ClCG11G005330 (gene) Watermelon (Charleston Gray)

Overview
NameClCG11G005330
Typegene
OrganismCitrullus lanatus (Watermelon (Charleston Gray))
DescriptionDNA-directed RNA polymerase II subunit RPB4
LocationCG_Chr11 : 5754637 .. 5756099 (-)
Genome Viewer
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

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

mRNA sequence

ATGATATCTGGCACTTACTTCCTTTGTCTACCTGCAGAGTTTTTAAAAGCTAAGTGTTTAATGAATTGCGAAGTTTCTTTGATCCTTGAACACAAGTATGAGCAGCTTCAACAAATGGCCGAGGATCCAACAAATCAAATTTCTCAAGTGTTTGAGAAGTCATTGCAGTATGTGAAACGCTTTAGTCGCTATAAGAACCCTGATGCTGTTAGACAAGTCCGAGAAATTCTAAGCAGATACCAACTAGCTGAGTTTGAGCTATGTGTTCTTGGCAACCTTTGCCCTGAAACTGTAGAGGAAGCTATCTCCATAGTTCCATCTTTGAAGACTAAAGGAAGGGTTCATGATGATGAGGCAATAGAGAAGATGTTGAATGATCTTTCGTTAATCAAAAAGTTTGAGTAG

Coding sequence (CDS)

ATGATATCTGGCACTTACTTCCTTTGTCTACCTGCAGAGTTTTTAAAAGCTAAGTGTTTAATGAATTGCGAAGTTTCTTTGATCCTTGAACACAAGTATGAGCAGCTTCAACAAATGGCCGAGGATCCAACAAATCAAATTTCTCAAGTGTTTGAGAAGTCATTGCAGTATGTGAAACGCTTTAGTCGCTATAAGAACCCTGATGCTGTTAGACAAGTCCGAGAAATTCTAAGCAGATACCAACTAGCTGAGTTTGAGCTATGTGTTCTTGGCAACCTTTGCCCTGAAACTGTAGAGGAAGCTATCTCCATAGTTCCATCTTTGAAGACTAAAGGAAGGGTTCATGATGATGAGGCAATAGAGAAGATGTTGAATGATCTTTCGTTAATCAAAAAGTTTGAGTAG

Protein sequence

MISGTYFLCLPAEFLKAKCLMNCEVSLILEHKYEQLQQMAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAISIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE
Homology
[Close]
BLAST of ClCG11G005330 vs. Swiss-Prot
Match: NRPB4_ARATH (DNA-directed RNA polymerase II subunit 4 OS=Arabidopsis thaliana GN=NRPB4 PE=1 SV=1)

HSP 1 Score: 227.3 bits (578), Expect = 1.0e-58
Identity = 109/122 (89.34%), Postives = 117/122 (95.90%), Query Frame = 1 

Query: 13  EFLKAKCLMNCEVSLILEHKYEQLQQMAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQ 72
           EFLKAKCLMNCEVSLILEHK+EQLQQ++EDP NQ+SQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17  EFLKAKCLMNCEVSLILEHKFEQLQQISEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 73  VREILSRYQLAEFELCVLGNLCPETVEEAISIVPSLKTKGRVHDDEAIEKMLNDLSLIKK 132
           VREILSR+QL EFELCVLGNLCPETVEEA+++VPSLKTKGR HDDEAIEKMLNDLSL+K+
Sbjct: 77  VREILSRHQLTEFELCVLGNLCPETVEEAVAMVPSLKTKGRAHDDEAIEKMLNDLSLVKR 136

Query: 133 FE 135
           FE
Sbjct: 137 FE 138

[Close]
BLAST of ClCG11G005330 vs. Swiss-Prot
Match: RPB4_HUMAN (DNA-directed RNA polymerase II subunit RPB4 OS=Homo sapiens GN=POLR2D PE=1 SV=1)

HSP 1 Score: 101.3 bits (251), Expect = 8.5e-21
Identity = 54/127 (42.52%), Postives = 84/127 (66.14%), Query Frame = 1 

Query: 8   LCLPAEFLKAKCLMNCEVSLILEHKYEQLQQMAEDPTNQISQVFEKSLQYVKRFSRYKNP 67
           L  P EF  A+ L+N EV ++LEH+ +Q  + AED   ++S+VF K+L Y  RFSR+KN 
Sbjct: 20  LIFPKEFETAETLLNSEVHMLLEHRKQQ-NESAEDE-QELSEVFMKTLNYTARFSRFKNR 79

Query: 68  DAVRQVREILSRYQLAEFELCVLGNLCPETVEEAISIVPSLKTKGRVHDDEAIEKMLNDL 127
           + +  VR +L + +L +FEL  L NLCPET EE+ +++PSL  +GR  D+E ++++L+D+
Sbjct: 80  ETIASVRSLLLQKKLHKFELACLANLCPETAEESKALIPSL--EGRFEDEE-LQQILDDI 139

Query: 128 SLIKKFE 135
              + F+
Sbjct: 140 QTKRSFQ 141

[Close]
BLAST of ClCG11G005330 vs. Swiss-Prot
Match: RPB4_MOUSE (DNA-directed RNA polymerase II subunit RPB4 OS=Mus musculus GN=Polr2d PE=1 SV=2)

HSP 1 Score: 101.3 bits (251), Expect = 8.5e-21
Identity = 54/127 (42.52%), Postives = 84/127 (66.14%), Query Frame = 1 

Query: 8   LCLPAEFLKAKCLMNCEVSLILEHKYEQLQQMAEDPTNQISQVFEKSLQYVKRFSRYKNP 67
           L  P EF  A+ L+N EV ++LEH+ +Q  + AED   ++S+VF K+L Y  RFSR+KN 
Sbjct: 20  LIFPKEFETAETLLNSEVHMLLEHRKQQ-NESAEDE-QELSEVFMKTLNYTARFSRFKNR 79

Query: 68  DAVRQVREILSRYQLAEFELCVLGNLCPETVEEAISIVPSLKTKGRVHDDEAIEKMLNDL 127
           + +  VR +L + +L +FEL  L NLCPET EE+ +++PSL  +GR  D+E ++++L+D+
Sbjct: 80  ETIASVRSLLLQKKLHKFELACLANLCPETAEESKALIPSL--EGRFEDEE-LQQILDDI 139

Query: 128 SLIKKFE 135
              + F+
Sbjct: 140 QTKRSFQ 141

[Close]
BLAST of ClCG11G005330 vs. Swiss-Prot
Match: RPB4_DICDI (DNA-directed RNA polymerase II subunit rpb4 OS=Dictyostelium discoideum GN=polr2d PE=3 SV=1)

HSP 1 Score: 94.0 bits (232), Expect = 1.4e-18
Identity = 55/139 (39.57%), Postives = 83/139 (59.71%), Query Frame = 1 

Query: 8   LCLPAEFLKAKCLMNCEVSLILEHK----------YEQ---LQQMAEDPTNQISQVFEKS 67
           L  P +   AK L+N EV+++LEH+          + Q   L  +  +  N I + F K+
Sbjct: 20  LKFPRDLKDAKFLLNSEVAILLEHRKGISESEGTEFPQNTLLIHLYYNSINDIIRTFHKT 79

Query: 68  LQYVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAISIVPSLKTKGRV 127
           L Y ++FSRYKN  +++QVR  LS+  L EFE+  L NLCPE  +EA S++PSLK   ++
Sbjct: 80  LAYAEKFSRYKNKTSIKQVRTALSKQNLEEFEIASLANLCPEISDEAKSLIPSLK---KM 139

Query: 128 HDDEAIEKMLNDLSLIKKF 134
            DDE ++ +L++LS ++KF
Sbjct: 140 EDDE-LQAILDELSNLRKF 154

[Close]
BLAST of ClCG11G005330 vs. Swiss-Prot
Match: NRPD4_ARATH (DNA-directed RNA polymerases IV and V subunit 4 OS=Arabidopsis thaliana GN=NRPD4 PE=1 SV=2)

HSP 1 Score: 87.4 bits (215), Expect = 1.3e-16
Identity = 45/118 (38.14%), Postives = 74/118 (62.71%), Query Frame = 1 

Query: 17  AKCLMNCEVSLILEHKYEQLQQMAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREI 76
           A+C+M+CE   IL+    QL  ++EDP+ +I   ++++L YV+    Y NP +VR+V E 
Sbjct: 89  AECMMDCEAFQILDGIKGQLVGLSEDPSIKIPVSYDRALAYVESCVHYTNPQSVRKVLEP 148

Query: 77  LSRYQLAEFELCVLGNLCPETVEEAISIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE 135
           L  Y +++ E+CV+ N   E+V+E ++ +PSLKTK  V  ++ ++  L +LS +KK E
Sbjct: 149 LKTYGISDGEMCVIANASSESVDEVLAFIPSLKTKKEV-INQPLQDALEELSKLKKSE 205

[Close]
BLAST of ClCG11G005330 vs. TrEMBL
Match: A0A0A0K7V5_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_6G014650 PE=4 SV=1)

HSP 1 Score: 238.0 bits (606), Expect = 6.5e-60
Identity = 116/122 (95.08%), Postives = 122/122 (100.00%), Query Frame = 1 

Query: 13  EFLKAKCLMNCEVSLILEHKYEQLQQMAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQ 72
           EFLKAKCLMNCEVSLILEHKYEQLQQM+EDPTNQ+SQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17  EFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 73  VREILSRYQLAEFELCVLGNLCPETVEEAISIVPSLKTKGRVHDDEAIEKMLNDLSLIKK 132
           VRE+LSRYQLAEFELCVLGNLCPETVEEAI++VPSLKTKGRVHDDEAIEKMLNDLSLIK+
Sbjct: 77  VREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIKR 136

Query: 133 FE 135
           FE
Sbjct: 137 FE 138

[Close]
BLAST of ClCG11G005330 vs. TrEMBL
Match: A0A067JW54_JATCU (Uncharacterized protein OS=Jatropha curcas GN=JCGZ_23577 PE=4 SV=1)

HSP 1 Score: 233.8 bits (595), Expect = 1.2e-58
Identity = 115/128 (89.84%), Postives = 122/128 (95.31%), Query Frame = 1 

Query: 7   FLCLPAEFLKAKCLMNCEVSLILEHKYEQLQQMAEDPTNQISQVFEKSLQYVKRFSRYKN 66
           F  L  EFLKAKCLMNCEV+LILEHKYEQLQQM++DP NQ+SQVFEKSLQYVKRFSRYKN
Sbjct: 37  FALLFPEFLKAKCLMNCEVALILEHKYEQLQQMSDDPMNQVSQVFEKSLQYVKRFSRYKN 96

Query: 67  PDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAISIVPSLKTKGRVHDDEAIEKMLND 126
           PDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAI++VPS+KTKGR HDDEAIEKMLND
Sbjct: 97  PDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTKGRAHDDEAIEKMLND 156

Query: 127 LSLIKKFE 135
           LSLIKKFE
Sbjct: 157 LSLIKKFE 164

[Close]
BLAST of ClCG11G005330 vs. TrEMBL
Match: A0A061DJ22_THECC (RNA polymerase II, Rpb4, core protein isoform 1 OS=Theobroma cacao GN=TCM_001258 PE=4 SV=1)

HSP 1 Score: 231.5 bits (589), Expect = 6.1e-58
Identity = 112/122 (91.80%), Postives = 120/122 (98.36%), Query Frame = 1 

Query: 13  EFLKAKCLMNCEVSLILEHKYEQLQQMAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQ 72
           EFLKAKCLMNCEV+LILEHKYEQLQQM+EDP NQ+SQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17  EFLKAKCLMNCEVALILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 73  VREILSRYQLAEFELCVLGNLCPETVEEAISIVPSLKTKGRVHDDEAIEKMLNDLSLIKK 132
           VREILSRYQLAEFELCVLGNLCPETVEEAI++VPS+KTKGR HDD+AIE+MLNDLSLIKK
Sbjct: 77  VREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTKGRAHDDDAIERMLNDLSLIKK 136

Query: 133 FE 135
           FE
Sbjct: 137 FE 138

[Close]
BLAST of ClCG11G005330 vs. TrEMBL
Match: B9H5K4_POPTR (Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0005s08690g PE=4 SV=1)

HSP 1 Score: 231.5 bits (589), Expect = 6.1e-58
Identity = 112/122 (91.80%), Postives = 120/122 (98.36%), Query Frame = 1 

Query: 13  EFLKAKCLMNCEVSLILEHKYEQLQQMAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQ 72
           +FLKAKCLMNCEV+LILEHKYEQLQQM++DP NQ+SQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17  DFLKAKCLMNCEVALILEHKYEQLQQMSDDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 73  VREILSRYQLAEFELCVLGNLCPETVEEAISIVPSLKTKGRVHDDEAIEKMLNDLSLIKK 132
           VREILSRYQLAEFELCVLGNLCPETVEEAI++VPS+KTKGR HDDEAIEKMLNDLSLIKK
Sbjct: 77  VREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTKGRAHDDEAIEKMLNDLSLIKK 136

Query: 133 FE 135
           FE
Sbjct: 137 FE 138

[Close]
BLAST of ClCG11G005330 vs. TrEMBL
Match: A5APH2_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VIT_12s0028g01400 PE=4 SV=1)

HSP 1 Score: 231.5 bits (589), Expect = 6.1e-58
Identity = 112/122 (91.80%), Postives = 120/122 (98.36%), Query Frame = 1 

Query: 13  EFLKAKCLMNCEVSLILEHKYEQLQQMAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQ 72
           EFLKAKCLMNCEV++ILEHKYEQLQQM++DP NQ+SQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17  EFLKAKCLMNCEVAVILEHKYEQLQQMSDDPLNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 73  VREILSRYQLAEFELCVLGNLCPETVEEAISIVPSLKTKGRVHDDEAIEKMLNDLSLIKK 132
           VREILSRYQLAEFELCVLGNLCPETVEEAI++VPS+KTKGR HDDEAIEKMLNDLSLIKK
Sbjct: 77  VREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTKGRAHDDEAIEKMLNDLSLIKK 136

Query: 133 FE 135
           FE
Sbjct: 137 FE 138

[Close]
BLAST of ClCG11G005330 vs. TAIR10
Match: AT5G09920.1 (AT5G09920.1 RNA polymerase II, Rpb4, core protein)

HSP 1 Score: 227.3 bits (578), Expect = 5.8e-60
Identity = 109/122 (89.34%), Postives = 117/122 (95.90%), Query Frame = 1 

Query: 13  EFLKAKCLMNCEVSLILEHKYEQLQQMAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQ 72
           EFLKAKCLMNCEVSLILEHK+EQLQQ++EDP NQ+SQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17  EFLKAKCLMNCEVSLILEHKFEQLQQISEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 73  VREILSRYQLAEFELCVLGNLCPETVEEAISIVPSLKTKGRVHDDEAIEKMLNDLSLIKK 132
           VREILSR+QL EFELCVLGNLCPETVEEA+++VPSLKTKGR HDDEAIEKMLNDLSL+K+
Sbjct: 77  VREILSRHQLTEFELCVLGNLCPETVEEAVAMVPSLKTKGRAHDDEAIEKMLNDLSLVKR 136

Query: 133 FE 135
           FE
Sbjct: 137 FE 138

[Close]
BLAST of ClCG11G005330 vs. TAIR10
Match: AT4G15950.1 (AT4G15950.1 RNA polymerase II, Rpb4, core protein)

HSP 1 Score: 87.4 bits (215), Expect = 7.2e-18
Identity = 45/118 (38.14%), Postives = 74/118 (62.71%), Query Frame = 1 

Query: 17  AKCLMNCEVSLILEHKYEQLQQMAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQVREI 76
           A+C+M+CE   IL+    QL  ++EDP+ +I   ++++L YV+    Y NP +VR+V E 
Sbjct: 89  AECMMDCEAFQILDGIKGQLVGLSEDPSIKIPVSYDRALAYVESCVHYTNPQSVRKVLEP 148

Query: 77  LSRYQLAEFELCVLGNLCPETVEEAISIVPSLKTKGRVHDDEAIEKMLNDLSLIKKFE 135
           L  Y +++ E+CV+ N   E+V+E ++ +PSLKTK  V  ++ ++  L +LS +KK E
Sbjct: 149 LKTYGISDGEMCVIANASSESVDEVLAFIPSLKTKKEV-INQPLQDALEELSKLKKSE 205

[Close]
BLAST of ClCG11G005330 vs. NCBI nr
Match: gi|659119066|ref|XP_008459458.1| (PREDICTED: DNA-directed RNA polymerase II subunit 4-like [Cucumis melo])

HSP 1 Score: 239.2 bits (609), Expect = 4.2e-60
Identity = 120/122 (98.36%), Postives = 120/122 (98.36%), Query Frame = 1 

Query: 13  EFLKAKCLMNCEVSLILEHKYEQLQQMAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQ 72
           EFLKAKCLMNCEVSLILEHKYEQLQQ AEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17  EFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 73  VREILSRYQLAEFELCVLGNLCPETVEEAISIVPSLKTKGRVHDDEAIEKMLNDLSLIKK 132
           VREILSRYQLAEFELCVLGNLCPETVEEA SIVPSLKTKGRVHDDEAIEKMLNDLSLIKK
Sbjct: 77  VREILSRYQLAEFELCVLGNLCPETVEEATSIVPSLKTKGRVHDDEAIEKMLNDLSLIKK 136

Query: 133 FE 135
           FE
Sbjct: 137 FE 138

[Close]
BLAST of ClCG11G005330 vs. NCBI nr
Match: gi|449441240|ref|XP_004138390.1| (PREDICTED: DNA-directed RNA polymerase II subunit 4 [Cucumis sativus])

HSP 1 Score: 238.0 bits (606), Expect = 9.3e-60
Identity = 116/122 (95.08%), Postives = 122/122 (100.00%), Query Frame = 1 

Query: 13  EFLKAKCLMNCEVSLILEHKYEQLQQMAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQ 72
           EFLKAKCLMNCEVSLILEHKYEQLQQM+EDPTNQ+SQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17  EFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 73  VREILSRYQLAEFELCVLGNLCPETVEEAISIVPSLKTKGRVHDDEAIEKMLNDLSLIKK 132
           VRE+LSRYQLAEFELCVLGNLCPETVEEAI++VPSLKTKGRVHDDEAIEKMLNDLSLIK+
Sbjct: 77  VREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHDDEAIEKMLNDLSLIKR 136

Query: 133 FE 135
           FE
Sbjct: 137 FE 138

[Close]
BLAST of ClCG11G005330 vs. NCBI nr
Match: gi|449447482|ref|XP_004141497.1| (PREDICTED: DNA-directed RNA polymerase II subunit 4-like [Cucumis sativus])

HSP 1 Score: 237.3 bits (604), Expect = 1.6e-59
Identity = 118/122 (96.72%), Postives = 120/122 (98.36%), Query Frame = 1 

Query: 13  EFLKAKCLMNCEVSLILEHKYEQLQQMAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQ 72
           EFLKAKCLMNCEVSLILEHKYEQLQQ AEDPTNQ+SQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17  EFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 73  VREILSRYQLAEFELCVLGNLCPETVEEAISIVPSLKTKGRVHDDEAIEKMLNDLSLIKK 132
           VREILSRYQLAEFELCVLGNLCPETVEEA SIVPSLKTKGRVH+DEAIEKMLNDLSLIKK
Sbjct: 77  VREILSRYQLAEFELCVLGNLCPETVEEATSIVPSLKTKGRVHEDEAIEKMLNDLSLIKK 136

Query: 133 FE 135
           FE
Sbjct: 137 FE 138

[Close]
BLAST of ClCG11G005330 vs. NCBI nr
Match: gi|747083275|ref|XP_011088997.1| (PREDICTED: DNA-directed RNA polymerase II subunit 4 [Sesamum indicum])

HSP 1 Score: 235.0 bits (598), Expect = 7.9e-59
Identity = 115/127 (90.55%), Postives = 123/127 (96.85%), Query Frame = 1 

Query: 8   LCLPAEFLKAKCLMNCEVSLILEHKYEQLQQMAEDPTNQISQVFEKSLQYVKRFSRYKNP 67
           L +P EFLKAKCLMNCEV+LILEHKYEQLQQMA+DP NQ+SQVFEKSLQYVKRFSRYKNP
Sbjct: 12  LKIPDEFLKAKCLMNCEVALILEHKYEQLQQMADDPMNQMSQVFEKSLQYVKRFSRYKNP 71

Query: 68  DAVRQVREILSRYQLAEFELCVLGNLCPETVEEAISIVPSLKTKGRVHDDEAIEKMLNDL 127
           DAVRQVREILSRYQLAEFELCVLGNLCPETVEEAI++VPS+KT+GR HDDEAIEKMLNDL
Sbjct: 72  DAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDL 131

Query: 128 SLIKKFE 135
           SLIKKFE
Sbjct: 132 SLIKKFE 138

[Close]
BLAST of ClCG11G005330 vs. NCBI nr
Match: gi|747085619|ref|XP_011090278.1| (PREDICTED: DNA-directed RNA polymerase II subunit 4-like [Sesamum indicum])

HSP 1 Score: 235.0 bits (598), Expect = 7.9e-59
Identity = 115/127 (90.55%), Postives = 123/127 (96.85%), Query Frame = 1 

Query: 8   LCLPAEFLKAKCLMNCEVSLILEHKYEQLQQMAEDPTNQISQVFEKSLQYVKRFSRYKNP 67
           L +P EFLKAKCLMNCEV+LILEHKYEQLQQMA+DP NQ+SQVFEKSLQYVKRFSRYKNP
Sbjct: 12  LKIPDEFLKAKCLMNCEVALILEHKYEQLQQMADDPMNQMSQVFEKSLQYVKRFSRYKNP 71

Query: 68  DAVRQVREILSRYQLAEFELCVLGNLCPETVEEAISIVPSLKTKGRVHDDEAIEKMLNDL 127
           DAVRQVREILSRYQLAEFELCVLGNLCPETVEEAI++VPS+KT+GR HDDEAIEKMLNDL
Sbjct: 72  DAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTRGRAHDDEAIEKMLNDL 131

Query: 128 SLIKKFE 135
           SLIKKFE
Sbjct: 132 SLIKKFE 138

The following BLAST results are available for this feature:
BLAST of ClCG11G005330 vs. Swiss-Prot
Match NameE-valueIdentityDescription
NRPB4_ARATH1.0e-5889.34DNA-directed RNA polymerase II subunit 4 OS=Arabidopsis thaliana GN=NRPB4 PE=1 S... [more]
RPB4_HUMAN8.5e-2142.52DNA-directed RNA polymerase II subunit RPB4 OS=Homo sapiens GN=POLR2D PE=1 SV=1[more]
RPB4_MOUSE8.5e-2142.52DNA-directed RNA polymerase II subunit RPB4 OS=Mus musculus GN=Polr2d PE=1 SV=2[more]
RPB4_DICDI1.4e-1839.57DNA-directed RNA polymerase II subunit rpb4 OS=Dictyostelium discoideum GN=polr2... [more]
NRPD4_ARATH1.3e-1638.14DNA-directed RNA polymerases IV and V subunit 4 OS=Arabidopsis thaliana GN=NRPD4... [more]
BLAST of ClCG11G005330 vs. TrEMBL
Match NameE-valueIdentityDescription
A0A0A0K7V5_CUCSA6.5e-6095.08Uncharacterized protein OS=Cucumis sativus GN=Csa_6G014650 PE=4 SV=1[more]
A0A067JW54_JATCU1.2e-5889.84Uncharacterized protein OS=Jatropha curcas GN=JCGZ_23577 PE=4 SV=1[more]
A0A061DJ22_THECC6.1e-5891.80RNA polymerase II, Rpb4, core protein isoform 1 OS=Theobroma cacao GN=TCM_001258... [more]
B9H5K4_POPTR6.1e-5891.80Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0005s08690g PE=4 SV=1[more]
A5APH2_VITVI6.1e-5891.80Putative uncharacterized protein OS=Vitis vinifera GN=VIT_12s0028g01400 PE=4 SV=... [more]
BLAST of ClCG11G005330 vs. TAIR10
Match NameE-valueIdentityDescription
AT5G09920.15.8e-6089.34 RNA polymerase II, Rpb4, core protein[more]
AT4G15950.17.2e-1838.14 RNA polymerase II, Rpb4, core protein[more]
BLAST of ClCG11G005330 vs. NCBI nr
Match NameE-valueIdentityDescription
gi|659119066|ref|XP_008459458.1|4.2e-6098.36PREDICTED: DNA-directed RNA polymerase II subunit 4-like [Cucumis melo][more]
gi|449441240|ref|XP_004138390.1|9.3e-6095.08PREDICTED: DNA-directed RNA polymerase II subunit 4 [Cucumis sativus][more]
gi|449447482|ref|XP_004141497.1|1.6e-5996.72PREDICTED: DNA-directed RNA polymerase II subunit 4-like [Cucumis sativus][more]
gi|747083275|ref|XP_011088997.1|7.9e-5990.55PREDICTED: DNA-directed RNA polymerase II subunit 4 [Sesamum indicum][more]
gi|747085619|ref|XP_011090278.1|7.9e-5990.55PREDICTED: DNA-directed RNA polymerase II subunit 4-like [Sesamum indicum][more]
Annotated Terms
The following terms have been associated with this gene:
Vocabulary: INTERPRO
TermDefinition
IPR005574RPB4/RPC9
IPR006590RNA_pol_Rpb4/RPC9_core
IPR010997HRDC-like_sf
Vocabulary: Biological Process
TermDefinition
GO:0006351transcription, DNA-templated
GO:0044237cellular metabolic process
Vocabulary: Molecular Function
TermDefinition
GO:0003899DNA-directed RNA polymerase activity
GO:0000166nucleotide binding
GO:0003824catalytic activity
GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006144 purine nucleobase metabolic process
biological_process GO:0006351 transcription, DNA-templated
biological_process GO:0006352 DNA-templated transcription, initiation
biological_process GO:0006367 transcription initiation from RNA polymerase II promoter
biological_process GO:0034402 recruitment of 3'-end processing factors to RNA polymerase II holoenzyme complex
biological_process GO:0045948 positive regulation of translational initiation
biological_process GO:0000288 nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay
biological_process GO:0006206 pyrimidine nucleobase metabolic process
biological_process GO:0031990 mRNA export from nucleus in response to heat stress
biological_process GO:0006366 transcription from RNA polymerase II promoter
biological_process GO:0044237 cellular metabolic process
biological_process GO:0000394 RNA splicing, via endonucleolytic cleavage and ligation
cellular_component GO:0005730 nucleolus
cellular_component GO:0005665 DNA-directed RNA polymerase II, core complex
cellular_component GO:0000932 cytoplasmic mRNA processing body
cellular_component GO:0005575 cellular_component
cellular_component GO:0030880 RNA polymerase complex
molecular_function GO:0003824 catalytic activity
molecular_function GO:0000166 nucleotide binding
molecular_function GO:0003899 DNA-directed RNA polymerase activity
molecular_function GO:0003697 single-stranded DNA binding
molecular_function GO:0003727 single-stranded RNA binding
molecular_function GO:0031369 translation initiation factor binding
Relationships

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

Feature NameUnique NameType
ClCG11G005330.1ClCG11G005330.1mRNA


InterPro
Analysis Name: InterPro Annotations of watermelon (Charleston Gray)
Date Performed: 2016-09-28
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR005574RNA polymerase II, Rpb4PFAMPF03874RNA_pol_Rpb4coord: 19..128
score: 1.8
IPR006590RNA polymerase II, Rpb4, coreSMARTSM00657rpol4neu2coord: 12..134
score: 1.5
IPR010997HRDC-likeunknownSSF47819HRDC-likecoord: 10..132
score: 1.74
NoneNo IPR availablePANTHERPTHR21297DNA-DIRECTED RNA POLYMERASE IIcoord: 10..134
score: 1.7

Synteny
The following gene(s) are orthologous to this gene:
GeneOrthologueOrganismBlock
ClCG11G005330Csa5G643990Cucumber (Chinese Long) v2cuwcgB353
ClCG11G005330MELO3C022087Melon (DHL92) v3.5.1mewcgB009
ClCG11G005330Cla016457Watermelon (97103) v1wcgwmB107
ClCG11G005330Cla97C11G212250Watermelon (97103) v2wcgwmbB065
ClCG11G005330Bhi04G001820Wax gourdwcgwgoB158
ClCG11G005330Bhi06G000082Wax gourdwcgwgoB145
ClCG11G005330CSPI05G29990Wild cucumber (PI 183967)cpiwcgB370
ClCG11G005330Cucsa.238130Cucumber (Gy14) v1cgywcgB416
ClCG11G005330CmaCh04G028590Cucurbita maxima (Rimu)cmawcgB632
ClCG11G005330CmoCh04G029870Cucurbita moschata (Rifu)cmowcgB635
ClCG11G005330Lsi03G002270Bottle gourd (USVL1VR-Ls)lsiwcgB226
ClCG11G005330Cp4.1LG01g22050Cucurbita pepo (Zucchini)cpewcgB368
ClCG11G005330CsGy5G029380Cucumber (Gy14) v2cgybwcgB328
ClCG11G005330MELO3C022087.2Melon (DHL92) v3.6.1medwcgB008
ClCG11G005330Carg05935Silver-seed gourdcarwcgB0022
ClCG11G005330CsaV3_5G039120Cucumber (Chinese Long) v3cucwcgB376
The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:
GeneOrganismBlock
ClCG11G005330Melon (DHL92) v3.6.1medwcgB049
ClCG11G005330Silver-seed gourdcarwcgB0019
ClCG11G005330Silver-seed gourdcarwcgB0255
ClCG11G005330Cucumber (Chinese Long) v3cucwcgB380
ClCG11G005330Watermelon (97103) v2wcgwmbB074
ClCG11G005330Wax gourdwcgwgoB178
ClCG11G005330Watermelon (Charleston Gray)wcgwcgB070
ClCG11G005330Cucumber (Gy14) v1cgywcgB491
ClCG11G005330Cucurbita maxima (Rimu)cmawcgB252
ClCG11G005330Cucurbita maxima (Rimu)cmawcgB619
ClCG11G005330Cucurbita moschata (Rifu)cmowcgB240
ClCG11G005330Cucurbita moschata (Rifu)cmowcgB621
ClCG11G005330Wild cucumber (PI 183967)cpiwcgB372
ClCG11G005330Cucumber (Chinese Long) v2cuwcgB355
ClCG11G005330Melon (DHL92) v3.5.1mewcgB049
ClCG11G005330Watermelon (97103) v1wcgwmB096
ClCG11G005330Cucurbita pepo (Zucchini)cpewcgB159
ClCG11G005330Cucurbita pepo (Zucchini)cpewcgB355
ClCG11G005330Bottle gourd (USVL1VR-Ls)lsiwcgB267