Carg05935 (gene) Silver-seed gourd (SMH-JMG-627) v2

Overview


Name	Carg05935
Type	gene
Organism	Cucurbita argyrosperma subsp. argyrosperma cv. SMH-JMG-627 (Silver-seed gourd (SMH-JMG-627) v2)
Description	DNA-directed RNA polymerase II subunit 4
Location	Carg_Chr04: 21209533 .. 21212347 (-)
RNA-Seq Expression	Carg05935
Synteny	Carg05935

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.

TTCCTCAATTGTTTTATAATTGGGTTTCTTGAAAATATTAGAGAAATCTGTGTGTCGCGCCTTCTCTGTTTCCCGCCGGCTCTCCCTTTGCGCCGTCACGTCGCACCGCCGCTTCTGGCCTCCTAATCCTCTCGGTGTTTTGTGGTGCGTACTCTATCAGTTTTCCCTATTTACATACTGATTACGAATAGCACGACTTGGCTTGACTGCCTTCTTTACAAATGAGTAGTTGAATTTGATTCTCCAGCAATAGAATTTGGTATTGTTCTCCGTTCTTGAATACGAATCTACTCTTCGTTGCAAAATCTTCCTAATTGTTTTAGTCTAGTAATATGTTCAGAACTCACAGTAATTTGGTATGAAGCCATTTAGTTAGGGCTTAAGTGCCCCTCTGTTCCCCGAAGTTACTGAGGCTATGGATAATTCACTTGGGTTTCACTTAAATATGAAATATATCCATCATTTATCTAAAAAGAATTCAAGTTCTTCCTTGAACAAGTTGAATGAAGTTTATTGTTTACTCGTCTTCAGATTCTTTTGGTTGTCCAGAACTCCAACTTCAAGCATGTCTGGAGAGGAGGAAGAAAATGCTGCTGAGCTTAAAATTGGGGATGGTACCAATCTAACTATTAATCTCAACGAGATTTTAAGTGCCTCTTACTTTGTGTGGTGATGGGTTTCCTTCACTTAGGAGCTCCTTTCTGTTCCCCATGCCTTATTATATGTATCCTTATTACACAATCTTTTTAACAGCGAATATAGTTTGGACTGGGAATATGGAGCTAATGTAAACACTTACTAATTTTGTTGCAGTAAAGAAATTACAATCTCTTATTAATCACATACCCTGTGGATAGTTATTTGCTTTATTGTGAGAGGAGAAAGATAGTAAATGTAATAGTCCAAGCACACCGCTGACAGATATTGTCTTCTTTGGGCTTTCCCTTCTAGGCTTCCTCTCAATGTTTTAAAACACGTCTACTAGGGAGAGGTTTCCACACCCTTGTAAGGAATGATTCGTTCCCCTCTCCACCAATGTGGGATCTCACACTCCACCCCCCTTGTAGCCCAGCATCCCCACTGAGACACCGCCCTATGTTTGACTCTGATACCATTTGTAACAGTCCAAACCCACCGCTAGCAGATATTGTCTTCTTTGGGCTTTTTCTTCTTGGCTTCCCTTCAAGGTTTTAAAACGTGTCTACTAGGGAGAGGTTTGCACACTCTTATAAGGAATGCTTCGTTCCCCTATTAAGCCATTAGTTGATGTGAGTATGTCTTATAGCCATCTACATAGAATCATACTATTTCATAACTTTCTCTGTTGTTAGATAAGAAAAAGTCATTAGATGTGTTGTCTTATAGGTGGCTGGGCATCCACATTCATAAAAAGAGATTTCTTTTGCGTACACTCTCTTATTGTTTTTTATGATATCGTGTCAAGGCTCAAATAGCTAAATGCCCTGGGTTTTCAGATATTTTGGGTTAATATTAAATTGTCCTAAGGTTTCTGAAATTTTAGATGAAGATATGTAATCTATGCGAAATCTAAATTCTAACATTTAACATTTTATCATTTGAATACTCAACTATTTAAGCTTTTCCATTTTTTATGAATATATGATAATTAAGACATTAGAATAGATCTTTTGTTTATATGGTAAGTAGTTATTCAAAATTTAAGCTCTTGCCACCGAGATCTTTTTGGTGTATACACAGCTTTTTTATCCTTTTGCATTTATTTCCTTTGGCTGCCCGCAGAGTTTTTGAAGGCCAAGTGTTTAATGAATTGTGAGGTTTCTTTGATCCTTGAACACAAATATGAACAACTTCAACAAATGTCTGAGGATCCAATGAATCAAGTTTCTCAGTGAGTTTTATGTTTATTGTTTATTGATTTAGAAGCGAACTTAGAGTTTATCTTGCTTGTTGATATAGCTAAAGTTATGATATTCATCACGATTTGCCGTTACAAAGATGAGAGATTTTTAATTCTGGTCTTCTTTCTGCAGAGTGTTTGAAAAGTCGCTGCAGTATGTGAAACGCTTTAGTCGCTATAAAAATCCTGATGCCGTTAGACAAGTTCGAGAGTATCCTTGTCTTGATTTTATGGGATGGTGGGAAGGATGGATTGAGCATATCCACCTTATGCTAAATTCATTTTGAACTTGTAGTTTACAACTACCATTTTCTAGCTAGCCAAGAACTCTTCAGTTAATTATTATTTGGGAAATAGTGAATGAATTAAGATTAACTGCTTCGATATGTAGTTCGTGGAGGGCAATATAGTTTACTTTATCAGCTCTGGTATGAACTAGAAGGTTGGGTTCATTGCTTTAGAATCGCATAAACTAGAGGTGTTGATTCTTAACTGCCATACAGAATTCTAAGCAGGTATCAGTTGGCTGAGTTTGAGGTATATATTTGACACTTGATTTAATCAATCAATTTACAGATCATTATGTACTAAACACTTCGTAAGGAAAGATTTATCTCATCACTCTTGAAATTTGCAGCTCTGTGTTCTTGGCAACCTTTGTCCTGAAACCGTGGAGGAAGCTATTGCTATGGTACCATCTTTGAAGGTATCTTTTGCCCCCTTTTTTATGCCTACACCATATCAACAAGTATAGTAGTTTTTCTTGTTGCTTGTAATTGGTAGTATATGTATTAGTATTCGTCTTAGAATTGCTTATGAATGCTTTTGTTGGCTTCAGGCTAAAGGGAGGGTGCACGACGATGAAGCAATCGAGAAGATGTTAAACGATCTGTCGTTAATCAAAAAGTTTGAGTAGTTACTTTCTAAGTTTGGGTT

mRNA sequence

TTCCTCAATTGTTTTATAATTGGGTTTCTTGAAAATATTAGAGAAATCTGTGTGTCGCGCCTTCTCTGTTTCCCGCCGGCTCTCCCTTTGCGCCGTCACGTCGCACCGCCGCTTCTGGCCTCCTAATCCTCTCGGTGTTTTGTGATTCTTTTGGTTGTCCAGAACTCCAACTTCAAGCATGTCTGGAGAGGAGGAAGAAAATGCTGCTGAGCTTAAAATTGGGGATGAGTTTTTGAAGGCCAAGTGTTTAATGAATTGTGAGGTTTCTTTGATCCTTGAACACAAATATGAACAACTTCAACAAATGTCTGAGGATCCAATGAATCAAGTTTCTCAAGTGTTTGAAAAGTCGCTGCAGTATGTGAAACGCTTTAGTCGCTATAAAAATCCTGATGCCGTTAGACAACTCTGTGTTCTTGGCAACCTTTGTCCTGAAACCGTGGAGGAAGCTATTGCTATGGTACCATCTTTGAAGGCTAAAGGGAGGGTGCACGACGATGAAGCAATCGAGAAGATGTTAAACGATCTGTCGTTAATCAAAAAGTTTGAGTAGTTACTTTCTAAGTTTGGGTT

Coding sequence (CDS)

ATGTCTGGAGAGGAGGAAGAAAATGCTGCTGAGCTTAAAATTGGGGATGAGTTTTTGAAGGCCAAGTGTTTAATGAATTGTGAGGTTTCTTTGATCCTTGAACACAAATATGAACAACTTCAACAAATGTCTGAGGATCCAATGAATCAAGTTTCTCAAGTGTTTGAAAAGTCGCTGCAGTATGTGAAACGCTTTAGTCGCTATAAAAATCCTGATGCCGTTAGACAACTCTGTGTTCTTGGCAACCTTTGTCCTGAAACCGTGGAGGAAGCTATTGCTATGGTACCATCTTTGAAGGCTAAAGGGAGGGTGCACGACGATGAAGCAATCGAGAAGATGTTAAACGATCTGTCGTTAATCAAAAAGTTTGAGTAG

Protein sequence

MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPSLKAKGRVHDDEAIEKMLNDLSLIKKFE

Homology

[Close]

BLAST of Carg05935 vs. NCBI nr
Match: KAG7033258.1 (DNA-directed RNA polymerase II subunit 4 [Cucurbita argyrosperma subsp. argyrosperma])

HSP 1 Score: 245.0 bits (624), Expect = 3.5e-61
Identity = 124/124 (100.00%), Postives = 124/124 (100.00%), Query Frame = 0


Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPSLKAKGRVHDDEAIEKMLNDLSLI 120
           YVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPSLKAKGRVHDDEAIEKMLNDLSLI
Sbjct: 61  YVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPSLKAKGRVHDDEAIEKMLNDLSLI 120

Query: 121 KKFE 125
           KKFE
Sbjct: 121 KKFE 124

[Close]

BLAST of Carg05935 vs. NCBI nr
Match: KAG6773620.1 (hypothetical protein POTOM_020911 [Populus tomentosa])

HSP 1 Score: 237.7 bits (605), Expect = 5.5e-59
Identity = 118/124 (95.16%), Postives = 122/124 (98.39%), Query Frame = 0


Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGD+FLKAKCLMNCEV+LILEHKYEQLQQMS+DPMNQVSQVFEKSLQ
Sbjct: 1   MSGEEEENAAELKIGDDFLKAKCLMNCEVALILEHKYEQLQQMSDDPMNQVSQVFEKSLQ 60

Query: 61  YVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPSLKAKGRVHDDEAIEKMLNDLSLI 120
           YVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPS+K KGR HDDEAIEKMLNDLSLI
Sbjct: 61  YVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPSIKTKGRAHDDEAIEKMLNDLSLI 120

Query: 121 KKFE 125
           KKFE
Sbjct: 121 KKFE 124

[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 = 2.8e-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: KAA3479871.1 (DNA-directed RNA polymerase II subunit RPB4 [Gossypium australe] >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 = 3.6e-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: BBH06854.1 (RNA polymerase II, Rpb4, core protein [Prunus dulcis])

HSP 1 Score: 233.8 bits (595), Expect = 8.0e-58
Identity = 115/124 (92.74%), Postives = 123/124 (99.19%), Query Frame = 0


Query: 1   MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQ 60
           MSGEEEENAAELKIGDEFLKAKCLMNCEV+LILEHKY+QLQQMS+DP NQVSQVFEKSLQ
Sbjct: 14  MSGEEEENAAELKIGDEFLKAKCLMNCEVALILEHKYDQLQQMSDDPRNQVSQVFEKSLQ 73

Query: 61  YVKRFSRYKNPDAVRQLCVLGNLCPETVEEAIAMVPSLKAKGRVHDDEAIEKMLNDLSLI 120
           YVKRFSRYKNPDAV+QLCVLGNLCPETVEEAIAMVPS+KAKGRVHDD+AI+KMLNDL+LI
Sbjct: 74  YVKRFSRYKNPDAVKQLCVLGNLCPETVEEAIAMVPSIKAKGRVHDDDAIDKMLNDLALI 133

Query: 121 KKFE 125
           KKFE
Sbjct: 134 KKFE 137

[Close]

BLAST of Carg05935 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: 227.3 bits (578), Expect = 9.8e-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. 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: 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. 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: 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. 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: 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. 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: 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. 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: 235.3 bits (599), Expect = 1.3e-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. 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: 235.3 bits (599), Expect = 1.3e-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. ExPASy TrEMBL
Match: A0A0B0NCZ0 (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 = 1.7e-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. ExPASy TrEMBL
Match: A0A0D2S1E3 (RPOL4c domain-containing protein OS=Gossypium raimondii OX=29730 GN=B456_006G238100 PE=4 SV=1)

HSP 1 Score: 235.0 bits (598), Expect = 1.7e-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. ExPASy TrEMBL
Match: A0A2P5QBV6 (Uncharacterized protein OS=Gossypium barbadense OX=3634 GN=GOBAR_AA12366 PE=4 SV=1)

HSP 1 Score: 235.0 bits (598), Expect = 1.7e-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. TAIR 10
Match: AT5G09920.1 (RNA polymerase II, Rpb4, core protein )

HSP 1 Score: 227.3 bits (578), Expect = 7.0e-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. TAIR 10
Match: AT4G15950.1 (RNA polymerase II, Rpb4, core protein )

HSP 1 Score: 67.8 bits (164), Expect = 7.1e-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

The following BLAST results are available for this feature:

BLAST of Carg05935 vs. NCBI nr


Match Name	E-value	Identity	Description
KAG7033258.1	3.5e-61	100.00	DNA-directed RNA polymerase II subunit 4 [Cucurbita argyrosperma subsp. argyrosp...	[more]
KAG6773620.1	5.5e-59	95.16	hypothetical protein POTOM_020911 [Populus tomentosa]	[more]
XP_022954766.1	2.8e-58	89.86	DNA-directed RNA polymerase II subunit 4 [Cucurbita moschata] >XP_022954773.1 DN...	[more]
KAA3479871.1	3.6e-58	93.55	DNA-directed RNA polymerase II subunit RPB4 [Gossypium australe] >KHG12393.1 DNA...	[more]
BBH06854.1	8.0e-58	92.74	RNA polymerase II, Rpb4, core protein [Prunus dulcis]	[more]

BLAST of Carg05935 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
O48890	9.8e-59	84.78	DNA-directed RNA polymerase II subunit 4 OS=Arabidopsis thaliana OX=3702 GN=NRPB...	[more]
O15514	1.0e-15	34.31	DNA-directed RNA polymerase II subunit RPB4 OS=Homo sapiens OX=9606 GN=POLR2D PE...	[more]
Q9D7M8	1.0e-15	34.31	DNA-directed RNA polymerase II subunit RPB4 OS=Mus musculus OX=10090 GN=Polr2d P...	[more]
Q54S04	4.0e-12	32.65	DNA-directed RNA polymerase II subunit rpb4 OS=Dictyostelium discoideum OX=44689...	[more]
Q9VEA5	2.0e-11	33.33	DNA-directed RNA polymerase II subunit Rpb4 OS=Drosophila melanogaster OX=7227 G...	[more]

BLAST of Carg05935 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A6J1JHK7	1.3e-58	89.86	DNA-directed RNA polymerase II subunit 4 OS=Cucurbita maxima OX=3661 GN=LOC11148...	[more]
A0A6J1GS12	1.3e-58	89.86	DNA-directed RNA polymerase II subunit 4 OS=Cucurbita moschata OX=3662 GN=LOC111...	[more]
A0A0B0NCZ0	1.7e-58	93.55	DNA-directed RNA polymerase II subunit RPB4 OS=Gossypium arboreum OX=29729 GN=F3...	[more]
A0A0D2S1E3	1.7e-58	93.55	RPOL4c domain-containing protein OS=Gossypium raimondii OX=29730 GN=B456_006G238...	[more]
A0A2P5QBV6	1.7e-58	93.55	Uncharacterized protein OS=Gossypium barbadense OX=3634 GN=GOBAR_AA12366 PE=4 SV...	[more]

BLAST of Carg05935 vs. TAIR 10


Match Name	E-value	Identity	Description
AT5G09920.1	7.0e-60	84.78	RNA polymerase II, Rpb4, core protein	[more]
AT4G15950.1	7.1e-12	33.90	RNA polymerase II, Rpb4, core protein	[more]

InterPro

Analysis Name: InterPro Annotations of Silver-seed gourd (SMH-JMG-627) v2
Date Performed: 2021-10-25

Position :

Zoom :

x 1


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR006590	RNA polymerase Rpb4/RPC9, core	SMART	SM00657	rpol4neu2	coord: 16..124 e-value: 1.3E-42 score: 157.6
IPR038324	Rpb4/RPC9 superfamily	GENE3D	1.20.1250.40		coord: 2..124 e-value: 6.2E-41 score: 141.3
IPR005574	RNA polymerase subunit RPB4/RPC9	PFAM	PF03874	RNA_pol_Rpb4	coord: 23..77 e-value: 3.9E-6 score: 27.2
None	No IPR available	PANTHER	PTHR21297	DNA-DIRECTED RNA POLYMERASE II	coord: 1..124
None	No IPR available	PANTHER	PTHR21297:SF3	DNA-DIRECTED RNA POLYMERASE II SUBUNIT 4-LIKE	coord: 1..124
IPR010997	HRDC-like superfamily	SUPERFAMILY	47819	HRDC-like	coord: 3..122

Relationships

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


Feature Name	Unique Name	Type
Carg05935-RA	Carg05935-RA	mRNA

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