CuGenDBv2

Gene ID	HG10017539
Organism	Lagenaria siceraria cv. Hangzhou Gourd (Bottle gourd (Hangzhou Gourd) v1)
Description	DNA-directed RNA polymerase II subunit 4
Genome location	Chr03:15396395..15401668
RNA-Seq Expression	HG10017539
Synteny	HG10017539
Gene Ontology terms	GO:0006352 - DNA-templated transcription, initiation (biological process) GO:0006366 - transcription by RNA polymerase II (biological process) GO:0006417 - regulation of translation (biological process) GO:0010604 - positive regulation of macromolecule metabolic process (biological process) GO:0016071 - mRNA metabolic process (biological process) GO:0016567 - protein ubiquitination (biological process) GO:0031325 - positive regulation of cellular metabolic process (biological process) GO:0051173 - positive regulation of nitrogen compound metabolic process (biological process) GO:0005665 - RNA polymerase II, core complex (cellular component) GO:0005737 - cytoplasm (cellular component) GO:0061630 - ubiquitin protein ligase activity (molecular function) GO:0008270 - zinc ion binding (molecular function) GO:0003899 - DNA-directed 5'-3' RNA polymerase activity (molecular function) GO:0000166 - nucleotide binding (molecular function)
InterPro domains	IPR038324 - Rpb4/RPC9 superfamily IPR010997 - HRDC-like superfamily IPR006590 - RNA polymerase Rpb4/RPC9, core IPR005574 - RNA polymerase subunit RPB4/RPC9

Homology

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GenBank top hits

e value

%identity

Alignment

KAG6571896.1 E3 ubiquitin-protein ligase MPSR1, partial [Cucurbita argyrosperma subsp. sororia]

2.5e-60

65.97

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Query:  MVVEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADAL
        +VVEV  DLPT  +IPKHPS IE IGLIFTLRRR +HF VSENGER+L++ +E  K+PLCD+QF AE+FN  D+SLFH LS SF+N+KP+IDAE VADAL
Subjt:  MVVEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADAL

Query:  IERWIEIRDQVNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDEL--KKKRNG
        IERWIEIRD+ NSRSSD+VF MTVNLTI ++VAR+EIG      GG+   +VPACG  + K L+RLE ++E + ICVICLDEL  KKK+NG
Subjt:  IERWIEIRDQVNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDEL--KKKRNG

XP_011654386.1 RING finger protein 141 [Cucumis sativus]

6.4e-72

72.19

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Query:  VEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADALIE
        VEVDID+P   KIPKHPSPIELIGL+FTLRRRCN F V ENGERQLVE +EI KVPLCDHQFP E+FNG  +SLF YL  SFENY+ KIDAE+VA  LIE
Subjt:  VEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADALIE

Query:  RWIEIRDQVNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDELKKKRNG
        +WIEIR+QVNSRS DKVFSMTVNLTI++VV ++ +G D + FGGE  R+VPAC + ++K LKRLEM+EEDER+CVICLDE+ KK+NG
Subjt:  RWIEIRDQVNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDELKKKRNG

XP_016901804.1 PREDICTED: RING finger protein 141-like [Cucumis melo]

1.7e-72

72.19

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Query:  VEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADALIE
        VE+DIDLP S++I KHPSPIELIGL+FTLRRRCN F V ENGERQLVE +E  KVPLCDHQFP E+FNG DNSLF YL  SFENY+PKIDAE+VA ALIE
Subjt:  VEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADALIE

Query:  RWIEIRDQVNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDELKKKRNG
        +WI IRDQ+NSRS  KVFSMTVNLTI++VV ++ IG D + FGGE FR VPAC + ++K LKRLE+++EDERIC+ICLDE++KK+NG
Subjt:  RWIEIRDQVNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDELKKKRNG

XP_022952293.1 ERAD-associated E3 ubiquitin-protein ligase HRD1-like [Cucurbita moschata]

1.3e-59

64.92

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Query:  MVVEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADAL
        +VVEV  DLPT  +IPKHPS IE IGLIFTLRRR +HF VSENGER+L++ +E  K+PLCD+QF AE+FN  D+SLFH LS SF+N+KP+IDAE VADAL
Subjt:  MVVEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADAL

Query:  IERWIEIRDQVNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDEL--KKKRNG
        IERWIEIRD+ NSRSSD+VF MTVNLT+ ++VAR+EIG      GG+   +VPACG  + K L+RL+ ++E + ICVICLDEL  KKK+NG
Subjt:  IERWIEIRDQVNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDEL--KKKRNG

XP_023511497.1 ERAD-associated E3 ubiquitin-protein ligase HRD1-like [Cucurbita pepo subsp. pepo]

5.6e-60

65.45

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Query:  MVVEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADAL
        +VVEV  DLPT  +IPKHPS IE IGLIFTLRRR +HF VSENGER+L++ +E  K+PLCD+QF AE+FN  D+SLFH LS SF+N+KP+IDAE VADAL
Subjt:  MVVEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADAL

Query:  IERWIEIRDQVNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDEL--KKKRNG
        IERWIEIRD+ NSRSSD+VF MTVNLTI ++VAR+EIG      GG+   +VPACG  + K L+RL+ ++E + ICVICLDEL  KKK+NG
Subjt:  IERWIEIRDQVNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDEL--KKKRNG

TrEMBL top hits

e value

%identity

Alignment

A0A0A0L236 RING-type domain-containing protein

3.1e-72

72.19

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Query:  VEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADALIE
        VEVDID+P   KIPKHPSPIELIGL+FTLRRRCN F V ENGERQLVE +EI KVPLCDHQFP E+FNG  +SLF YL  SFENY+ KIDAE+VA  LIE
Subjt:  VEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADALIE

Query:  RWIEIRDQVNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDELKKKRNG
        +WIEIR+QVNSRS DKVFSMTVNLTI++VV ++ +G D + FGGE  R+VPAC + ++K LKRLEM+EEDER+CVICLDE+ KK+NG
Subjt:  RWIEIRDQVNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDELKKKRNG

A0A1S4E0Q9 RING finger protein 141-like

8.2e-73

72.19

Show/hide

Query:  VEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADALIE
        VE+DIDLP S++I KHPSPIELIGL+FTLRRRCN F V ENGERQLVE +E  KVPLCDHQFP E+FNG DNSLF YL  SFENY+PKIDAE+VA ALIE
Subjt:  VEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADALIE

Query:  RWIEIRDQVNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDELKKKRNG
        +WI IRDQ+NSRS  KVFSMTVNLTI++VV ++ IG D + FGGE FR VPAC + ++K LKRLE+++EDERIC+ICLDE++KK+NG
Subjt:  RWIEIRDQVNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDELKKKRNG

A0A5A7SNF1 RING finger protein 141-like

8.2e-73

72.19

Show/hide

Query:  VEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADALIE
        VE+DIDLP S++I KHPSPIELIGL+FTLRRRCN F V ENGERQLVE +E  KVPLCDHQFP E+FNG DNSLF YL  SFENY+PKIDAE+VA ALIE
Subjt:  VEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADALIE

Query:  RWIEIRDQVNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDELKKKRNG
        +WI IRDQ+NSRS  KVFSMTVNLTI++VV ++ IG D + FGGE FR VPAC + ++K LKRLE+++EDERIC+ICLDE++KK+NG
Subjt:  RWIEIRDQVNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDELKKKRNG

A0A6J1GK53 ERAD-associated E3 ubiquitin-protein ligase HRD1-like

6.1e-60

64.92

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Query:  MVVEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADAL
        +VVEV  DLPT  +IPKHPS IE IGLIFTLRRR +HF VSENGER+L++ +E  K+PLCD+QF AE+FN  D+SLFH LS SF+N+KP+IDAE VADAL
Subjt:  MVVEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADAL

Query:  IERWIEIRDQVNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDEL--KKKRNG
        IERWIEIRD+ NSRSSD+VF MTVNLT+ ++VAR+EIG      GG+   +VPACG  + K L+RL+ ++E + ICVICLDEL  KKK+NG
Subjt:  IERWIEIRDQVNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDEL--KKKRNG

A0A6J1I8N9 ERAD-associated E3 ubiquitin-protein ligase HRD1-like

3.0e-59

64.71

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Query:  MVVEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADAL
        +VVEV  DLPT  +IPKHPS IE IGLIFTLR R +HF VSE+GER+L++ +E  K+PLCD+QF AE+FN  D+SLFH LS SF+N+KP+IDAE VADAL
Subjt:  MVVEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADAL

Query:  IERWIEIRDQVNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDELKKKR
        IERWIEIRD+ NSRSSD+VF MTVNLT+ ++VAR+EIG      GG+   +VPACG  + K L+RLE ++E + ICVICLDELKKK+
Subjt:  IERWIEIRDQVNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDELKKKR

SwissProt top hits

e value

%identity

Alignment

O48890 DNA-directed RNA polymerase II subunit 4

1.3e-19

62.64

Show/hide

Query:  NQSIEVDTKLQLQACLEFKRKKMPQSLRLGM------------LCVLGNLCPETVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKRFE
        NQ  +V  K  LQ    F R K P ++R               LCVLGNLCPETVEEA+AMVPSLKTKGRAHDDEAIEKMLNDLSL+KRFE
Subjt:  NQSIEVDTKLQLQACLEFKRKKMPQSLRLGM------------LCVLGNLCPETVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKRFE

Arabidopsis top hits

e value

%identity

Alignment

AT5G09920.1 RNA polymerase II, Rpb4, core protein

9.4e-21

62.64

Show/hide

Query:  NQSIEVDTKLQLQACLEFKRKKMPQSLRLGM------------LCVLGNLCPETVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKRFE
        NQ  +V  K  LQ    F R K P ++R               LCVLGNLCPETVEEA+AMVPSLKTKGRAHDDEAIEKMLNDLSL+KRFE
Subjt:  NQSIEVDTKLQLQACLEFKRKKMPQSLRLGM------------LCVLGNLCPETVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKRFE

Sequences

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CDS sequence

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ATGGTGGTAGAAGTAGATATAGATCTTCCAACGTCGAAAAAAATCCCAAAGCATCCATCACCAATCGAACTAATTGGCCTGATCTTCACCCTCCGTCGTCGTTGCAACCA
CTTCCTAGTATCGGAGAATGGCGAACGACAATTAGTAGAGCATAAAGAAATACCAAAAGTTCCACTATGCGACCACCAATTCCCTGCTGAAATGTTCAATGGAGTGGACA
ATTCTCTATTCCATTACCTTTCTCATAGTTTCGAAAACTACAAACCCAAAATTGATGCAGAGCTAGTCGCTGATGCCCTAATCGAGCGGTGGATTGAAATAAGGGACCAG
GTGAATTCAAGAAGCTCCGACAAAGTGTTTTCAATGACGGTAAATTTGACGATTTCGAATGTCGTGGCTCGACATGAAATTGGTAGTGACAGAAACGTATTCGGTGGAGA
ATATTTTAGGATCGTTCCAGCATGTGGCGAAGTAATTAGGAAAACGTTGAAGAGATTGGAGATGAAAGAAGAAGATGAAAGAATTTGTGTGATATGTTTGGATGAATTGA
AGAAAAAGAGGAATGGAAGTCCACCACAGCCGCCCGCCGATTCCCTGTCGCCGATTCCACTGCTTTTCCGCTTTTCTGTCGCCTTTCGATCAACGCCGCAACCGACCGGA
CCACCCACGCCCAAAAGAGAAATAATTTGTGGGAATCAATCGATTGAGGTTGACACAAAACTCCAACTTCAAGCATGTCTGGAGTTCAAGAGGAAGAAAATGCCGCAGAG
CTTAAGATTGGGGATGCTCTGCGTACTTGGCAATCTTTGTCCTGAAACAGTTGAGGAAGCTATTGCTATGGTACCGTCTTTAAAGACTAAAGGGAGAGCACATGACGACG
AAGCTATTGAGAAGATGTTGAATGACCTTTCATTGATAAAAAGATTTGAGTAG

mRNA sequence

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Protein sequence

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MVVEVDIDLPTSKKIPKHPSPIELIGLIFTLRRRCNHFLVSENGERQLVEHKEIPKVPLCDHQFPAEMFNGVDNSLFHYLSHSFENYKPKIDAELVADALIERWIEIRDQ
VNSRSSDKVFSMTVNLTISNVVARHEIGSDRNVFGGEYFRIVPACGEVIRKTLKRLEMKEEDERICVICLDELKKKRNGSPPQPPADSLSPIPLLFRFSVAFRSTPQPTG
PPTPKREIICGNQSIEVDTKLQLQACLEFKRKKMPQSLRLGMLCVLGNLCPETVEEAIAMVPSLKTKGRAHDDEAIEKMLNDLSLIKRFE

HG10017539 (gene) of Bottle gourd (Hangzhou Gourd) v1 genome