CSPI06G02250 (gene) Wild cucumber (PI 183967) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CSPI06G02250
Type	gene
Organism	Cucumis sativus (Wild cucumber (PI 183967))
Description	DNA-directed RNA polymerase II subunit RPB4
Location	Chr6 : 1673640 .. 1677116 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: five_prime_UTRCDSthree_prime_UTR

Hold the cursor over a type above to highlight its positions in the sequence below.

AAAAAAAAAAAAGCTAACACAATTTTATAAATATTTTTAAAACCACTATGTTTCAAATAAAAGTTTCGATATTTATCCAAATTTCTCCTTTAAAAGCGCCCTCTTTATGATTATTCCGTATCTCTTCCCTCTGTTCAATAACAGTTCATTCGTTTCCTTTCTTCTCCGGCACTTCCGCGGCAGCCAAACCCGCCTCTCGCCGGACACCATCACCACCTAACAACCATCTTTGAGTCTTCTCTTTGCTCCCTCCTTCTCCGCTGCCTCCATTATCGGTCGCCAGTACGCCTCAGCATTCGATTTCTCTATTTTTCCTTCATCACCGCCACGCTGCTACCAGGACCTGTAGAACTCCATCTCGAGGTCTGTCGAAGTTTTTTTTTTTTTATCCTCTTGCTTTTCTTTATTTACAATCTGATCATGAATAGAACGATTAATTTCTTTAAATGCATATATTCCTTTAACTCAAGAGGTTTGCTACTCTAAATCACGCGGTCCAATTCGAATCTTTAAACGTTGACTCTTGTATATCTTGCAAAAATTTTCCTAATTTTGTAATCATATGTTTCACAGTTCTCTTGAACTTATTGTGAAAATTTTGTGCTAAGTCATTCAGTTGGGGCTCAAATGCCATCTAGTTTAGGGTTTATTGCTGCCGACTTTTGAGAGGGTTTTTAGTTCATGATTATTTGGTTAATGTAAAATTGATTTGGGCTTCATTTAAGTGTGAAACGCATCCATCATTTATCTCTTAAAATTAAAGATTAACCATGAACAAGTTGATCGAGTTTTCGTGTGTAGGCTTGCGAAGTATCTTACTAAGTTACTAGCTCATTAATGGAAAACAATGATTAAAATTATGAAACATAAGAGTGCCTTCATGTATTTAATGAGTTACATCACGAGGACAATTTGTTAAGGTTATAAACTAAATCCAATATTAGCAAATGAGAGAACCTTTTGGGTCATTCTATTTCGAGTTTCTTCTCATCGATCTTAACTTTTATCCTGAATCAGTTTTTAACTTAGGCCTTCTAATTTGGTGTCTTGTAATTTTGATATATTTATTTAGTTGGGCGAAGTTAACTTTTTTACTTTGTAGATTTAGTTGTAATCTTGCTGTACTCTGTCCCCAAATATTTTAGGTTGACACAGAACTCCAACTTCAAGCATGTCCGGGGAGGAGGAAGAAAATGCTGCTGAGCTTAAAATTGGAGATGGTAGAAATCTATCTATAAATTAAAACTTCCTATCTATATTCAATGAGAATTTAAGTTTCTTGCATATTTATGGTGATGGGTTTCCTTCATATATTTGTAAAATTAGAATTTTATAAGCAACTGATGTATTTAATTTTTTATTTTGCTCAAAAAGTTAGAAACTTAATTTATAATGTTATACCCCATGACTAATACCCCATGACATTATATGTATCATTATTGCGATTCTTTGATCCTTCTAGTGGCCAATACCGATAGGGAGACTGTTCTTATGTACAATGCATATAGATATAGTTTAAATTGGAAATGTGGAGTTAATGTTATCTTCAAGCAGTTTTATGGGTAGTGCGGTAATAATCTCTTAGGCCTGAGGGGAGAAAGGCTGAACTTCCTTAGTTCTTTAAGATCGATAGCTATGTGATTATATATTGTAGCCATGTAGTATCTCATAACTTTCTTGGATATTGTTCGGTAAGTCATAGTCATTTGATTGGTGGCTTGATGACACGTCAACAAAAGAAGTTTATTTTGTCTATATCTTCCCATTGTGTTTTACGATATCATGTTGTTTCTCATAATATTTTAAGCTAGCTCATTTACTTCAAAGGAATACTTCCTTCATATGATGTTAAAGGGTCAAATGGCTGAATGCTTTGAGTTCTCTTATATTTTGGATTAATATCATATTGGTTATTAGGTTTTTAAAAAAATTTAGATGAAAATGTGTGATCTATTCCGTATCTAAATTCTTATCTATGATTATTCTGGCAAAAAGATAACCAATTATTGTAAGTTTTTCCATTCTTATGAATCTATGAAAATGCGGACTCGAGAATGACCAAATATTTGGTTTACATAAGTAATTGTGCAAAAGTCAAGCTCTTGCACCCAAATCATTTTGGTGTATATTCTAAGCTTTGAAAGGTAATAACTGGCGTTTACTTTCTTTGGTTACTTGCAGAGTTCTTAAAAGCCAAATGTTTAATGAATTGTGAAGTTTCTCTAATCCTTGAACATAAATATGAGCAACTTCAACAGATGTCTGAGGATCCAACAAATCAAGTTTCCCAGTGAGTTTTATGTACATCCTTTATTGATTCATGAGTTAATTTAGAGAAGCTACTATATAATTTTTTAAAAATAAAATGACAAGAGAATTCTTAATTATGGTCTTATTTTGCAGAGTGTTTGAAAAGTCACTTCAATATGTGAAACGCTTCAGCCGTTATAAGAATCCCGATGCTGTTAGACAAGTTCGAGAGTATCCTTAAAACTATATATGTTGATGTTTTTACTGGGTGAGAAGGCACGTTTCATTTTATTTGATGGCGGGAATGGTCAACTACCAAGCTAAAAACCCTCTTTGGTTAATTATTTTTTTGGGAAATACTTAATAAATTAGAAGTTCACATAACCATACCATTTACCAACGTAATTATGAATTGAAAGTTTGGGGTATCATTGTTTAGAAATGGATTAAATAATGTGTAATTGTTATCTTTTGAAATATTGAATCTTAACAAACAAACAAACAGAGTTCTAAGCAGGTATCAGTTGGCGGAGTTTGAGGTATGTACTCTAGACACCTTGGTTTAATCATTTTGTGTAATATTATCGTCTCTTTCTTTTTTGAGGAAACGCTTATCTCATTAGTTTCGAAATTTGCAGCTTTGTGTTCTTGGCAACCTTTGCCCTGAAACTGTGGAAGAAGCCATTGCCATGGTACCATCATTGAAGGTATCTTTTGCCACTTTTGTGCTATTGGATTAGCCAAGTATCAATCGTTTTTCTGTTTGGTTGAACCCATAGTATATTTATAGTTATCTTGCTAAATCATAGATACGATTTTTTGGAAGTTTACTATTATTGTATTTGTCTCTCAACATTGAACATGCATCAAATTTTAAGATGTTACTTAAAACTTTAAAATTTTGATATGATCTTTTTCTTTTCCATCTTTTGAAAACAGAAGTTAATCGCTTATGAATGATTTTGTTTTTGCTGGTTTCAGACCAAGGGAAGGGTGCATGACGATGAAGCAATTGAGAAGATGTTGAATGATCTTTCATTAATCAAAAGATTTGAGTAGTTAGTTAAATGTGTAAACAGAATTATACCCTTGCATAATTTAGAGTTATGACTTTATGGGTGAGTTTGTAATTGGGATCCTCAACCGACTGGAGGATCATAAACTCTTTGATATTTACAAGGATTTATTATGATTATGTGTTTGGCTTTGGGGTTTCTATTTTTTAGA

mRNA sequence

ATGTCCGGGGAGGAGGAAGAAAATGCTGCTGAGCTTAAAATTGGAGATGAGTTCTTAAAAGCCAAATGTTTAATGAATTGTGAAGTTTCTCTAATCCTTGAACATAAATATGAGCAACTTCAACAGATGTCTGAGGATCCAACAAATCAAGTTTCCCAAGTGTTTGAAAAGTCACTTCAATATGTGAAACGCTTCAGCCGTTATAAGAATCCCGATGCTGTTAGACAAGTTCGAGAAGTTCTAAGCAGGTATCAGTTGGCGGAGTTTGAGCTTTGTGTTCTTGGCAACCTTTGCCCTGAAACTGTGGAAGAAGCCATTGCCATGGTACCATCATTGAAGACCAAGGGAAGGGTGCATGACGATGAAGCAATTGAGAAGATGTTGAATGATCTTTCATTAATCAAAAGATTTGAGTAG

Coding sequence (CDS)

ATGTCCGGGGAGGAGGAAGAAAATGCTGCTGAGCTTAAAATTGGAGATGAGTTCTTAAAAGCCAAATGTTTAATGAATTGTGAAGTTTCTCTAATCCTTGAACATAAATATGAGCAACTTCAACAGATGTCTGAGGATCCAACAAATCAAGTTTCCCAAGTGTTTGAAAAGTCACTTCAATATGTGAAACGCTTCAGCCGTTATAAGAATCCCGATGCTGTTAGACAAGTTCGAGAAGTTCTAAGCAGGTATCAGTTGGCGGAGTTTGAGCTTTGTGTTCTTGGCAACCTTTGCCCTGAAACTGTGGAAGAAGCCATTGCCATGGTACCATCATTGAAGACCAAGGGAAGGGTGCATGACGATGAAGCAATTGAGAAGATGTTGAATGATCTTTCATTAATCAAAAGATTTGAGTAG

Homology

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BLAST of CSPI06G02250 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: 260.4 bits (664), Expect = 1.1e-68
Identity = 129/138 (93.48%), Postives = 135/138 (97.83%), Query Frame = 1


Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHK+EQLQQ+SEDP NQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKFEQLQQISEDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD 120
           YVKRFSRYKNPDAVRQVRE+LSR+QL EFELCVLGNLCPETVEEA+AMVPSLKTKGR HD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRHQLTEFELCVLGNLCPETVEEAVAMVPSLKTKGRAHD 120

Query: 121 DEAIEKMLNDLSLIKRFE 139
           DEAIEKMLNDLSL+KRFE
Sbjct: 121 DEAIEKMLNDLSLVKRFE 138

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BLAST of CSPI06G02250 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: 102.8 bits (255), Expect = 3.0e-21
Identity = 55/137 (40.15%), Postives = 93/137 (67.88%), Query Frame = 1


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

Query: 62  VKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHDD 121
             RFSR+KN + +  VR +L + +L +FEL  L NLCPET EE+ A++PSL  +GR  D+
Sbjct: 70  TARFSRFKNRETIASVRSLLLQKKLHKFELACLANLCPETAEESKALIPSL--EGRFEDE 129

Query: 122 EAIEKMLNDLSLIKRFE 139
           E ++++L+D+   + F+
Sbjct: 130 E-LQQILDDIQTKRSFQ 141

[Close]

BLAST of CSPI06G02250 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: 102.8 bits (255), Expect = 3.0e-21
Identity = 55/137 (40.15%), Postives = 93/137 (67.88%), Query Frame = 1


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

Query: 62  VKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHDD 121
             RFSR+KN + +  VR +L + +L +FEL  L NLCPET EE+ A++PSL  +GR  D+
Sbjct: 70  TARFSRFKNRETIASVRSLLLQKKLHKFELACLANLCPETAEESKALIPSL--EGRFEDE 129

Query: 122 EAIEKMLNDLSLIKRFE 139
           E ++++L+D+   + F+
Sbjct: 130 E-LQQILDDIQTKRSFQ 141

[Close]

BLAST of CSPI06G02250 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: 94.4 bits (233), Expect = 1.1e-18
Identity = 55/147 (37.41%), Postives = 90/147 (61.22%), Query Frame = 1


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

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

Query: 124 SLKTKGRVHDDEAIEKMLNDLSLIKRF 138
           SLK   ++ DDE ++ +L++LS +++F
Sbjct: 132 SLK---KMEDDE-LQAILDELSNLRKF 154

[Close]

BLAST of CSPI06G02250 vs. Swiss-Prot
Match: RPB4_DROME (DNA-directed RNA polymerase II 16 kDa polypeptide OS=Drosophila melanogaster GN=Rpb4 PE=2 SV=5)

HSP 1 Score: 88.2 bits (217), Expect = 7.7e-17
Identity = 49/126 (38.89%), Postives = 80/126 (63.49%), Query Frame = 1


Query: 6   EENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRF 65
           +E+AA+L+   EF  A+ L+  EV ++L+H+  Q +  S D   + S+VF K+  Y   F
Sbjct: 11  DEDAADLQFPKEFENAETLLISEVHMLLDHRKRQNE--SADEEQEFSEVFMKTYAYTDSF 70

Query: 66  SRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHDDEAIE 125
            ++KN + +   R +L + +L +FEL  LGNLCPE  EEA A++PSL  +GR  D+E + 
Sbjct: 71  RKFKNKETIMSARSLLMQKKLHKFELAALGNLCPEAPEEAKALIPSL--EGRFEDEE-LR 130

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

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BLAST of CSPI06G02250 vs. TrEMBL
Match: A0A0A0K7V5_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_6G014650 PE=4 SV=1)

HSP 1 Score: 271.9 bits (694), Expect = 4.2e-70
Identity = 138/138 (100.00%), Postives = 138/138 (100.00%), Query Frame = 1


Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD 120
           YVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD
Sbjct: 61  YVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD 120

Query: 121 DEAIEKMLNDLSLIKRFE 139
           DEAIEKMLNDLSLIKRFE
Sbjct: 121 DEAIEKMLNDLSLIKRFE 138

[Close]

BLAST of CSPI06G02250 vs. TrEMBL
Match: B9H5K4_POPTR (Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0005s08690g PE=4 SV=1)

HSP 1 Score: 262.3 bits (669), Expect = 3.3e-67
Identity = 130/138 (94.20%), Postives = 136/138 (98.55%), Query Frame = 1


Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGD+FLKAKCLMNCEV+LILEHKYEQLQQMS+DP NQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDDFLKAKCLMNCEVALILEHKYEQLQQMSDDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD 120
           YVKRFSRYKNPDAVRQVRE+LSRYQLAEFELCVLGNLCPETVEEAIAMVPS+KTKGR HD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTKGRAHD 120

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

[Close]

BLAST of CSPI06G02250 vs. TrEMBL
Match: A5APH2_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VIT_12s0028g01400 PE=4 SV=1)

HSP 1 Score: 262.3 bits (669), Expect = 3.3e-67
Identity = 130/138 (94.20%), Postives = 136/138 (98.55%), Query Frame = 1


Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEV++ILEHKYEQLQQMS+DP NQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVAVILEHKYEQLQQMSDDPLNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD 120
           YVKRFSRYKNPDAVRQVRE+LSRYQLAEFELCVLGNLCPETVEEAIAMVPS+KTKGR HD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTKGRAHD 120

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

[Close]

BLAST of CSPI06G02250 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: 260.8 bits (665), Expect = 9.7e-67
Identity = 129/138 (93.48%), Postives = 136/138 (98.55%), Query Frame = 1


Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
           MSGEEEENAAELKIG+EFLKAKCLMNCEV+LILEHKYEQLQQMSEDP NQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGEEFLKAKCLMNCEVALILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD 120
           YVKRFSRYKNPDAVRQVRE+LSRYQLAEFELCVLGNLCPETVEEAIAMVPS+KTKGR HD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTKGRAHD 120

Query: 121 DEAIEKMLNDLSLIKRFE 139
           D+AIE+MLNDLSLIK+FE
Sbjct: 121 DDAIERMLNDLSLIKKFE 138

[Close]

BLAST of CSPI06G02250 vs. TrEMBL
Match: R0FHD8_9BRAS (Uncharacterized protein OS=Capsella rubella GN=CARUB_v10002229mg PE=4 SV=1)

HSP 1 Score: 260.8 bits (665), Expect = 9.7e-67
Identity = 129/138 (93.48%), Postives = 135/138 (97.83%), Query Frame = 1


Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQ+SEDP NQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQVSEDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD 120
           YVKRFSRYKNPDAVRQVRE+LSR+QL EFELCVLGNLCPETVEEA+AMVPSLKTKGR HD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRHQLTEFELCVLGNLCPETVEEAVAMVPSLKTKGRAHD 120

Query: 121 DEAIEKMLNDLSLIKRFE 139
           D+AIEKMLNDLSL+KRFE
Sbjct: 121 DDAIEKMLNDLSLVKRFE 138

[Close]

BLAST of CSPI06G02250 vs. TAIR10
Match: AT5G09920.1 (AT5G09920.1 RNA polymerase II, Rpb4, core protein)

HSP 1 Score: 260.4 bits (664), Expect = 6.4e-70
Identity = 129/138 (93.48%), Postives = 135/138 (97.83%), Query Frame = 1


Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHK+EQLQQ+SEDP NQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKFEQLQQISEDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD 120
           YVKRFSRYKNPDAVRQVRE+LSR+QL EFELCVLGNLCPETVEEA+AMVPSLKTKGR HD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRHQLTEFELCVLGNLCPETVEEAVAMVPSLKTKGRAHD 120

Query: 121 DEAIEKMLNDLSLIKRFE 139
           DEAIEKMLNDLSL+KRFE
Sbjct: 121 DEAIEKMLNDLSLVKRFE 138

[Close]

BLAST of CSPI06G02250 vs. TAIR10
Match: AT4G15950.1 (AT4G15950.1 RNA polymerase II, Rpb4, core protein)

HSP 1 Score: 87.0 bits (214), Expect = 9.7e-18
Identity = 45/118 (38.14%), Postives = 76/118 (64.41%), Query Frame = 1


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

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

[Close]

BLAST of CSPI06G02250 vs. NCBI nr
Match: gi|449441240|ref|XP_004138390.1| (PREDICTED: DNA-directed RNA polymerase II subunit 4 [Cucumis sativus])

HSP 1 Score: 271.9 bits (694), Expect = 6.0e-70
Identity = 138/138 (100.00%), Postives = 138/138 (100.00%), Query Frame = 1


Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD 120
           YVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD
Sbjct: 61  YVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD 120

Query: 121 DEAIEKMLNDLSLIKRFE 139
           DEAIEKMLNDLSLIKRFE
Sbjct: 121 DEAIEKMLNDLSLIKRFE 138

[Close]

BLAST of CSPI06G02250 vs. NCBI nr
Match: gi|729300979|ref|XP_010520027.1| (PREDICTED: DNA-directed RNA polymerase II subunit 4 [Tarenaya hassleriana])

HSP 1 Score: 264.6 bits (675), Expect = 9.6e-68
Identity = 132/138 (95.65%), Postives = 136/138 (98.55%), Query Frame = 1


Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEV+LILEHKYEQLQQ+SEDP NQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVALILEHKYEQLQQISEDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD 120
           YVKRFSRYKNPDAVRQVRE+LSRYQL EFELCVLGNLCPETVEEA+AMVPSLKTKGRVHD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRYQLTEFELCVLGNLCPETVEEAVAMVPSLKTKGRVHD 120

Query: 121 DEAIEKMLNDLSLIKRFE 139
           DEAIEKMLNDLSLIKRFE
Sbjct: 121 DEAIEKMLNDLSLIKRFE 138

[Close]

BLAST of CSPI06G02250 vs. NCBI nr
Match: gi|225446712|ref|XP_002282413.1| (PREDICTED: DNA-directed RNA polymerase II subunit 4 [Vitis vinifera])

HSP 1 Score: 262.3 bits (669), Expect = 4.8e-67
Identity = 130/138 (94.20%), Postives = 136/138 (98.55%), Query Frame = 1


Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEV++ILEHKYEQLQQMS+DP NQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVAVILEHKYEQLQQMSDDPLNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD 120
           YVKRFSRYKNPDAVRQVRE+LSRYQLAEFELCVLGNLCPETVEEAIAMVPS+KTKGR HD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTKGRAHD 120

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

[Close]

BLAST of CSPI06G02250 vs. NCBI nr
Match: gi|224083811|ref|XP_002307132.1| (hypothetical protein POPTR_0005s08690g [Populus trichocarpa])

HSP 1 Score: 262.3 bits (669), Expect = 4.8e-67
Identity = 130/138 (94.20%), Postives = 136/138 (98.55%), Query Frame = 1


Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGD+FLKAKCLMNCEV+LILEHKYEQLQQMS+DP NQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDDFLKAKCLMNCEVALILEHKYEQLQQMSDDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD 120
           YVKRFSRYKNPDAVRQVRE+LSRYQLAEFELCVLGNLCPETVEEAIAMVPS+KTKGR HD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTKGRAHD 120

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

[Close]

BLAST of CSPI06G02250 vs. NCBI nr
Match: gi|802759611|ref|XP_012089384.1| (PREDICTED: DNA-directed RNA polymerase II subunit 4 [Jatropha curcas])

HSP 1 Score: 262.3 bits (669), Expect = 4.8e-67
Identity = 130/138 (94.20%), Postives = 136/138 (98.55%), Query Frame = 1


Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
           MSGEEEENA+ELKIGDEFLKAKCLMNCEV+LILEHKYEQLQQMS+DP NQVSQVFEKSLQ
Sbjct: 1   MSGEEEENASELKIGDEFLKAKCLMNCEVALILEHKYEQLQQMSDDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQVREVLSRYQLAEFELCVLGNLCPETVEEAIAMVPSLKTKGRVHD 120
           YVKRFSRYKNPDAVRQVRE+LSRYQLAEFELCVLGNLCPETVEEAIAMVPS+KTKGR HD
Sbjct: 61  YVKRFSRYKNPDAVRQVREILSRYQLAEFELCVLGNLCPETVEEAIAMVPSIKTKGRAHD 120

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

The following BLAST results are available for this feature:

BLAST of CSPI06G02250 vs. Swiss-Prot


Match Name	E-value	Identity	Description
NRPB4_ARATH	1.1e-68	93.48	DNA-directed RNA polymerase II subunit 4 OS=Arabidopsis thaliana GN=NRPB4 PE=1 S...	[more]
RPB4_HUMAN	3.0e-21	40.15	DNA-directed RNA polymerase II subunit RPB4 OS=Homo sapiens GN=POLR2D PE=1 SV=1	[more]
RPB4_MOUSE	3.0e-21	40.15	DNA-directed RNA polymerase II subunit RPB4 OS=Mus musculus GN=Polr2d PE=1 SV=2	[more]
RPB4_DICDI	1.1e-18	37.41	DNA-directed RNA polymerase II subunit rpb4 OS=Dictyostelium discoideum GN=polr2...	[more]
RPB4_DROME	7.7e-17	38.89	DNA-directed RNA polymerase II 16 kDa polypeptide OS=Drosophila melanogaster GN=...	[more]

BLAST of CSPI06G02250 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0K7V5_CUCSA	4.2e-70	100.00	Uncharacterized protein OS=Cucumis sativus GN=Csa_6G014650 PE=4 SV=1	[more]
B9H5K4_POPTR	3.3e-67	94.20	Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0005s08690g PE=4 SV=1	[more]
A5APH2_VITVI	3.3e-67	94.20	Putative uncharacterized protein OS=Vitis vinifera GN=VIT_12s0028g01400 PE=4 SV=...	[more]
A0A061DJ22_THECC	9.7e-67	93.48	RNA polymerase II, Rpb4, core protein isoform 1 OS=Theobroma cacao GN=TCM_001258...	[more]
R0FHD8_9BRAS	9.7e-67	93.48	Uncharacterized protein OS=Capsella rubella GN=CARUB_v10002229mg PE=4 SV=1	[more]

BLAST of CSPI06G02250 vs. TAIR10


Match Name	E-value	Identity	Description
AT5G09920.1	6.4e-70	93.48	RNA polymerase II, Rpb4, core protein	[more]
AT4G15950.1	9.7e-18	38.14	RNA polymerase II, Rpb4, core protein	[more]

BLAST of CSPI06G02250 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|449441240\|ref\|XP_004138390.1\|	6.0e-70	100.00	PREDICTED: DNA-directed RNA polymerase II subunit 4 [Cucumis sativus]	[more]
gi\|729300979\|ref\|XP_010520027.1\|	9.6e-68	95.65	PREDICTED: DNA-directed RNA polymerase II subunit 4 [Tarenaya hassleriana]	[more]
gi\|225446712\|ref\|XP_002282413.1\|	4.8e-67	94.20	PREDICTED: DNA-directed RNA polymerase II subunit 4 [Vitis vinifera]	[more]
gi\|224083811\|ref\|XP_002307132.1\|	4.8e-67	94.20	hypothetical protein POPTR_0005s08690g [Populus trichocarpa]	[more]
gi\|802759611\|ref\|XP_012089384.1\|	4.8e-67	94.20	PREDICTED: DNA-directed RNA polymerase II subunit 4 [Jatropha curcas]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR005574	RPB4/RPC9
IPR006590	RNA_pol_Rpb4/RPC9_core
IPR010997	HRDC-like_sf

Vocabulary: **Biological Process**
Term	Definition
GO:0006351	transcription, DNA-templated
GO:0044237	cellular metabolic process

Vocabulary: **Molecular Function**
Term	Definition
GO:0003899	DNA-directed RNA polymerase activity
GO:0000166	nucleotide binding
GO:0003824	catalytic 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:0006206	pyrimidine nucleobase metabolic process
biological_process	GO:0000394	RNA splicing, via endonucleolytic cleavage and ligation
biological_process	GO:0006366	transcription from RNA polymerase II promoter
biological_process	GO:0044237	cellular metabolic process
biological_process	GO:0006351	transcription, DNA-templated
biological_process	GO:0006352	DNA-templated transcription, initiation
cellular_component	GO:0005665	DNA-directed RNA polymerase II, core complex
cellular_component	GO:0005730	nucleolus
cellular_component	GO:0030880	RNA polymerase complex
molecular_function	GO:0003899	DNA-directed RNA polymerase activity
molecular_function	GO:0000166	nucleotide binding
molecular_function	GO:0003824	catalytic activity

Relationships

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


Feature Name	Unique Name	Type
CSPI06G02250.1	CSPI06G02250.1	mRNA

InterPro

Analysis Name: InterPro Annotations of cucumber (PI183967)
Date Performed: 2017-01-17


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR005574	RNA polymerase II, Rpb4	PFAM	PF03874	RNA_pol_Rpb4	coord: 23..132 score: 1.4
IPR006590	RNA polymerase II, Rpb4, core	SMART	SM00657	rpol4neu2	coord: 16..138 score: 2.6
IPR010997	HRDC-like	unknown	SSF47819	HRDC-like	coord: 3..135 score: 1.0
None	No IPR available	PANTHER	PTHR21297	DNA-DIRECTED RNA POLYMERASE II	coord: 1..138 score: 8.5

Synteny

The following gene(s) are orthologous to this gene:


Gene	Orthologue	Organism	Block
CSPI06G02250	Cla016430	Watermelon (97103) v1	cpiwmB553
CSPI06G02250	Csa6G014650	Cucumber (Chinese Long) v2	cpicuB314
CSPI06G02250	MELO3C020022	Melon (DHL92) v3.5.1	cpimeB476
CSPI06G02250	ClCG11G005590	Watermelon (Charleston Gray)	cpiwcgB450
CSPI06G02250	Lsi03G002550	Bottle gourd (USVL1VR-Ls)	cpilsiB451
CSPI06G02250	MELO3C020022.2	Melon (DHL92) v3.6.1	cpimedB464
CSPI06G02250	CsaV3_6G002410	Cucumber (Chinese Long) v3	cpicucB364
CSPI06G02250	Cla97C11G212530	Watermelon (97103) v2	cpiwmbB447
CSPI06G02250	Bhi04G001820	Wax gourd	cpiwgoB583
CSPI06G02250	Cucsa.325900	Cucumber (Gy14) v1	cgycpiB491
CSPI06G02250	CmaCh04G028590	Cucurbita maxima (Rimu)	cmacpiB777
CSPI06G02250	CmoCh04G029870	Cucurbita moschata (Rifu)	cmocpiB768
CSPI06G02250	Cp4.1LG01g22050	Cucurbita pepo (Zucchini)	cpecpiB461
CSPI06G02250	Carg05935	Silver-seed gourd	carcpiB0024

The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:


Gene	Organism	Block
CSPI06G02250	Cucurbita pepo (Zucchini)	cpecpiB199
CSPI06G02250	Cucumber (Gy14) v2	cgybcpiB288
CSPI06G02250	Silver-seed gourd	carcpiB0301
CSPI06G02250	Cucurbita maxima (Rimu)	cmacpiB314
CSPI06G02250	Cucurbita moschata (Rifu)	cmocpiB305