CsGy3G027360 (gene) Cucumber (Gy14) v2.1

Overview


Name	CsGy3G027360
Type	gene
Organism	Cucumis sativus L. var. sativus cv. Gy14 (Cucumber (Gy14) v2.1)
Description	RNA polymerase sigma factor sigD, chloroplastic
Location	Gy14Chr3: 28466234 .. 28467172 (+)
RNA-Seq Expression	CsGy3G027360
Synteny	CsGy3G027360

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDSpolypeptide

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

ATGGCCACTACCAGCAGCTTATGTTCATTACCTGCTCAATCCCCAACTCTCCCATCCATTTCTCTCTCCTCACTTCCATCGCTCAAAACCCATCTTCCCCAACAACCCCATTTCCCCTTTCCCCCTTTCTCCACCAAATTAGGACCCAACATTATCAGCAATGACACATTAACCCTTCCTCCGCCGCCGGAAGCGGCTGTTCTAGCGGTAGAAGCGGCGGGAGAACATGTTCTGGTGGAGGCCAAAGGGTTTTCTGAAGATTGGAGCAGCAAAAATGTTGAGAAAATGGAGGAGAGTTGTGTGGGTGATGGGACTGTAGCTTGGAAGAAAAAGAGAAGGAAAAGGAGGAAAGAGGTAGGGGTGAAAGCTGAAGAAAATTGGATTGCCTTGTCCAGTGGCCCCTTGAGACCTGGATATTTGAGCCCAAAAGAAGAAGCAGAGCTTTGTCTTTGTCTAAAGGTTGGTTTTAGAAAAGATTTAATGAGTTTTTTTGTCCTTGTCTGTGTCACATTGCCACCATTTACTTCATTAAGGAGCTTACTTGAGGAGATCAGGTAAATGTATGAAAAACACTGCAAGAGTCTCTTCTTTTCCCTTTGTTAATACGTGAATATATGTATTTTCTTCTTTATAAAGTGTTTTTGAGGTATCCTAGAAGAAGAAGAAGAAAGAAGGCTTCTTATTGTGTTGTGGTTTTAAATGCCAGAACTTCAAATTCTTTGTTTTGTTCTCCATTTTGGTTATTGTTGTTAAGTTTTCACATTGTATGCCAAACTCAATGTATGCGGCAGAATGCTAGTCTATATTCTTGAGAGAGGTCAAAATGAAATTGAAAATTTAGAGGCTTAGGAACCAAGATAGATTTAAGTCTTTTATCCTTTAGATCATGTAAAATTATTTGCCACGTTAATATATAAAGGAAAGCTCTGCGTATCTTAA

mRNA sequence

ATGGCCACTACCAGCAGCTTATGTTCATTACCTGCTCAATCCCCAACTCTCCCATCCATTTCTCTCTCCTCACTTCCATCGCTCAAAACCCATCTTCCCCAACAACCCCATTTCCCCTTTCCCCCTTTCTCCACCAAATTAGGACCCAACATTATCAGCAATGACACATTAACCCTTCCTCCGCCGCCGGAAGCGGCTGTTCTAGCGGTAGAAGCGGCGGGAGAACATGTTCTGGTGGAGGCCAAAGGGTTTTCTGAAGATTGGAGCAGCAAAAATGTTGAGAAAATGGAGGAGAGTTGTGTGGGTGATGGGACTGTAGCTTGGAAGAAAAAGAGAAGGAAAAGGAGGAAAGAGGTAGGGGTGAAAGCTGAAGAAAATTGGATTGCCTTGTCCAGTGGCCCCTTGAGACCTGGATATTTGAGCCCAAAAGAAGAAGCAGAGCTTTGTCTTTGTCTAAAGCTCTGCGTATCTTAA

Coding sequence (CDS)

ATGGCCACTACCAGCAGCTTATGTTCATTACCTGCTCAATCCCCAACTCTCCCATCCATTTCTCTCTCCTCACTTCCATCGCTCAAAACCCATCTTCCCCAACAACCCCATTTCCCCTTTCCCCCTTTCTCCACCAAATTAGGACCCAACATTATCAGCAATGACACATTAACCCTTCCTCCGCCGCCGGAAGCGGCTGTTCTAGCGGTAGAAGCGGCGGGAGAACATGTTCTGGTGGAGGCCAAAGGGTTTTCTGAAGATTGGAGCAGCAAAAATGTTGAGAAAATGGAGGAGAGTTGTGTGGGTGATGGGACTGTAGCTTGGAAGAAAAAGAGAAGGAAAAGGAGGAAAGAGGTAGGGGTGAAAGCTGAAGAAAATTGGATTGCCTTGTCCAGTGGCCCCTTGAGACCTGGATATTTGAGCCCAAAAGAAGAAGCAGAGCTTTGTCTTTGTCTAAAGCTCTGCGTATCTTAA

Protein sequence

MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHFPFPPFSTKLGPNIISNDTLTLPPPPEAAVLAVEAAGEHVLVEAKGFSEDWSSKNVEKMEESCVGDGTVAWKKKRRKRRKEVGVKAEENWIALSSGPLRPGYLSPKEEAELCLCLKLCVS*

Homology

[Close]

BLAST of CsGy3G027360 vs. NCBI nr
Match: XP_004149725.1 (RNA polymerase sigma factor sigD, chloroplastic [Cucumis sativus] >KGN58573.1 hypothetical protein Csa_000720 [Cucumis sativus])

HSP 1 Score: 301 bits (772), Expect = 5.50e-99
Identity = 153/153 (100.00%), Postives = 153/153 (100.00%), Query Frame = 0


Query: 1   MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHFPFPPFSTKLGPNIISNDTLTLP 60
           MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHFPFPPFSTKLGPNIISNDTLTLP
Sbjct: 1   MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHFPFPPFSTKLGPNIISNDTLTLP 60

Query: 61  PPPEAAVLAVEAAGEHVLVEAKGFSEDWSSKNVEKMEESCVGDGTVAWKKKRRKRRKEVG 120
           PPPEAAVLAVEAAGEHVLVEAKGFSEDWSSKNVEKMEESCVGDGTVAWKKKRRKRRKEVG
Sbjct: 61  PPPEAAVLAVEAAGEHVLVEAKGFSEDWSSKNVEKMEESCVGDGTVAWKKKRRKRRKEVG 120

Query: 121 VKAEENWIALSSGPLRPGYLSPKEEAELCLCLK 153
           VKAEENWIALSSGPLRPGYLSPKEEAELCLCLK
Sbjct: 121 VKAEENWIALSSGPLRPGYLSPKEEAELCLCLK 153

[Close]

BLAST of CsGy3G027360 vs. NCBI nr
Match: KAA0048391.1 (RNA polymerase sigma factor sigD [Cucumis melo var. makuwa] >TYJ99868.1 RNA polymerase sigma factor sigD [Cucumis melo var. makuwa])

HSP 1 Score: 293 bits (750), Expect = 1.17e-95
Identity = 148/153 (96.73%), Postives = 151/153 (98.69%), Query Frame = 0


Query: 1   MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHFPFPPFSTKLGPNIISNDTLTLP 60
           MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHFPFPPFS+KLGPN IS DTLTLP
Sbjct: 1   MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHFPFPPFSSKLGPNFISYDTLTLP 60

Query: 61  PPPEAAVLAVEAAGEHVLVEAKGFSEDWSSKNVEKMEESCVGDGTVAWKKKRRKRRKEVG 120
           PPPEAAVLAVEAAGEHVLVEA+GFSEDWSSKNVE+MEESCVGDGTVAWKKKRRKRRKEVG
Sbjct: 61  PPPEAAVLAVEAAGEHVLVEARGFSEDWSSKNVERMEESCVGDGTVAWKKKRRKRRKEVG 120

Query: 121 VKAEENWIALSSGPLRPGYLSPKEEAELCLCLK 153
           VKAEENWIALSSGPLRPGYLSPKEEAELCLCLK
Sbjct: 121 VKAEENWIALSSGPLRPGYLSPKEEAELCLCLK 153

[Close]

BLAST of CsGy3G027360 vs. NCBI nr
Match: XP_038906215.1 (RNA polymerase sigma factor sigD, chloroplastic [Benincasa hispida])

HSP 1 Score: 275 bits (702), Expect = 2.07e-88
Identity = 138/153 (90.20%), Postives = 144/153 (94.12%), Query Frame = 0


Query: 1   MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHFPFPPFSTKLGPNIISNDTLTLP 60
           MATTSSLCSLP QSPTLPSISLSSLPSLKTHLPQQPHFPFPPFSTKLG N I+NDTLTLP
Sbjct: 1   MATTSSLCSLPTQSPTLPSISLSSLPSLKTHLPQQPHFPFPPFSTKLGTNFINNDTLTLP 60

Query: 61  PPPEAAVLAVEAAGEHVLVEAKGFSEDWSSKNVEKMEESCVGDGTVAWKKKRRKRRKEVG 120
           PPPEAAVL VEAA EHVLV+A+GFSEDWS KN+E+ME SC GDGTVAWKKKRRKRRKEVG
Sbjct: 61  PPPEAAVLTVEAAREHVLVDARGFSEDWSCKNLERMEGSCGGDGTVAWKKKRRKRRKEVG 120

Query: 121 VKAEENWIALSSGPLRPGYLSPKEEAELCLCLK 153
           +KAEENW ALSSGPLRPGYLSPKEEAELCLCLK
Sbjct: 121 LKAEENWAALSSGPLRPGYLSPKEEAELCLCLK 153

[Close]

BLAST of CsGy3G027360 vs. NCBI nr
Match: XP_008461821.1 (PREDICTED: RNA polymerase sigma factor sigD, chloroplastic [Cucumis melo])

HSP 1 Score: 271 bits (693), Expect = 1.34e-86
Identity = 135/140 (96.43%), Postives = 138/140 (98.57%), Query Frame = 0


Query: 14  SPTLPSISLSSLPSLKTHLPQQPHFPFPPFSTKLGPNIISNDTLTLPPPPEAAVLAVEAA 73
           SPTLPSISLSSLPSLKTHLPQQPHFPFPPFS+KLGPN IS DTLTLPPPPEAAVLAVEAA
Sbjct: 51  SPTLPSISLSSLPSLKTHLPQQPHFPFPPFSSKLGPNFISYDTLTLPPPPEAAVLAVEAA 110

Query: 74  GEHVLVEAKGFSEDWSSKNVEKMEESCVGDGTVAWKKKRRKRRKEVGVKAEENWIALSSG 133
           GEHVLVEA+GFSEDWSSKNVE+MEESCVGDGTVAWKKKRRKRRKEVGVKAEENWIALSSG
Sbjct: 111 GEHVLVEARGFSEDWSSKNVERMEESCVGDGTVAWKKKRRKRRKEVGVKAEENWIALSSG 170

Query: 134 PLRPGYLSPKEEAELCLCLK 153
           PLRPGYLSPKEEAELCLCLK
Sbjct: 171 PLRPGYLSPKEEAELCLCLK 190

[Close]

BLAST of CsGy3G027360 vs. NCBI nr
Match: XP_022982740.1 (RNA polymerase sigma factor sigD, chloroplastic [Cucurbita maxima])

HSP 1 Score: 244 bits (623), Expect = 1.71e-76
Identity = 129/154 (83.77%), Postives = 135/154 (87.66%), Query Frame = 0


Query: 1   MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHFPFPPFSTKLGPNIISNDTLTLP 60
           MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHF   PFSTKL PN ISNDTLT P
Sbjct: 1   MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHFTISPFSTKLAPNFISNDTLTHP 60

Query: 61  PPPEAA-VLAVEAAGEHVLVEAKGFSEDWSSKNVEKMEESCVGDGTVAWKKKRRKRRKEV 120
           PP EAA VLAVEAA EHVLVEA   S+DW  KN+EKME+SC GDG VAWKK+RRKRRKEV
Sbjct: 61  PPSEAAAVLAVEAAREHVLVEAGWLSKDWRCKNLEKMEQSCGGDGNVAWKKRRRKRRKEV 120

Query: 121 GVKAEENWIALSSGPLRPGYLSPKEEAELCLCLK 153
           G  AEENW+ALSSGPLRPG+LS KEEAELCLCLK
Sbjct: 121 GETAEENWVALSSGPLRPGHLSSKEEAELCLCLK 154

[Close]

BLAST of CsGy3G027360 vs. ExPASy TrEMBL
Match: A0A0A0L9T0 (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G687740 PE=3 SV=1)

HSP 1 Score: 301 bits (772), Expect = 2.66e-99
Identity = 153/153 (100.00%), Postives = 153/153 (100.00%), Query Frame = 0


Query: 1   MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHFPFPPFSTKLGPNIISNDTLTLP 60
           MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHFPFPPFSTKLGPNIISNDTLTLP
Sbjct: 1   MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHFPFPPFSTKLGPNIISNDTLTLP 60

Query: 61  PPPEAAVLAVEAAGEHVLVEAKGFSEDWSSKNVEKMEESCVGDGTVAWKKKRRKRRKEVG 120
           PPPEAAVLAVEAAGEHVLVEAKGFSEDWSSKNVEKMEESCVGDGTVAWKKKRRKRRKEVG
Sbjct: 61  PPPEAAVLAVEAAGEHVLVEAKGFSEDWSSKNVEKMEESCVGDGTVAWKKKRRKRRKEVG 120

Query: 121 VKAEENWIALSSGPLRPGYLSPKEEAELCLCLK 153
           VKAEENWIALSSGPLRPGYLSPKEEAELCLCLK
Sbjct: 121 VKAEENWIALSSGPLRPGYLSPKEEAELCLCLK 153

[Close]

BLAST of CsGy3G027360 vs. ExPASy TrEMBL
Match: A0A5D3BP27 (RNA polymerase sigma factor sigD OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold474G00100 PE=3 SV=1)

HSP 1 Score: 293 bits (750), Expect = 5.65e-96
Identity = 148/153 (96.73%), Postives = 151/153 (98.69%), Query Frame = 0


Query: 1   MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHFPFPPFSTKLGPNIISNDTLTLP 60
           MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHFPFPPFS+KLGPN IS DTLTLP
Sbjct: 1   MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHFPFPPFSSKLGPNFISYDTLTLP 60

Query: 61  PPPEAAVLAVEAAGEHVLVEAKGFSEDWSSKNVEKMEESCVGDGTVAWKKKRRKRRKEVG 120
           PPPEAAVLAVEAAGEHVLVEA+GFSEDWSSKNVE+MEESCVGDGTVAWKKKRRKRRKEVG
Sbjct: 61  PPPEAAVLAVEAAGEHVLVEARGFSEDWSSKNVERMEESCVGDGTVAWKKKRRKRRKEVG 120

Query: 121 VKAEENWIALSSGPLRPGYLSPKEEAELCLCLK 153
           VKAEENWIALSSGPLRPGYLSPKEEAELCLCLK
Sbjct: 121 VKAEENWIALSSGPLRPGYLSPKEEAELCLCLK 153

[Close]

BLAST of CsGy3G027360 vs. ExPASy TrEMBL
Match: A0A1S3CFL7 (RNA polymerase sigma factor sigD, chloroplastic OS=Cucumis melo OX=3656 GN=LOC103500331 PE=3 SV=1)

HSP 1 Score: 271 bits (693), Expect = 6.48e-87
Identity = 135/140 (96.43%), Postives = 138/140 (98.57%), Query Frame = 0


Query: 14  SPTLPSISLSSLPSLKTHLPQQPHFPFPPFSTKLGPNIISNDTLTLPPPPEAAVLAVEAA 73
           SPTLPSISLSSLPSLKTHLPQQPHFPFPPFS+KLGPN IS DTLTLPPPPEAAVLAVEAA
Sbjct: 51  SPTLPSISLSSLPSLKTHLPQQPHFPFPPFSSKLGPNFISYDTLTLPPPPEAAVLAVEAA 110

Query: 74  GEHVLVEAKGFSEDWSSKNVEKMEESCVGDGTVAWKKKRRKRRKEVGVKAEENWIALSSG 133
           GEHVLVEA+GFSEDWSSKNVE+MEESCVGDGTVAWKKKRRKRRKEVGVKAEENWIALSSG
Sbjct: 111 GEHVLVEARGFSEDWSSKNVERMEESCVGDGTVAWKKKRRKRRKEVGVKAEENWIALSSG 170

Query: 134 PLRPGYLSPKEEAELCLCLK 153
           PLRPGYLSPKEEAELCLCLK
Sbjct: 171 PLRPGYLSPKEEAELCLCLK 190

[Close]

BLAST of CsGy3G027360 vs. ExPASy TrEMBL
Match: A0A6J1J3P0 (RNA polymerase sigma factor sigD, chloroplastic OS=Cucurbita maxima OX=3661 GN=LOC111481519 PE=3 SV=1)

HSP 1 Score: 244 bits (623), Expect = 8.28e-77
Identity = 129/154 (83.77%), Postives = 135/154 (87.66%), Query Frame = 0


Query: 1   MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHFPFPPFSTKLGPNIISNDTLTLP 60
           MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHF   PFSTKL PN ISNDTLT P
Sbjct: 1   MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHFTISPFSTKLAPNFISNDTLTHP 60

Query: 61  PPPEAA-VLAVEAAGEHVLVEAKGFSEDWSSKNVEKMEESCVGDGTVAWKKKRRKRRKEV 120
           PP EAA VLAVEAA EHVLVEA   S+DW  KN+EKME+SC GDG VAWKK+RRKRRKEV
Sbjct: 61  PPSEAAAVLAVEAAREHVLVEAGWLSKDWRCKNLEKMEQSCGGDGNVAWKKRRRKRRKEV 120

Query: 121 GVKAEENWIALSSGPLRPGYLSPKEEAELCLCLK 153
           G  AEENW+ALSSGPLRPG+LS KEEAELCLCLK
Sbjct: 121 GETAEENWVALSSGPLRPGHLSSKEEAELCLCLK 154

[Close]

BLAST of CsGy3G027360 vs. ExPASy TrEMBL
Match: A0A6J1FAN3 (RNA polymerase sigma factor sigD, chloroplastic OS=Cucurbita moschata OX=3662 GN=LOC111442316 PE=3 SV=1)

HSP 1 Score: 241 bits (614), Expect = 1.87e-75
Identity = 127/154 (82.47%), Postives = 135/154 (87.66%), Query Frame = 0


Query: 1   MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHFPFPPFSTKLGPNIISNDTLTLP 60
           MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHF   PFSTKL PN I+NDTLT P
Sbjct: 1   MATTSSLCSLPAQSPTLPSISLSSLPSLKTHLPQQPHFTISPFSTKLAPNFINNDTLTHP 60

Query: 61  PPPEAA-VLAVEAAGEHVLVEAKGFSEDWSSKNVEKMEESCVGDGTVAWKKKRRKRRKEV 120
           PP EAA VLAVEAA EHVLVEA   S+DWS KN+EKME+SC G G VAWKK+RRKRRKEV
Sbjct: 61  PPSEAAAVLAVEAAREHVLVEAGWLSKDWSCKNLEKMEQSCGGAGNVAWKKRRRKRRKEV 120

Query: 121 GVKAEENWIALSSGPLRPGYLSPKEEAELCLCLK 153
           G  AEENW+ALS+GPLRPG+LS KEEAELCLCLK
Sbjct: 121 GETAEENWVALSNGPLRPGHLSSKEEAELCLCLK 154

The following BLAST results are available for this feature:

BLAST of CsGy3G027360 vs.


Match Name	E-value	Identity	Description

BLAST of CsGy3G027360 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_004149725.1	5.50e-99	100.00	RNA polymerase sigma factor sigD, chloroplastic [Cucumis sativus] >KGN58573.1 hy...	[more]
KAA0048391.1	1.17e-95	96.73	RNA polymerase sigma factor sigD [Cucumis melo var. makuwa] >TYJ99868.1 RNA poly...	[more]
XP_038906215.1	2.07e-88	90.20	RNA polymerase sigma factor sigD, chloroplastic [Benincasa hispida]	[more]
XP_008461821.1	1.34e-86	96.43	PREDICTED: RNA polymerase sigma factor sigD, chloroplastic [Cucumis melo]	[more]
XP_022982740.1	1.71e-76	83.77	RNA polymerase sigma factor sigD, chloroplastic [Cucurbita maxima]	[more]

BLAST of CsGy3G027360 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A0A0L9T0	2.66e-99	100.00	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G687740 PE=3 SV=1	[more]
A0A5D3BP27	5.65e-96	96.73	RNA polymerase sigma factor sigD OS=Cucumis melo var. makuwa OX=1194695 GN=E5676...	[more]
A0A1S3CFL7	6.48e-87	96.43	RNA polymerase sigma factor sigD, chloroplastic OS=Cucumis melo OX=3656 GN=LOC10...	[more]
A0A6J1J3P0	8.28e-77	83.77	RNA polymerase sigma factor sigD, chloroplastic OS=Cucurbita maxima OX=3661 GN=L...	[more]
A0A6J1FAN3	1.87e-75	82.47	RNA polymerase sigma factor sigD, chloroplastic OS=Cucurbita moschata OX=3662 GN...	[more]

BLAST of CsGy3G027360 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description

InterPro

Analysis Name: InterPro Annotations of Cucumber (Gy14) v2.1
Date Performed: 2021-10-25


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PANTHER	PTHR30603:SF47	RNA POLYMERASE SIGMA FACTOR SIGD, CHLOROPLASTIC	coord: 4..153
None	No IPR available	PANTHER	PTHR30603	RNA POLYMERASE SIGMA FACTOR RPO	coord: 4..153

Relationships

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


Feature Name	Unique Name	Type
CsGy3G027360.2	CsGy3G027360.2	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0071482	cellular response to light stimulus
biological_process	GO:2000142	regulation of DNA-templated transcription, initiation
cellular_component	GO:0016021	integral component of membrane
molecular_function	GO:0003677	DNA binding
molecular_function	GO:0016987	sigma factor activity