CmaCh04G019590 (gene) Cucurbita maxima (Rimu) v1.1

Overview
NameCmaCh04G019590
Typegene
OrganismCucurbita maxima (Cucurbita maxima (Rimu) v1.1)
DescriptionDNA-directed RNA polymerase subunit beta
LocationCma_Chr04: 10971203 .. 10971518 (-)
RNA-Seq ExpressionCmaCh04G019590
SyntenyCmaCh04G019590
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.
ATGCCATGGGAAGGTTACAATTCTGAAGATGCAGTACTAATTAGCGAGCGTCTGGTATATGAAGATATTTATATTTCTTTCCACATACACGGATACGGAAATATGAAATTCAAACTCATGTGACAAGCCAGGGACCTGAAAGAATCACTAACGAAATCCCACATCTAGAAAGAAGCCCGCTTACTCCGGAATTGAGACAAAAATGAATGGAAGGAATTGTGATGCTGGGATCGTGGGTGGAGACGGGCGAGTAGGTAAATTAACGCCTCAGATGGCGAAAGAATCAGCGAATGCCCCCGAAGATAGATTATTATGA

mRNA sequence

ATGCCATGGGAAGGTTACAATTCTGAAGATGCAGTACTAATTAGCGAGCGTCTGGTATATGAAGATATTTATATTTCTTTCCACATACACGGATACGGAAATATGAAATTCAAACTCATAAAGAAGCCCGCTTACTCCGGAATTGAGACAAAAATGAATGGAAGGAATTGTGATGCTGGGATCGTGGGTGGAGACGGGCGAGTAGGTAAATTAACGCCTCAGATGGCGAAAGAATCAGCGAATGCCCCCGAAGATAGATTATTATGA

Coding sequence (CDS)

ATGCCATGGGAAGGTTACAATTCTGAAGATGCAGTACTAATTAGCGAGCGTCTGGTATATGAAGATATTTATATTTCTTTCCACATACACGGATACGGAAATATGAAATTCAAACTCATAAAGAAGCCCGCTTACTCCGGAATTGAGACAAAAATGAATGGAAGGAATTGTGATGCTGGGATCGTGGGTGGAGACGGGCGAGTAGGTAAATTAACGCCTCAGATGGCGAAAGAATCAGCGAATGCCCCCGAAGATAGATTATTATGA

Protein sequence

MPWEGYNSEDAVLISERLVYEDIYISFHIHGYGNMKFKLIKKPAYSGIETKMNGRNCDAGIVGGDGRVGKLTPQMAKESANAPEDRLL
Homology
BLAST of CmaCh04G019590 vs. ExPASy Swiss-Prot
Match: P08036 (DNA-directed RNA polymerase subunit beta (Fragment) OS=Saponaria officinalis OX=3572 GN=rpoB PE=3 SV=1)

HSP 1 Score: 92.4 bits (228), Expect = 2.7e-18
Identity = 58/101 (57.43%), Postives = 63/101 (62.38%), Query Frame = 0

Query: 1   MPWEGYNSEDAVLISERLVYEDIYISFHIHGYGNMKFKLIKKP-----AYSGIETKMNGR 60
           MPWEGYN EDAVLISERLVYEDIY SFHI  Y    +   + P         +E  +  R
Sbjct: 102 MPWEGYNFEDAVLISERLVYEDIYTSFHIRKYEIQTYVTSQGPERVTSEIPHLEAHLL-R 161

Query: 61  NCDA-GIVG-------GDGRVGKLTPQMAKESANAPEDRLL 89
           N D  GIVG       GD  VGKLTPQMAKES+ APEDRLL
Sbjct: 162 NLDKNGIVGLGSWVETGDILVGKLTPQMAKESSYAPEDRLL 201

BLAST of CmaCh04G019590 vs. ExPASy Swiss-Prot
Match: Q9BBS9 (DNA-directed RNA polymerase subunit beta OS=Lotus japonicus OX=34305 GN=rpoB PE=3 SV=1)

HSP 1 Score: 90.9 bits (224), Expect = 7.8e-18
Identity = 54/100 (54.00%), Postives = 61/100 (61.00%), Query Frame = 0

Query: 1   MPWEGYNSEDAVLISERLVYEDIYISFHIHGY-------GNMKFKLIKKPAYSGIETKMN 60
           MPWEGYNSEDAVLIS+RLVYEDIY SFHI  Y        N   ++  K  +  +    N
Sbjct: 660 MPWEGYNSEDAVLISDRLVYEDIYTSFHIRKYEIQTHVTSNGPERITNKIPHLEVHLLRN 719

Query: 61  GRNCDAGIVG-----GDGRVGKLTPQMAKESANAPEDRLL 89
                  I+G     GD  VGKLTPQMAKES+ APEDRLL
Sbjct: 720 LDKNGLVILGSWVEAGDILVGKLTPQMAKESSYAPEDRLL 759

BLAST of CmaCh04G019590 vs. ExPASy Swiss-Prot
Match: Q589C0 (DNA-directed RNA polymerase subunit beta OS=Silene latifolia OX=37657 GN=rpoB PE=3 SV=1)

HSP 1 Score: 89.7 bits (221), Expect = 1.7e-17
Identity = 57/101 (56.44%), Postives = 62/101 (61.39%), Query Frame = 0

Query: 1   MPWEGYNSEDAVLISERLVYEDIYISFHIHGYGNMKFKLIKKP-----AYSGIETKMNGR 60
           MPWEGYN EDAVLISERLVYEDIY SFHI  Y    +   + P         +E  +  R
Sbjct: 660 MPWEGYNFEDAVLISERLVYEDIYTSFHIRKYDIQTYVTSQGPERVTSEIPHLEAHLL-R 719

Query: 61  NCDA-GIV-------GGDGRVGKLTPQMAKESANAPEDRLL 89
           N D  GIV        GD  VGKLTPQMAKES+ APEDRLL
Sbjct: 720 NLDKNGIVRLGSWVETGDILVGKLTPQMAKESSYAPEDRLL 759

BLAST of CmaCh04G019590 vs. ExPASy Swiss-Prot
Match: P11703 (DNA-directed RNA polymerase subunit beta OS=Spinacia oleracea OX=3562 GN=rpoB PE=3 SV=1)

HSP 1 Score: 89.4 bits (220), Expect = 2.3e-17
Identity = 57/101 (56.44%), Postives = 62/101 (61.39%), Query Frame = 0

Query: 1   MPWEGYNSEDAVLISERLVYEDIYISFHIHGYGNMKFKLIKKP-----AYSGIETKMNGR 60
           MPWEGYN EDAVLISERLVYEDIY SFHI  Y    +   + P         +E  +  R
Sbjct: 660 MPWEGYNFEDAVLISERLVYEDIYTSFHIRKYEIQTYVTSQGPEKVTSEIPHLEAHLL-R 719

Query: 61  NCDA-GIV-------GGDGRVGKLTPQMAKESANAPEDRLL 89
           N D  GIV        GD  VGKLTPQMAKES+ APEDRLL
Sbjct: 720 NLDKNGIVRLGSWVETGDILVGKLTPQMAKESSYAPEDRLL 759

BLAST of CmaCh04G019590 vs. ExPASy Swiss-Prot
Match: Q09X25 (DNA-directed RNA polymerase subunit beta OS=Morus indica OX=248361 GN=rpoB PE=3 SV=1)

HSP 1 Score: 89.0 bits (219), Expect = 3.0e-17
Identity = 58/105 (55.24%), Postives = 63/105 (60.00%), Query Frame = 0

Query: 1   MPWEGYNSEDAVLISERLVYEDIYISFHIHGYGNMKFKLIKKPAYSGIETKMNG------ 60
           MPWEGYNSEDAVLI+ERLVYEDIY SFHI      K+++       G E   N       
Sbjct: 660 MPWEGYNSEDAVLINERLVYEDIYTSFHIR-----KYEIHTHVTSHGPERITNEIPHLEA 719

Query: 61  ---RNCDA-GIV-------GGDGRVGKLTPQMAKESANAPEDRLL 89
              RN D  GIV        GD  VGKLTPQMAKES+ APEDRLL
Sbjct: 720 HLLRNLDKNGIVMLGSWVETGDILVGKLTPQMAKESSYAPEDRLL 759

BLAST of CmaCh04G019590 vs. ExPASy TrEMBL
Match: A0A7D5BAU8 (DNA-directed RNA polymerase subunit beta OS=Bauhinia blakeana OX=180222 GN=rpoB PE=3 SV=1)

HSP 1 Score: 92.4 bits (228), Expect = 9.9e-16
Identity = 57/105 (54.29%), Postives = 63/105 (60.00%), Query Frame = 0

Query: 1   MPWEGYNSEDAVLISERLVYEDIYISFHIHGYGNMKFKLIKKPAYSGIETKMNG------ 60
           MPWEGYNSEDAVLISERLVYEDIY SFHI      K+++       G E   N       
Sbjct: 660 MPWEGYNSEDAVLISERLVYEDIYTSFHIR-----KYEIQTHVTSHGPERITNEIPHLEA 719

Query: 61  ---RNCD--------AGIVGGDGRVGKLTPQMAKESANAPEDRLL 89
              RN D        +G+  GD  VGKLTPQMAKES+ APEDRLL
Sbjct: 720 HLLRNLDKNGIVMLGSGVETGDILVGKLTPQMAKESSYAPEDRLL 759

BLAST of CmaCh04G019590 vs. ExPASy TrEMBL
Match: A0A4P8J8Q6 (DNA-directed RNA polymerase subunit beta OS=Psammosilene tunicoides OX=39860 GN=rpoB PE=3 SV=1)

HSP 1 Score: 92.0 bits (227), Expect = 1.3e-15
Identity = 57/101 (56.44%), Postives = 63/101 (62.38%), Query Frame = 0

Query: 1   MPWEGYNSEDAVLISERLVYEDIYISFHIHGYGNMKFKLIKKP-----AYSGIETKMNGR 60
           MPWEGYN EDA+LISERLVYEDIY SFHI  Y    +   + P         +E  +  R
Sbjct: 660 MPWEGYNFEDAILISERLVYEDIYTSFHIRKYEIQTYVTSQGPERVTSEIPHLEAHLL-R 719

Query: 61  NCDA-GIVG-------GDGRVGKLTPQMAKESANAPEDRLL 89
           N D  GIVG       GD  VGKLTPQMAKES+ APEDRLL
Sbjct: 720 NLDKNGIVGLGSWVETGDILVGKLTPQMAKESSYAPEDRLL 759

BLAST of CmaCh04G019590 vs. ExPASy TrEMBL
Match: A0A4Y5RB85 (DNA-directed RNA polymerase subunit beta OS=Heptacodium miconioides OX=137004 GN=rpoB PE=3 SV=1)

HSP 1 Score: 92.0 bits (227), Expect = 1.3e-15
Identity = 57/100 (57.00%), Postives = 60/100 (60.00%), Query Frame = 0

Query: 1   MPWEGYNSEDAVLISERLVYEDIYISFHIHGYGNMKFKLIKKPAYSGIETKMNG----RN 60
           MPWEGYNSEDAVLISERLVYEDIY SFHI  Y        + P     E    G    RN
Sbjct: 662 MPWEGYNSEDAVLISERLVYEDIYTSFHIRKYETQTCMTSQGPERVTNEIPHLGAHLLRN 721

Query: 61  CD-AGIV-------GGDGRVGKLTPQMAKESANAPEDRLL 89
            D  GIV        GD  VGKLTPQ+ KES +APEDRLL
Sbjct: 722 LDKRGIVMLGSWVEAGDVLVGKLTPQIVKESPSAPEDRLL 761

BLAST of CmaCh04G019590 vs. ExPASy TrEMBL
Match: A0A6M4SQP9 (DNA-directed RNA polymerase subunit beta OS=Indofevillea khasiana OX=383665 GN=rpoB PE=3 SV=1)

HSP 1 Score: 92.0 bits (227), Expect = 1.3e-15
Identity = 59/105 (56.19%), Postives = 64/105 (60.95%), Query Frame = 0

Query: 1   MPWEGYNSEDAVLISERLVYEDIYISFHIHGYGNMKFKLIKKPAYSGIETKMNG------ 60
           MPWEGYNSEDAVLISERLVYEDIY SFHI      K+++       G+E   N       
Sbjct: 660 MPWEGYNSEDAVLISERLVYEDIYTSFHIR-----KYEIQTHVTSHGLERITNEIPHLEA 719

Query: 61  ---RNCDA-GIV-------GGDGRVGKLTPQMAKESANAPEDRLL 89
              RN D  GIV        GD  VGKLTPQMAKES+ APEDRLL
Sbjct: 720 RLLRNLDKNGIVMLGSWVETGDILVGKLTPQMAKESSYAPEDRLL 759

BLAST of CmaCh04G019590 vs. ExPASy TrEMBL
Match: A0A6H0ES05 (DNA-directed RNA polymerase subunit beta OS=Indofevillea khasiana OX=383665 GN=rpoB PE=3 SV=1)

HSP 1 Score: 92.0 bits (227), Expect = 1.3e-15
Identity = 59/105 (56.19%), Postives = 64/105 (60.95%), Query Frame = 0

Query: 1   MPWEGYNSEDAVLISERLVYEDIYISFHIHGYGNMKFKLIKKPAYSGIETKMNG------ 60
           MPWEGYNSEDAVLISERLVYEDIY SFHI      K+++       G+E   N       
Sbjct: 660 MPWEGYNSEDAVLISERLVYEDIYTSFHIR-----KYEIQTHVTSHGLERITNEIPHLEA 719

Query: 61  ---RNCDA-GIV-------GGDGRVGKLTPQMAKESANAPEDRLL 89
              RN D  GIV        GD  VGKLTPQMAKES+ APEDRLL
Sbjct: 720 RLLRNLDKNGIVMLGSWVETGDILVGKLTPQMAKESSYAPEDRLL 759

BLAST of CmaCh04G019590 vs. NCBI nr
Match: P08036.1 (RecName: Full=DNA-directed RNA polymerase subunit beta; AltName: Full=PEP; AltName: Full=Plastid-encoded RNA polymerase subunit beta; Short=RNA polymerase subunit beta [Saponaria officinalis] >CAA30075.1 RNA polymerase, partial [Saponaria officinalis])

HSP 1 Score: 92.4 bits (228), Expect = 2.0e-15
Identity = 58/101 (57.43%), Postives = 63/101 (62.38%), Query Frame = 0

Query: 1   MPWEGYNSEDAVLISERLVYEDIYISFHIHGYGNMKFKLIKKP-----AYSGIETKMNGR 60
           MPWEGYN EDAVLISERLVYEDIY SFHI  Y    +   + P         +E  +  R
Sbjct: 102 MPWEGYNFEDAVLISERLVYEDIYTSFHIRKYEIQTYVTSQGPERVTSEIPHLEAHLL-R 161

Query: 61  NCDA-GIVG-------GDGRVGKLTPQMAKESANAPEDRLL 89
           N D  GIVG       GD  VGKLTPQMAKES+ APEDRLL
Sbjct: 162 NLDKNGIVGLGSWVETGDILVGKLTPQMAKESSYAPEDRLL 201

BLAST of CmaCh04G019590 vs. NCBI nr
Match: QKV48483.1 (RNA polymerase beta subunit [Bauhinia blakeana])

HSP 1 Score: 92.4 bits (228), Expect = 2.0e-15
Identity = 57/105 (54.29%), Postives = 63/105 (60.00%), Query Frame = 0

Query: 1   MPWEGYNSEDAVLISERLVYEDIYISFHIHGYGNMKFKLIKKPAYSGIETKMNG------ 60
           MPWEGYNSEDAVLISERLVYEDIY SFHI      K+++       G E   N       
Sbjct: 660 MPWEGYNSEDAVLISERLVYEDIYTSFHIR-----KYEIQTHVTSHGPERITNEIPHLEA 719

Query: 61  ---RNCD--------AGIVGGDGRVGKLTPQMAKESANAPEDRLL 89
              RN D        +G+  GD  VGKLTPQMAKES+ APEDRLL
Sbjct: 720 HLLRNLDKNGIVMLGSGVETGDILVGKLTPQMAKESSYAPEDRLL 759

BLAST of CmaCh04G019590 vs. NCBI nr
Match: QJS52312.1 (RNA polymerase beta subunit [Indofevillea khasiana])

HSP 1 Score: 92.0 bits (227), Expect = 2.7e-15
Identity = 59/105 (56.19%), Postives = 64/105 (60.95%), Query Frame = 0

Query: 1   MPWEGYNSEDAVLISERLVYEDIYISFHIHGYGNMKFKLIKKPAYSGIETKMNG------ 60
           MPWEGYNSEDAVLISERLVYEDIY SFHI      K+++       G+E   N       
Sbjct: 660 MPWEGYNSEDAVLISERLVYEDIYTSFHIR-----KYEIQTHVTSHGLERITNEIPHLEA 719

Query: 61  ---RNCDA-GIV-------GGDGRVGKLTPQMAKESANAPEDRLL 89
              RN D  GIV        GD  VGKLTPQMAKES+ APEDRLL
Sbjct: 720 RLLRNLDKNGIVMLGSWVETGDILVGKLTPQMAKESSYAPEDRLL 759

BLAST of CmaCh04G019590 vs. NCBI nr
Match: YP_009730575.1 (RNA polymerase beta subunit [Psammosilene tunicoides] >QCP68246.1 RNA polymerase beta subunit [Psammosilene tunicoides] >QHU77278.1 RNA polymerase beta subunit [Psammosilene tunicoides])

HSP 1 Score: 92.0 bits (227), Expect = 2.7e-15
Identity = 57/101 (56.44%), Postives = 63/101 (62.38%), Query Frame = 0

Query: 1   MPWEGYNSEDAVLISERLVYEDIYISFHIHGYGNMKFKLIKKP-----AYSGIETKMNGR 60
           MPWEGYN EDA+LISERLVYEDIY SFHI  Y    +   + P         +E  +  R
Sbjct: 660 MPWEGYNFEDAILISERLVYEDIYTSFHIRKYEIQTYVTSQGPERVTSEIPHLEAHLL-R 719

Query: 61  NCDA-GIVG-------GDGRVGKLTPQMAKESANAPEDRLL 89
           N D  GIVG       GD  VGKLTPQMAKES+ APEDRLL
Sbjct: 720 NLDKNGIVGLGSWVETGDILVGKLTPQMAKESSYAPEDRLL 759

BLAST of CmaCh04G019590 vs. NCBI nr
Match: YP_009751814.1 (RNA polymerase subunit beta [Indofevillea khasiana] >QIT04547.1 RNA polymerase subunit beta [Indofevillea khasiana])

HSP 1 Score: 92.0 bits (227), Expect = 2.7e-15
Identity = 59/105 (56.19%), Postives = 64/105 (60.95%), Query Frame = 0

Query: 1   MPWEGYNSEDAVLISERLVYEDIYISFHIHGYGNMKFKLIKKPAYSGIETKMNG------ 60
           MPWEGYNSEDAVLISERLVYEDIY SFHI      K+++       G+E   N       
Sbjct: 660 MPWEGYNSEDAVLISERLVYEDIYTSFHIR-----KYEIQTHVTSHGLERITNEIPHLEA 719

Query: 61  ---RNCDA-GIV-------GGDGRVGKLTPQMAKESANAPEDRLL 89
              RN D  GIV        GD  VGKLTPQMAKES+ APEDRLL
Sbjct: 720 RLLRNLDKNGIVMLGSWVETGDILVGKLTPQMAKESSYAPEDRLL 759

BLAST of CmaCh04G019590 vs. TAIR 10
Match: ATCG00190.1 (RNA polymerase subunit beta )

HSP 1 Score: 81.6 bits (200), Expect = 3.4e-16
Identity = 55/100 (55.00%), Postives = 59/100 (59.00%), Query Frame = 0

Query: 1   MPWEGYNSEDAVLISERLVYEDIYISFHIHGYGNMKFKLIKKPAYSGIE-TKMNG---RN 60
           MPWEGYN EDAVLISE LVY DIY SFHI  Y        + P     E   + G   RN
Sbjct: 662 MPWEGYNFEDAVLISECLVYGDIYTSFHIRKYEIQTHVTTQGPERITKEIPHLEGRLLRN 721

Query: 61  CDA-GIV-------GGDGRVGKLTPQMAKESANAPEDRLL 89
            D  GIV        GD  VGKLTPQ+AKES+ APEDRLL
Sbjct: 722 LDKNGIVMLGSWVETGDILVGKLTPQVAKESSYAPEDRLL 761

The following BLAST results are available for this feature:
Match NameE-valueIdentityDescription
P080362.7e-1857.43DNA-directed RNA polymerase subunit beta (Fragment) OS=Saponaria officinalis OX=... [more]
Q9BBS97.8e-1854.00DNA-directed RNA polymerase subunit beta OS=Lotus japonicus OX=34305 GN=rpoB PE=... [more]
Q589C01.7e-1756.44DNA-directed RNA polymerase subunit beta OS=Silene latifolia OX=37657 GN=rpoB PE... [more]
P117032.3e-1756.44DNA-directed RNA polymerase subunit beta OS=Spinacia oleracea OX=3562 GN=rpoB PE... [more]
Q09X253.0e-1755.24DNA-directed RNA polymerase subunit beta OS=Morus indica OX=248361 GN=rpoB PE=3 ... [more]
Match NameE-valueIdentityDescription
A0A7D5BAU89.9e-1654.29DNA-directed RNA polymerase subunit beta OS=Bauhinia blakeana OX=180222 GN=rpoB ... [more]
A0A4P8J8Q61.3e-1556.44DNA-directed RNA polymerase subunit beta OS=Psammosilene tunicoides OX=39860 GN=... [more]
A0A4Y5RB851.3e-1557.00DNA-directed RNA polymerase subunit beta OS=Heptacodium miconioides OX=137004 GN... [more]
A0A6M4SQP91.3e-1556.19DNA-directed RNA polymerase subunit beta OS=Indofevillea khasiana OX=383665 GN=r... [more]
A0A6H0ES051.3e-1556.19DNA-directed RNA polymerase subunit beta OS=Indofevillea khasiana OX=383665 GN=r... [more]
Match NameE-valueIdentityDescription
P08036.12.0e-1557.43RecName: Full=DNA-directed RNA polymerase subunit beta; AltName: Full=PEP; AltNa... [more]
QKV48483.12.0e-1554.29RNA polymerase beta subunit [Bauhinia blakeana][more]
QJS52312.12.7e-1556.19RNA polymerase beta subunit [Indofevillea khasiana][more]
YP_009730575.12.7e-1556.44RNA polymerase beta subunit [Psammosilene tunicoides] >QCP68246.1 RNA polymerase... [more]
YP_009751814.12.7e-1556.19RNA polymerase subunit beta [Indofevillea khasiana] >QIT04547.1 RNA polymerase s... [more]
Match NameE-valueIdentityDescription
ATCG00190.13.4e-1655.00RNA polymerase subunit beta [more]
InterPro
Analysis Name: InterPro Annotations of Cucurbita maxima (Rimu) v1.1
Date Performed: 2021-10-25
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR037033DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamilyGENE3D2.40.270.10coord: 1..28
e-value: 1.1E-8
score: 35.3
IPR007120DNA-directed RNA polymerase, subunit 2, hybrid-binding domainPFAMPF00562RNA_pol_Rpb2_6coord: 1..34
e-value: 5.7E-9
score: 35.5
IPR015712DNA-directed RNA polymerase, subunit 2PANTHERPTHR20856DNA-DIRECTED RNA POLYMERASE I SUBUNIT 2coord: 1..88
NoneNo IPR availablePANTHERPTHR20856:SF30DNA-DIRECTED RNA POLYMERASE SUBUNIT BETAcoord: 1..88
NoneNo IPR availableSUPERFAMILY64484beta and beta-prime subunits of DNA dependent RNA-polymerasecoord: 1..85

Relationships

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

Feature NameUnique NameType
CmaCh04G019590.1CmaCh04G019590.1mRNA


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
molecular_function GO:0003677 DNA binding
molecular_function GO:0003899 DNA-directed 5'-3' RNA polymerase activity
molecular_function GO:0032549 ribonucleoside binding