Lcy12g011490 (gene) Sponge gourd (P93075) v1

Overview


Name	Lcy12g011490
Type	gene
Organism	Luffa cylindrica cv. P93075 (Sponge gourd (P93075) v1)
Description	Photosystem I assembly protein ycf3
Location	Chr12: 38981287 .. 38982668 (+)
RNA-Seq Expression	Lcy12g011490
Synteny	Lcy12g011490

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.

ATGATCACGCGAGTGGAAGAAGTGACGTCATGTTTAAATAACTTTTTCATATGTTGATATTTAAATGATTTTTCTATGTGTTTGACTGTCAACCAAAAACAATGGCTTCTCTCTCTTTTCACATACACAAATTAATGGGAGGGATATGATTCCCAAGTGCATGCCCTTTTCTTTTTTTGGGTATTAAGAAATGGAAACAAAATTAAGAGCCACTAGCCAATGTGTGGATGTGGGAATAAATATATATTCAGAAAATTGGATTTGACAATACTAAAATTTTGGGAATCTAATGGGGTTTCAGCTTCCTAATGCAAACACTTATTTTTGGAACAAGAACTTATTCATATTCAATACATAGTGGAAACAATTTCATTTCTTAAAAAAAAAAAAATATATATTTTAACAATTTTATATTCAAATTAAATCTATTCGGAATGAAGTTACGTGTCGAACTCTCAAAAGTGGAGAAGATTTAAAGTTCTTTTTATTTTTATACTAATTTGAGTTAAGACCGAAGATATACTTTAGTTTTTAATTTTTTATTACAAATTCGAACATTTGACTTATAAAGGACATTATTAATATCTTAATTATTTTTCTTTTATAACATGTGAGGTGGAGGGATTCGAACCACAAATCTCTCGATCATTCGTACAAGCTTTATGCCAGTTGAGTTATGATCATGTTGGCAAATCAATTGAGTTATACTTAGTTTGATGATAATATTTTTTAATAAATGATTAATACATAACTTAGATTATACAATACCATTGTTATTGCTTGACATTTATGTTATAAGAGATTTGTACTTGATTTTTGGATCTCAAGTCATGGAGGGTTAGGTTAAAATGATGTCATGGGGTTTAGCTTTGCTTCTAAGGAGCCTTTACTTTCACTTGCTCTTTTTTTTTTTCACTTTGTCCTCAAAATGTAAAAGTTTGACCAATTTGTTTTTGTTTATTTTTCAACAATCATTTTCTAGATATACAGCACACTATCATTAAAAAAAAAAGGAAAAAAAAAAGGGAAAAAGTTATAGTGTTTATTTATATAACTAACCTCTAAAAACATTGGGCTAGATCTATGAGAAATTTAATTCAATTAGATTAGATTAGATATGGTAAATTTTTTAAAATATGGGACAGCAAAAGAATTGACTGTTGAGCCGTATGAGGTAGGAAACTCTCAAGTACGGTTCTAAGGGAAGGAATTTACTTGCCTATTCCGACCGGGGAGAACAGGCCATTCGACAGGGAGATTCTGAAATTGCGGAGGCTTGGTTCAATCAAGCCGCTGAGTATTGGAAACAAGCTATAGCACTTACTCCCGGTAATTATATTGAAGCACAAAATTGGTTGAAGATCACAAGGCGTTTCAAATAA

mRNA sequence

ATGATCACGCGAGTGGAAGAAGAAACTCTCAAGTACGGTTCTAAGGGAAGGAATTTACTTGCCTATTCCGACCGGGGAGAACAGGCCATTCGACAGGGAGATTCTGAAATTGCGGAGGCTTGGTTCAATCAAGCCGCTGAGTATTGGAAACAAGCTATAGCACTTACTCCCGGTAATTATATTGAAGCACAAAATTGGTTGAAGATCACAAGGCGTTTCAAATAA

Coding sequence (CDS)

ATGATCACGCGAGTGGAAGAAGAAACTCTCAAGTACGGTTCTAAGGGAAGGAATTTACTTGCCTATTCCGACCGGGGAGAACAGGCCATTCGACAGGGAGATTCTGAAATTGCGGAGGCTTGGTTCAATCAAGCCGCTGAGTATTGGAAACAAGCTATAGCACTTACTCCCGGTAATTATATTGAAGCACAAAATTGGTTGAAGATCACAAGGCGTTTCAAATAA

Protein sequence

MITRVEEETLKYGSKGRNLLAYSDRGEQAIRQGDSEIAEAWFNQAAEYWKQAIALTPGNYIEAQNWLKITRRFK

Homology

[Close]

BLAST of Lcy12g011490 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: 107.5 bits (267), Expect = 6.8e-23
Identity = 50/50 (100.00%), Postives = 50/50 (100.00%), Query Frame = 0


Query: 25  RGEQAIRQGDSEIAEAWFNQAAEYWKQAIALTPGNYIEAQNWLKITRRFK 75
           RGEQAIRQGDSEIAEAWFNQAAEYWKQAIALTPGNYIEAQNWLKITRRFK
Sbjct: 120 RGEQAIRQGDSEIAEAWFNQAAEYWKQAIALTPGNYIEAQNWLKITRRFK 169

[Close]

BLAST of Lcy12g011490 vs. ExPASy Swiss-Prot
Match: Q49KZ7 (Photosystem I assembly protein Ycf3 OS=Eucalyptus globulus subsp. globulus OX=71271 GN=ycf3 PE=3 SV=1)

HSP 1 Score: 104.0 bits (258), Expect = 7.5e-22
Identity = 48/50 (96.00%), Postives = 50/50 (100.00%), Query Frame = 0


Query: 25  RGEQAIRQGDSEIAEAWFNQAAEYWKQAIALTPGNYIEAQNWLKITRRFK 75
           RGEQAIRQGDSEIAEAWF+QAAEYWKQAIALTPGNYIEAQNWLKITRRF+
Sbjct: 119 RGEQAIRQGDSEIAEAWFDQAAEYWKQAIALTPGNYIEAQNWLKITRRFE 168

[Close]

BLAST of Lcy12g011490 vs. ExPASy Swiss-Prot
Match: A0ZZ36 (Photosystem I assembly protein Ycf3 OS=Gossypium barbadense OX=3634 GN=ycf3 PE=3 SV=1)

HSP 1 Score: 104.0 bits (258), Expect = 7.5e-22
Identity = 48/50 (96.00%), Postives = 50/50 (100.00%), Query Frame = 0


Query: 25  RGEQAIRQGDSEIAEAWFNQAAEYWKQAIALTPGNYIEAQNWLKITRRFK 75
           RGEQAIRQGDSEIAEAWF+QAAEYWKQAIALTPGNYIEAQNWLKITRRF+
Sbjct: 119 RGEQAIRQGDSEIAEAWFDQAAEYWKQAIALTPGNYIEAQNWLKITRRFE 168

[Close]

BLAST of Lcy12g011490 vs. ExPASy Swiss-Prot
Match: Q2L906 (Photosystem I assembly protein Ycf3 OS=Gossypium hirsutum OX=3635 GN=ycf3 PE=3 SV=1)

HSP 1 Score: 104.0 bits (258), Expect = 7.5e-22
Identity = 48/50 (96.00%), Postives = 50/50 (100.00%), Query Frame = 0


Query: 25  RGEQAIRQGDSEIAEAWFNQAAEYWKQAIALTPGNYIEAQNWLKITRRFK 75
           RGEQAIRQGDSEIAEAWF+QAAEYWKQAIALTPGNYIEAQNWLKITRRF+
Sbjct: 119 RGEQAIRQGDSEIAEAWFDQAAEYWKQAIALTPGNYIEAQNWLKITRRFE 168

[Close]

BLAST of Lcy12g011490 vs. ExPASy Swiss-Prot
Match: Q9MTP0 (Photosystem I assembly protein Ycf3 OS=Oenothera elata subsp. hookeri OX=85636 GN=ycf3 PE=3 SV=3)

HSP 1 Score: 104.0 bits (258), Expect = 7.5e-22
Identity = 48/50 (96.00%), Postives = 50/50 (100.00%), Query Frame = 0


Query: 25  RGEQAIRQGDSEIAEAWFNQAAEYWKQAIALTPGNYIEAQNWLKITRRFK 75
           RGEQAIRQGDSEIAEAWF+QAAEYWKQAIALTPGNYIEAQNWLKITRRF+
Sbjct: 119 RGEQAIRQGDSEIAEAWFDQAAEYWKQAIALTPGNYIEAQNWLKITRRFE 168

[Close]

BLAST of Lcy12g011490 vs. ExPASy TrEMBL
Match: A0A4U5Q996 (30S ribosomal protein S4, chloroplastic OS=Populus alba OX=43335 GN=rps4 PE=3 SV=1)

HSP 1 Score: 138.3 bits (347), Expect = 1.3e-29
Identity = 66/70 (94.29%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 5   VEEETLKYGSKGRNLLAYSDRGEQAIRQGDSEIAEAWFNQAAEYWKQAIALTPGNYIEAQ 64
           V +ETLKYGSKGRNLLAYSDRGEQAIRQGDSEIAEAWF+QAAEYWKQAIALTPGNYIEAQ
Sbjct: 221 VLQETLKYGSKGRNLLAYSDRGEQAIRQGDSEIAEAWFDQAAEYWKQAIALTPGNYIEAQ 280

Query: 65  NWLKITRRFK 75
           NWLKITRRF+
Sbjct: 281 NWLKITRRFE 290

[Close]

BLAST of Lcy12g011490 vs. ExPASy TrEMBL
Match: W1P7C5 (Uncharacterized protein OS=Amborella trichopoda OX=13333 GN=AMTR_s00334p00015220 PE=4 SV=1)

HSP 1 Score: 134.4 bits (337), Expect = 1.9e-28
Identity = 63/70 (90.00%), Postives = 67/70 (95.71%), Query Frame = 0


Query: 5  VEEETLKYGSKGRNLLAYSDRGEQAIRQGDSEIAEAWFNQAAEYWKQAIALTPGNYIEAQ 64
          +  ETLKYGSKGRNL AYSDRGEQAIRQGDSEIAEAWF+QAAEYWKQA+ALTPGNYIEAQ
Sbjct: 1  MRSETLKYGSKGRNLSAYSDRGEQAIRQGDSEIAEAWFDQAAEYWKQALALTPGNYIEAQ 60

Query: 65 NWLKITRRFK 75
          NWLKITRRF+
Sbjct: 61 NWLKITRRFE 70

[Close]

BLAST of Lcy12g011490 vs. ExPASy TrEMBL
Match: A0A7J6HQR9 (Uncharacterized protein OS=Cannabis sativa OX=3483 GN=G4B88_027372 PE=4 SV=1)

HSP 1 Score: 134.4 bits (337), Expect = 1.9e-28
Identity = 63/70 (90.00%), Postives = 67/70 (95.71%), Query Frame = 0


Query: 5  VEEETLKYGSKGRNLLAYSDRGEQAIRQGDSEIAEAWFNQAAEYWKQAIALTPGNYIEAQ 64
          +  ETLKYGSKGRNL AYSDRGEQAIRQGDSEIAEAWF+QAAEYWKQA+ALTPGNYIEAQ
Sbjct: 1  MRSETLKYGSKGRNLSAYSDRGEQAIRQGDSEIAEAWFDQAAEYWKQALALTPGNYIEAQ 60

Query: 65 NWLKITRRFK 75
          NWLKITRRF+
Sbjct: 61 NWLKITRRFE 70

[Close]

BLAST of Lcy12g011490 vs. ExPASy TrEMBL
Match: G7KJV5 (Photosystem I assembly protein ycf3 OS=Medicago truncatula OX=3880 GN=MTR_6g092730 PE=4 SV=1)

HSP 1 Score: 132.9 bits (333), Expect = 5.6e-28
Identity = 62/70 (88.57%), Postives = 67/70 (95.71%), Query Frame = 0


Query: 5  VEEETLKYGSKGRNLLAYSDRGEQAIRQGDSEIAEAWFNQAAEYWKQAIALTPGNYIEAQ 64
          + +ETLKYGSKGRNLL YSDRGEQAIRQGDSEIAE+WF+QAAEYWKQAIALTPGNYIEAQ
Sbjct: 1  MSQETLKYGSKGRNLLTYSDRGEQAIRQGDSEIAESWFDQAAEYWKQAIALTPGNYIEAQ 60

Query: 65 NWLKITRRFK 75
          NWLKIT RF+
Sbjct: 61 NWLKITGRFE 70

[Close]

BLAST of Lcy12g011490 vs. ExPASy TrEMBL
Match: A0A2Z4KH56 (Photosystem I assembly protein ycf3 OS=Medicago sativa OX=3879 PE=4 SV=1)

HSP 1 Score: 132.9 bits (333), Expect = 5.6e-28
Identity = 62/70 (88.57%), Postives = 67/70 (95.71%), Query Frame = 0


Query: 5  VEEETLKYGSKGRNLLAYSDRGEQAIRQGDSEIAEAWFNQAAEYWKQAIALTPGNYIEAQ 64
          + +ETLKYGSKGRNLL YSDRGEQAIRQGDSEIAE+WF+QAAEYWKQAIALTPGNYIEAQ
Sbjct: 1  MSQETLKYGSKGRNLLTYSDRGEQAIRQGDSEIAESWFDQAAEYWKQAIALTPGNYIEAQ 60

Query: 65 NWLKITRRFK 75
          NWLKIT RF+
Sbjct: 61 NWLKITGRFE 70

[Close]

BLAST of Lcy12g011490 vs. NCBI nr
Match: TKS04885.1 (ribosomal protein S4 [Populus alba])

HSP 1 Score: 138.3 bits (347), Expect = 2.7e-29
Identity = 66/70 (94.29%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 5   VEEETLKYGSKGRNLLAYSDRGEQAIRQGDSEIAEAWFNQAAEYWKQAIALTPGNYIEAQ 64
           V +ETLKYGSKGRNLLAYSDRGEQAIRQGDSEIAEAWF+QAAEYWKQAIALTPGNYIEAQ
Sbjct: 221 VLQETLKYGSKGRNLLAYSDRGEQAIRQGDSEIAEAWFDQAAEYWKQAIALTPGNYIEAQ 280

Query: 65  NWLKITRRFK 75
           NWLKITRRF+
Sbjct: 281 NWLKITRRFE 290

[Close]

BLAST of Lcy12g011490 vs. NCBI nr
Match: KAG6735386.1 (hypothetical protein POTOM_062012 [Populus tomentosa])

HSP 1 Score: 138.3 bits (347), Expect = 2.7e-29
Identity = 66/70 (94.29%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 5   VEEETLKYGSKGRNLLAYSDRGEQAIRQGDSEIAEAWFNQAAEYWKQAIALTPGNYIEAQ 64
           V +ETLKYGSKGRNLLAYSDRGEQAIRQGDSEIAEAWF+QAAEYWKQAIALTPGNYIEAQ
Sbjct: 65  VLQETLKYGSKGRNLLAYSDRGEQAIRQGDSEIAEAWFDQAAEYWKQAIALTPGNYIEAQ 124

Query: 65  NWLKITRRFK 75
           NWLKITRRF+
Sbjct: 125 NWLKITRRFE 134

[Close]

BLAST of Lcy12g011490 vs. NCBI nr
Match: ERN02875.1 (hypothetical protein AMTR_s00334p00015220 [Amborella trichopoda] >KAF4397632.1 hypothetical protein G4B88_027372 [Cannabis sativa])

HSP 1 Score: 134.4 bits (337), Expect = 3.9e-28
Identity = 63/70 (90.00%), Postives = 67/70 (95.71%), Query Frame = 0


Query: 5  VEEETLKYGSKGRNLLAYSDRGEQAIRQGDSEIAEAWFNQAAEYWKQAIALTPGNYIEAQ 64
          +  ETLKYGSKGRNL AYSDRGEQAIRQGDSEIAEAWF+QAAEYWKQA+ALTPGNYIEAQ
Sbjct: 1  MRSETLKYGSKGRNLSAYSDRGEQAIRQGDSEIAEAWFDQAAEYWKQALALTPGNYIEAQ 60

Query: 65 NWLKITRRFK 75
          NWLKITRRF+
Sbjct: 61 NWLKITRRFE 70

[Close]

BLAST of Lcy12g011490 vs. NCBI nr
Match: KAG6573954.1 (Photosystem I assembly protein Ycf3, partial [Cucurbita argyrosperma subsp. sororia])

HSP 1 Score: 134.0 bits (336), Expect = 5.2e-28
Identity = 64/70 (91.43%), Postives = 66/70 (94.29%), Query Frame = 0


Query: 5  VEEETLKYGSKGRNLLAYSDRGEQAIRQGDSEIAEAWFNQAAEYWKQAIALTPGNYIEAQ 64
          V +ETLKYGSKGRNLLAYSDRGEQAIRQGDSEIAE WFNQAAEYWKQAIAL PGN+IEA 
Sbjct: 25 VVKETLKYGSKGRNLLAYSDRGEQAIRQGDSEIAEVWFNQAAEYWKQAIALNPGNHIEAY 84

Query: 65 NWLKITRRFK 75
          NWLKITRRFK
Sbjct: 85 NWLKITRRFK 94

[Close]

BLAST of Lcy12g011490 vs. NCBI nr
Match: KAF3433879.1 (hypothetical protein FNV43_RR24982 [Rhamnella rubrinervis] >KAF3449778.1 hypothetical protein FNV43_RR05856 [Rhamnella rubrinervis])

HSP 1 Score: 134.0 bits (336), Expect = 5.2e-28
Identity = 63/70 (90.00%), Postives = 67/70 (95.71%), Query Frame = 0


Query: 5  VEEETLKYGSKGRNLLAYSDRGEQAIRQGDSEIAEAWFNQAAEYWKQAIALTPGNYIEAQ 64
          +  ETL YGSKGRNLLAYSDRGEQAIRQGDSEIAEAWF+QAAEYWKQAIALTPGNYIEAQ
Sbjct: 1  MRSETLTYGSKGRNLLAYSDRGEQAIRQGDSEIAEAWFDQAAEYWKQAIALTPGNYIEAQ 60

Query: 65 NWLKITRRFK 75
          NWLKIT+RF+
Sbjct: 61 NWLKITKRFE 70

[Close]

BLAST of Lcy12g011490 vs. TAIR 10
Match: ATCG00360.1 (Tetratricopeptide repeat (TPR)-like superfamily protein )

HSP 1 Score: 96.3 bits (238), Expect = 1.1e-20
Identity = 44/50 (88.00%), Postives = 47/50 (94.00%), Query Frame = 0


Query: 25  RGEQAIRQGDSEIAEAWFNQAAEYWKQAIALTPGNYIEAQNWLKITRRFK 75
           RGEQAI+QGDSE+AEAWF QAAEYWKQAI LTPGNYIEAQNWL ITRRF+
Sbjct: 77  RGEQAIQQGDSEMAEAWFAQAAEYWKQAITLTPGNYIEAQNWLTITRRFE 126

The following BLAST results are available for this feature:

BLAST of Lcy12g011490 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q4VZH4	6.8e-23	100.00	Photosystem I assembly protein Ycf3 OS=Cucumis sativus OX=3659 GN=ycf3 PE=3 SV=1	[more]
Q49KZ7	7.5e-22	96.00	Photosystem I assembly protein Ycf3 OS=Eucalyptus globulus subsp. globulus OX=71...	[more]
A0ZZ36	7.5e-22	96.00	Photosystem I assembly protein Ycf3 OS=Gossypium barbadense OX=3634 GN=ycf3 PE=3...	[more]
Q2L906	7.5e-22	96.00	Photosystem I assembly protein Ycf3 OS=Gossypium hirsutum OX=3635 GN=ycf3 PE=3 S...	[more]
Q9MTP0	7.5e-22	96.00	Photosystem I assembly protein Ycf3 OS=Oenothera elata subsp. hookeri OX=85636 G...	[more]

BLAST of Lcy12g011490 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A4U5Q996	1.3e-29	94.29	30S ribosomal protein S4, chloroplastic OS=Populus alba OX=43335 GN=rps4 PE=3 SV...	[more]
W1P7C5	1.9e-28	90.00	Uncharacterized protein OS=Amborella trichopoda OX=13333 GN=AMTR_s00334p00015220...	[more]
A0A7J6HQR9	1.9e-28	90.00	Uncharacterized protein OS=Cannabis sativa OX=3483 GN=G4B88_027372 PE=4 SV=1	[more]
G7KJV5	5.6e-28	88.57	Photosystem I assembly protein ycf3 OS=Medicago truncatula OX=3880 GN=MTR_6g0927...	[more]
A0A2Z4KH56	5.6e-28	88.57	Photosystem I assembly protein ycf3 OS=Medicago sativa OX=3879 PE=4 SV=1	[more]

BLAST of Lcy12g011490 vs. NCBI nr


Match Name	E-value	Identity	Description
TKS04885.1	2.7e-29	94.29	ribosomal protein S4 [Populus alba]	[more]
KAG6735386.1	2.7e-29	94.29	hypothetical protein POTOM_062012 [Populus tomentosa]	[more]
ERN02875.1	3.9e-28	90.00	hypothetical protein AMTR_s00334p00015220 [Amborella trichopoda] >KAF4397632.1 h...	[more]
KAG6573954.1	5.2e-28	91.43	Photosystem I assembly protein Ycf3, partial [Cucurbita argyrosperma subsp. soro...	[more]
KAF3433879.1	5.2e-28	90.00	hypothetical protein FNV43_RR24982 [Rhamnella rubrinervis] >KAF3449778.1 hypothe...	[more]

BLAST of Lcy12g011490 vs. TAIR 10


Match Name	E-value	Identity	Description
ATCG00360.1	1.1e-20	88.00	Tetratricopeptide repeat (TPR)-like superfamily protein	[more]

InterPro

Analysis Name: InterPro Annotations of Sponge gourd (P93075) v1
Date Performed: 2021-12-06


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PANTHER	PTHR26312:SF178	PHOTOSYSTEM I ASSEMBLY PROTEIN YCF3	coord: 13..74
None	No IPR available	PANTHER	PTHR26312	TETRATRICOPEPTIDE REPEAT PROTEIN 5	coord: 13..74

Relationships

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


Feature Name	Unique Name	Type
Lcy12g011490.1	Lcy12g011490.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0015979	photosynthesis
biological_process	GO:0006412	translation
cellular_component	GO:0009535	chloroplast thylakoid membrane
cellular_component	GO:0015935	small ribosomal subunit
molecular_function	GO:0019843	rRNA binding
molecular_function	GO:0003735	structural constituent of ribosome