Chy8G146330 (gene) Cucumber (hystrix) v1

Overview


Name	Chy8G146330
Type	gene
Organism	Cucumis hystrix (Cucumber (hystrix) v1)
Description	DNA-directed RNA polymerase
Location	chrH08: 998837 .. 1000430 (-)
RNA-Seq Expression	Chy8G146330
Synteny	Chy8G146330

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideexonCDS

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

ATGAGTTCTGCCGAAGACTTTCAACCAAGCCAAAAGGTATAGTTTTCAAGGCGATATTGCAGTTGAGTCTTGAACATGTAGTTCTAGAGTTGAATCGTCCCTTTAACACGTATTGTATCCAACAACTCATTGTTTATTTCTATTATATAAATTTTCCATTTATATCTCTTCTTCCATTTCAAGGCTTTCGTTAAATGTTATTGTTGCGACTGCTTTATCATTTTTTTTTGTATCGATTCCCAACCAACGTCTCTTCATGCTTTCCTTCTAAGTTATTGTTGTGACTACTTTCTTTTGGGTTCCGGTCCGGTTCCTAACCATCATCACTTGATGCTTTCTTTCATGATTTAGATGTAATATAGTTTATTTCAAATGGACTAGGTCATGATCCATATGGAAGATGAACATAATGGCAAACTACCAATTCCGTCTGGTATCCTTACTGGCATAAACTTTAGTGTCTCAAATCAGCAAGATATAGTAAGTATTTTAATTTTGATATATAAGCCTCATATATTATACTTTAGGAAGTAAATAATTTTCAAGAACAATCACTTGATGTATATTGATAAAGTTCAGGGTCAGAGTTTGTTTTTATTTGTAATATATGGGTTCTTGCGTAGGGTACAATATAGGCTAGTAGGGTTTTTAAAATTTGGAATAACCTGGATGTCTGTAATTCACACGGTATTCATTACCTTGACTGCTTCCTCTGTGTAGTTTGCCTCTTTCTATGGGTTTTACTTCTAGATGTCCGTGTGTTCTTTCATTTTTTCTCAATAAAAATTTAAATCACTCATTCAAAAAGAAGAATAACTTCTTCATGACACCATGAAGGATTGAGGATTGGAGCTTTTCAACAAAGTAACAATGCCTTAATACTAAAATGACTTTGGAGAAGATTCACTTAAGAAGAAGGATCTCTAGGGAAGAACGATTTTCTAGGATATATGGGACAAACCAACTCTTGCATGCATGGTCATATTTTGTGTGTATATATATAGGTAGAAAAAATACCTAATCACATCTCTTCTTAGGTTTATATTTAGTTGGTGTCACATTTGTTCAGATATGATAGCAAACTTCTATTTAATCCTAATATTTTTGGTTATGTCGTAGCAAGAACAGGCTCACATCTCCTTAAGCACAACCAATACCCTAAATCATAAGATTAAAGATGAAAAACAAAATTTAGTTATTGGAAGGTGAACACTTGTCTTGTACTTCTTTTCCCCCACATTTATCTTAATTTTTATTCTAATAATGTTGGTAAGGAAAGTAAATTTTTTTTATTTTTGTTTCATATATAAAATGTATTGTTGTTGGATAAAAAAATTGATGGTGACTTTAAACTTGTGAGTATATATGTGCCTTTAATTTTGTATAGTGTTGTGTTGCTATACAGGATTTGATTTTCAATATTCTAATGTGAATTTTTTTAATTTTATTGATGTAACAGAAGAATATAGCAGTAGTAACAGTTCGTGTTGATGCAGCCATCAACGTATCTGATCCTAAGTTGGGACTTCCAAATCTATCTTATCAGTGCACCACATGTGGTGCTAGCTCTCTAAAATTTTGTGAAGGTAATTAA

mRNA sequence

ATGAGTTCTGCCGAAGACTTTCAACCAAGCCAAAAGGTCATGATCCATATGGAAGATGAACATAATGGCAAACTACCAATTCCGTCTGGTATCCTTACTGGCATAAACTTTAGTGTCTCAAATCAGCAAGATATAAAGAATATAGCAGTAGTAACAGTTCGTGTTGATGCAGCCATCAACGTATCTGATCCTAAGTTGGGACTTCCAAATCTATCTTATCAGTGCACCACATGTGGTGCTAGCTCTCTAAAATTTTGTGAAGGTAATTAA

Coding sequence (CDS)

ATGAGTTCTGCCGAAGACTTTCAACCAAGCCAAAAGGTCATGATCCATATGGAAGATGAACATAATGGCAAACTACCAATTCCGTCTGGTATCCTTACTGGCATAAACTTTAGTGTCTCAAATCAGCAAGATATAAAGAATATAGCAGTAGTAACAGTTCGTGTTGATGCAGCCATCAACGTATCTGATCCTAAGTTGGGACTTCCAAATCTATCTTATCAGTGCACCACATGTGGTGCTAGCTCTCTAAAATTTTGTGAAGGTAATTAA

Protein sequence

MSSAEDFQPSQKVMIHMEDEHNGKLPIPSGILTGINFSVSNQQDIKNIAVVTVRVDAAINVSDPKLGLPNLSYQCTTCGASSLKFCEGN*

Homology

[Close]

BLAST of Chy8G146330 vs. ExPASy Swiss-Prot
Match: Q9LQ02 (DNA-directed RNA polymerase IV subunit 1 OS=Arabidopsis thaliana OX=3702 GN=NRPD1 PE=1 SV=1)

HSP 1 Score: 60.1 bits (144), Expect = 1.5e-08
Identity = 32/73 (43.84%), Postives = 44/73 (60.27%), Query Frame = 0


Query: 17 MEDEHNGKLPIPSGILTGINFSVSNQQDIKNIAVVTVRVDAAINVSDPKLGLPNLSYQCT 76
          MED+   +L +P G LT I FS+SN  D   ++V  + V+A   V+D +LGLPN    C 
Sbjct: 1  MEDDCE-ELQVPVGTLTSIGFSISNNNDRDKMSV--LEVEAPNQVTDSRLGLPNPDSVCR 60

Query: 77 TCGASSLKFCEGN 90
          TCG+   K CEG+
Sbjct: 61 TCGSKDRKVCEGH 70

[Close]

BLAST of Chy8G146330 vs. ExPASy TrEMBL
Match: A0A5D3D780 (DNA-directed RNA polymerase OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold443G00770 PE=4 SV=1)

HSP 1 Score: 150.2 bits (378), Expect = 4.1e-33
Identity = 75/89 (84.27%), Postives = 81/89 (91.01%), Query Frame = 0


Query: 1  MSSAEDFQPSQKVMIHMEDEHNGKLPIPSGILTGINFSVSNQQDIKNIAVVTVRVDAAIN 60
          MSSAEDF+P QKVMIHMEDE +G+LPIPSG LTGINFSVSNQQDI+NIAV+T  VDAA  
Sbjct: 1  MSSAEDFRPGQKVMIHMEDEQDGELPIPSGRLTGINFSVSNQQDIENIAVIT--VDAASE 60

Query: 61 VSDPKLGLPNLSYQCTTCGASSLKFCEGN 90
          VSDPKLGLPN SYQCTTCGASSLKFCEG+
Sbjct: 61 VSDPKLGLPNPSYQCTTCGASSLKFCEGH 87

[Close]

BLAST of Chy8G146330 vs. ExPASy TrEMBL
Match: A0A0A0L2L4 (DNA-directed RNA polymerase OS=Cucumis sativus OX=3659 GN=Csa_3G039340 PE=4 SV=1)

HSP 1 Score: 150.2 bits (378), Expect = 4.1e-33
Identity = 74/89 (83.15%), Postives = 81/89 (91.01%), Query Frame = 0


Query: 1  MSSAEDFQPSQKVMIHMEDEHNGKLPIPSGILTGINFSVSNQQDIKNIAVVTVRVDAAIN 60
          MSS EDF+P QKVMIHMEDE +G+LPIPSG+LTGINFSVSNQQDI+NIAV+T  VDAA  
Sbjct: 1  MSSVEDFRPGQKVMIHMEDEQDGELPIPSGLLTGINFSVSNQQDIENIAVIT--VDAANE 60

Query: 61 VSDPKLGLPNLSYQCTTCGASSLKFCEGN 90
          VSDPKLGLPN SYQCTTCGASSLKFCEG+
Sbjct: 61 VSDPKLGLPNPSYQCTTCGASSLKFCEGH 87

[Close]

BLAST of Chy8G146330 vs. ExPASy TrEMBL
Match: A0A1S4DY39 (DNA-directed RNA polymerase OS=Cucumis melo OX=3656 GN=LOC103490982 PE=4 SV=1)

HSP 1 Score: 150.2 bits (378), Expect = 4.1e-33
Identity = 75/89 (84.27%), Postives = 81/89 (91.01%), Query Frame = 0


Query: 1  MSSAEDFQPSQKVMIHMEDEHNGKLPIPSGILTGINFSVSNQQDIKNIAVVTVRVDAAIN 60
          MSSAEDF+P QKVMIHMEDE +G+LPIPSG LTGINFSVSNQQDI+NIAV+T  VDAA  
Sbjct: 1  MSSAEDFRPGQKVMIHMEDEQDGELPIPSGRLTGINFSVSNQQDIENIAVIT--VDAASE 60

Query: 61 VSDPKLGLPNLSYQCTTCGASSLKFCEGN 90
          VSDPKLGLPN SYQCTTCGASSLKFCEG+
Sbjct: 61 VSDPKLGLPNPSYQCTTCGASSLKFCEGH 87

[Close]

BLAST of Chy8G146330 vs. ExPASy TrEMBL
Match: A0A6J1KSL8 (DNA-directed RNA polymerase OS=Cucurbita maxima OX=3661 GN=LOC111498320 PE=4 SV=1)

HSP 1 Score: 116.7 bits (291), Expect = 5.0e-23
Identity = 57/89 (64.04%), Postives = 69/89 (77.53%), Query Frame = 0


Query: 1  MSSAEDFQPSQKVMIHMEDEHNGKLPIPSGILTGINFSVSNQQDIKNIAVVTVRVDAAIN 60
          M+ A  F+  QK M HMEDE + +L IPSG+L G+NFSVS QQD++NIAV  + ++AA  
Sbjct: 1  MNFAGGFRSGQKAMNHMEDEQDSELQIPSGVLVGVNFSVSTQQDMENIAV--INIEAACE 60

Query: 61 VSDPKLGLPNLSYQCTTCGASSLKFCEGN 90
          VSDPKLGLPN SYQCTTCGAS LK CEG+
Sbjct: 61 VSDPKLGLPNPSYQCTTCGASVLKCCEGH 87

[Close]

BLAST of Chy8G146330 vs. ExPASy TrEMBL
Match: A0A6J1FKU9 (DNA-directed RNA polymerase OS=Cucurbita moschata OX=3662 GN=LOC111444908 PE=4 SV=1)

HSP 1 Score: 116.7 bits (291), Expect = 5.0e-23
Identity = 57/89 (64.04%), Postives = 69/89 (77.53%), Query Frame = 0


Query: 1  MSSAEDFQPSQKVMIHMEDEHNGKLPIPSGILTGINFSVSNQQDIKNIAVVTVRVDAAIN 60
          M+ A  F+  QK M HMEDE + +L IPSG+L G+NFSVS QQD++NIAV  + ++AA  
Sbjct: 1  MNFAGGFRSGQKAMNHMEDEQDSELQIPSGVLVGVNFSVSTQQDMENIAV--INIEAACE 60

Query: 61 VSDPKLGLPNLSYQCTTCGASSLKFCEGN 90
          VSDPKLGLPN SYQCTTCGAS LK CEG+
Sbjct: 61 VSDPKLGLPNPSYQCTTCGASVLKCCEGH 87

[Close]

BLAST of Chy8G146330 vs. NCBI nr
Match: XP_011650447.1 (DNA-directed RNA polymerase IV subunit 1 isoform X1 [Cucumis sativus] >XP_011650449.1 DNA-directed RNA polymerase IV subunit 1 isoform X1 [Cucumis sativus] >KGN55963.1 hypothetical protein Csa_010842 [Cucumis sativus])

HSP 1 Score: 149 bits (377), Expect = 1.57e-39
Identity = 74/89 (83.15%), Postives = 81/89 (91.01%), Query Frame = 0


Query: 1  MSSAEDFQPSQKVMIHMEDEHNGKLPIPSGILTGINFSVSNQQDIKNIAVVTVRVDAAIN 60
          MSS EDF+P QKVMIHMEDE +G+LPIPSG+LTGINFSVSNQQDI+NIAV+TV  DAA  
Sbjct: 1  MSSVEDFRPGQKVMIHMEDEQDGELPIPSGLLTGINFSVSNQQDIENIAVITV--DAANE 60

Query: 61 VSDPKLGLPNLSYQCTTCGASSLKFCEGN 89
          VSDPKLGLPN SYQCTTCGASSLKFCEG+
Sbjct: 61 VSDPKLGLPNPSYQCTTCGASSLKFCEGH 87

[Close]

BLAST of Chy8G146330 vs. NCBI nr
Match: XP_016900630.1 (PREDICTED: LOW QUALITY PROTEIN: DNA-directed RNA polymerase IV subunit 1 [Cucumis melo])

HSP 1 Score: 149 bits (377), Expect = 1.57e-39
Identity = 75/89 (84.27%), Postives = 81/89 (91.01%), Query Frame = 0


Query: 1  MSSAEDFQPSQKVMIHMEDEHNGKLPIPSGILTGINFSVSNQQDIKNIAVVTVRVDAAIN 60
          MSSAEDF+P QKVMIHMEDE +G+LPIPSG LTGINFSVSNQQDI+NIAV+TV  DAA  
Sbjct: 1  MSSAEDFRPGQKVMIHMEDEQDGELPIPSGRLTGINFSVSNQQDIENIAVITV--DAASE 60

Query: 61 VSDPKLGLPNLSYQCTTCGASSLKFCEGN 89
          VSDPKLGLPN SYQCTTCGASSLKFCEG+
Sbjct: 61 VSDPKLGLPNPSYQCTTCGASSLKFCEGH 87

[Close]

BLAST of Chy8G146330 vs. NCBI nr
Match: TYK19428.1 (DNA-directed RNA polymerase IV subunit 1 [Cucumis melo var. makuwa])

HSP 1 Score: 149 bits (377), Expect = 1.57e-39
Identity = 75/89 (84.27%), Postives = 81/89 (91.01%), Query Frame = 0


Query: 1  MSSAEDFQPSQKVMIHMEDEHNGKLPIPSGILTGINFSVSNQQDIKNIAVVTVRVDAAIN 60
          MSSAEDF+P QKVMIHMEDE +G+LPIPSG LTGINFSVSNQQDI+NIAV+TV  DAA  
Sbjct: 1  MSSAEDFRPGQKVMIHMEDEQDGELPIPSGRLTGINFSVSNQQDIENIAVITV--DAASE 60

Query: 61 VSDPKLGLPNLSYQCTTCGASSLKFCEGN 89
          VSDPKLGLPN SYQCTTCGASSLKFCEG+
Sbjct: 61 VSDPKLGLPNPSYQCTTCGASSLKFCEGH 87

[Close]

BLAST of Chy8G146330 vs. NCBI nr
Match: XP_038905045.1 (DNA-directed RNA polymerase IV subunit 1 isoform X4 [Benincasa hispida])

HSP 1 Score: 139 bits (349), Expect = 9.39e-36
Identity = 70/89 (78.65%), Postives = 77/89 (86.52%), Query Frame = 0


Query: 1  MSSAEDFQPSQKVMIHMEDEHNGKLPIPSGILTGINFSVSNQQDIKNIAVVTVRVDAAIN 60
          MS A DFQP QKVMIHMEDE +G+LPIPSG+LTGINFSV+ QQD +NIAV+TV  DAA  
Sbjct: 1  MSFAGDFQPEQKVMIHMEDEQDGELPIPSGLLTGINFSVATQQDTENIAVLTV--DAASE 60

Query: 61 VSDPKLGLPNLSYQCTTCGASSLKFCEGN 89
          VSDPKLGLPN SYQCTTCGASSLK CEG+
Sbjct: 61 VSDPKLGLPNPSYQCTTCGASSLKSCEGH 87

[Close]

BLAST of Chy8G146330 vs. NCBI nr
Match: XP_038905038.1 (DNA-directed RNA polymerase IV subunit 1 isoform X1 [Benincasa hispida] >XP_038905039.1 DNA-directed RNA polymerase IV subunit 1 isoform X1 [Benincasa hispida] >XP_038905040.1 DNA-directed RNA polymerase IV subunit 1 isoform X1 [Benincasa hispida] >XP_038905041.1 DNA-directed RNA polymerase IV subunit 1 isoform X1 [Benincasa hispida])

HSP 1 Score: 139 bits (349), Expect = 9.39e-36
Identity = 70/89 (78.65%), Postives = 77/89 (86.52%), Query Frame = 0


Query: 1  MSSAEDFQPSQKVMIHMEDEHNGKLPIPSGILTGINFSVSNQQDIKNIAVVTVRVDAAIN 60
          MS A DFQP QKVMIHMEDE +G+LPIPSG+LTGINFSV+ QQD +NIAV+TV  DAA  
Sbjct: 1  MSFAGDFQPEQKVMIHMEDEQDGELPIPSGLLTGINFSVATQQDTENIAVLTV--DAASE 60

Query: 61 VSDPKLGLPNLSYQCTTCGASSLKFCEGN 89
          VSDPKLGLPN SYQCTTCGASSLK CEG+
Sbjct: 61 VSDPKLGLPNPSYQCTTCGASSLKSCEGH 87

[Close]

BLAST of Chy8G146330 vs. TAIR 10
Match: AT1G63020.1 (nuclear RNA polymerase D1A )

HSP 1 Score: 60.1 bits (144), Expect = 1.1e-09
Identity = 32/73 (43.84%), Postives = 44/73 (60.27%), Query Frame = 0


Query: 17 MEDEHNGKLPIPSGILTGINFSVSNQQDIKNIAVVTVRVDAAINVSDPKLGLPNLSYQCT 76
          MED+   +L +P G LT I FS+SN  D   ++V  + V+A   V+D +LGLPN    C 
Sbjct: 1  MEDDCE-ELQVPVGTLTSIGFSISNNNDRDKMSV--LEVEAPNQVTDSRLGLPNPDSVCR 60

Query: 77 TCGASSLKFCEGN 90
          TCG+   K CEG+
Sbjct: 61 TCGSKDRKVCEGH 70

[Close]

BLAST of Chy8G146330 vs. TAIR 10
Match: AT1G63020.2 (nuclear RNA polymerase D1A )

HSP 1 Score: 60.1 bits (144), Expect = 1.1e-09
Identity = 32/73 (43.84%), Postives = 44/73 (60.27%), Query Frame = 0


Query: 17 MEDEHNGKLPIPSGILTGINFSVSNQQDIKNIAVVTVRVDAAINVSDPKLGLPNLSYQCT 76
          MED+   +L +P G LT I FS+SN  D   ++V  + V+A   V+D +LGLPN    C 
Sbjct: 1  MEDDCE-ELQVPVGTLTSIGFSISNNNDRDKMSV--LEVEAPNQVTDSRLGLPNPDSVCR 60

Query: 77 TCGASSLKFCEGN 90
          TCG+   K CEG+
Sbjct: 61 TCGSKDRKVCEGH 70

The following BLAST results are available for this feature:

BLAST of Chy8G146330 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q9LQ02	1.5e-08	43.84	DNA-directed RNA polymerase IV subunit 1 OS=Arabidopsis thaliana OX=3702 GN=NRPD...	[more]

BLAST of Chy8G146330 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A5D3D780	4.1e-33	84.27	DNA-directed RNA polymerase OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaf...	[more]
A0A0A0L2L4	4.1e-33	83.15	DNA-directed RNA polymerase OS=Cucumis sativus OX=3659 GN=Csa_3G039340 PE=4 SV=1	[more]
A0A1S4DY39	4.1e-33	84.27	DNA-directed RNA polymerase OS=Cucumis melo OX=3656 GN=LOC103490982 PE=4 SV=1	[more]
A0A6J1KSL8	5.0e-23	64.04	DNA-directed RNA polymerase OS=Cucurbita maxima OX=3661 GN=LOC111498320 PE=4 SV=...	[more]
A0A6J1FKU9	5.0e-23	64.04	DNA-directed RNA polymerase OS=Cucurbita moschata OX=3662 GN=LOC111444908 PE=4 S...	[more]

BLAST of Chy8G146330 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_011650447.1	1.57e-39	83.15	DNA-directed RNA polymerase IV subunit 1 isoform X1 [Cucumis sativus] >XP_011650...	[more]
XP_016900630.1	1.57e-39	84.27	PREDICTED: LOW QUALITY PROTEIN: DNA-directed RNA polymerase IV subunit 1 [Cucumi...	[more]
TYK19428.1	1.57e-39	84.27	DNA-directed RNA polymerase IV subunit 1 [Cucumis melo var. makuwa]	[more]
XP_038905045.1	9.39e-36	78.65	DNA-directed RNA polymerase IV subunit 1 isoform X4 [Benincasa hispida]	[more]
XP_038905038.1	9.39e-36	78.65	DNA-directed RNA polymerase IV subunit 1 isoform X1 [Benincasa hispida] >XP_0389...	[more]

BLAST of Chy8G146330 vs. TAIR 10


Match Name	E-value	Identity	Description
AT1G63020.1	1.1e-09	43.84	nuclear RNA polymerase D1A	[more]
AT1G63020.2	1.1e-09	43.84	nuclear RNA polymerase D1A	[more]

InterPro

Analysis Name: InterPro Annotations of Cucumber (hystrix) v1
Date Performed: 2021-10-25


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR044893	RNA polymerase Rpb1, clamp domain superfamily	GENE3D	4.10.860.120	RNA polymerase II, clamp domain	coord: 27..89 e-value: 2.1E-5 score: 26.1
None	No IPR available	SUPERFAMILY	64484	beta and beta-prime subunits of DNA dependent RNA-polymerase	coord: 27..88

Relationships

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


Feature Name	Unique Name	Type
Chy8G146330.1	Chy8G146330.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006351	transcription, DNA-templated
cellular_component	GO:0005666	RNA polymerase III complex
molecular_function	GO:0003677	DNA binding
molecular_function	GO:0003899	DNA-directed 5'-3' RNA polymerase activity
molecular_function	GO:0046872	metal ion binding