Carg06898 (gene) Silver-seed gourd | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Carg06898
Type	gene
Organism	Cucurbita argyrosperma (Silver-seed gourd)
Description	photosystem II 5 kDa protein, chloroplastic
Location	Cucurbita_argyrosperma_scaffold_065 : 220825 .. 221163 (+)

Genome Viewer

Gene Expression

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.

ATGGCCTCCATGTCTATCACAGCCTCCTTCCTCCCCTTCACAGCCACCCAACCCTCCGCCGCCGCCGCCGCCGCCCGAAGAGCCCTCTTCGTCACCAAGGCCTCCACCTCTGCCGCTGCCACTGACAGCAACTCCAACGCCAACTTGGAGATCAAGAATGTGAAGGTGGAGAGCAGCCAAGGGCGGCGGGAGTTAGTGGCGGCCGCTGTGACTGTGGCAGCTGCGACCTTCGCGAAGGCGGCGATGGCGGATGAGCCCCCACGTGGCTCCGCTGAGGCCAAGCAGAAGTATGCTCCAATCTGTGTCACAATGCCCACTGCCCGTATATGCCGCAAATGA

mRNA sequence

ATGGCCTCCATGTCTATCACAGCCTCCTTCCTCCCCTTCACAGCCACCCAACCCTCCGCCGCCGCCGCCGCCGCCCGAAGAGCCCTCTTCGTCACCAAGGCCTCCACCTCTGCCGCTGCCACTGACAGCAACTCCAACGCCAACTTGGAGATCAAGAATGTGAAGGTGGAGAGCAGCCAAGGGCGGCGGGAGTTAGTGGCGGCCGCTGTGACTGTGGCAGCTGCGACCTTCGCGAAGGCGGCGATGGCGGATGAGCCCCCACGTGGCTCCGCTGAGGCCAAGCAGAAGTATGCTCCAATCTGTGTCACAATGCCCACTGCCCGTATATGCCGCAAATGA

Coding sequence (CDS)

ATGGCCTCCATGTCTATCACAGCCTCCTTCCTCCCCTTCACAGCCACCCAACCCTCCGCCGCCGCCGCCGCCGCCCGAAGAGCCCTCTTCGTCACCAAGGCCTCCACCTCTGCCGCTGCCACTGACAGCAACTCCAACGCCAACTTGGAGATCAAGAATGTGAAGGTGGAGAGCAGCCAAGGGCGGCGGGAGTTAGTGGCGGCCGCTGTGACTGTGGCAGCTGCGACCTTCGCGAAGGCGGCGATGGCGGATGAGCCCCCACGTGGCTCCGCTGAGGCCAAGCAGAAGTATGCTCCAATCTGTGTCACAATGCCCACTGCCCGTATATGCCGCAAATGA

Protein sequence

MASMSITASFLPFTATQPSAAAAAARRALFVTKASTSAAATDSNSNANLEIKNVKVESSQGRRELVAAAVTVAAATFAKAAMADEPPRGSAEAKQKYAPICVTMPTARICRK

Homology

[Close]

BLAST of Carg06898 vs. NCBI nr
Match: XP_023512156.1 (photosystem II 5 kDa protein, chloroplastic [Cucurbita pepo subsp. pepo] >XP_023512157.1 photosystem II 5 kDa protein, chloroplastic-like [Cucurbita pepo subsp. pepo])

HSP 1 Score: 124.4 bits (311), Expect = 2.4e-25
Identity = 110/112 (98.21%), Postives = 110/112 (98.21%), Query Frame = 0


Query: 1   MASMSITASFLPFTATQPSXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSSQ 60
           MASMSITASFLPFTATQPSXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX  SSQ
Sbjct: 1   MASMSITASFLPFTATQPSXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXVESSQ 60

Query: 61  GRRELVAAAVTVAAATFAKAAMADEPPRGSAEAKQKYAPICVTMPTARICRK 113
           GRRELVAAAVTVAAATFAKAAMADEPPRGSAEAKQKYAPICVTMPTARICRK
Sbjct: 61  GRRELVAAAVTVAAATFAKAAMADEPPRGSAEAKQKYAPICVTMPTARICRK 112

[Close]

BLAST of Carg06898 vs. NCBI nr
Match: XP_022944588.1 (photosystem II 5 kDa protein, chloroplastic [Cucurbita moschata] >XP_022986667.1 photosystem II 5 kDa protein, chloroplastic [Cucurbita maxima])

HSP 1 Score: 120.2 bits (300), Expect = 4.6e-24
Identity = 95/112 (84.82%), Postives = 95/112 (84.82%), Query Frame = 0


Query: 1   MASMSITASFLPFTATQPSXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSSQ 60
           MASMSITASFLPFTATQPS               XXXXXXXXXXXXXXXXXXXXX  SSQ
Sbjct: 1   MASMSITASFLPFTATQPS--AAAARRALFVTKAXXXXXXXXXXXXXXXXXXXXXVESSQ 60

Query: 61  GRRELVAAAVTVAAATFAKAAMADEPPRGSAEAKQKYAPICVTMPTARICRK 113
           GRRELVAAAVTVAAATFAKAAMADEPPRGSAEAKQKYAPICVTMPTARICRK
Sbjct: 61  GRRELVAAAVTVAAATFAKAAMADEPPRGSAEAKQKYAPICVTMPTARICRK 110

[Close]

BLAST of Carg06898 vs. NCBI nr
Match: XP_022148791.1 (photosystem II 5 kDa protein, chloroplastic [Momordica charantia])

HSP 1 Score: 97.8 bits (242), Expect = 2.4e-17
Identity = 63/111 (56.76%), Postives = 65/111 (58.56%), Query Frame = 0


Query: 1   MASMSITASFLPFTATQPSXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSSQ 60
           MAS +I ASFLP TA  PS                                      S Q
Sbjct: 1   MASTAIAASFLPLTAKHPS-----AATRRALIVAKASAAANDASKPNLEMNRSVQVESWQ 60

Query: 61  GRRELVAAAVTVAAATFAKAAMADEPPRGSAEAKQKYAPICVTMPTARICR 112
           GRRELVAAAVTVAAAT AKAAMADEP RGSAEAKQKYAP+CVTMPTARICR
Sbjct: 61  GRRELVAAAVTVAAATLAKAAMADEPKRGSAEAKQKYAPVCVTMPTARICR 106

[Close]

BLAST of Carg06898 vs. NCBI nr
Match: XP_008449703.1 (PREDICTED: photosystem II 5 kDa protein, chloroplastic [Cucumis melo])

HSP 1 Score: 77.0 bits (188), Expect = 4.5e-11
Identity = 42/55 (76.36%), Postives = 42/55 (76.36%), Query Frame = 0


Query: 58  SSQGRRELVAAAVTVAAATFAKAAMADEPPRGSAEAKQKYAPICVTMPTARICRK 113
           S QGRRELVAAAVT          MADEP RGS EAKQKYAPICVTMPTARICRK
Sbjct: 104 SRQGRRELVAAAVTXXXXXXXXXXMADEPARGSPEAKQKYAPICVTMPTARICRK 158

[Close]

BLAST of Carg06898 vs. NCBI nr
Match: CDP14289.1 (unnamed protein product [Coffea canephora])

HSP 1 Score: 73.9 bits (180), Expect = 3.8e-10
Identity = 41/56 (73.21%), Postives = 43/56 (76.79%), Query Frame = 0


Query: 59  SQGRRELVAAAVTVAAATFAKAAMAD--EPPRGSAEAKQKYAPICVTMPTARICRK 113
           S GRR+LV A    AA T AKAAMAD  EP RGS EAK+KYAPICVTMPTARIC K
Sbjct: 53  SNGRRDLVFAVAAAAACTLAKAAMADGVEPKRGSLEAKKKYAPICVTMPTARICHK 108

[Close]

BLAST of Carg06898 vs. TAIR10
Match: AT1G51400.1 (Photosystem II 5 kD protein)

HSP 1 Score: 61.2 bits (147), Expect = 4.6e-10
Identity = 43/112 (38.39%), Postives = 55/112 (49.11%), Query Frame = 0


Query: 1   MASMSITASFLPFTATQPSXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSSQ 60
           MASM++T+SFLP  +  P+                                      S +
Sbjct: 1   MASMTMTSSFLPTVSNLPA-------NISSNSRRSLTVVKASGSENTTSLENKKQEQSMK 60

Query: 61  GRRELVAAAVTVAAATFAKAAMA-DEPPRGSAEAKQKYAPICVTMPTARICR 112
            RR+LV  A   A  + AK AMA DEP RG+  AK+KYAP+CVTMPTA+ICR
Sbjct: 61  MRRDLVFTAAAAAVCSLAKVAMADDEPKRGTEAAKKKYAPVCVTMPTAKICR 105

[Close]

BLAST of Carg06898 vs. TAIR10
Match: AT3G21055.1 (photosystem II subunit T)

HSP 1 Score: 40.8 bits (94), Expect = 6.4e-04
Identity = 17/24 (70.83%), Postives = 21/24 (87.50%), Query Frame = 0


Query: 88  RGSAEAKQKYAPICVTMPTARICR 112
           RG+  AK+KYA +CVTMPTA+ICR
Sbjct: 79  RGTEAAKKKYAQVCVTMPTAKICR 102

[Close]

BLAST of Carg06898 vs. Swiss-Prot
Match: sp|P31336|PST2_GOSHI (Photosystem II 5 kDa protein, chloroplastic OS=Gossypium hirsutum OX=3635 GN=PSBT PE=4 SV=1)

HSP 1 Score: 52.0 bits (123), Expect = 5.0e-06
Identity = 30/53 (56.60%), Postives = 34/53 (64.15%), Query Frame = 0


Query: 59  SQGRRELVAAAVTVAAATFAKAAMADEPPRGSAEAKQKYAPICVTMPTARICR 112
           + GRRE           + A  A A EP RGSAEAK+ YAP+CVTMPTARICR
Sbjct: 53  NNGRREXXXXXXXXXICSVAGVATA-EPKRGSAEAKKAYAPVCVTMPTARICR 104

[Close]

BLAST of Carg06898 vs. Swiss-Prot
Match: sp|B3EWI4|PST2_PETHY (Photosystem II 5 kDa protein, chloroplastic OS=Petunia hybrida OX=4102 PE=1 SV=1)

HSP 1 Score: 48.9 bits (115), Expect = 4.3e-05
Identity = 25/35 (71.43%), Postives = 29/35 (82.86%), Query Frame = 0


Query: 78  AKAAMAD-EPPRGSAEAKQKYAPICVTMPTARICR 112
           AK AMAD EP RG+ EAK+KY+ +CVT PTARICR
Sbjct: 71  AKTAMADEEPKRGTPEAKKKYSSVCVTNPTARICR 105

[Close]

BLAST of Carg06898 vs. TrEMBL
Match: tr|A0A1S3BML8|A0A1S3BML8_CUCME (photosystem II 5 kDa protein, chloroplastic OS=Cucumis melo OX=3656 GN=LOC103491503 PE=4 SV=1)

HSP 1 Score: 77.0 bits (188), Expect = 2.9e-11
Identity = 42/55 (76.36%), Postives = 42/55 (76.36%), Query Frame = 0


Query: 58  SSQGRRELVAAAVTVAAATFAKAAMADEPPRGSAEAKQKYAPICVTMPTARICRK 113
           S QGRRELVAAAVT          MADEP RGS EAKQKYAPICVTMPTARICRK
Sbjct: 104 SRQGRRELVAAAVTXXXXXXXXXXMADEPARGSPEAKQKYAPICVTMPTARICRK 158

[Close]

BLAST of Carg06898 vs. TrEMBL
Match: tr|A0A068V1C0|A0A068V1C0_COFCA (Uncharacterized protein OS=Coffea canephora OX=49390 GN=GSCOC_T00040594001 PE=4 SV=1)

HSP 1 Score: 73.9 bits (180), Expect = 2.5e-10
Identity = 41/56 (73.21%), Postives = 43/56 (76.79%), Query Frame = 0


Query: 59  SQGRRELVAAAVTVAAATFAKAAMAD--EPPRGSAEAKQKYAPICVTMPTARICRK 113
           S GRR+LV A    AA T AKAAMAD  EP RGS EAK+KYAPICVTMPTARIC K
Sbjct: 53  SNGRRDLVFAVAAAAACTLAKAAMADGVEPKRGSLEAKKKYAPICVTMPTARICHK 108

[Close]

BLAST of Carg06898 vs. TrEMBL
Match: tr|A0A0A0KIB2|A0A0A0KIB2_CUCSA (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_6G439930 PE=4 SV=1)

HSP 1 Score: 73.6 bits (179), Expect = 3.3e-10
Identity = 40/53 (75.47%), Postives = 40/53 (75.47%), Query Frame = 0


Query: 60  QGRRELVAAAVTVAAATFAKAAMADEPPRGSAEAKQKYAPICVTMPTARICRK 113
           QGRRELVAAAV           MADEP RGS EAKQKYAPICVTMPTARICRK
Sbjct: 54  QGRRELVAAAVXXXXXXXXXXXMADEPARGSPEAKQKYAPICVTMPTARICRK 106

[Close]

BLAST of Carg06898 vs. TrEMBL
Match: tr|G7IWU5|G7IWU5_MEDTR (Photosystem II 5 kDa protein OS=Medicago truncatula OX=3880 GN=11438275 PE=4 SV=1)

HSP 1 Score: 70.1 bits (170), Expect = 3.6e-09
Identity = 37/54 (68.52%), Postives = 43/54 (79.63%), Query Frame = 0


Query: 59  SQGRRELVAAAVTVAAATFAKAAMAD-EPPRGSAEAKQKYAPICVTMPTARICR 112
           S GRR+L+ AA   A +TFA  AMAD EP RG+ EAK+KYAP+CVTMPTARICR
Sbjct: 52  SNGRRDLMFAAAAAAVSTFAGVAMADEEPKRGTPEAKKKYAPVCVTMPTARICR 105

[Close]

BLAST of Carg06898 vs. TrEMBL
Match: tr|A0A1Q3DDJ9|A0A1Q3DDJ9_CEPFO (Uncharacterized protein OS=Cephalotus follicularis OX=3775 GN=CFOL_v3_33930 PE=4 SV=1)

HSP 1 Score: 69.7 bits (169), Expect = 4.7e-09
Identity = 38/55 (69.09%), Postives = 44/55 (80.00%), Query Frame = 0


Query: 58  SSQGRRELVAAAVTVAAATFAKAAMA-DEPPRGSAEAKQKYAPICVTMPTARICR 112
           S+  RR+LV AA  VAA + AK A A DEP RG+AEAK+KYAP+CVTMPTARICR
Sbjct: 56  SNNMRRDLVFAAAAVAACSIAKVAFADDEPKRGTAEAKKKYAPVCVTMPTARICR 110

The following BLAST results are available for this feature:

BLAST of Carg06898 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_023512156.1	2.4e-25	98.21	photosystem II 5 kDa protein, chloroplastic [Cucurbita pepo subsp. pepo] >XP_023...	[more]
XP_022944588.1	4.6e-24	84.82	photosystem II 5 kDa protein, chloroplastic [Cucurbita moschata] >XP_022986667.1...	[more]
XP_022148791.1	2.4e-17	56.76	photosystem II 5 kDa protein, chloroplastic [Momordica charantia]	[more]
XP_008449703.1	4.5e-11	76.36	PREDICTED: photosystem II 5 kDa protein, chloroplastic [Cucumis melo]	[more]
CDP14289.1	3.8e-10	73.21	unnamed protein product [Coffea canephora]	[more]

BLAST of Carg06898 vs. TAIR10


Match Name	E-value	Identity	Description
AT1G51400.1	4.6e-10	38.39	Photosystem II 5 kD protein	[more]
AT3G21055.1	6.4e-04	70.83	photosystem II subunit T	[more]

BLAST of Carg06898 vs. Swiss-Prot


Match Name	E-value	Identity	Description
sp\|P31336\|PST2_GOSHI	5.0e-06	56.60	Photosystem II 5 kDa protein, chloroplastic OS=Gossypium hirsutum OX=3635 GN=PSB...	[more]
sp\|B3EWI4\|PST2_PETHY	4.3e-05	71.43	Photosystem II 5 kDa protein, chloroplastic OS=Petunia hybrida OX=4102 PE=1 SV=1	[more]

BLAST of Carg06898 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|A0A1S3BML8\|A0A1S3BML8_CUCME	2.9e-11	76.36	photosystem II 5 kDa protein, chloroplastic OS=Cucumis melo OX=3656 GN=LOC103491...	[more]
tr\|A0A068V1C0\|A0A068V1C0_COFCA	2.5e-10	73.21	Uncharacterized protein OS=Coffea canephora OX=49390 GN=GSCOC_T00040594001 PE=4 ...	[more]
tr\|A0A0A0KIB2\|A0A0A0KIB2_CUCSA	3.3e-10	75.47	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_6G439930 PE=4 SV=1	[more]
tr\|G7IWU5\|G7IWU5_MEDTR	3.6e-09	68.52	Photosystem II 5 kDa protein OS=Medicago truncatula OX=3880 GN=11438275 PE=4 SV=...	[more]
tr\|A0A1Q3DDJ9\|A0A1Q3DDJ9_CEPFO	4.7e-09	69.09	Uncharacterized protein OS=Cephalotus follicularis OX=3775 GN=CFOL_v3_33930 PE=4...	[more]

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0008150	biological_process
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0003674	molecular_function

Relationships

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


Feature Name	Unique Name	Type
Carg06898-RA	Carg06898-RA	mRNA

InterPro

Analysis Name: InterPro Annotations of silver-seed gourd
Date Performed: 2019-03-07


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PANTHER	PTHR34940	FAMILY NOT NAMED	coord: 1..112
None	No IPR available	PRODOM	PD030057		coord: 1..111 e-value: 1.0E-9 score: 146.0

Synteny

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


Gene	Orthologue	Organism	Block
Carg06898	Cla008554	Watermelon (97103) v1	carwmB0520
Carg06898	Csa6G439930	Cucumber (Chinese Long) v2	carcuB0553
Carg06898	MELO3C014587	Melon (DHL92) v3.5.1	carmeB0528
Carg06898	ClCG02G023150	Watermelon (Charleston Gray)	carwcgB0503
Carg06898	CSPI06G24150	Wild cucumber (PI 183967)	carcpiB0560
Carg06898	Cucsa.124150	Cucumber (Gy14) v1	carcgyB0598
Carg06898	CmoCh20G000950	Cucurbita moschata (Rifu)	carcmoB0709
Carg06898	Lsi10G010690	Bottle gourd (USVL1VR-Ls)	carlsiB471
Carg06898	Cp4.1LG16g08670	Cucurbita pepo (Zucchini)	carcpeB0733
Carg06898	MELO3C014587.2	Melon (DHL92) v3.6.1	carmedB0533
Carg06898	Cla97C02G049240	Watermelon (97103) v2	carwmbB0543
Carg06898	Bhi10G000225	Wax gourd	carwgoB0629

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
Carg06898	Silver-seed gourd	carcarB463
Carg06898	Silver-seed gourd	carcarB498
Carg06898	Cucumber (Gy14) v2	carcgybB0527
Carg06898	Cucumber (Gy14) v2	carcgybB0530
Carg06898	Cucurbita maxima (Rimu)	carcmaB0726
Carg06898	Cucurbita maxima (Rimu)	carcmaB0727
Carg06898	Cucurbita maxima (Rimu)	carcmaB0732
Carg06898	Cucurbita maxima (Rimu)	carcmaB0733
Carg06898	Cucurbita moschata (Rifu)	carcmoB0703
Carg06898	Cucurbita moschata (Rifu)	carcmoB0704
Carg06898	Cucurbita moschata (Rifu)	carcmoB0710
Carg06898	Cucurbita pepo (Zucchini)	carcpeB0735
Carg06898	Cucurbita pepo (Zucchini)	carcpeB0740
Carg06898	Cucurbita pepo (Zucchini)	carcpeB0741
Carg06898	Wild cucumber (PI 183967)	carcpiB0558
Carg06898	Cucumber (Chinese Long) v2	carcuB0551
Carg06898	Cucumber (Chinese Long) v3	carcucB0557
Carg06898	Cucumber (Chinese Long) v3	carcucB0560
Carg06898	Bottle gourd (USVL1VR-Ls)	carlsiB477
Carg06898	Melon (DHL92) v3.5.1	carmeB0527
Carg06898	Watermelon (Charleston Gray)	carwcgB0505
Carg06898	Watermelon (97103) v1	carwmB0516
Carg06898	Watermelon (97103) v2	carwmbB0546
Carg06898	Wax gourd	carwgoB0635