Lsi03G009580 (gene) Bottle gourd (USVL1VR-Ls) v1

Overview


Name	Lsi03G009580
Type	gene
Organism	Lagenaria siceraria (Bottle gourd (USVL1VR-Ls) v1)
Description	Photosystem I assembly protein Ycf3
Location	chr03: 18340525 .. 18340921 (-)
RNA-Seq Expression	Lsi03G009580
Synteny	Lsi03G009580

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.

ATGAGAGTATTTCAATCTTTTTTTATTTCATGTATTTTTCTAATCTCATTATGCGCATCACATAAAGGGGGAGCCGTATGAGATGAAAATCTCACGTACGGTTCTAGAACGAAGATTCTTTGAATGGAATAACGAACGACCGTAACGGATGTTAGCGCAATCCGAAGGAAATTATGCATAAGCTCTACAGAATTATTATGAAGCTATACGACTAGAAATCGATCCCTATGATCGAAGTTATATACTCTATAACATAGGTCTTATCCACACAAGGAATGGAGAACATACAAAAGCTTTGGAATATTATTTTCGGGCACTAGAACGAAACCCGTTCTTACCACAAGCTTTTAATAATATGGCTGTGATCTGTCATTACGTGCGACTATCTCCACTATAG

mRNA sequence

ATGAGAAATTATTATGAAGCTATACGACTAGAAATCGATCCCTATGATCGAAGTTATATACTCTATAACATAGGTCTTATCCACACAAGGAATGGAGAACATACAAAAGCTTTGGAATATTATTTTCGGGCACTAGAACGAAACCCGTTCTTACCACAAGCTTTTAATAATATGGCTGTGATCTGTCATTACGTGCGACTATCTCCACTATAG

Coding sequence (CDS)

ATGAGAAATTATTATGAAGCTATACGACTAGAAATCGATCCCTATGATCGAAGTTATATACTCTATAACATAGGTCTTATCCACACAAGGAATGGAGAACATACAAAAGCTTTGGAATATTATTTTCGGGCACTAGAACGAAACCCGTTCTTACCACAAGCTTTTAATAATATGGCTGTGATCTGTCATTACGTGCGACTATCTCCACTATAG

Protein sequence

MRNYYEAIRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAVICHYVRLSPL

Homology

[Close]

BLAST of Lsi03G009580 vs. ExPASy Swiss-Prot
Match: Q4VZH4 (Photosystem I assembly protein Ycf3 OS=Cucumis sativus OX=3659 GN=ycf3 PE=3 SV=1)

HSP 1 Score: 135.6 bits (340), Expect = 2.2e-31
Identity = 61/64 (95.31%), Postives = 64/64 (100.00%), Query Frame = 0


Query: 1   MRNYYEAIRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 60
           ++NYYEA+RLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV
Sbjct: 56  LQNYYEAMRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 115

Query: 61  ICHY 65
           ICHY
Sbjct: 116 ICHY 119

[Close]

BLAST of Lsi03G009580 vs. ExPASy Swiss-Prot
Match: Q09X16 (Photosystem I assembly protein Ycf3 OS=Morus indica OX=248361 GN=ycf3 PE=3 SV=1)

HSP 1 Score: 135.6 bits (340), Expect = 2.2e-31
Identity = 61/64 (95.31%), Postives = 64/64 (100.00%), Query Frame = 0


Query: 1   MRNYYEAIRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 60
           ++NYYEA+RLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV
Sbjct: 55  LQNYYEAMRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 114

Query: 61  ICHY 65
           ICHY
Sbjct: 115 ICHY 118

[Close]

BLAST of Lsi03G009580 vs. ExPASy Swiss-Prot
Match: P61843 (Photosystem I assembly protein Ycf3 OS=Arabidopsis thaliana OX=3702 GN=ycf3 PE=1 SV=1)

HSP 1 Score: 133.3 bits (334), Expect = 1.1e-30
Identity = 60/64 (93.75%), Postives = 63/64 (98.44%), Query Frame = 0


Query: 1   MRNYYEAIRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 60
           ++NYYEA+RLEIDPYDRSYILYNIGLIHT NGEHTKALEYYFRALERNPFLPQAFNNMAV
Sbjct: 55  LQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFRALERNPFLPQAFNNMAV 114

Query: 61  ICHY 65
           ICHY
Sbjct: 115 ICHY 118

[Close]

BLAST of Lsi03G009580 vs. ExPASy Swiss-Prot
Match: Q8S8X3 (Photosystem I assembly protein Ycf3 OS=Atropa belladonna OX=33113 GN=ycf3 PE=3 SV=1)

HSP 1 Score: 133.3 bits (334), Expect = 1.1e-30
Identity = 60/64 (93.75%), Postives = 63/64 (98.44%), Query Frame = 0


Query: 1   MRNYYEAIRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 60
           ++NYYEA+RLEIDPYDRSYILYNIGLIHT NGEHTKALEYYFRALERNPFLPQAFNNMAV
Sbjct: 55  LQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFRALERNPFLPQAFNNMAV 114

Query: 61  ICHY 65
           ICHY
Sbjct: 115 ICHY 118

[Close]

BLAST of Lsi03G009580 vs. ExPASy Swiss-Prot
Match: Q53CF3 (Photosystem I assembly protein Ycf3 OS=Brassica juncea OX=3707 GN=ycf3 PE=3 SV=1)

HSP 1 Score: 133.3 bits (334), Expect = 1.1e-30
Identity = 60/64 (93.75%), Postives = 63/64 (98.44%), Query Frame = 0


Query: 1   MRNYYEAIRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 60
           ++NYYEA+RLEIDPYDRSYILYNIGLIHT NGEHTKALEYYFRALERNPFLPQAFNNMAV
Sbjct: 55  LQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFRALERNPFLPQAFNNMAV 114

Query: 61  ICHY 65
           ICHY
Sbjct: 115 ICHY 118

[Close]

BLAST of Lsi03G009580 vs. ExPASy TrEMBL
Match: A0A7J6HSE8 (TPR_REGION domain-containing protein OS=Cannabis sativa OX=3483 GN=G4B88_027368 PE=4 SV=1)

HSP 1 Score: 146.7 bits (369), Expect = 3.5e-32
Identity = 67/70 (95.71%), Postives = 70/70 (100.00%), Query Frame = 0


Query: 1  MRNYYEAIRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 60
          ++NYYEA+RLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV
Sbjct: 13 LQNYYEAMRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 72

Query: 61 ICHYVRLSPL 71
          ICHYVRLSPL
Sbjct: 73 ICHYVRLSPL 82

[Close]

BLAST of Lsi03G009580 vs. ExPASy TrEMBL
Match: A0A1N7TDX0 (Photosystem I assembly protein Ycf3 OS=Castanopsis concinna OX=1754207 GN=ycf3 PE=3 SV=1)

HSP 1 Score: 146.7 bits (369), Expect = 3.5e-32
Identity = 67/70 (95.71%), Postives = 70/70 (100.00%), Query Frame = 0


Query: 1   MRNYYEAIRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 60
           ++NYYEA+RLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV
Sbjct: 60  LQNYYEAMRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 119

Query: 61  ICHYVRLSPL 71
           ICHYVRLSPL
Sbjct: 120 ICHYVRLSPL 129

[Close]

BLAST of Lsi03G009580 vs. ExPASy TrEMBL
Match: A0A7U0IVV2 (Hypothetical chloroplast RF34 OS=Castanopsis carlesii OX=167382 GN=ycf3 PE=4 SV=1)

HSP 1 Score: 146.7 bits (369), Expect = 3.5e-32
Identity = 67/70 (95.71%), Postives = 70/70 (100.00%), Query Frame = 0


Query: 1  MRNYYEAIRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 60
          ++NYYEA+RLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV
Sbjct: 13 LQNYYEAMRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 72

Query: 61 ICHYVRLSPL 71
          ICHYVRLSPL
Sbjct: 73 ICHYVRLSPL 82

[Close]

BLAST of Lsi03G009580 vs. ExPASy TrEMBL
Match: X2F3U2 (Hypothetical chloroplast RF34 OS=Lagenaria siceraria OX=3668 GN=ycf3 PE=4 SV=1)

HSP 1 Score: 146.4 bits (368), Expect = 4.6e-32
Identity = 67/70 (95.71%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 1   MRNYYEAIRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 60
           + NYYEA+RLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV
Sbjct: 56  LENYYEAMRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 115

Query: 61  ICHYVRLSPL 71
           ICHYVRLSPL
Sbjct: 116 ICHYVRLSPL 125

[Close]

BLAST of Lsi03G009580 vs. ExPASy TrEMBL
Match: A0A6H1YHQ0 (Photosystem I assembly protein Ycf3 OS=Quercus coccinea OX=354624 GN=ycf3 PE=3 SV=1)

HSP 1 Score: 145.2 bits (365), Expect = 1.0e-31
Identity = 66/69 (95.65%), Postives = 69/69 (100.00%), Query Frame = 0


Query: 1   MRNYYEAIRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 60
           ++NYYEA+RLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV
Sbjct: 57  LQNYYEAMRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 116

Query: 61  ICHYVRLSP 70
           ICHYVRLSP
Sbjct: 117 ICHYVRLSP 125

[Close]

BLAST of Lsi03G009580 vs. NCBI nr
Match: YP_010149075.1 (hypothetical chloroplast RF34 [Castanopsis carlesii] >QQV69991.1 hypothetical chloroplast RF34 [Castanopsis carlesii])

HSP 1 Score: 146.7 bits (369), Expect = 7.3e-32
Identity = 67/70 (95.71%), Postives = 70/70 (100.00%), Query Frame = 0


Query: 1  MRNYYEAIRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 60
          ++NYYEA+RLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV
Sbjct: 13 LQNYYEAMRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 72

Query: 61 ICHYVRLSPL 71
          ICHYVRLSPL
Sbjct: 73 ICHYVRLSPL 82

[Close]

BLAST of Lsi03G009580 vs. NCBI nr
Match: YP_009341778.1 (hypothetical chloroplast RF34 [Castanopsis concinna] >ALN96498.1 hypothetical chloroplast RF34 [Castanopsis concinna])

HSP 1 Score: 146.7 bits (369), Expect = 7.3e-32
Identity = 67/70 (95.71%), Postives = 70/70 (100.00%), Query Frame = 0


Query: 1   MRNYYEAIRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 60
           ++NYYEA+RLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV
Sbjct: 60  LQNYYEAMRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 119

Query: 61  ICHYVRLSPL 71
           ICHYVRLSPL
Sbjct: 120 ICHYVRLSPL 129

[Close]

BLAST of Lsi03G009580 vs. NCBI nr
Match: WP_202958889.1 (tetratricopeptide repeat protein [Solirubrobacter sp. CPCC 204708] >KAF4397628.1 hypothetical protein G4B88_027368 [Cannabis sativa])

HSP 1 Score: 146.7 bits (369), Expect = 7.3e-32
Identity = 67/70 (95.71%), Postives = 70/70 (100.00%), Query Frame = 0


Query: 1  MRNYYEAIRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 60
          ++NYYEA+RLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV
Sbjct: 13 LQNYYEAMRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 72

Query: 61 ICHYVRLSPL 71
          ICHYVRLSPL
Sbjct: 73 ICHYVRLSPL 82

[Close]

BLAST of Lsi03G009580 vs. NCBI nr
Match: AHM88684.1 (hypothetical chloroplast RF34 [Lagenaria siceraria] >AHM88743.1 hypothetical chloroplast RF34 [Lagenaria siceraria] >AHM88801.1 hypothetical chloroplast RF34 [Lagenaria siceraria] >AHM88859.1 hypothetical chloroplast RF34 [Lagenaria siceraria] >AHM88916.1 hypothetical chloroplast RF34 [Lagenaria siceraria])

HSP 1 Score: 146.4 bits (368), Expect = 9.5e-32
Identity = 67/70 (95.71%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 1   MRNYYEAIRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 60
           + NYYEA+RLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV
Sbjct: 56  LENYYEAMRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 115

Query: 61  ICHYVRLSPL 71
           ICHYVRLSPL
Sbjct: 116 ICHYVRLSPL 125

[Close]

BLAST of Lsi03G009580 vs. NCBI nr
Match: YP_009777019.1 (hypothetical chloroplast RF34 [Quercus coccinea] >QJA27824.1 hypothetical chloroplast RF34 [Quercus coccinea])

HSP 1 Score: 145.2 bits (365), Expect = 2.1e-31
Identity = 66/69 (95.65%), Postives = 69/69 (100.00%), Query Frame = 0


Query: 1   MRNYYEAIRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 60
           ++NYYEA+RLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV
Sbjct: 57  LQNYYEAMRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 116

Query: 61  ICHYVRLSP 70
           ICHYVRLSP
Sbjct: 117 ICHYVRLSP 125

[Close]

BLAST of Lsi03G009580 vs. TAIR 10
Match: ATCG00360.1 (Tetratricopeptide repeat (TPR)-like superfamily protein )

HSP 1 Score: 133.3 bits (334), Expect = 7.7e-32
Identity = 60/64 (93.75%), Postives = 63/64 (98.44%), Query Frame = 0


Query: 1  MRNYYEAIRLEIDPYDRSYILYNIGLIHTRNGEHTKALEYYFRALERNPFLPQAFNNMAV 60
          ++NYYEA+RLEIDPYDRSYILYNIGLIHT NGEHTKALEYYFRALERNPFLPQAFNNMAV
Sbjct: 13 LQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFRALERNPFLPQAFNNMAV 72

Query: 61 ICHY 65
          ICHY
Sbjct: 73 ICHY 76

The following BLAST results are available for this feature:

BLAST of Lsi03G009580 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q4VZH4	2.2e-31	95.31	Photosystem I assembly protein Ycf3 OS=Cucumis sativus OX=3659 GN=ycf3 PE=3 SV=1	[more]
Q09X16	2.2e-31	95.31	Photosystem I assembly protein Ycf3 OS=Morus indica OX=248361 GN=ycf3 PE=3 SV=1	[more]
P61843	1.1e-30	93.75	Photosystem I assembly protein Ycf3 OS=Arabidopsis thaliana OX=3702 GN=ycf3 PE=1...	[more]
Q8S8X3	1.1e-30	93.75	Photosystem I assembly protein Ycf3 OS=Atropa belladonna OX=33113 GN=ycf3 PE=3 S...	[more]
Q53CF3	1.1e-30	93.75	Photosystem I assembly protein Ycf3 OS=Brassica juncea OX=3707 GN=ycf3 PE=3 SV=1	[more]

BLAST of Lsi03G009580 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A7J6HSE8	3.5e-32	95.71	TPR_REGION domain-containing protein OS=Cannabis sativa OX=3483 GN=G4B88_027368 ...	[more]
A0A1N7TDX0	3.5e-32	95.71	Photosystem I assembly protein Ycf3 OS=Castanopsis concinna OX=1754207 GN=ycf3 P...	[more]
A0A7U0IVV2	3.5e-32	95.71	Hypothetical chloroplast RF34 OS=Castanopsis carlesii OX=167382 GN=ycf3 PE=4 SV=...	[more]
X2F3U2	4.6e-32	95.71	Hypothetical chloroplast RF34 OS=Lagenaria siceraria OX=3668 GN=ycf3 PE=4 SV=1	[more]
A0A6H1YHQ0	1.0e-31	95.65	Photosystem I assembly protein Ycf3 OS=Quercus coccinea OX=354624 GN=ycf3 PE=3 S...	[more]

BLAST of Lsi03G009580 vs. NCBI nr


Match Name	E-value	Identity	Description
YP_010149075.1	7.3e-32	95.71	hypothetical chloroplast RF34 [Castanopsis carlesii] >QQV69991.1 hypothetical ch...	[more]
YP_009341778.1	7.3e-32	95.71	hypothetical chloroplast RF34 [Castanopsis concinna] >ALN96498.1 hypothetical ch...	[more]
WP_202958889.1	7.3e-32	95.71	tetratricopeptide repeat protein [Solirubrobacter sp. CPCC 204708] >KAF4397628.1...	[more]
AHM88684.1	9.5e-32	95.71	hypothetical chloroplast RF34 [Lagenaria siceraria] >AHM88743.1 hypothetical chl...	[more]
YP_009777019.1	2.1e-31	95.65	hypothetical chloroplast RF34 [Quercus coccinea] >QJA27824.1 hypothetical chloro...	[more]

BLAST of Lsi03G009580 vs. TAIR 10


Match Name	E-value	Identity	Description
ATCG00360.1	7.7e-32	93.75	Tetratricopeptide repeat (TPR)-like superfamily protein	[more]

InterPro

Analysis Name: InterPro Annotations of Bottle gourd (USVL1VR-Ls) v1
Date Performed: 2021-10-18

Position :

Zoom :

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IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR019734	Tetratricopeptide repeat	SMART	SM00028	tpr_5	coord: 18..51 e-value: 3.2E-5 score: 33.4
IPR019734	Tetratricopeptide repeat	PROSITE	PS50005	TPR	coord: 18..51 score: 10.8564
IPR001440	Tetratricopeptide repeat 1	PFAM	PF00515	TPR_1	coord: 19..49 e-value: 9.5E-10 score: 37.9
IPR011990	Tetratricopeptide-like helical domain superfamily	GENE3D	1.25.40.10	Tetratricopeptide repeat domain	coord: 2..66 e-value: 1.1E-12 score: 50.0
IPR011990	Tetratricopeptide-like helical domain superfamily	SUPERFAMILY	48452	TPR-like	coord: 8..63
None	No IPR available	PANTHER	PTHR26312:SF158	PHOTOSYSTEM I ASSEMBLY PROTEIN YCF3	coord: 2..70
None	No IPR available	PANTHER	PTHR26312	TETRATRICOPEPTIDE REPEAT PROTEIN 5	coord: 2..70
None	No IPR available	PROSITE	PS50293	TPR_REGION	coord: 18..49 score: 9.159513

Relationships

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


Feature Name	Unique Name	Type
Lsi03G009580.1	Lsi03G009580.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0022900	electron transport chain
biological_process	GO:0048564	photosystem I assembly
biological_process	GO:0006412	translation
cellular_component	GO:0009535	chloroplast thylakoid membrane
cellular_component	GO:0015935	small ribosomal subunit
molecular_function	GO:0051539	4 iron, 4 sulfur cluster binding
molecular_function	GO:0008137	NADH dehydrogenase (ubiquinone) activity
molecular_function	GO:0005515	protein binding
molecular_function	GO:0048038	quinone binding
molecular_function	GO:0019843	rRNA binding
molecular_function	GO:0003735	structural constituent of ribosome