CmoCh04G029870 (gene) Cucurbita moschata (Rifu) v1

Overview
NameCmoCh04G029870
Typegene
OrganismCucurbita moschata (Cucurbita moschata (Rifu) v1)
DescriptionDNA-directed RNA polymerase II subunit 4
LocationCmo_Chr04: 21074835 .. 21078419 (-)
RNA-Seq ExpressionCmoCh04G029870
SyntenyCmoCh04G029870
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

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

mRNA sequence

ATGCAGCAGCTTCTAGAGTTCCGACAGAAATCTGTGTGTCGCGCCTTCTCTGTTTCCCGCCGACTCTCCCTTTGCGCCGTCACGTCGCACCGCCGCTTCTGGCCTCCTAATCCTCTCGGTGTTTTGTGAACTCCAACTTCAAGCATGTCTGGAGAGGAGGAAGAAAATGCTGCTGAGCTTAAAATTGGGGATGAGTTTTTGAAGGCCAAGTGTTTAATGAATTGTGAGGTTTCTTTGATCCTTGAACACAAATATGAACAACTTCAACAAATGTCTGAGGATCCAATGAATCAAGTTTCTCAAGTGTTTGAAAAGTCGCTGCAGTATGTGAAACGCTTTAGTCGCTATAAAAATCCTGATGCCGTTAGACAAGTTCGAGAAATTCTAAGCAGGTATCAGTTGGCTGAGTTTGAGCTCTGTGTTCTTGGCAACCTTTGTCCTGAAACCGTGGAGGAAGCTATTGCTATGGTACCATCTTTGAAGGCTAAAGGGAGGGTGCACGATGATGAAGCAATCGAGAAGATGTTAAACGATCTGTCGTTAATCAAAAAGTTTGAGTAGTTACTTTCTAAGTTTGGGTTAAACATGTTCAAATCCAATGTCTATCATTTTCTCACTTAGAACAATGGGGAATTGTAGCCTTCTGTGTCGTAGTATTATTATAACTTGATGGGTCTGTTTGTAATTGATATCCTTGACAAATCTTCAAACTAAATTTGAGTTGTATGTTATTCTCTTTCACCATTATACTGAAAATGTGTTTATCAATAAAACAGTATATTCAAATCAA

Coding sequence (CDS)

ATGTCTGGAGAGGAGGAAGAAAATGCTGCTGAGCTTAAAATTGGGGATGAGTTTTTGAAGGCCAAGTGTTTAATGAATTGTGAGGTTTCTTTGATCCTTGAACACAAATATGAACAACTTCAACAAATGTCTGAGGATCCAATGAATCAAGTTTCTCAAGTGTTTGAAAAGTCGCTGCAGTATGTGAAACGCTTTAGTCGCTATAAAAATCCTGATGCCGTTAGACAAGTTCGAGAAATTCTAAGCAGGTATCAGTTGGCTGAGTTTGAGCTCTGTGTTCTTGGCAACCTTTGTCCTGAAACCGTGGAGGAAGCTATTGCTATGGTACCATCTTTGAAGGCTAAAGGGAGGGTGCACGATGATGAAGCAATCGAGAAGATGTTAAACGATCTGTCGTTAATCAAAAAGTTTGAGTAG

Protein sequence

MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHDDEAIEKMLNDLSLIKKFE
Homology
[Close]
BLAST of CmoCh04G029870 vs. ExPASy Swiss-Prot
Match: O48890 (DNA-directed RNA polymerase II subunit 4 OS=Arabidopsis thaliana OX=3702 GN=NRPB4 PE=1 SV=1)

HSP 1 Score: 258.5 bits (659), Expect = 4.4e-68
Identity = 129/138 (93.48%), Postives = 135/138 (97.83%), Query Frame = 0 

Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHK+EQLQQ+SEDPMNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKFEQLQQISEDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120
           YVKRFSRYKNPDAVRQVREILSR+QL EFELCVLGNLCPETVEEA+AMVPSLK KGR HD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRHQLTEFELCVLGNLCPETVEEAVAMVPSLKTKGRAHD 120

Query: 121 DEAIEKMLNDLSLIKKFE 139
           DEAIEKMLNDLSL+K+FE
Sbjct: 121 DEAIEKMLNDLSLVKRFE 138

[Close]
BLAST of CmoCh04G029870 vs. ExPASy Swiss-Prot
Match: O15514 (DNA-directed RNA polymerase II subunit RPB4 OS=Homo sapiens OX=9606 GN=POLR2D PE=1 SV=1)

HSP 1 Score: 102.8 bits (255), Expect = 3.1e-21
Identity = 53/137 (38.69%), Postives = 92/137 (67.15%), Query Frame = 0 

Query: 2   SGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQY 61
           +G+ EE+A++L    EF  A+ L+N EV ++LEH+ +Q +   ++   ++S+VF K+L Y
Sbjct: 10  AGDVEEDASQLIFPKEFETAETLLNSEVHMLLEHRKQQNESAEDE--QELSEVFMKTLNY 69

Query: 62  VKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHDD 121
             RFSR+KN + +  VR +L + +L +FEL  L NLCPET EE+ A++PSL+ +    +D
Sbjct: 70  TARFSRFKNRETIASVRSLLLQKKLHKFELACLANLCPETAEESKALIPSLEGR---FED 129

Query: 122 EAIEKMLNDLSLIKKFE 139
           E ++++L+D+   + F+
Sbjct: 130 EELQQILDDIQTKRSFQ 141

[Close]
BLAST of CmoCh04G029870 vs. ExPASy Swiss-Prot
Match: Q9D7M8 (DNA-directed RNA polymerase II subunit RPB4 OS=Mus musculus OX=10090 GN=Polr2d PE=1 SV=2)

HSP 1 Score: 102.8 bits (255), Expect = 3.1e-21
Identity = 53/137 (38.69%), Postives = 92/137 (67.15%), Query Frame = 0 

Query: 2   SGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQY 61
           +G+ EE+A++L    EF  A+ L+N EV ++LEH+ +Q +   ++   ++S+VF K+L Y
Sbjct: 10  AGDVEEDASQLIFPKEFETAETLLNSEVHMLLEHRKQQNESAEDE--QELSEVFMKTLNY 69

Query: 62  VKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHDD 121
             RFSR+KN + +  VR +L + +L +FEL  L NLCPET EE+ A++PSL+ +    +D
Sbjct: 70  TARFSRFKNRETIASVRSLLLQKKLHKFELACLANLCPETAEESKALIPSLEGR---FED 129

Query: 122 EAIEKMLNDLSLIKKFE 139
           E ++++L+D+   + F+
Sbjct: 130 EELQQILDDIQTKRSFQ 141

[Close]
BLAST of CmoCh04G029870 vs. ExPASy Swiss-Prot
Match: Q54S04 (DNA-directed RNA polymerase II subunit rpb4 OS=Dictyostelium discoideum OX=44689 GN=polr2d PE=3 SV=1)

HSP 1 Score: 94.4 bits (233), Expect = 1.1e-18
Identity = 56/147 (38.10%), Postives = 91/147 (61.90%), Query Frame = 0 

Query: 4   EEEENAAELKIGDEFLKAKCLMNCEVSLILEHK----------YEQ---LQQMSEDPMNQ 63
           +EEE+   LK   +   AK L+N EV+++LEH+          + Q   L  +  + +N 
Sbjct: 12  QEEEDLTTLKFPRDLKDAKFLLNSEVAILLEHRKGISESEGTEFPQNTLLIHLYYNSIND 71

Query: 64  VSQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVP 123
           + + F K+L Y ++FSRYKN  +++QVR  LS+  L EFE+  L NLCPE  +EA +++P
Sbjct: 72  IIRTFHKTLAYAEKFSRYKNKTSIKQVRTALSKQNLEEFEIASLANLCPEISDEAKSLIP 131

Query: 124 SLKAKGRVHDDEAIEKMLNDLSLIKKF 138
           SLK   ++ DDE ++ +L++LS ++KF
Sbjct: 132 SLK---KMEDDE-LQAILDELSNLRKF 154

[Close]
BLAST of CmoCh04G029870 vs. ExPASy Swiss-Prot
Match: Q9VEA5 (DNA-directed RNA polymerase II subunit Rpb4 OS=Drosophila melanogaster OX=7227 GN=Rpb4 PE=2 SV=5)

HSP 1 Score: 87.4 bits (215), Expect = 1.4e-16
Identity = 47/126 (37.30%), Postives = 79/126 (62.70%), Query Frame = 0 

Query: 6   EENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRF 65
           +E+AA+L+   EF  A+ L+  EV ++L+H+  + Q  S D   + S+VF K+  Y   F
Sbjct: 11  DEDAADLQFPKEFENAETLLISEVHMLLDHR--KRQNESADEEQEFSEVFMKTYAYTDSF 70

Query: 66  SRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHDDEAIE 125
            ++KN + +   R +L + +L +FEL  LGNLCPE  EEA A++PSL+ +    +DE + 
Sbjct: 71  RKFKNKETIMSARSLLMQKKLHKFELAALGNLCPEAPEEAKALIPSLEGR---FEDEELR 130

Query: 126 KMLNDL 132
           ++L+D+
Sbjct: 131 QILDDI 131

[Close]
BLAST of CmoCh04G029870 vs. ExPASy TrEMBL
Match: A0A6J1JHK7 (DNA-directed RNA polymerase II subunit 4 OS=Cucurbita maxima OX=3661 GN=LOC111487075 PE=4 SV=1)

HSP 1 Score: 270.0 bits (689), Expect = 5.4e-69
Identity = 138/138 (100.00%), Postives = 138/138 (100.00%), Query Frame = 0 

Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120
           YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120

Query: 121 DEAIEKMLNDLSLIKKFE 139
           DEAIEKMLNDLSLIKKFE
Sbjct: 121 DEAIEKMLNDLSLIKKFE 138

[Close]
BLAST of CmoCh04G029870 vs. ExPASy TrEMBL
Match: A0A6J1GS12 (DNA-directed RNA polymerase II subunit 4 OS=Cucurbita moschata OX=3662 GN=LOC111456918 PE=4 SV=1)

HSP 1 Score: 270.0 bits (689), Expect = 5.4e-69
Identity = 138/138 (100.00%), Postives = 138/138 (100.00%), Query Frame = 0 

Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120
           YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120

Query: 121 DEAIEKMLNDLSLIKKFE 139
           DEAIEKMLNDLSLIKKFE
Sbjct: 121 DEAIEKMLNDLSLIKKFE 138

[Close]
BLAST of CmoCh04G029870 vs. ExPASy TrEMBL
Match: A0A6J1BWW4 (DNA-directed RNA polymerase II subunit 4 OS=Momordica charantia OX=3673 GN=LOC111006069 PE=4 SV=1)

HSP 1 Score: 266.9 bits (681), Expect = 4.6e-68
Identity = 136/138 (98.55%), Postives = 136/138 (98.55%), Query Frame = 0 

Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120
           YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLK KGR HD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRAHD 120

Query: 121 DEAIEKMLNDLSLIKKFE 139
           DEAIEKMLNDLSLIKKFE
Sbjct: 121 DEAIEKMLNDLSLIKKFE 138

[Close]
BLAST of CmoCh04G029870 vs. ExPASy TrEMBL
Match: A0A6A1VC16 (DNA-directed RNA polymerase II subunit 4 OS=Morella rubra OX=262757 GN=CJ030_MR6G025439 PE=4 SV=1)

HSP 1 Score: 265.0 bits (676), Expect = 1.7e-67
Identity = 134/138 (97.10%), Postives = 136/138 (98.55%), Query Frame = 0 

Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEV+LILEHKYEQLQQMSEDPMNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVALILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120
           YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPS+K KGR HD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTKGRAHD 120

Query: 121 DEAIEKMLNDLSLIKKFE 139
           DEAIEKMLNDLSLIKKFE
Sbjct: 121 DEAIEKMLNDLSLIKKFE 138

[Close]
BLAST of CmoCh04G029870 vs. ExPASy TrEMBL
Match: A0A2N9G2U2 (RPOL4c domain-containing protein OS=Fagus sylvatica OX=28930 GN=FSB_LOCUS21532 PE=4 SV=1)

HSP 1 Score: 265.0 bits (676), Expect = 1.7e-67
Identity = 134/138 (97.10%), Postives = 136/138 (98.55%), Query Frame = 0 

Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEV+LILEHKYEQLQQMSEDPMNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVALILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120
           YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPS+K KGR HD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTKGRAHD 120

Query: 121 DEAIEKMLNDLSLIKKFE 139
           DEAIEKMLNDLSLIKKFE
Sbjct: 121 DEAIEKMLNDLSLIKKFE 138

[Close]
BLAST of CmoCh04G029870 vs. NCBI nr
Match: XP_022954766.1 (DNA-directed RNA polymerase II subunit 4 [Cucurbita moschata] >XP_022954773.1 DNA-directed RNA polymerase II subunit 4 [Cucurbita moschata] >XP_022954778.1 DNA-directed RNA polymerase II subunit 4 [Cucurbita moschata] >XP_022990067.1 DNA-directed RNA polymerase II subunit 4 [Cucurbita maxima] >XP_022990068.1 DNA-directed RNA polymerase II subunit 4 [Cucurbita maxima] >XP_022990070.1 DNA-directed RNA polymerase II subunit 4 [Cucurbita maxima] >XP_023536652.1 DNA-directed RNA polymerase II subunit 4 [Cucurbita pepo subsp. pepo])

HSP 1 Score: 270.0 bits (689), Expect = 1.1e-68
Identity = 138/138 (100.00%), Postives = 138/138 (100.00%), Query Frame = 0 

Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120
           YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120

Query: 121 DEAIEKMLNDLSLIKKFE 139
           DEAIEKMLNDLSLIKKFE
Sbjct: 121 DEAIEKMLNDLSLIKKFE 138

[Close]
BLAST of CmoCh04G029870 vs. NCBI nr
Match: XP_022133507.1 (DNA-directed RNA polymerase II subunit 4 [Momordica charantia])

HSP 1 Score: 266.9 bits (681), Expect = 9.5e-68
Identity = 136/138 (98.55%), Postives = 136/138 (98.55%), Query Frame = 0 

Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120
           YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLK KGR HD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRAHD 120

Query: 121 DEAIEKMLNDLSLIKKFE 139
           DEAIEKMLNDLSLIKKFE
Sbjct: 121 DEAIEKMLNDLSLIKKFE 138

[Close]
BLAST of CmoCh04G029870 vs. NCBI nr
Match: XP_038884885.1 (DNA-directed RNA polymerase II subunit 4 [Benincasa hispida])

HSP 1 Score: 265.0 bits (676), Expect = 3.6e-67
Identity = 135/138 (97.83%), Postives = 136/138 (98.55%), Query Frame = 0 

Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDP NQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120
           YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLK KGRVHD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD 120

Query: 121 DEAIEKMLNDLSLIKKFE 139
           DEAIEKMLNDLSLIK+FE
Sbjct: 121 DEAIEKMLNDLSLIKRFE 138

[Close]
BLAST of CmoCh04G029870 vs. NCBI nr
Match: XP_030924038.1 (DNA-directed RNA polymerase II subunit 4 [Quercus lobata] >KAB1210402.1 DNA-directed RNA polymerase II subunit 4 [Morella rubra] >KAF3942865.1 hypothetical protein CMV_030520 [Castanea mollissima])

HSP 1 Score: 265.0 bits (676), Expect = 3.6e-67
Identity = 134/138 (97.10%), Postives = 136/138 (98.55%), Query Frame = 0 

Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEV+LILEHKYEQLQQMSEDPMNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVALILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120
           YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPS+K KGR HD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTKGRAHD 120

Query: 121 DEAIEKMLNDLSLIKKFE 139
           DEAIEKMLNDLSLIKKFE
Sbjct: 121 DEAIEKMLNDLSLIKKFE 138

[Close]
BLAST of CmoCh04G029870 vs. NCBI nr
Match: XP_004138390.1 (DNA-directed RNA polymerase II subunit 4 [Cucumis sativus] >XP_008456795.1 PREDICTED: DNA-directed RNA polymerase II subunit 4 [Cucumis melo] >XP_011656444.1 DNA-directed RNA polymerase II subunit 4 [Cucumis sativus] >KAA0051957.1 DNA-directed RNA polymerase II subunit 4 [Cucumis melo var. makuwa] >KGN45845.1 hypothetical protein Csa_005663 [Cucumis sativus] >TYK04594.1 DNA-directed RNA polymerase II subunit 4 [Cucumis melo var. makuwa])

HSP 1 Score: 264.6 bits (675), Expect = 4.7e-67
Identity = 134/138 (97.10%), Postives = 136/138 (98.55%), Query Frame = 0 

Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDP NQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120
           YVKRFSRYKNPDAVRQVRE+LSRYQLAEFELCVLGNLCPETVEEAIAMVPSLK KGRVHD
Sbjct: 61  YVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD 120

Query: 121 DEAIEKMLNDLSLIKKFE 139
           DEAIEKMLNDLSLIK+FE
Sbjct: 121 DEAIEKMLNDLSLIKRFE 138

[Close]
BLAST of CmoCh04G029870 vs. TAIR 10
Match: AT5G09920.1 (RNA polymerase II, Rpb4, core protein )

HSP 1 Score: 258.5 bits (659), Expect = 3.1e-69
Identity = 129/138 (93.48%), Postives = 135/138 (97.83%), Query Frame = 0 

Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHK+EQLQQ+SEDPMNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKFEQLQQISEDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120
           YVKRFSRYKNPDAVRQVREILSR+QL EFELCVLGNLCPETVEEA+AMVPSLK KGR HD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRHQLTEFELCVLGNLCPETVEEAVAMVPSLKTKGRAHD 120

Query: 121 DEAIEKMLNDLSLIKKFE 139
           DEAIEKMLNDLSL+K+FE
Sbjct: 121 DEAIEKMLNDLSLVKRFE 138

[Close]
BLAST of CmoCh04G029870 vs. TAIR 10
Match: AT4G15950.1 (RNA polymerase II, Rpb4, core protein )

HSP 1 Score: 83.6 bits (205), Expect = 1.4e-16
Identity = 45/118 (38.14%), Postives = 74/118 (62.71%), Query Frame = 0 

Query: 21  AKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREI 80
           A+C+M+CE   IL+    QL  +SEDP  ++   ++++L YV+    Y NP +VR+V E 
Sbjct: 89  AECMMDCEAFQILDGIKGQLVGLSEDPSIKIPVSYDRALAYVESCVHYTNPQSVRKVLEP 148

Query: 81  LSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHDDEAIEKMLNDLSLIKKFE 139
           L  Y +++ E+CV+ N   E+V+E +A +PSLK K  V  ++ ++  L +LS +KK E
Sbjct: 149 LKTYGISDGEMCVIANASSESVDEVLAFIPSLKTKKEV-INQPLQDALEELSKLKKSE 205

The following BLAST results are available for this feature:
BLAST of CmoCh04G029870 vs. ExPASy Swiss-Prot
Match NameE-valueIdentityDescription
O488904.4e-6893.48DNA-directed RNA polymerase II subunit 4 OS=Arabidopsis thaliana OX=3702 GN=NRPB... [more]
O155143.1e-2138.69DNA-directed RNA polymerase II subunit RPB4 OS=Homo sapiens OX=9606 GN=POLR2D PE... [more]
Q9D7M83.1e-2138.69DNA-directed RNA polymerase II subunit RPB4 OS=Mus musculus OX=10090 GN=Polr2d P... [more]
Q54S041.1e-1838.10DNA-directed RNA polymerase II subunit rpb4 OS=Dictyostelium discoideum OX=44689... [more]
Q9VEA51.4e-1637.30DNA-directed RNA polymerase II subunit Rpb4 OS=Drosophila melanogaster OX=7227 G... [more]
BLAST of CmoCh04G029870 vs. ExPASy TrEMBL
Match NameE-valueIdentityDescription
A0A6J1JHK75.4e-69100.00DNA-directed RNA polymerase II subunit 4 OS=Cucurbita maxima OX=3661 GN=LOC11148... [more]
A0A6J1GS125.4e-69100.00DNA-directed RNA polymerase II subunit 4 OS=Cucurbita moschata OX=3662 GN=LOC111... [more]
A0A6J1BWW44.6e-6898.55DNA-directed RNA polymerase II subunit 4 OS=Momordica charantia OX=3673 GN=LOC11... [more]
A0A6A1VC161.7e-6797.10DNA-directed RNA polymerase II subunit 4 OS=Morella rubra OX=262757 GN=CJ030_MR6... [more]
A0A2N9G2U21.7e-6797.10RPOL4c domain-containing protein OS=Fagus sylvatica OX=28930 GN=FSB_LOCUS21532 P... [more]
BLAST of CmoCh04G029870 vs. NCBI nr
Match NameE-valueIdentityDescription
XP_022954766.11.1e-68100.00DNA-directed RNA polymerase II subunit 4 [Cucurbita moschata] >XP_022954773.1 DN... [more]
XP_022133507.19.5e-6898.55DNA-directed RNA polymerase II subunit 4 [Momordica charantia][more]
XP_038884885.13.6e-6797.83DNA-directed RNA polymerase II subunit 4 [Benincasa hispida][more]
XP_030924038.13.6e-6797.10DNA-directed RNA polymerase II subunit 4 [Quercus lobata] >KAB1210402.1 DNA-dire... [more]
XP_004138390.14.7e-6797.10DNA-directed RNA polymerase II subunit 4 [Cucumis sativus] >XP_008456795.1 PREDI... [more]
BLAST of CmoCh04G029870 vs. TAIR 10
Match NameE-valueIdentityDescription
AT5G09920.13.1e-6993.48RNA polymerase II, Rpb4, core protein [more]
AT4G15950.11.4e-1638.14RNA polymerase II, Rpb4, core protein [more]
InterPro
Analysis Name: InterPro Annotations of Cucurbita moschata (Rifu) v1
Date Performed: 2021-10-25
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR006590RNA polymerase Rpb4/RPC9, coreSMARTSM00657rpol4neu2coord: 16..138
e-value: 1.4E-58
score: 210.6
IPR005574RNA polymerase subunit RPB4/RPC9PFAMPF03874RNA_pol_Rpb4coord: 23..132
e-value: 2.0E-23
score: 83.0
IPR038324Rpb4/RPC9 superfamilyGENE3D1.20.1250.40coord: 2..138
e-value: 2.0E-51
score: 175.3
NoneNo IPR availablePANTHERPTHR21297DNA-DIRECTED RNA POLYMERASE IIcoord: 1..138
NoneNo IPR availablePANTHERPTHR21297:SF3DNA-DIRECTED RNA POLYMERASE II SUBUNIT 4-LIKEcoord: 1..138
IPR010997HRDC-like superfamilySUPERFAMILY47819HRDC-likecoord: 3..136

Relationships

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

Feature NameUnique NameType
CmoCh04G029870.1CmoCh04G029870.1mRNA


GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0031990 mRNA export from nucleus in response to heat stress
biological_process GO:0000288 nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay
biological_process GO:0045948 positive regulation of translational initiation
biological_process GO:0034402 recruitment of 3'-end processing factors to RNA polymerase II holoenzyme complex
biological_process GO:0006367 transcription initiation from RNA polymerase II promoter
biological_process GO:0044237 cellular metabolic process
biological_process GO:0006352 DNA-templated transcription, initiation
cellular_component GO:0000932 P-body
cellular_component GO:0005665 RNA polymerase II, core complex
cellular_component GO:0030880 RNA polymerase complex
molecular_function GO:0003899 DNA-directed 5'-3' RNA polymerase activity
molecular_function GO:0000166 nucleotide binding
molecular_function GO:0031369 translation initiation factor binding