CaUC07G131610 (gene) Watermelon (USVL246-FR2) v1

Overview
NameCaUC07G131610
Typegene
OrganismCitrullus amarus (Watermelon (USVL246-FR2) v1)
DescriptionDNA-directed RNA polymerase subunit beta'
LocationCiama_Chr07: 16211279 .. 16211901 (-)
RNA-Seq ExpressionCaUC07G131610
SyntenyCaUC07G131610
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

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

mRNA sequence

ATGATCGATCGGTATAAACATCAACAACTCCGAATTGGATTAGTTTCTCCTCAACAAATAAGTGCTTGGGCCAATAAAACCCTACCTAATGGCGAGATAGTTGGAGAGATTCGAAATTTTGTGAACAATGCGGAGTCGAATTTGTTGATTCTCGGATACGAAGATATCAAATGGGCTATATTAAACTGGCATGCCCAATTCAGAATGAGAAACTGTCATCCCATTCAATCGAATTGGGATGCCCCGGATCTGACATGTGGCTTGCTTGGTAGGAGTAACATGAAGCTCAGAATTTTGGGTGTAGTTAATACTCCCATCCCAAATAAAAGGGGAATTGGTCTATGGTCGATTCAGTAA

Coding sequence (CDS)

ATGATCGATCGGTATAAACATCAACAACTCCGAATTGGATTAGTTTCTCCTCAACAAATAAGTGCTTGGGCCAATAAAACCCTACCTAATGGCGAGATAGTTGGAGAGATTCGAAATTTTGTGAACAATGCGGAGTCGAATTTGTTGATTCTCGGATACGAAGATATCAAATGGGCTATATTAAACTGGCATGCCCAATTCAGAATGAGAAACTGTCATCCCATTCAATCGAATTGGGATGCCCCGGATCTGACATGTGGCTTGCTTGGTAGGAGTAACATGAAGCTCAGAATTTTGGGTGTAGTTAATACTCCCATCCCAAATAAAAGGGGAATTGGTCTATGGTCGATTCAGTAA

Protein sequence

MIDRYKHQQLRIGLVSPQQISAWANKTLPNGEIVGEIRNFVNNAESNLLILGYEDIKWAILNWHAQFRMRNCHPIQSNWDAPDLTCGLLGRSNMKLRILGVVNTPIPNKRGIGLWSIQ
Homology
[Close]
BLAST of CaUC07G131610 vs. NCBI nr
Match: ERM98365.1 (hypothetical protein AMTR_s01499p00009870 [Amborella trichopoda])

HSP 1 Score: 101.3 bits (251), Expect = 5.9e-18
Identity = 56/112 (50.00%), Postives = 59/112 (52.68%), Query Frame = 0 

Query: 1   MIDRYKHQQLRIGLVSPQQISAWANKTLPNGEIVGEI----------------------- 60
           MIDRYKHQQLRIGLVSPQQ +AWANK LPNGE+VGE+                       
Sbjct: 240 MIDRYKHQQLRIGLVSPQQRTAWANKILPNGEMVGEVTKPYTFHYKSNKPEKDGLFCERI 299

Query: 61  -----------------------RNFVNNAESNLLILGYEDIKWAILNWHAQ 67
                                  RNFVNNAE NLLILGYEDIKW   NWH Q
Sbjct: 300 FGPIKSGICACGNYGVIGDEKKTRNFVNNAELNLLILGYEDIKWDTSNWHVQ 351

[Close]
BLAST of CaUC07G131610 vs. NCBI nr
Match: KAG8363203.1 (hypothetical protein BUALT_BualtPtG0001100 [Buddleja alternifolia])

HSP 1 Score: 95.9 bits (237), Expect = 2.5e-16
Identity = 55/105 (52.38%), Postives = 61/105 (58.10%), Query Frame = 0 

Query: 1   MIDRYKHQQLRIGLVSPQQISAWANKTLPNGEIVGEIRNFVNNAESNLLILGYEDIKWAI 60
           MIDRYKHQQLRIGLVSP+QISAWA K LPNGEIVGEIRN                     
Sbjct: 1   MIDRYKHQQLRIGLVSPEQISAWATKILPNGEIVGEIRN--------------------- 60

Query: 61  LNWHAQFRMRNCHPIQSNWDAPDLTCGLLGRSNMKLRILGVVNTP 106
                  +  +  PIQ      D++   LG+SNMKLRI GVVNTP
Sbjct: 61  -------KKLSSQPIQLGCPGSDMS---LGKSNMKLRIRGVVNTP 74

[Close]
BLAST of CaUC07G131610 vs. NCBI nr
Match: YP_004221914.1 (RNA polymerase beta [Erodium carvifolium] >ADU58138.1 RNA polymerase beta [Erodium carvifolium])

HSP 1 Score: 95.5 bits (236), Expect = 3.2e-16
Identity = 55/114 (48.25%), Postives = 57/114 (50.00%), Query Frame = 0 

Query: 1   MIDRYKHQQLRIGLVSPQQISAWANKTLPNGEIVGEI----------------------- 60
           MIDRYKHQQLRIGLVSPQQISAWANKTLPNGEIVGE+                       
Sbjct: 1   MIDRYKHQQLRIGLVSPQQISAWANKTLPNGEIVGEVTEIEHVQWETNKPKIGGFFCERI 60

Query: 61  --------------------------RNFVNNAESNLLILGYEDIKWAILNWHA 66
                                      +F   AESNL IL YEDIKWA  NWHA
Sbjct: 61  FGPIKSGICACGIYGKFGDQKEKKKKEHFAATAESNLRILEYEDIKWATSNWHA 114

[Close]
BLAST of CaUC07G131610 vs. NCBI nr
Match: RZC47501.1 (hypothetical protein C5167_040464 [Papaver somniferum])

HSP 1 Score: 92.0 bits (227), Expect = 3.6e-15
Identity = 39/53 (73.58%), Postives = 44/53 (83.02%), Query Frame = 0 

Query: 38  RNFVNNAESNLLILGYEDIKWAILNWHAQFRMRNCHPIQSNWDAPDLTCGLLG 91
           RNFVNNAES+LLILGYEDIKW   NWHAQ  +RNCHPI S+WDA  LTC ++G
Sbjct: 677 RNFVNNAESSLLILGYEDIKWDTSNWHAQLGLRNCHPIHSDWDALTLTCLVVG 729

[Close]
BLAST of CaUC07G131610 vs. NCBI nr
Match: KAG8387966.1 (hypothetical protein BUALT_Bualt02G0076100 [Buddleja alternifolia])

HSP 1 Score: 89.7 bits (221), Expect = 1.8e-14
Identity = 40/51 (78.43%), Postives = 43/51 (84.31%), Query Frame = 0 

Query: 38 RNFVNNAESNLLILGYEDIKWAILNWHAQFRMRNCHPIQSNWDAPDLTCGL 89
          +NFVNNAESNLLIL +EDIKWA  N HAQF +RNCHP QSNWDA DLTC L
Sbjct: 6  QNFVNNAESNLLILRFEDIKWATSNSHAQFGIRNCHPSQSNWDALDLTCHL 56

[Close]
BLAST of CaUC07G131610 vs. ExPASy Swiss-Prot
Match: Q4VZP2 (DNA-directed RNA polymerase subunit beta' OS=Cucumis sativus OX=3659 GN=rpoC1 PE=3 SV=3)

HSP 1 Score: 79.0 bits (193), Expect = 4.1e-14
Identity = 36/37 (97.30%), Postives = 37/37 (100.00%), Query Frame = 0 

Query: 1  MIDRYKHQQLRIGLVSPQQISAWANKTLPNGEIVGEI 38
          MIDRYKHQQLRIGLVSPQQISAWANKTLPNGEIVGE+
Sbjct: 1  MIDRYKHQQLRIGLVSPQQISAWANKTLPNGEIVGEV 37

[Close]
BLAST of CaUC07G131610 vs. ExPASy Swiss-Prot
Match: A6MM27 (DNA-directed RNA polymerase subunit beta' OS=Buxus microphylla OX=153571 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 76.6 bits (187), Expect = 2.0e-13
Identity = 35/37 (94.59%), Postives = 36/37 (97.30%), Query Frame = 0 

Query: 1  MIDRYKHQQLRIGLVSPQQISAWANKTLPNGEIVGEI 38
          MIDRYKHQQLRIGLVSPQQISAWANK LPNGEIVGE+
Sbjct: 1  MIDRYKHQQLRIGLVSPQQISAWANKILPNGEIVGEV 37

[Close]
BLAST of CaUC07G131610 vs. ExPASy Swiss-Prot
Match: B1A926 (DNA-directed RNA polymerase subunit beta' OS=Carica papaya OX=3649 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 75.5 bits (184), Expect = 4.5e-13
Identity = 34/37 (91.89%), Postives = 36/37 (97.30%), Query Frame = 0 

Query: 1  MIDRYKHQQLRIGLVSPQQISAWANKTLPNGEIVGEI 38
          MIDRYKHQQLRIGLVSPQQISAWAN+ LPNGEIVGE+
Sbjct: 1  MIDRYKHQQLRIGLVSPQQISAWANRILPNGEIVGEV 37

[Close]
BLAST of CaUC07G131610 vs. ExPASy Swiss-Prot
Match: A7M957 (DNA-directed RNA polymerase subunit beta' OS=Cuscuta reflexa OX=4129 GN=rpoC1 PE=2 SV=2)

HSP 1 Score: 75.5 bits (184), Expect = 4.5e-13
Identity = 34/38 (89.47%), Postives = 36/38 (94.74%), Query Frame = 0 

Query: 1  MIDRYKHQQLRIGLVSPQQISAWANKTLPNGEIVGEIR 39
          MIDRYKHQQLRIGLVSPQQISAWA K LPNGEIVGE++
Sbjct: 8  MIDRYKHQQLRIGLVSPQQISAWATKILPNGEIVGEVK 45

[Close]
BLAST of CaUC07G131610 vs. ExPASy Swiss-Prot
Match: P60287 (DNA-directed RNA polymerase subunit beta' OS=Amborella trichopoda OX=13333 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 74.3 bits (181), Expect = 1.0e-12
Identity = 33/37 (89.19%), Postives = 36/37 (97.30%), Query Frame = 0 

Query: 1  MIDRYKHQQLRIGLVSPQQISAWANKTLPNGEIVGEI 38
          MIDRYKHQQLRIGLVSPQQI+AWANK LPNGE+VGE+
Sbjct: 1  MIDRYKHQQLRIGLVSPQQITAWANKILPNGEMVGEV 37

[Close]
BLAST of CaUC07G131610 vs. ExPASy TrEMBL
Match: U5CL83 (DNA-directed RNA polymerase OS=Amborella trichopoda OX=13333 GN=AMTR_s01499p00009870 PE=3 SV=1)

HSP 1 Score: 101.3 bits (251), Expect = 2.9e-18
Identity = 56/112 (50.00%), Postives = 59/112 (52.68%), Query Frame = 0 

Query: 1   MIDRYKHQQLRIGLVSPQQISAWANKTLPNGEIVGEI----------------------- 60
           MIDRYKHQQLRIGLVSPQQ +AWANK LPNGE+VGE+                       
Sbjct: 240 MIDRYKHQQLRIGLVSPQQRTAWANKILPNGEMVGEVTKPYTFHYKSNKPEKDGLFCERI 299

Query: 61  -----------------------RNFVNNAESNLLILGYEDIKWAILNWHAQ 67
                                  RNFVNNAE NLLILGYEDIKW   NWH Q
Sbjct: 300 FGPIKSGICACGNYGVIGDEKKTRNFVNNAELNLLILGYEDIKWDTSNWHVQ 351

[Close]
BLAST of CaUC07G131610 vs. ExPASy TrEMBL
Match: E9NV88 (DNA-directed RNA polymerase subunit beta' OS=Erodium carvifolium OX=337360 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 95.5 bits (236), Expect = 1.6e-16
Identity = 55/114 (48.25%), Postives = 57/114 (50.00%), Query Frame = 0 

Query: 1   MIDRYKHQQLRIGLVSPQQISAWANKTLPNGEIVGEI----------------------- 60
           MIDRYKHQQLRIGLVSPQQISAWANKTLPNGEIVGE+                       
Sbjct: 1   MIDRYKHQQLRIGLVSPQQISAWANKTLPNGEIVGEVTEIEHVQWETNKPKIGGFFCERI 60

Query: 61  --------------------------RNFVNNAESNLLILGYEDIKWAILNWHA 66
                                      +F   AESNL IL YEDIKWA  NWHA
Sbjct: 61  FGPIKSGICACGIYGKFGDQKEKKKKEHFAATAESNLRILEYEDIKWATSNWHA 114

[Close]
BLAST of CaUC07G131610 vs. ExPASy TrEMBL
Match: A0A4Y7IIH5 (DNA-directed RNA polymerase subunit beta OS=Papaver somniferum OX=3469 GN=C5167_040464 PE=3 SV=1)

HSP 1 Score: 92.0 bits (227), Expect = 1.7e-15
Identity = 39/53 (73.58%), Postives = 44/53 (83.02%), Query Frame = 0 

Query: 38  RNFVNNAESNLLILGYEDIKWAILNWHAQFRMRNCHPIQSNWDAPDLTCGLLG 91
           RNFVNNAES+LLILGYEDIKW   NWHAQ  +RNCHPI S+WDA  LTC ++G
Sbjct: 677 RNFVNNAESSLLILGYEDIKWDTSNWHAQLGLRNCHPIHSDWDALTLTCLVVG 729

[Close]
BLAST of CaUC07G131610 vs. ExPASy TrEMBL
Match: A0A6S7LX19 (DNA-directed RNA polymerase OS=Lactuca saligna OX=75948 GN=LSAL_LOCUS1365 PE=4 SV=1)

HSP 1 Score: 84.3 bits (207), Expect = 3.6e-13
Identity = 63/165 (38.18%), Postives = 77/165 (46.67%), Query Frame = 0 

Query: 1   MIDRYKHQQLRIGLVSPQQISAWANKTLPNGEIVGEIR-----NFVNN------------ 60
           MIDRY HQQLRIGLVSPQQIS W+ K LPNGEIVGE+      ++  N            
Sbjct: 1   MIDRYTHQQLRIGLVSPQQISTWSKKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60

Query: 61  ---------AESNLLILGYE----------------------DIKWAILNWHAQFRMRNC 118
                    A  N  ++G E                       + +  L +  +    + 
Sbjct: 61  FGPIKSGICACGNYRVIGDEKEDPQFCEQCGVEFVDSRIRRYQMGYIKLAYPIRNEKLSS 120

[Close]
BLAST of CaUC07G131610 vs. ExPASy TrEMBL
Match: A0A2J6KXK0 (DNA-directed RNA polymerase OS=Lactuca sativa OX=4236 GN=LSAT_1X118640 PE=4 SV=1)

HSP 1 Score: 84.3 bits (207), Expect = 3.6e-13
Identity = 63/165 (38.18%), Postives = 77/165 (46.67%), Query Frame = 0 

Query: 1   MIDRYKHQQLRIGLVSPQQISAWANKTLPNGEIVGEIR-----NFVNN------------ 60
           MIDRY HQQLRIGLVSPQQIS W+ K LPNGEIVGE+      ++  N            
Sbjct: 1   MIDRYTHQQLRIGLVSPQQISTWSKKILPNGEIVGEVTKPYTFHYKTNKPEKDGLFCERI 60

Query: 61  ---------AESNLLILGYE----------------------DIKWAILNWHAQFRMRNC 118
                    A  N  ++G E                       + +  L +  +    + 
Sbjct: 61  FGPIKSGICACGNYRVIGDEKEDPQFCEQCGVEFVDSRIRRYQMGYIKLAYPIRNEKLSS 120

[Close]
BLAST of CaUC07G131610 vs. TAIR 10
Match: ATCG00180.1 (DNA-directed RNA polymerase family protein )

HSP 1 Score: 73.6 bits (179), Expect = 1.2e-13
Identity = 33/37 (89.19%), Postives = 35/37 (94.59%), Query Frame = 0 

Query: 1  MIDRYKHQQLRIGLVSPQQISAWANKTLPNGEIVGEI 38
          MIDRYKHQQLRIGLVSPQQISAWA K +PNGEIVGE+
Sbjct: 1  MIDRYKHQQLRIGLVSPQQISAWATKIIPNGEIVGEV 37

The following BLAST results are available for this feature:
BLAST of CaUC07G131610 vs. NCBI nr
Match NameE-valueIdentityDescription
ERM98365.15.9e-1850.00hypothetical protein AMTR_s01499p00009870 [Amborella trichopoda][more]
KAG8363203.12.5e-1652.38hypothetical protein BUALT_BualtPtG0001100 [Buddleja alternifolia][more]
YP_004221914.13.2e-1648.25RNA polymerase beta [Erodium carvifolium] >ADU58138.1 RNA polymerase beta [Erodi... [more]
RZC47501.13.6e-1573.58hypothetical protein C5167_040464 [Papaver somniferum][more]
KAG8387966.11.8e-1478.43hypothetical protein BUALT_Bualt02G0076100 [Buddleja alternifolia][more]
BLAST of CaUC07G131610 vs. ExPASy Swiss-Prot
Match NameE-valueIdentityDescription
Q4VZP24.1e-1497.30DNA-directed RNA polymerase subunit beta' OS=Cucumis sativus OX=3659 GN=rpoC1 PE... [more]
A6MM272.0e-1394.59DNA-directed RNA polymerase subunit beta' OS=Buxus microphylla OX=153571 GN=rpoC... [more]
B1A9264.5e-1391.89DNA-directed RNA polymerase subunit beta' OS=Carica papaya OX=3649 GN=rpoC1 PE=3... [more]
A7M9574.5e-1389.47DNA-directed RNA polymerase subunit beta' OS=Cuscuta reflexa OX=4129 GN=rpoC1 PE... [more]
P602871.0e-1289.19DNA-directed RNA polymerase subunit beta' OS=Amborella trichopoda OX=13333 GN=rp... [more]
BLAST of CaUC07G131610 vs. ExPASy TrEMBL
Match NameE-valueIdentityDescription
U5CL832.9e-1850.00DNA-directed RNA polymerase OS=Amborella trichopoda OX=13333 GN=AMTR_s01499p0000... [more]
E9NV881.6e-1648.25DNA-directed RNA polymerase subunit beta' OS=Erodium carvifolium OX=337360 GN=rp... [more]
A0A4Y7IIH51.7e-1573.58DNA-directed RNA polymerase subunit beta OS=Papaver somniferum OX=3469 GN=C5167_... [more]
A0A6S7LX193.6e-1338.18DNA-directed RNA polymerase OS=Lactuca saligna OX=75948 GN=LSAL_LOCUS1365 PE=4 S... [more]
A0A2J6KXK03.6e-1338.18DNA-directed RNA polymerase OS=Lactuca sativa OX=4236 GN=LSAT_1X118640 PE=4 SV=1[more]
BLAST of CaUC07G131610 vs. TAIR 10
Match NameE-valueIdentityDescription
ATCG00180.11.2e-1389.19DNA-directed RNA polymerase family protein [more]
Relationships

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

Feature NameUnique NameType
CaUC07G131610.1CaUC07G131610.1mRNA


GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006351 transcription, DNA-templated
cellular_component GO:0009507 chloroplast
molecular_function GO:0003677 DNA binding
molecular_function GO:0003899 DNA-directed 5'-3' RNA polymerase activity
molecular_function GO:0000287 magnesium ion binding
molecular_function GO:0032549 ribonucleoside binding
molecular_function GO:0008270 zinc ion binding