Carg05935 (gene) Silver-seed gourd

Overview
NameCarg05935
Typegene
OrganismCucurbita argyrosperma (Silver-seed gourd)
DescriptionDNA-directed RNA polymerase II subunit
LocationCucurbita_argyrosperma_scaffold_026 : 350688 .. 353502 (-)
Genome Viewer
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

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

mRNA sequence

TTCCTCAATTGTTTTATAATTGGGTTTCTTGAAAATATTAGAGAAATCTGTGTGTCGCGCCTTCTCTGTTTCCCGCCGGCTCTCCCTTTGCGCCGTCACGTCGCACCGCCGCTTCTGGCCTCCTAATCCTCTCGGTGTTTTGTGATTCTTTTGGTTGTCCAGAACTCCAACTTCAAGCATGTCTGGAGAGGAGGAAGAAAATGCTGCTGAGCTTAAAATTGGGGATGAGTTTTTGAAGGCCAAGTGTTTAATGAATTGTGAGGTTTCTTTGATCCTTGAACACAAATATGAACAACTTCAACAAATGTCTGAGGATCCAATGAATCAAGTTTCTCAAGTGTTTGAAAAGTCGCTGCAGTATGTGAAACGCTTTAGTCGCTATAAAAATCCTGATGCCGTTAGACAACTCTGTGTTCTTGGCAACCTTTGTCCTGAAACCGTGGAGGAAGCTATTGCTATGGTACCATCTTTGAAGGCTAAAGGGAGGGTGCACGACGATGAAGCAATCGAGAAGATGTTAAACGATCTGTCGTTAATCAAAAAGTTTGAGTAGTTACTTTCTAAGTTTGGGTT

Coding sequence (CDS)

ATGTCTGGAGAGGAGGAAGAAAATGCTGCTGAGCTTAAAATTGGGGATGAGTTTTTGAAGGCCAAGTGTTTAATGAATTGTGAGGTTTCTTTGATCCTTGAACACAAATATGAACAACTTCAACAAATGTCTGAGGATCCAATGAATCAAGTTTCTCAAGTGTTTGAAAAGTCGCTGCAGTATGTGAAACGCTTTAGTCGCTATAAAAATCCTGATGCCGTTAGACAACTCTGTGTTCTTGGCAACCTTTGTCCTGAAACCGTGGAGGAAGCTATTGCTATGGTACCATCTTTGAAGGCTAAAGGGAGGGTGCACGACGATGAAGCAATCGAGAAGATGTTAAACGATCTGTCGTTAATCAAAAAGTTTGAGTAG

Protein sequence

MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPSLKAKGRVHDDEAIEKMLNDLSLIKKFE
Homology
[Close]
BLAST of Carg05935 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: 235.3 bits (599), Expect = 1.1e-58
Identity = 124/138 (89.86%), Postives = 124/138 (89.86%), Query Frame = 0 

Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQ--------------LCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120
           YVKRFSRYKNPDAVRQ              LCVLGNLCPETVEEAIAMVPSLKAKGRVHD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120

Query: 121 DEAIEKMLNDLSLIKKFE 125
           DEAIEKMLNDLSLIKKFE
Sbjct: 121 DEAIEKMLNDLSLIKKFE 138

[Close]
BLAST of Carg05935 vs. NCBI nr
Match: KHG12393.1 (DNA-directed RNA polymerase II subunit RPB4 [Gossypium arboreum] >KJB38134.1 hypothetical protein B456_006G238100 [Gossypium raimondii] >PPD72010.1 hypothetical protein GOBAR_DD31092 [Gossypium barbadense] >PPS08285.1 hypothetical protein GOBAR_AA12366 [Gossypium barbadense])

HSP 1 Score: 235.0 bits (598), Expect = 1.4e-58
Identity = 116/124 (93.55%), Postives = 122/124 (98.39%), Query Frame = 0 

Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIG+EFLKAKCLMNCEV+LILEHKYEQLQQMS+DPMNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGEEFLKAKCLMNCEVALILEHKYEQLQQMSDDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPSLKAKGRVHDDEAIEKMLNDLSLI 120
           YVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPS+K KGR HDD+AIE+MLNDLSLI
Sbjct: 61  YVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPSIKTKGRAHDDDAIERMLNDLSLI 120

Query: 121 KKFE 125
           KKFE
Sbjct: 121 KKFE 124

[Close]
BLAST of Carg05935 vs. NCBI nr
Match: XP_022133507.1 (DNA-directed RNA polymerase II subunit 4 [Momordica charantia])

HSP 1 Score: 232.3 bits (591), Expect = 9.2e-58
Identity = 122/138 (88.41%), Postives = 122/138 (88.41%), Query Frame = 0 

Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQ--------------LCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120
           YVKRFSRYKNPDAVRQ              LCVLGNLCPETVEEAIAMVPSLK KGR HD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRAHD 120

Query: 121 DEAIEKMLNDLSLIKKFE 125
           DEAIEKMLNDLSLIKKFE
Sbjct: 121 DEAIEKMLNDLSLIKKFE 138

[Close]
BLAST of Carg05935 vs. NCBI nr
Match: XP_004138390.1 (PREDICTED: 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 PREDICTED: DNA-directed RNA polymerase II subunit 4 [Cucumis sativus] >KGN45845.1 hypothetical protein Csa_6G014650 [Cucumis sativus])

HSP 1 Score: 230.3 bits (586), Expect = 3.5e-57
Identity = 121/138 (87.68%), Postives = 122/138 (88.41%), Query Frame = 0 

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

Query: 61  YVKRFSRYKNPDAVRQ--------------LCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120
           YVKRFSRYKNPDAVRQ              LCVLGNLCPETVEEAIAMVPSLK KGRVHD
Sbjct: 61  YVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD 120

Query: 121 DEAIEKMLNDLSLIKKFE 125
           DEAIEKMLNDLSLIK+FE
Sbjct: 121 DEAIEKMLNDLSLIKRFE 138

[Close]
BLAST of Carg05935 vs. NCBI nr
Match: XP_010520027.1 (PREDICTED: DNA-directed RNA polymerase II subunit 4 [Tarenaya hassleriana])

HSP 1 Score: 229.6 bits (584), Expect = 5.9e-57
Identity = 119/138 (86.23%), Postives = 123/138 (89.13%), Query Frame = 0 

Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEV+LILEHKYEQLQQ+SEDPMNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVALILEHKYEQLQQISEDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQ--------------LCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120
           YVKRFSRYKNPDAVRQ              LCVLGNLCPETVEEA+AMVPSLK KGRVHD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRYQLTEFELCVLGNLCPETVEEAVAMVPSLKTKGRVHD 120

Query: 121 DEAIEKMLNDLSLIKKFE 125
           DEAIEKMLNDLSLIK+FE
Sbjct: 121 DEAIEKMLNDLSLIKRFE 138

[Close]
BLAST of Carg05935 vs. TAIR10
Match: AT5G09920.1 (RNA polymerase II, Rpb4, core protein)

HSP 1 Score: 227.3 bits (578), Expect = 5.4e-60
Identity = 117/138 (84.78%), Postives = 122/138 (88.41%), Query Frame = 0 

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

Query: 61  YVKRFSRYKNPDAVRQ--------------LCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120
           YVKRFSRYKNPDAVRQ              LCVLGNLCPETVEEA+AMVPSLK KGR HD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRHQLTEFELCVLGNLCPETVEEAVAMVPSLKTKGRAHD 120

Query: 121 DEAIEKMLNDLSLIKKFE 125
           DEAIEKMLNDLSL+K+FE
Sbjct: 121 DEAIEKMLNDLSLVKRFE 138

[Close]
BLAST of Carg05935 vs. TAIR10
Match: AT4G15950.1 (RNA polymerase II, Rpb4, core protein)

HSP 1 Score: 67.8 bits (164), Expect = 5.4e-12
Identity = 40/118 (33.90%), Postives = 66/118 (55.93%), Query Frame = 0 

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

Query: 81  ---------QLCVLGNLCPETVEEAIAMVPSLKAKGRVHDDEAIEKMLNDLSLIKKFE 125
                    ++CV+ N   E+V+E +A +PSLK K  V  ++ ++  L +LS +KK E
Sbjct: 149 LKTYGISDGEMCVIANASSESVDEVLAFIPSLKTKKEV-INQPLQDALEELSKLKKSE 205

[Close]
BLAST of Carg05935 vs. Swiss-Prot
Match: sp|O48890|NRPB4_ARATH (DNA-directed RNA polymerase II subunit 4 OS=Arabidopsis thaliana OX=3702 GN=NRPB4 PE=1 SV=1)

HSP 1 Score: 227.3 bits (578), Expect = 9.7e-59
Identity = 117/138 (84.78%), Postives = 122/138 (88.41%), Query Frame = 0 

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

Query: 61  YVKRFSRYKNPDAVRQ--------------LCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120
           YVKRFSRYKNPDAVRQ              LCVLGNLCPETVEEA+AMVPSLK KGR HD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRHQLTEFELCVLGNLCPETVEEAVAMVPSLKTKGRAHD 120

Query: 121 DEAIEKMLNDLSLIKKFE 125
           DEAIEKMLNDLSL+K+FE
Sbjct: 121 DEAIEKMLNDLSLVKRFE 138

[Close]
BLAST of Carg05935 vs. Swiss-Prot
Match: sp|O15514|RPB4_HUMAN (DNA-directed RNA polymerase II subunit RPB4 OS=Homo sapiens OX=9606 GN=POLR2D PE=1 SV=1)

HSP 1 Score: 84.3 bits (207), Expect = 1.0e-15
Identity = 47/137 (34.31%), Postives = 83/137 (60.58%), 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  VKRFSRYKNPDAVR--------------QLCVLGNLCPETVEEAIAMVPSLKAKGRVHDD 121
             RFSR+KN + +               +L  L NLCPET EE+ A++PSL+ +    +D
Sbjct: 70  TARFSRFKNRETIASVRSLLLQKKLHKFELACLANLCPETAEESKALIPSLEGR---FED 129

Query: 122 EAIEKMLNDLSLIKKFE 125
           E ++++L+D+   + F+
Sbjct: 130 EELQQILDDIQTKRSFQ 141

[Close]
BLAST of Carg05935 vs. Swiss-Prot
Match: sp|Q9D7M8|RPB4_MOUSE (DNA-directed RNA polymerase II subunit RPB4 OS=Mus musculus OX=10090 GN=Polr2d PE=1 SV=2)

HSP 1 Score: 84.3 bits (207), Expect = 1.0e-15
Identity = 47/137 (34.31%), Postives = 83/137 (60.58%), 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  VKRFSRYKNPDAVR--------------QLCVLGNLCPETVEEAIAMVPSLKAKGRVHDD 121
             RFSR+KN + +               +L  L NLCPET EE+ A++PSL+ +    +D
Sbjct: 70  TARFSRFKNRETIASVRSLLLQKKLHKFELACLANLCPETAEESKALIPSLEGR---FED 129

Query: 122 EAIEKMLNDLSLIKKFE 125
           E ++++L+D+   + F+
Sbjct: 130 EELQQILDDIQTKRSFQ 141

[Close]
BLAST of Carg05935 vs. Swiss-Prot
Match: sp|Q54S04|RPB4_DICDI (DNA-directed RNA polymerase II subunit rpb4 OS=Dictyostelium discoideum OX=44689 GN=polr2d PE=3 SV=1)

HSP 1 Score: 72.4 bits (176), Expect = 4.0e-12
Identity = 48/147 (32.65%), Postives = 82/147 (55.78%), 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  VSQVFEKSLQYVKRFSRYKNPDAVRQ--------------LCVLGNLCPETVEEAIAMVP 123
           + + F K+L Y ++FSRYKN  +++Q              +  L NLCPE  +EA +++P
Sbjct: 72  IIRTFHKTLAYAEKFSRYKNKTSIKQVRTALSKQNLEEFEIASLANLCPEISDEAKSLIP 131

[Close]
BLAST of Carg05935 vs. Swiss-Prot
Match: sp|Q9VEA5|RPB4_DROME (DNA-directed RNA polymerase II subunit Rpb4 OS=Drosophila melanogaster OX=7227 GN=Rpb4 PE=2 SV=5)

HSP 1 Score: 70.1 bits (170), Expect = 2.0e-11
Identity = 42/126 (33.33%), Postives = 71/126 (56.35%), 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  SRYKNPDAVR--------------QLCVLGNLCPETVEEAIAMVPSLKAKGRVHDDEAIE 118
            ++KN + +               +L  LGNLCPE  EEA A++PSL+ +    +DE + 
Sbjct: 71  RKFKNKETIMSARSLLMQKKLHKFELAALGNLCPEAPEEAKALIPSLEGR---FEDEELR 130

[Close]
BLAST of Carg05935 vs. TrEMBL
Match: tr|A0A2P5QBV6|A0A2P5QBV6_GOSBA (Uncharacterized protein OS=Gossypium barbadense OX=3634 GN=GOBAR_AA12366 PE=4 SV=1)

HSP 1 Score: 235.0 bits (598), Expect = 9.4e-59
Identity = 116/124 (93.55%), Postives = 122/124 (98.39%), Query Frame = 0 

Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIG+EFLKAKCLMNCEV+LILEHKYEQLQQMS+DPMNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGEEFLKAKCLMNCEVALILEHKYEQLQQMSDDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPSLKAKGRVHDDEAIEKMLNDLSLI 120
           YVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPS+K KGR HDD+AIE+MLNDLSLI
Sbjct: 61  YVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPSIKTKGRAHDDDAIERMLNDLSLI 120

Query: 121 KKFE 125
           KKFE
Sbjct: 121 KKFE 124

[Close]
BLAST of Carg05935 vs. TrEMBL
Match: tr|A0A0B0NCZ0|A0A0B0NCZ0_GOSAR (DNA-directed RNA polymerase II subunit RPB4 OS=Gossypium arboreum OX=29729 GN=F383_19693 PE=4 SV=1)

HSP 1 Score: 235.0 bits (598), Expect = 9.4e-59
Identity = 116/124 (93.55%), Postives = 122/124 (98.39%), Query Frame = 0 

Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIG+EFLKAKCLMNCEV+LILEHKYEQLQQMS+DPMNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGEEFLKAKCLMNCEVALILEHKYEQLQQMSDDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPSLKAKGRVHDDEAIEKMLNDLSLI 120
           YVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPS+K KGR HDD+AIE+MLNDLSLI
Sbjct: 61  YVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPSIKTKGRAHDDDAIERMLNDLSLI 120

Query: 121 KKFE 125
           KKFE
Sbjct: 121 KKFE 124

[Close]
BLAST of Carg05935 vs. TrEMBL
Match: tr|A0A0D2S1E3|A0A0D2S1E3_GOSRA (Uncharacterized protein OS=Gossypium raimondii OX=29730 GN=B456_006G238100 PE=4 SV=1)

HSP 1 Score: 235.0 bits (598), Expect = 9.4e-59
Identity = 116/124 (93.55%), Postives = 122/124 (98.39%), Query Frame = 0 

Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIG+EFLKAKCLMNCEV+LILEHKYEQLQQMS+DPMNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGEEFLKAKCLMNCEVALILEHKYEQLQQMSDDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPSLKAKGRVHDDEAIEKMLNDLSLI 120
           YVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPS+K KGR HDD+AIE+MLNDLSLI
Sbjct: 61  YVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPSIKTKGRAHDDDAIERMLNDLSLI 120

Query: 121 KKFE 125
           KKFE
Sbjct: 121 KKFE 124

[Close]
BLAST of Carg05935 vs. TrEMBL
Match: tr|A0A2N9G2U2|A0A2N9G2U2_FAGSY (Uncharacterized protein OS=Fagus sylvatica OX=28930 GN=FSB_LOCUS21532 PE=4 SV=1)

HSP 1 Score: 230.3 bits (586), Expect = 2.3e-57
Identity = 120/138 (86.96%), Postives = 122/138 (88.41%), Query Frame = 0 

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

Query: 61  YVKRFSRYKNPDAVRQ--------------LCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120
           YVKRFSRYKNPDAVRQ              LCVLGNLCPETVEEAIAMVPS+K KGR HD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTKGRAHD 120

Query: 121 DEAIEKMLNDLSLIKKFE 125
           DEAIEKMLNDLSLIKKFE
Sbjct: 121 DEAIEKMLNDLSLIKKFE 138

[Close]
BLAST of Carg05935 vs. TrEMBL
Match: tr|A0A1S3C4R9|A0A1S3C4R9_CUCME (DNA-directed RNA polymerase II subunit 4 OS=Cucumis melo OX=3656 GN=LOC103496636 PE=4 SV=1)

HSP 1 Score: 230.3 bits (586), Expect = 2.3e-57
Identity = 121/138 (87.68%), Postives = 122/138 (88.41%), Query Frame = 0 

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

Query: 61  YVKRFSRYKNPDAVRQ--------------LCVLGNLCPETVEEAIAMVPSLKAKGRVHD 120
           YVKRFSRYKNPDAVRQ              LCVLGNLCPETVEEAIAMVPSLK KGRVHD
Sbjct: 61  YVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD 120

Query: 121 DEAIEKMLNDLSLIKKFE 125
           DEAIEKMLNDLSLIK+FE
Sbjct: 121 DEAIEKMLNDLSLIKRFE 138

The following BLAST results are available for this feature:
BLAST of Carg05935 vs. NCBI nr
Match NameE-valueIdentityDescription
XP_022954766.11.1e-5889.86DNA-directed RNA polymerase II subunit 4 [Cucurbita moschata] >XP_022954773.1 DN... [more]
KHG12393.11.4e-5893.55DNA-directed RNA polymerase II subunit RPB4 [Gossypium arboreum] >KJB38134.1 hyp... [more]
XP_022133507.19.2e-5888.41DNA-directed RNA polymerase II subunit 4 [Momordica charantia][more]
XP_004138390.13.5e-5787.68PREDICTED: DNA-directed RNA polymerase II subunit 4 [Cucumis sativus] >XP_008456... [more]
XP_010520027.15.9e-5786.23PREDICTED: DNA-directed RNA polymerase II subunit 4 [Tarenaya hassleriana][more]
BLAST of Carg05935 vs. TAIR10
Match NameE-valueIdentityDescription
AT5G09920.15.4e-6084.78RNA polymerase II, Rpb4, core protein[more]
AT4G15950.15.4e-1233.90RNA polymerase II, Rpb4, core protein[more]
BLAST of Carg05935 vs. Swiss-Prot
Match NameE-valueIdentityDescription
sp|O48890|NRPB4_ARATH9.7e-5984.78DNA-directed RNA polymerase II subunit 4 OS=Arabidopsis thaliana OX=3702 GN=NRPB... [more]
sp|O15514|RPB4_HUMAN1.0e-1534.31DNA-directed RNA polymerase II subunit RPB4 OS=Homo sapiens OX=9606 GN=POLR2D PE... [more]
sp|Q9D7M8|RPB4_MOUSE1.0e-1534.31DNA-directed RNA polymerase II subunit RPB4 OS=Mus musculus OX=10090 GN=Polr2d P... [more]
sp|Q54S04|RPB4_DICDI4.0e-1232.65DNA-directed RNA polymerase II subunit rpb4 OS=Dictyostelium discoideum OX=44689... [more]
sp|Q9VEA5|RPB4_DROME2.0e-1133.33DNA-directed RNA polymerase II subunit Rpb4 OS=Drosophila melanogaster OX=7227 G... [more]
BLAST of Carg05935 vs. TrEMBL
Match NameE-valueIdentityDescription
tr|A0A2P5QBV6|A0A2P5QBV6_GOSBA9.4e-5993.55Uncharacterized protein OS=Gossypium barbadense OX=3634 GN=GOBAR_AA12366 PE=4 SV... [more]
tr|A0A0B0NCZ0|A0A0B0NCZ0_GOSAR9.4e-5993.55DNA-directed RNA polymerase II subunit RPB4 OS=Gossypium arboreum OX=29729 GN=F3... [more]
tr|A0A0D2S1E3|A0A0D2S1E3_GOSRA9.4e-5993.55Uncharacterized protein OS=Gossypium raimondii OX=29730 GN=B456_006G238100 PE=4 ... [more]
tr|A0A2N9G2U2|A0A2N9G2U2_FAGSY2.3e-5786.96Uncharacterized protein OS=Fagus sylvatica OX=28930 GN=FSB_LOCUS21532 PE=4 SV=1[more]
tr|A0A1S3C4R9|A0A1S3C4R9_CUCME2.3e-5787.68DNA-directed RNA polymerase II subunit 4 OS=Cucumis melo OX=3656 GN=LOC103496636... [more]
Annotated Terms
The following terms have been associated with this gene:
Vocabulary: Molecular Function
TermDefinition
GO:0003824catalytic activity
GO:0000166nucleotide binding
Vocabulary: Biological Process
TermDefinition
GO:0044237cellular metabolic process
GO:0006352DNA-templated transcription, initiation
Vocabulary: Cellular Component
TermDefinition
GO:0030880RNA polymerase complex
Vocabulary: INTERPRO
TermDefinition
IPR010997HRDC-like_sf
IPR038324Rpb4/RPC9_sf
IPR005574RPB4/RPC9
IPR006590RNA_pol_Rpb4/RPC9_core
GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006352 DNA-templated transcription, initiation
biological_process GO:0044237 cellular metabolic process
cellular_component GO:0030880 RNA polymerase complex
molecular_function GO:0003824 catalytic activity
molecular_function GO:0000166 nucleotide binding
Relationships

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

Feature NameUnique NameType
Carg05935-RACarg05935-RAmRNA


InterPro
Analysis Name: InterPro Annotations of silver-seed gourd
Date Performed: 2019-03-07
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR006590RNA polymerase Rpb4/RPC9, coreSMARTSM00657rpol4neu2coord: 16..124
e-value: 1.3E-42
score: 157.6
IPR005574RNA polymerase subunit RPB4/RPC9PFAMPF03874RNA_pol_Rpb4coord: 23..77
e-value: 3.5E-6
score: 27.3
IPR038324Rpb4/RPC9 superfamilyGENE3DG3DSA:1.20.1250.40coord: 2..124
e-value: 5.9E-34
score: 118.7
NoneNo IPR availablePANTHERPTHR21297DNA-DIRECTED RNA POLYMERASE IIcoord: 3..123
IPR010997HRDC-like superfamilySUPERFAMILYSSF47819HRDC-likecoord: 3..122

Synteny
The following gene(s) are orthologous to this gene:
GeneOrthologueOrganismBlock
Carg05935Cla016457Watermelon (97103) v1carwmB0023
Carg05935Cla016430Watermelon (97103) v1carwmB0025
Carg05935Csa5G643990Cucumber (Chinese Long) v2carcuB0022
Carg05935Csa6G014650Cucumber (Chinese Long) v2carcuB0023
Carg05935MELO3C020022Melon (DHL92) v3.5.1carmeB0021
Carg05935MELO3C022087Melon (DHL92) v3.5.1carmeB0016
Carg05935ClCG11G005330Watermelon (Charleston Gray)carwcgB0022
Carg05935ClCG11G005590Watermelon (Charleston Gray)carwcgB0019
Carg05935CSPI06G02250Wild cucumber (PI 183967)carcpiB0024
Carg05935CSPI05G29990Wild cucumber (PI 183967)carcpiB0023
Carg05935Cucsa.325900Cucumber (Gy14) v1carcgyB0026
Carg05935Cucsa.238130Cucumber (Gy14) v1carcgyB0023
Carg05935CmaCh15G001880Cucurbita maxima (Rimu)carcmaB0029
Carg05935CmaCh04G028590Cucurbita maxima (Rimu)carcmaB0033
Carg05935CmoCh04G029870Cucurbita moschata (Rifu)carcmoB0033
Carg05935CmoCh15G002010Cucurbita moschata (Rifu)carcmoB0030
Carg05935Lsi03G002270Bottle gourd (USVL1VR-Ls)carlsiB019
Carg05935Lsi03G002550Bottle gourd (USVL1VR-Ls)carlsiB017
Carg05935Cp4.1LG01g22050Cucurbita pepo (Zucchini)carcpeB0034
Carg05935Cp4.1LG13g07760Cucurbita pepo (Zucchini)carcpeB0032
Carg05935CsGy5G029380Cucumber (Gy14) v2carcgybB0022
Carg05935MELO3C020022.2Melon (DHL92) v3.6.1carmedB0022
Carg05935MELO3C022087.2Melon (DHL92) v3.6.1carmedB0017
Carg05935CsaV3_6G002410Cucumber (Chinese Long) v3carcucB0024
Carg05935CsaV3_5G039120Cucumber (Chinese Long) v3carcucB0023
Carg05935Cla97C11G212530Watermelon (97103) v2carwmbB0015
Carg05935Cla97C11G212250Watermelon (97103) v2carwmbB0019
Carg05935Bhi06G000082Wax gourdcarwgoB0021
Carg05935Bhi04G001820Wax gourdcarwgoB0022
The following gene(s) are paralogous to this gene:
GeneParalogueOrganismBlock
Carg05935Carg02179Silver-seed gourdcarcarB018
The following block(s) are covering this gene:
GeneOrganismBlock
Carg05935Silver-seed gourdcarcarB020
Carg05935Silver-seed gourdcarcarB021
Carg05935Silver-seed gourdcarcarB024
Carg05935Cucumber (Gy14) v2carcgybB0019
Carg05935Cucumber (Gy14) v1carcgyB0018
Carg05935Cucurbita maxima (Rimu)carcmaB0030
Carg05935Cucurbita maxima (Rimu)carcmaB0032
Carg05935Cucurbita moschata (Rifu)carcmoB0031
Carg05935Cucurbita moschata (Rifu)carcmoB0032
Carg05935Cucurbita moschata (Rifu)carcmoB0035
Carg05935Cucurbita pepo (Zucchini)carcpeB0030
Carg05935Cucurbita pepo (Zucchini)carcpeB0031
Carg05935Wild cucumber (PI 183967)carcpiB0020
Carg05935Cucumber (Chinese Long) v2carcuB0020
Carg05935Cucumber (Chinese Long) v3carcucB0020
Carg05935Bottle gourd (USVL1VR-Ls)carlsiB015
Carg05935Melon (DHL92) v3.5.1carmeB0025
Carg05935Melon (DHL92) v3.6.1carmedB0026
Carg05935Watermelon (Charleston Gray)carwcgB0026
Carg05935Watermelon (97103) v1carwmB0019
Carg05935Watermelon (97103) v2carwmbB0021
Carg05935Wax gourdcarwgoB0025