CmaCh08G005190 (gene) Cucurbita maxima (Rimu) v1.1

Overview
NameCmaCh08G005190
Typegene
OrganismCucurbita maxima (Cucurbita maxima (Rimu) v1.1)
DescriptionDNA-directed RNA polymerases II, IV and V subunit 11-like
LocationCma_Chr08: 3001161 .. 3002860 (-)
RNA-Seq ExpressionCmaCh08G005190
SyntenyCmaCh08G005190
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

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

mRNA sequence

ATGAATGTACCCGATCGTTACGAGCGCTTCGTCGTCCCCGAGGGCGCCAAGAAGGTTTCATACGAGAGAGACACGAAGATCATGAACGCGGCGACTTTCATCGTGGAGAGAGAGGATCATACTATCGGAAACATCATCCGCATGCAACTTCACAGAGATGATAATGTGCTGTTTGCTGCCTACCAGCTTCCTCATCCTCTTAAGTACAGAATACTTGTTCGGATACAGACGGCTAGCCAGTCCTCGCCGATGCAGGCATATAATCAGGCTATCAATGATTTGGATAAGGAGCTTGACGTTTTGAAATATGAGCTCGAGGGTGCGTTTTCTAGGTTCTCGAGGTCCTATTAGTTTGCCTTAAAGAAAACCCAGGGAAAGATCTGTTATCTGACCATTTTAAGATTTCGATTCCTTGCATATGTGCTTCAACTCAAAAAATTCCAGTAGGAAATGGAATGCCAAAAATGAAATTTATAGCATTTTTTAGGTTCCC

Coding sequence (CDS)

ATGAATGTACCCGATCGTTACGAGCGCTTCGTCGTCCCCGAGGGCGCCAAGAAGGTTTCATACGAGAGAGACACGAAGATCATGAACGCGGCGACTTTCATCGTGGAGAGAGAGGATCATACTATCGGAAACATCATCCGCATGCAACTTCACAGAGATGATAATGTGCTGTTTGCTGCCTACCAGCTTCCTCATCCTCTTAAGTACAGAATACTTGTTCGGATACAGACGGCTAGCCAGTCCTCGCCGATGCAGGCATATAATCAGGCTATCAATGATTTGGATAAGGAGCTTGACGTTTTGAAATATGAGCTCGAGGGTGCGTTTTCTAGGTTCTCGAGGTCCTATTAG

Protein sequence

MNVPDRYERFVVPEGAKKVSYERDTKIMNAATFIVEREDHTIGNIIRMQLHRDDNVLFAAYQLPHPLKYRILVRIQTASQSSPMQAYNQAINDLDKELDVLKYELEGAFSRFSRSY
Homology
[Close]
BLAST of CmaCh08G005190 vs. ExPASy Swiss-Prot
Match: Q38859 (DNA-directed RNA polymerases II, IV and V subunit 11 OS=Arabidopsis thaliana OX=3702 GN=NRPB11 PE=1 SV=1)

HSP 1 Score: 192.2 bits (487), Expect = 3.3e-48
Identity = 90/116 (77.59%), Postives = 102/116 (87.93%), Query Frame = 0 

Query: 1   MNVPDRYERFVVPEGAKKVSYERDTKIMNAATFIVEREDHTIGNIIRMQLHRDDNVLFAA 60
           MN P+RYERFVVPEG KKVSY+RDTKI+NAA+F VEREDHTIGNI+RMQLHRD+NVLFA 
Sbjct: 1   MNAPERYERFVVPEGTKKVSYDRDTKIINAASFTVEREDHTIGNIVRMQLHRDENVLFAG 60

Query: 61  YQLPHPLKYRILVRIQTASQSSPMQAYNQAINDLDKELDVLKYELEGAFSRFSRSY 117
           YQLPHPLKY+I+VRI T SQSSPMQAYNQAINDLDKELD LK + E   ++FS  +
Sbjct: 61  YQLPHPLKYKIIVRIHTTSQSSPMQAYNQAINDLDKELDYLKNQFEAEVAKFSNQF 116

[Close]
BLAST of CmaCh08G005190 vs. ExPASy Swiss-Prot
Match: O08740 (DNA-directed RNA polymerase II subunit RPB11 OS=Mus musculus OX=10090 GN=Polr2j PE=1 SV=1)

HSP 1 Score: 116.3 bits (290), Expect = 2.3e-25
Identity = 51/108 (47.22%), Postives = 75/108 (69.44%), Query Frame = 0 

Query: 1   MNVPDRYERFVVPEGAKKVSYERDTKIMNAATFIVEREDHTIGNIIRMQLHRDDNVLFAA 60
           MN P  +E F++ EG KK++  +DTK+ NA  F + +EDHT+GNII+ QL +D  VLFA 
Sbjct: 1   MNAPPAFESFLLFEGEKKITINKDTKVPNACLFTINKEDHTLGNIIKSQLLKDPQVLFAG 60

Query: 61  YQLPHPLKYRILVRIQTASQSSPMQAYNQAINDLDKELDVLKYELEGA 109
           Y++PHPL+++I++R+QT    SP +A+  AI DL  EL +L+    GA
Sbjct: 61  YKVPHPLEHKIIIRVQTTPDYSPQEAFTNAITDLISELSLLEERFRGA 108

[Close]
BLAST of CmaCh08G005190 vs. ExPASy Swiss-Prot
Match: Q86JJ5 (DNA-directed RNA polymerase II subunit rpb11 OS=Dictyostelium discoideum OX=44689 GN=polr2j PE=3 SV=1)

HSP 1 Score: 114.8 bits (286), Expect = 6.7e-25
Identity = 50/102 (49.02%), Postives = 77/102 (75.49%), Query Frame = 0 

Query: 1   MNVPDRYERFVVPEGAKKVSYERDTKIMNAATFIVEREDHTIGNIIRMQLHRDDNVLFAA 60
           MN PDR+E FV+P+GAKKV+  RDTKI NA+ F + +EDHTIGN+IRMQL  D +++FA 
Sbjct: 1   MNAPDRFELFVLPDGAKKVTMVRDTKIPNASMFTILKEDHTIGNLIRMQLIADQDIIFAG 60

Query: 61  YQLPHPLKYRILVRIQTASQSSPMQAYNQAINDLDKELDVLK 103
           Y++PHPL++ + +RIQT + ++P++   +++  L +E   L+
Sbjct: 61  YRMPHPLEHNVNIRIQTNNNTNPLECVQKSMECLSREFTSLE 102

[Close]
BLAST of CmaCh08G005190 vs. ExPASy Swiss-Prot
Match: Q9VJE4 (DNA-directed RNA polymerase II subunit RPB11 OS=Drosophila melanogaster OX=7227 GN=Rpb11 PE=1 SV=1)

HSP 1 Score: 113.2 bits (282), Expect = 1.9e-24
Identity = 52/108 (48.15%), Postives = 75/108 (69.44%), Query Frame = 0 

Query: 1   MNVPDRYERFVVPEGAKKVSYERDTKIMNAATFIVEREDHTIGNIIRMQLHRDDNVLFAA 60
           MN P  +E F++ EG KK+  E DTK+ NAA F + +EDHT+GN+IR QL +D NVLFA 
Sbjct: 1   MNAPPTFESFLLYEGEKKIIKELDTKVTNAAIFTINKEDHTLGNMIRNQLLKDPNVLFAG 60

Query: 61  YQLPHPLKYRILVRIQTASQSSPMQAYNQAINDLDKELDVLKYELEGA 109
           Y++PHPL+++ ++RIQT +  SP +A+  AI DL  EL + +   + A
Sbjct: 61  YKVPHPLEHKFVIRIQTTADYSPQEAFMNAITDLLAELSLFEERFKDA 108

[Close]
BLAST of CmaCh08G005190 vs. ExPASy Swiss-Prot
Match: Q32P79 (DNA-directed RNA polymerase II subunit RPB11 OS=Bos taurus OX=9913 GN=POLR2J PE=1 SV=1)

HSP 1 Score: 112.8 bits (281), Expect = 2.5e-24
Identity = 49/102 (48.04%), Postives = 73/102 (71.57%), Query Frame = 0 

Query: 1   MNVPDRYERFVVPEGAKKVSYERDTKIMNAATFIVEREDHTIGNIIRMQLHRDDNVLFAA 60
           MN P  +E F++ EG KK++  +DTK+ NA  F + +EDHT+GNII+ QL +D  VLFA 
Sbjct: 1   MNAPPAFESFLLFEGEKKITINKDTKVPNACLFTINKEDHTLGNIIKSQLLKDPQVLFAG 60

Query: 61  YQLPHPLKYRILVRIQTASQSSPMQAYNQAINDLDKELDVLK 103
           Y++PHPL+++I++R+QT    SP +A+  AI DL  EL +L+
Sbjct: 61  YKVPHPLEHKIIIRVQTTPDYSPQEAFTNAITDLISELSLLE 102

[Close]
BLAST of CmaCh08G005190 vs. TAIR 10
Match: AT3G52090.1 (DNA-directed RNA polymerase, RBP11-like )

HSP 1 Score: 192.2 bits (487), Expect = 2.3e-49
Identity = 90/116 (77.59%), Postives = 102/116 (87.93%), Query Frame = 0 

Query: 1   MNVPDRYERFVVPEGAKKVSYERDTKIMNAATFIVEREDHTIGNIIRMQLHRDDNVLFAA 60
           MN P+RYERFVVPEG KKVSY+RDTKI+NAA+F VEREDHTIGNI+RMQLHRD+NVLFA 
Sbjct: 1   MNAPERYERFVVPEGTKKVSYDRDTKIINAASFTVEREDHTIGNIVRMQLHRDENVLFAG 60

Query: 61  YQLPHPLKYRILVRIQTASQSSPMQAYNQAINDLDKELDVLKYELEGAFSRFSRSY 117
           YQLPHPLKY+I+VRI T SQSSPMQAYNQAINDLDKELD LK + E   ++FS  +
Sbjct: 61  YQLPHPLKYKIIVRIHTTSQSSPMQAYNQAINDLDKELDYLKNQFEAEVAKFSNQF 116

[Close]
BLAST of CmaCh08G005190 vs. TAIR 10
Match: AT3G52090.2 (DNA-directed RNA polymerase, RBP11-like )

HSP 1 Score: 176.4 bits (446), Expect = 1.3e-44
Identity = 90/146 (61.64%), Postives = 102/146 (69.86%), Query Frame = 0 

Query: 1   MNVPDRYERFVVPEGAKKVSYERDTKIMNAATFIVEREDHTIGNIIRMQLHRDDNVLFAA 60
           MN P+RYERFVVPEG KKVSY+RDTKI+NAA+F VEREDHTIGNI+RMQLHRD+NVLFA 
Sbjct: 1   MNAPERYERFVVPEGTKKVSYDRDTKIINAASFTVEREDHTIGNIVRMQLHRDENVLFAG 60

Query: 61  YQLPHPLKYRILVR------------------------------IQTASQSSPMQAYNQA 117
           YQLPHPLKY+I+VR                              I T SQSSPMQAYNQA
Sbjct: 61  YQLPHPLKYKIIVRDPKDWFRNLKVVYGCLETVNISWFKLLVLTIHTTSQSSPMQAYNQA 120

The following BLAST results are available for this feature:
BLAST of CmaCh08G005190 vs. ExPASy Swiss-Prot
Match NameE-valueIdentityDescription
Q388593.3e-4877.59DNA-directed RNA polymerases II, IV and V subunit 11 OS=Arabidopsis thaliana OX=... [more]
O087402.3e-2547.22DNA-directed RNA polymerase II subunit RPB11 OS=Mus musculus OX=10090 GN=Polr2j ... [more]
Q86JJ56.7e-2549.02DNA-directed RNA polymerase II subunit rpb11 OS=Dictyostelium discoideum OX=4468... [more]
Q9VJE41.9e-2448.15DNA-directed RNA polymerase II subunit RPB11 OS=Drosophila melanogaster OX=7227 ... [more]
Q32P792.5e-2448.04DNA-directed RNA polymerase II subunit RPB11 OS=Bos taurus OX=9913 GN=POLR2J PE=... [more]
BLAST of CmaCh08G005190 vs. TAIR 10
Match NameE-valueIdentityDescription
AT3G52090.12.3e-4977.59DNA-directed RNA polymerase, RBP11-like [more]
AT3G52090.21.3e-4461.64DNA-directed RNA polymerase, RBP11-like [more]
InterPro
Analysis Name: InterPro Annotations of Cucurbita maxima (Rimu) v1.1
Date Performed: 2021-10-25
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableCOILSCoilCoilcoord: 84..104
NoneNo IPR availablePANTHERPTHR13946:SF16DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11coord: 1..109
NoneNo IPR availablePANTHERPTHR13946DNA-DIRECTED RNA POLYMERASE I,II,IIIcoord: 1..109
IPR036603RNA polymerase, RBP11-like subunitGENE3D3.30.1360.10coord: 1..114
e-value: 8.5E-48
score: 162.9
IPR036603RNA polymerase, RBP11-like subunitSUPERFAMILY55257RBP11-like subunits of RNA polymerasecoord: 1..111
IPR009025DNA-directed RNA polymerase, RBP11-like dimerisation domainPFAMPF13656RNA_pol_L_2coord: 31..102
e-value: 8.3E-24
score: 83.2
IPR008193DNA-directed RNA polymerase Rpb11, 13-16kDa subunit, conserved sitePROSITEPS01154RNA_POL_L_13KDcoord: 35..66
IPR037685RNA polymerase RBP11CDDcd06926RNAP_II_RPB11coord: 13..102
e-value: 6.65438E-48
score: 146.583

Relationships

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

Feature NameUnique NameType
CmaCh08G005190.1CmaCh08G005190.1mRNA


GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006366 transcription by RNA polymerase II
biological_process GO:0006351 transcription, DNA-templated
cellular_component GO:0005665 RNA polymerase II, core complex
molecular_function GO:0003677 DNA binding
molecular_function GO:0046983 protein dimerization activity
molecular_function GO:0001055 RNA polymerase II activity
molecular_function GO:0003899 DNA-directed 5'-3' RNA polymerase activity