CsGy5G009830 (gene) Cucumber (Gy14) v2 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CsGy5G009830
Type	gene
Organism	Cucumis sativus (Cucumber (Gy14) v2)
Description	Putative pentatricopeptide repeat-containing protein At4g17915
Location	Chr5 : 8625794 .. 8626757 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDS

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

ATGGTTTGCAAATTTTCTGTGAGGTTGTTGAATGTTTGTGTGTCCTCGCTTTGTAAATCTGAGCAAATGCAGAAAGCTGAAATTGTAATAACAGACGCCATTCGGTTAGGAGTTCTACCTAATGTAGTAACTTACAATTTTTTGATTCATGGATATTGTCAAATTAGGTGCATGGATGCTGCTTATTCCGTTCTTTATAGAATGAGAGAAGCTAGTATTAGTCCAAATGTGATTACTTACAATTCTTTGATAGCTGCTGCAACTAAGAATGGTTCGTTAGAACAATCCCTTAATCTGTTTGAAGAAATGCTTCAATCAGGTATCACTCCCGATGCATTGTGTTACACCACTTTGATGCAATGTTACCACCAGATGGTAAAGCCAGATGAAGGCAATAGGGTTTTTGAGGAGATTCCATTGTGCATTAAAGTTACCGCTTGCCTGCTTGAGAAGTTGAAGGAAGGTTAGTCAAAACAATGCGCCAGTTTTTTTGTAAAAACAAAATGAAATGGCCACAACGTCAAAGCAGTAAAGCCACATTGAAACGAAGACGATAAGGTTTGAAGAGTGGTTAAAGCGTCCATCTGGATGGCCGTCGAGACCCCACACCTCTGTTCTTCCGGATTTACAAGTAAATTAGCACGGAAGCTCAAACAGAAATACGCTTGGCTCCACTCTCTCATGGACCATCTGGATCCTTTATGGTGTATGATATCCCAAAATGGCTTATTAACTTGGAAAGCCAATTTATTTGATGATTAATTGGGTCACGCAAGCTTCCACTGCCAATGCCATGAGGTGTGACCCTTAAACTGCCAATGCTTTTTTTTTTTTTTTGTTATTTTTGTAAATTCCTCTCTTAAAAATTCATGATAAGGTTCTGTAAATTTTCGGTGAGTCAGAAAGAATGGGCCCTAAGGAGCAATATTTTATGATTGATTTGGTCTCCGTACGGTTAAAGTGA

mRNA sequence

ATGGTTTGCAAATTTTCTGTGAGGTTGTTGAATGTTTGTGTGTCCTCGCTTTGTAAATCTGAGCAAATGCAGAAAGCTGAAATTGTAATAACAGACGCCATTCGGTTAGGAGTTCTACCTAATGTAGTAACTTACAATTTTTTGATTCATGGATATTGTCAAATTAGGTGCATGGATGCTGCTTATTCCGTTCTTTATAGAATGAGAGAAGCTAGTATTAGTCCAAATGTGATTACTTACAATTCTTTGATAGCTGCTGCAACTAAGAATGGTTCGTTAGAACAATCCCTTAATCTGTTTGAAGAAATGCTTCAATCAGGTATCACTCCCGATGCATTGTGTTACACCACTTTGATGCAATGTTACCACCAGATGGTAAAGCCAGATGAAGGCAATAGGGTTTTTGAGGAGATTCCATTGTGCATTAAAGTTACCGCTTGCCTGCTTGAGAAGTTGAAGGAAGAAAGAATGGGCCCTAAGGAGCAATATTTTATGATTGATTTGGTCTCCGTACGGTTAAAGTGA

Coding sequence (CDS)

ATGGTTTGCAAATTTTCTGTGAGGTTGTTGAATGTTTGTGTGTCCTCGCTTTGTAAATCTGAGCAAATGCAGAAAGCTGAAATTGTAATAACAGACGCCATTCGGTTAGGAGTTCTACCTAATGTAGTAACTTACAATTTTTTGATTCATGGATATTGTCAAATTAGGTGCATGGATGCTGCTTATTCCGTTCTTTATAGAATGAGAGAAGCTAGTATTAGTCCAAATGTGATTACTTACAATTCTTTGATAGCTGCTGCAACTAAGAATGGTTCGTTAGAACAATCCCTTAATCTGTTTGAAGAAATGCTTCAATCAGGTATCACTCCCGATGCATTGTGTTACACCACTTTGATGCAATGTTACCACCAGATGGTAAAGCCAGATGAAGGCAATAGGGTTTTTGAGGAGATTCCATTGTGCATTAAAGTTACCGCTTGCCTGCTTGAGAAGTTGAAGGAAGAAAGAATGGGCCCTAAGGAGCAATATTTTATGATTGATTTGGTCTCCGTACGGTTAAAGTGA

Protein sequence

MVCKFSVRLLNVCVSSLCKSEQMQKAEIVITDAIRLGVLPNVVTYNFLIHGYCQIRCMDAAYSVLYRMREASISPNVITYNSLIAAATKNGSLEQSLNLFEEMLQSGITPDALCYTTLMQCYHQMVKPDEGNRVFEEIPLCIKVTACLLEKLKEERMGPKEQYFMIDLVSVRLK

Homology

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BLAST of CsGy5G009830 vs. NCBI nr
Match: KGN50867.1 (hypothetical protein Csa_5G292240 [Cucumis sativus])

HSP 1 Score: 89.0 bits (219), Expect = 1.8e-14
Identity = 45/45 (100.00%), Postives = 45/45 (100.00%), Query Frame = 0


Query: 1  MVCKFSVRLLNVCVSSLCKSEQMQKAEIVITDAIRLGVLPNVVTY 46
          MVCKFSVRLLNVCVSSLCKSEQMQKAEIVITDAIRLGVLPNVVTY
Sbjct: 1  MVCKFSVRLLNVCVSSLCKSEQMQKAEIVITDAIRLGVLPNVVTY 45

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BLAST of CsGy5G009830 vs. NCBI nr
Match: XP_008442168.1 (PREDICTED: putative pentatricopeptide repeat-containing protein At4g17915 [Cucumis melo] >XP_008442169.1 PREDICTED: putative pentatricopeptide repeat-containing protein At4g17915 [Cucumis melo] >XP_008442170.1 PREDICTED: putative pentatricopeptide repeat-containing protein At4g17915 [Cucumis melo])

HSP 1 Score: 72.8 bits (177), Expect = 1.3e-09
Identity = 33/45 (73.33%), Postives = 39/45 (86.67%), Query Frame = 0


Query: 1  MVCKFSVRLLNVCVSSLCKSEQMQKAEIVITDAIRLGVLPNVVTY 46
          MVCK+S + LN+CV+S CKS+QMQKAE VI D IR+GVLPNVVTY
Sbjct: 1  MVCKYSTKFLNICVASFCKSQQMQKAEAVIIDGIRIGVLPNVVTY 45

[Close]

BLAST of CsGy5G009830 vs. NCBI nr
Match: XP_022147934.1 (putative pentatricopeptide repeat-containing protein At4g17915 [Momordica charantia] >XP_022147935.1 putative pentatricopeptide repeat-containing protein At4g17915 [Momordica charantia] >XP_022147936.1 putative pentatricopeptide repeat-containing protein At4g17915 [Momordica charantia] >XP_022147937.1 putative pentatricopeptide repeat-containing protein At4g17915 [Momordica charantia] >XP_022147938.1 putative pentatricopeptide repeat-containing protein At4g17915 [Momordica charantia])

HSP 1 Score: 71.6 bits (174), Expect = 2.9e-09
Identity = 34/45 (75.56%), Postives = 38/45 (84.44%), Query Frame = 0


Query: 1  MVCKFSVRLLNVCVSSLCKSEQMQKAEIVITDAIRLGVLPNVVTY 46
          MVCKFS + LN+CV+S CKS QMQKAE VI D IRLGVLP+VVTY
Sbjct: 1  MVCKFSTKFLNICVASYCKSRQMQKAEAVIIDGIRLGVLPDVVTY 45

[Close]

BLAST of CsGy5G009830 vs. NCBI nr
Match: XP_011653883.1 (PREDICTED: putative pentatricopeptide repeat-containing protein At4g17915 [Cucumis sativus] >XP_011653885.1 PREDICTED: putative pentatricopeptide repeat-containing protein At4g17915 [Cucumis sativus])

HSP 1 Score: 70.9 bits (172), Expect = 5.0e-09
Identity = 32/45 (71.11%), Postives = 39/45 (86.67%), Query Frame = 0


Query: 1  MVCKFSVRLLNVCVSSLCKSEQMQKAEIVITDAIRLGVLPNVVTY 46
          MVCK+S + LN+CV+S CKS+QMQKAE VI D IR+GVLP+VVTY
Sbjct: 1  MVCKYSTKFLNICVASFCKSQQMQKAEAVIIDGIRIGVLPDVVTY 45

[Close]

BLAST of CsGy5G009830 vs. NCBI nr
Match: XP_022002534.1 (putative pentatricopeptide repeat-containing protein At4g17915 isoform X1 [Helianthus annuus] >OTG03166.1 putative pentatricopeptide repeat-containing protein [Helianthus annuus])

HSP 1 Score: 70.5 bits (171), Expect = 6.5e-09
Identity = 33/45 (73.33%), Postives = 39/45 (86.67%), Query Frame = 0


Query: 1  MVCKFSVRLLNVCVSSLCKSEQMQKAEIVITDAIRLGVLPNVVTY 46
          MVCK S RL+N+CV+SLCK +QM+KAE VI DAIRLG LP+VVTY
Sbjct: 1  MVCKLSTRLMNICVASLCKVQQMEKAEAVIIDAIRLGTLPDVVTY 45

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BLAST of CsGy5G009830 vs. TAIR10
Match: AT5G46680.1 (Pentatricopeptide repeat (PPR-like) superfamily protein)

HSP 1 Score: 50.8 bits (120), Expect = 9.6e-07
Identity = 22/40 (55.00%), Postives = 32/40 (80.00%), Query Frame = 0


Query: 6  SVRLLNVCVSSLCKSEQMQKAEIVITDAIRLGVLPNVVTY 46
          S +LLN+ V+SLCK   +++AE ++ D IRLGVLP+V+TY
Sbjct: 12 STKLLNISVNSLCKFRNLERAETLLIDGIRLGVLPDVITY 51

[Close]

BLAST of CsGy5G009830 vs. Swiss-Prot
Match: sp|P0C043|PP318_ARATH (Putative pentatricopeptide repeat-containing protein At4g17915 OS=Arabidopsis thaliana OX=3702 GN=At4g17915 PE=3 SV=1)

HSP 1 Score: 54.7 bits (130), Expect = 1.2e-06
Identity = 26/40 (65.00%), Postives = 32/40 (80.00%), Query Frame = 0


Query: 6  SVRLLNVCVSSLCKSEQMQKAEIVITDAIRLGVLPNVVTY 46
          S RLLN+CV SLCK  +++KAE +I D IRLGV P+VVTY
Sbjct: 12 STRLLNICVDSLCKFRKLEKAESLIIDGIRLGVDPDVVTY 51

[Close]

BLAST of CsGy5G009830 vs. Swiss-Prot
Match: sp|Q56XR6|PP421_ARATH (Pentatricopeptide repeat-containing protein At5g46680 OS=Arabidopsis thaliana OX=3702 GN=At5g46680 PE=2 SV=2)

HSP 1 Score: 50.8 bits (120), Expect = 1.7e-05
Identity = 22/40 (55.00%), Postives = 32/40 (80.00%), Query Frame = 0


Query: 6  SVRLLNVCVSSLCKSEQMQKAEIVITDAIRLGVLPNVVTY 46
          S +LLN+ V+SLCK   +++AE ++ D IRLGVLP+V+TY
Sbjct: 12 STKLLNISVNSLCKFRNLERAETLLIDGIRLGVLPDVITY 51

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BLAST of CsGy5G009830 vs. TrEMBL
Match: tr|A0A0A0KR32|A0A0A0KR32_CUCSA (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_5G292240 PE=4 SV=1)

HSP 1 Score: 89.0 bits (219), Expect = 1.2e-14
Identity = 45/45 (100.00%), Postives = 45/45 (100.00%), Query Frame = 0


Query: 1  MVCKFSVRLLNVCVSSLCKSEQMQKAEIVITDAIRLGVLPNVVTY 46
          MVCKFSVRLLNVCVSSLCKSEQMQKAEIVITDAIRLGVLPNVVTY
Sbjct: 1  MVCKFSVRLLNVCVSSLCKSEQMQKAEIVITDAIRLGVLPNVVTY 45

[Close]

BLAST of CsGy5G009830 vs. TrEMBL
Match: tr|A0A1S3B4M5|A0A1S3B4M5_CUCME (putative pentatricopeptide repeat-containing protein At4g17915 OS=Cucumis melo OX=3656 GN=LOC103486102 PE=4 SV=1)

HSP 1 Score: 72.8 bits (177), Expect = 8.6e-10
Identity = 33/45 (73.33%), Postives = 39/45 (86.67%), Query Frame = 0


Query: 1  MVCKFSVRLLNVCVSSLCKSEQMQKAEIVITDAIRLGVLPNVVTY 46
          MVCK+S + LN+CV+S CKS+QMQKAE VI D IR+GVLPNVVTY
Sbjct: 1  MVCKYSTKFLNICVASFCKSQQMQKAEAVIIDGIRIGVLPNVVTY 45

[Close]

BLAST of CsGy5G009830 vs. TrEMBL
Match: tr|A0A251SY21|A0A251SY21_HELAN (Putative pentatricopeptide repeat-containing protein OS=Helianthus annuus OX=4232 GN=PP318 PE=4 SV=1)

HSP 1 Score: 70.5 bits (171), Expect = 4.3e-09
Identity = 33/45 (73.33%), Postives = 39/45 (86.67%), Query Frame = 0


Query: 1  MVCKFSVRLLNVCVSSLCKSEQMQKAEIVITDAIRLGVLPNVVTY 46
          MVCK S RL+N+CV+SLCK +QM+KAE VI DAIRLG LP+VVTY
Sbjct: 1  MVCKLSTRLMNICVASLCKVQQMEKAEAVIIDAIRLGTLPDVVTY 45

[Close]

BLAST of CsGy5G009830 vs. TrEMBL
Match: tr|A0A2U1P3H4|A0A2U1P3H4_ARTAN (Pentatricopeptide repeat-containing protein OS=Artemisia annua OX=35608 GN=CTI12_AA197850 PE=4 SV=1)

HSP 1 Score: 69.3 bits (168), Expect = 9.6e-09
Identity = 31/45 (68.89%), Postives = 39/45 (86.67%), Query Frame = 0


Query: 1  MVCKFSVRLLNVCVSSLCKSEQMQKAEIVITDAIRLGVLPNVVTY 46
          MVCK S RL+N+CV+S CK +Q++KAE+VI DAIRLG LP+VVTY
Sbjct: 1  MVCKLSTRLMNICVASFCKVQQLEKAEVVIIDAIRLGTLPDVVTY 45

[Close]

BLAST of CsGy5G009830 vs. TrEMBL
Match: tr|A0A2U1P3Q8|A0A2U1P3Q8_ARTAN (Pentatricopeptide repeat-containing protein OS=Artemisia annua OX=35608 GN=CTI12_AA197850 PE=4 SV=1)

HSP 1 Score: 69.3 bits (168), Expect = 9.6e-09
Identity = 31/45 (68.89%), Postives = 39/45 (86.67%), Query Frame = 0


Query: 1  MVCKFSVRLLNVCVSSLCKSEQMQKAEIVITDAIRLGVLPNVVTY 46
          MVCK S RL+N+CV+S CK +Q++KAE+VI DAIRLG LP+VVTY
Sbjct: 1  MVCKLSTRLMNICVASFCKVQQLEKAEVVIIDAIRLGTLPDVVTY 45

The following BLAST results are available for this feature:

BLAST of CsGy5G009830 vs. NCBI nr


Match Name	E-value	Identity	Description
KGN50867.1	1.8e-14	100.00	hypothetical protein Csa_5G292240 [Cucumis sativus]	[more]
XP_008442168.1	1.3e-09	73.33	PREDICTED: putative pentatricopeptide repeat-containing protein At4g17915 [Cucum...	[more]
XP_022147934.1	2.9e-09	75.56	putative pentatricopeptide repeat-containing protein At4g17915 [Momordica charan...	[more]
XP_011653883.1	5.0e-09	71.11	PREDICTED: putative pentatricopeptide repeat-containing protein At4g17915 [Cucum...	[more]
XP_022002534.1	6.5e-09	73.33	putative pentatricopeptide repeat-containing protein At4g17915 isoform X1 [Helia...	[more]

BLAST of CsGy5G009830 vs. TAIR10


Match Name	E-value	Identity	Description
AT5G46680.1	9.6e-07	55.00	Pentatricopeptide repeat (PPR-like) superfamily protein	[more]

BLAST of CsGy5G009830 vs. Swiss-Prot


Match Name	E-value	Identity	Description
sp\|P0C043\|PP318_ARATH	1.2e-06	65.00	Putative pentatricopeptide repeat-containing protein At4g17915 OS=Arabidopsis th...	[more]
sp\|Q56XR6\|PP421_ARATH	1.7e-05	55.00	Pentatricopeptide repeat-containing protein At5g46680 OS=Arabidopsis thaliana OX...	[more]

BLAST of CsGy5G009830 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|A0A0A0KR32\|A0A0A0KR32_CUCSA	1.2e-14	100.00	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_5G292240 PE=4 SV=1	[more]
tr\|A0A1S3B4M5\|A0A1S3B4M5_CUCME	8.6e-10	73.33	putative pentatricopeptide repeat-containing protein At4g17915 OS=Cucumis melo O...	[more]
tr\|A0A251SY21\|A0A251SY21_HELAN	4.3e-09	73.33	Putative pentatricopeptide repeat-containing protein OS=Helianthus annuus OX=423...	[more]
tr\|A0A2U1P3H4\|A0A2U1P3H4_ARTAN	9.6e-09	68.89	Pentatricopeptide repeat-containing protein OS=Artemisia annua OX=35608 GN=CTI12...	[more]
tr\|A0A2U1P3Q8\|A0A2U1P3Q8_ARTAN	9.6e-09	68.89	Pentatricopeptide repeat-containing protein OS=Artemisia annua OX=35608 GN=CTI12...	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **Molecular Function**
Term	Definition
GO:0005515	protein binding

Vocabulary: **INTERPRO**
Term	Definition
IPR002885	Pentatricopeptide_repeat
IPR011990	TPR-like_helical_dom_sf

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0090305	nucleic acid phosphodiester bond hydrolysis
biological_process	GO:0009451	RNA modification
cellular_component	GO:0043231	intracellular membrane-bounded organelle
molecular_function	GO:0004519	endonuclease activity
molecular_function	GO:0003723	RNA binding
molecular_function	GO:0005515	protein binding

Relationships

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


Feature Name	Unique Name	Type
CsGy5G009830.1	CsGy5G009830.1	mRNA

InterPro

Analysis Name: InterPro Annotations of cucumber Gy14 genome (v2)
Date Performed: 2018-09-25


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR011990	Tetratricopeptide-like helical domain superfamily	GENE3D	G3DSA:1.25.40.10		coord: 2..164 e-value: 1.0E-34 score: 122.3
IPR002885	Pentatricopeptide repeat	PFAM	PF01535	PPR	coord: 114..138 e-value: 0.28 score: 11.4
IPR002885	Pentatricopeptide repeat	TIGRFAM	TIGR00756	TIGR00756	coord: 43..77 e-value: 5.2E-9 score: 33.7 coord: 78..112 e-value: 2.7E-8 score: 31.5
IPR002885	Pentatricopeptide repeat	PFAM	PF13041	PPR_2	coord: 40..86 e-value: 1.4E-14 score: 53.9
IPR002885	Pentatricopeptide repeat	PROSITE	PS51375	PPR	coord: 6..40 score: 7.552
IPR002885	Pentatricopeptide repeat	PROSITE	PS51375	PPR	coord: 41..75 score: 11.827
IPR002885	Pentatricopeptide repeat	PROSITE	PS51375	PPR	coord: 76..110 score: 12.88
IPR002885	Pentatricopeptide repeat	PROSITE	PS51375	PPR	coord: 111..141 score: 6.577
None	No IPR available	PANTHER	PTHR24015:SF489	SUBFAMILY NOT NAMED	coord: 4..141
None	No IPR available	PANTHER	PTHR24015	FAMILY NOT NAMED	coord: 4..141

Synteny

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


Gene	Orthologue	Organism	Block
CsGy5G009830	Csa5G292240	Cucumber (Chinese Long) v2	cgybcuB232
CsGy5G009830	MELO3C020050	Melon (DHL92) v3.5.1	cgybmeB313
CsGy5G009830	CSPI05G12710	Wild cucumber (PI 183967)	cgybcpiB235
CsGy5G009830	MELO3C020050.2	Melon (DHL92) v3.6.1	cgybmedB319
CsGy5G009830	CsaV3_5G013070	Cucumber (Chinese Long) v3	cgybcucB232
CsGy5G009830	CsaV3_UNG017130	Cucumber (Chinese Long) v3	cgybcucB245

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CsGy5G009830	Cucurbita maxima (Rimu)	cgybcmaB664
CsGy5G009830	Cucurbita maxima (Rimu)	cgybcmaB687
CsGy5G009830	Cucurbita moschata (Rifu)	cgybcmoB641
CsGy5G009830	Cucurbita moschata (Rifu)	cgybcmoB661
CsGy5G009830	Cucurbita pepo (Zucchini)	cgybcpeB642
CsGy5G009830	Bottle gourd (USVL1VR-Ls)	cgyblsiB311
CsGy5G009830	Watermelon (Charleston Gray)	cgybwcgB329
CsGy5G009830	Watermelon (97103) v1	cgybwmB410
CsGy5G009830	Silver-seed gourd	carcgybB0191
CsGy5G009830	Silver-seed gourd	carcgybB0364
CsGy5G009830	Watermelon (97103) v2	cgybwmbB342
CsGy5G009830	Wax gourd	cgybwgoB491