEQKVQLSKVNKTCEKCGHGEAAFYTRQMRSADEGQTTFYTCTRCGHQFQEN 115

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BLAST of Cucsa.393870.1 vs. TrEMBL
Match: A0A151TUW7_CAJCA (DNA-directed RNA polymerase subunit OS=Cajanus cajan GN=KK1_010091 PE=3 SV=1)

HSP 1 Score: 160.6 bits (405), Expect = 1.9e-36
Identity = 74/116 (63.79%), Postives = 98/116 (84.48%), Query Frame = 1


Query: 77  MAYSRGHDFLFCNLCGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLG 136
           MA SR  DFLFCNLCGT+L+  ST+Y +CP CK+RR+ + I  REISYT+ AE+IR++LG
Sbjct: 1   MASSR-LDFLFCNLCGTLLTVPSTEYAQCPLCKTRRNIQHIRDREISYTIYAEDIRRELG 60

Query: 137 ISLIDEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 193
           + +I+E+K+QL+K  ++CEKCG+DEA F +RQMRSADEGQTTFYTCT+C HQ++EN
Sbjct: 61  MEVIEEQKVQLSKVNKKCEKCGHDEANFYTRQMRSADEGQTTFYTCTRCGHQSQEN 115

[Close]

BLAST of Cucsa.393870.1 vs. TrEMBL
Match: V7CX97_PHAVU (DNA-directed RNA polymerase subunit OS=Phaseolus vulgaris GN=PHAVU_001G175600g PE=3 SV=1)

HSP 1 Score: 152.1 bits (383), Expect = 6.7e-34
Identity = 70/116 (60.34%), Postives = 95/116 (81.90%), Query Frame = 1


Query: 77  MAYSRGHDFLFCNLCGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLG 136
           MA SR  DFLFC+LCGTML+  +++Y  CP CK+ R  ++I  +EI YT+ AE+IR++LG
Sbjct: 1   MASSR-LDFLFCHLCGTMLTVPNSEYAVCPLCKTLRDIQDIRDKEIGYTIYAEDIRRELG 60

Query: 137 ISLIDEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 193
           I +I+E+K+QL+K  ++CEKCG+DEA F +RQMRSADEGQTTFYTCT+C HQ++EN
Sbjct: 61  IEIIEEQKVQLSKVNKKCEKCGHDEANFYTRQMRSADEGQTTFYTCTRCGHQSQEN 115

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BLAST of Cucsa.393870.1 vs. TAIR10
Match: AT3G25940.1 (AT3G25940.1 TFIIB zinc-binding protein)

HSP 1 Score: 138.7 bits (348), Expect = 3.9e-33
Identity = 66/118 (55.93%), Postives = 87/118 (73.73%), Query Frame = 1


Query: 77  MAYSRGHDFLFCNLCGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLG 136
           M  SR  +FLFCNLCGTML   STKY ECP CK+ R+AK+I+ +EI+YTV+AE+IR++LG
Sbjct: 1   MEKSRESEFLFCNLCGTMLVLKSTKYAECPHCKTTRNAKDIIDKEIAYTVSAEDIRRELG 60

Query: 137 ISLIDEE---KMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTRE 192
           ISL  E+   + +L K ++ CEKC + E  + +RQ RSADEGQTT+YTC  C H+  E
Sbjct: 61  ISLFGEKTQAEAELPKIKKACEKCQHPELVYTTRQTRSADEGQTTYYTCPNCAHRFTE 118

[Close]

BLAST of Cucsa.393870.1 vs. TAIR10
Match: AT1G20065.2 (AT1G20065.2 FUNCTIONS IN: molecular_function unknown)

HSP 1 Score: 70.1 bits (170), Expect = 1.7e-12
Identity = 31/53 (58.49%), Postives = 38/53 (71.70%), Query Frame = 1


Query: 77  MAYSRGHDFLFCNLCGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAE 130
           M  SR  D LFCNLCGTML   STKY ECP C++ R+ KEI+ + ++YTVT E
Sbjct: 1   MEKSRESDILFCNLCGTMLVLKSTKYAECPLCETTRNGKEIIDKNLAYTVTTE 53

[Close]

BLAST of Cucsa.393870.1 vs. TAIR10
Match: AT1G01210.1 (AT1G01210.1 DNA-directed RNA polymerase, subunit M, archaeal)

HSP 1 Score: 58.2 bits (139), Expect = 6.7e-09
Identity = 35/114 (30.70%), Postives = 55/114 (48.25%), Query Frame = 1


Query: 87  FCNLCGTMLS---------FCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLGI 146
           FC  CG +L          FCST    CP     +   EI  +++        ++K +  
Sbjct: 3   FCPTCGNLLRYEGGGNSRFFCST----CPYVAYIQRQVEIKKKQLL-------VKKSIEA 62

Query: 147 SLIDEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTRE 192
            +  ++    A+    C +CG+D+A+F+S Q+RSADE ++ FY C KC    RE
Sbjct: 63  VVTKDDIPTAAETEAPCPRCGHDKAYFKSMQIRSADEPESRFYRCLKCEFTWRE 105

[Close]

BLAST of Cucsa.393870.1 vs. TAIR10
Match: AT4G07950.1 (AT4G07950.1 DNA-directed RNA polymerase, subunit M, archaeal)

HSP 1 Score: 58.2 bits (139), Expect = 6.7e-09
Identity = 35/114 (30.70%), Postives = 55/114 (48.25%), Query Frame = 1


Query: 87  FCNLCGTMLS---------FCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLGI 146
           FC  CG +L          FCST    CP   +     EI  +++        ++K +  
Sbjct: 3   FCPTCGNLLRYEGGGSSRFFCST----CPYVANIERRVEIKKKQLL-------VKKSIEP 62

Query: 147 SLIDEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTRE 192
            +  ++    A+    C +CG+D+A+F+S Q+RSADE ++ FY C KC    RE
Sbjct: 63  VVTKDDIPTAAETEAPCPRCGHDKAYFKSMQIRSADEPESRFYRCLKCEFTWRE 105

[Close]

BLAST of Cucsa.393870.1 vs. NCBI nr
Match: gi|449450514|ref|XP_004143007.1| (PREDICTED: DNA-directed RNA polymerase I subunit RPA12 [Cucumis sativus])

HSP 1 Score: 246.9 bits (629), Expect = 2.9e-62
Identity = 116/116 (100.00%), Postives = 116/116 (100.00%), Query Frame = 1


Query: 77  MAYSRGHDFLFCNLCGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLG 136
           MAYSRGHDFLFCNLCGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLG
Sbjct: 1   MAYSRGHDFLFCNLCGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLG 60

Query: 137 ISLIDEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 193
           ISLIDEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN
Sbjct: 61  ISLIDEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 116

[Close]

BLAST of Cucsa.393870.1 vs. NCBI nr
Match: gi|659089115|ref|XP_008445334.1| (PREDICTED: DNA-directed RNA polymerase I subunit RPA12-like [Cucumis melo])

HSP 1 Score: 238.0 bits (606), Expect = 1.3e-59
Identity = 112/116 (96.55%), Postives = 113/116 (97.41%), Query Frame = 1


Query: 77  MAYSRGHDFLFCNLCGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLG 136
           MAYSRGHDFLFCNLCGTMLSFCSTKYVECP CKS+RSAKEI GREISYTVTAEEIRKQLG
Sbjct: 1   MAYSRGHDFLFCNLCGTMLSFCSTKYVECPLCKSKRSAKEINGREISYTVTAEEIRKQLG 60

Query: 137 ISLIDEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 193
           ISLI EEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN
Sbjct: 61  ISLIGEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 116

[Close]

BLAST of Cucsa.393870.1 vs. NCBI nr
Match: gi|821595252|ref|NP_001295812.1| (DNA-directed RNA polymerase I subunit RPA12 [Cucumis sativus])

HSP 1 Score: 227.6 bits (579), Expect = 1.8e-56
Identity = 109/116 (93.97%), Postives = 111/116 (95.69%), Query Frame = 1


Query: 77  MAYSRGHDFLFCNLCGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLG 136
           MAYSRGHDFLFCNL GTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEI+KQLG
Sbjct: 1   MAYSRGHDFLFCNLGGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIKKQLG 60

Query: 137 ISLIDEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 193
           ISLIDE  MQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTC+KC  QTREN
Sbjct: 61  ISLIDENNMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCSKCLPQTREN 116

[Close]

BLAST of Cucsa.393870.1 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: 182.6 bits (462), Expect = 6.7e-43
Identity = 82/116 (70.69%), Postives = 102/116 (87.93%), Query Frame = 1


Query: 77  MAYSRGHDFLFCNLCGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLG 136
           MAYS G DFLFCNLCGT+L+F STK+ +CP CKS++  K+I+GREISYTVTAE+IR++LG
Sbjct: 1   MAYSHGRDFLFCNLCGTVLAFGSTKHAQCPLCKSKQKLKDIIGREISYTVTAEDIRRELG 60

Query: 137 ISLIDEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 193
           I LI EEK++L+K +RRCEKCG+DEA + +RQMRSADEGQTTFYTCTKC HQ ++N
Sbjct: 61  IVLIGEEKVELSKIKRRCEKCGHDEASYYTRQMRSADEGQTTFYTCTKCQHQFQDN 116

[Close]

BLAST of Cucsa.393870.1 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: 178.7 bits (452), Expect = 9.6e-42
Identity = 81/116 (69.83%), Postives = 101/116 (87.07%), Query Frame = 1


Query: 77  MAYSRGHDFLFCNLCGTMLSFCSTKYVECPSCKSRRSAKEIVGREISYTVTAEEIRKQLG 136
           MAYS G DFLFCNL GT+L+F STK+ +CP CKS++  K+I+GREISYTVTAE+IR++LG
Sbjct: 1   MAYSHGRDFLFCNLVGTVLAFGSTKHAQCPLCKSKQKLKDIIGREISYTVTAEDIRRELG 60

Query: 137 ISLIDEEKMQLAKERRRCEKCGNDEAWFESRQMRSADEGQTTFYTCTKCHHQTREN 193
           I LI EEK++L+K +RRCEKCG+DEA + +RQMRSADEGQTTFYTCTKC HQ ++N
Sbjct: 61  IVLIGEEKVELSKIKRRCEKCGHDEASYYTRQMRSADEGQTTFYTCTKCQHQFQDN 116

The following BLAST results are available for this feature:

BLAST of Cucsa.393870.1 vs. Swiss-Prot


Match Name	E-value	Identity	Description
RPA12_MACMU	1.6e-12	33.64	DNA-directed RNA polymerase I subunit RPA12 OS=Macaca mulatta GN=ZNRD1 PE=3 SV=1	[more]
RPA12_BOVIN	2.1e-12	33.64	DNA-directed RNA polymerase I subunit RPA12 OS=Bos taurus GN=ZNRD1 PE=2 SV=1	[more]
RPA12_PANTR	2.7e-12	33.64	DNA-directed RNA polymerase I subunit RPA12 OS=Pan troglodytes GN=ZNRD1 PE=3 SV=...	[more]
RPA12_HUMAN	2.7e-12	33.64	DNA-directed RNA polymerase I subunit RPA12 OS=Homo sapiens GN=ZNRD1 PE=2 SV=1	[more]
RPA12_SCHPO	6.1e-12	30.63	DNA-directed RNA polymerase I subunit RPA12 OS=Schizosaccharomyces pombe (strain...	[more]

BLAST of Cucsa.393870.1 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0LKC4_CUCSA	2.0e-62	100.00	DNA-directed RNA polymerase subunit OS=Cucumis sativus GN=Csa_2G345940 PE=3 SV=1	[more]
B3FNK6_CUCSA	1.3e-56	93.97	DNA-directed RNA polymerase subunit OS=Cucumis sativus PE=2 SV=1	[more]
G7JQD3_MEDTR	1.7e-37	64.91	DNA-directed RNA polymerase subunit OS=Medicago truncatula GN=MTR_3g102420 PE=3 ...	[more]
A0A151TUW7_CAJCA	1.9e-36	63.79	DNA-directed RNA polymerase subunit OS=Cajanus cajan GN=KK1_010091 PE=3 SV=1	[more]
V7CX97_PHAVU	6.7e-34	60.34	DNA-directed RNA polymerase subunit OS=Phaseolus vulgaris GN=PHAVU_001G175600g P...	[more]

BLAST of Cucsa.393870.1 vs. TAIR10


Match Name	E-value	Identity	Description
AT3G25940.1	3.9e-33	55.93	TFIIB zinc-binding protein	[more]
AT1G20065.2	1.7e-12	58.49	FUNCTIONS IN: molecular_function unknown	[more]
AT1G01210.1	6.7e-09	30.70	DNA-directed RNA polymerase, subunit M, archaeal	[more]
AT4G07950.1	6.7e-09	30.70	DNA-directed RNA polymerase, subunit M, archaeal	[more]

BLAST of Cucsa.393870.1 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|449450514\|ref\|XP_004143007.1\|	2.9e-62	100.00	PREDICTED: DNA-directed RNA polymerase I subunit RPA12 [Cucumis sativus]	[more]
gi\|659089115\|ref\|XP_008445334.1\|	1.3e-59	96.55	PREDICTED: DNA-directed RNA polymerase I subunit RPA12-like [Cucumis melo]	[more]
gi\|821595252\|ref\|NP_001295812.1\|	1.8e-56	93.97	DNA-directed RNA polymerase I subunit RPA12 [Cucumis sativus]	[more]
gi\|1009135164\|ref\|XP_015884839.1\|	6.7e-43	70.69	PREDICTED: DNA-directed RNA polymerase I subunit RPA12 isoform X1 [Ziziphus juju...	[more]
gi\|1009135166\|ref\|XP_015884840.1\|	9.6e-42	69.83	PREDICTED: DNA-directed RNA polymerase I subunit RPA12 isoform X2 [Ziziphus juju...	[more]

Annotated Terms

The following terms have been associated with this mRNA:

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 mRNA is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006351	transcription, DNA-templated
biological_process	GO:0006144	purine nucleobase metabolic process
biological_process	GO:0006206	pyrimidine nucleobase metabolic process
cellular_component	GO:0005730	nucleolus
molecular_function	GO:0003676	nucleic acid binding
molecular_function	GO:0008270	zinc ion binding
molecular_function	GO:0003899	DNA-directed RNA polymerase activity

Relationships

This mRNA is a part of the following gene feature(s):


Feature Name	Unique Name	Type
Cucsa.393870	Cucsa.393870	gene

The following polypeptide feature(s) derives from this mRNA:


Feature Name	Unique Name	Type
Cucsa.393870.1	Cucsa.393870.1-protein	polypeptide

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


Feature Name	Unique Name	Type
Cucsa.393870.1.CDS.6	Cucsa.393870.1.CDS.6	CDS
Cucsa.393870.1.CDS.5	Cucsa.393870.1.CDS.5	CDS
Cucsa.393870.1.CDS.4	Cucsa.393870.1.CDS.4	CDS
Cucsa.393870.1.CDS.3	Cucsa.393870.1.CDS.3	CDS
Cucsa.393870.1.CDS.2	Cucsa.393870.1.CDS.2	CDS
Cucsa.393870.1.CDS.1	Cucsa.393870.1.CDS.1	CDS

InterPro

Analysis Name: InterPro Annotations of cucumber (Gy14)
Date Performed: 2017-01-17


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR001222	Zinc finger, TFIIS-type	PFAM	PF01096	TFIIS_C	coord: 153..188 score: 1.9
IPR001222	Zinc finger, TFIIS-type	SMART	SM00440	Cys4_2	coord: 152..191 score: 3.7
IPR001222	Zinc finger, TFIIS-type	PROFILE	PS51133	ZF_TFIIS_2	coord: 150..190 score: 12
None	No IPR available	GENE3D	G3DSA:2.20.25.10		coord: 142..192 score: 4.9
None	No IPR available	PANTHER	PTHR11239	DNA-DIRECTED RNA POLYMERASE	coord: 84..192 score: 1.2
None	No IPR available	PANTHER	PTHR11239:SF14	DNA-DIRECTED RNA POLYMERASE I SUBUNIT RPA12	coord: 84..192 score: 1.2
None	No IPR available	unknown	SSF57783	Zinc beta-ribbon	coord: 131..192 score: 9.64