CmoCh05G008850 (gene) Cucurbita moschata (Rifu)

Overview
NameCmoCh05G008850
Typegene
OrganismCucurbita moschata (Cucurbita moschata (Rifu))
DescriptionPhotosystem II CP47 reaction center protein
LocationCmo_Chr05 : 6050694 .. 6051381 (-)
Genome Viewer
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDSexon
Hold the cursor over a type above to highlight its positions in the sequence below.
ATGCATATAGCTCTAGTTGCTGGTTGGGCCGATTCAATGGCCCTATACGAATTAGCGGTTTTTGATCCCTCTGATCCTGTTCTTGATCCAATTTGGAGACAAGGTATGTTCGTTATACCCTTCATGACTCGTCTAGGAATAACCAATTCATGGGGGGTTGGAGTATCACCCTCCGTTTCTTTCAGTTTCTTAGTAAGAATGGGTGACGGTATTCTGCCTAAATAGTAGACACAGGTAATAAATAAGAGAATACTAAAGATTCGAGCCATAGAATTTCTGAATTCTGACACAAGGTACTTATTAGATCTAATAGAATTATTTTGCTGTATCCAGACTAATATCAATCCAACCCATTTCATGAATAAAATGTGACCAATTAACCAACCAACAAAACTACTTGTTACAAATAACATCTTGTTGTTGCATCGAAACATAGAAATGTTGACTAATCTGACTAACATTGAACTTGGTAAAATGAAATGGTTGAATAATTGAAAAATGAGATTATTCAGGAATACACATTGAATGCTAAGATTACGCATTGAGTTTCTGGTAGTAGATCCATAATCAAAAAAGTGTTTGTGATTGTTCCAGAAGAAATGAAACAAAAGATACGGTAGAGCTAGGACAGTTATTGTATGAGGTCTACCCAATGCTAGATGCAGAGGCGCATAATAGATCGATATGA

mRNA sequence

ATGCATATAGCTCTAGTTGCTGGTTGGGCCGATTCAATGGCCCTATACGAATTAGCGGTTTTTGATCCCTCTGATCCTGTTCTTGATCCAATTTGGAGACAAGGTATAAGAAATGAAACAAAAGATACGGTAGAGCTAGGACAGTTATTGTATGAGGTCTACCCAATGCTAGATGCAGAGGCGCATAATAGATCGATATGA

Coding sequence (CDS)

ATGCATATAGCTCTAGTTGCTGGTTGGGCCGATTCAATGGCCCTATACGAATTAGCGGTTTTTGATCCCTCTGATCCTGTTCTTGATCCAATTTGGAGACAAGGTATAAGAAATGAAACAAAAGATACGGTAGAGCTAGGACAGTTATTGTATGAGGTCTACCCAATGCTAGATGCAGAGGCGCATAATAGATCGATATGA
Homology
[Close]
BLAST of CmoCh05G008850 vs. Swiss-Prot
Match: PSBB_AETCO (Photosystem II CP47 reaction center protein OS=Aethionema cordifolium GN=psbB PE=3 SV=1)

HSP 1 Score: 72.8 bits (177), Expect = 1.6e-12
Identity = 32/36 (88.89%), Postives = 34/36 (94.44%), Query Frame = 1 

Query: 1  MHIALVAGWADSMALYELAVFDPSDPVLDPIWRQGI 37
          MH ALVAGWA SMALYELAVFDPSDPVLDP+WRQG+
Sbjct: 25 MHTALVAGWAGSMALYELAVFDPSDPVLDPMWRQGM 60

[Close]
BLAST of CmoCh05G008850 vs. Swiss-Prot
Match: PSBB_MORIN (Photosystem II CP47 reaction center protein OS=Morus indica GN=psbB PE=3 SV=1)

HSP 1 Score: 72.8 bits (177), Expect = 1.6e-12
Identity = 32/36 (88.89%), Postives = 34/36 (94.44%), Query Frame = 1 

Query: 1  MHIALVAGWADSMALYELAVFDPSDPVLDPIWRQGI 37
          MH ALVAGWA SMALYELAVFDPSDPVLDP+WRQG+
Sbjct: 25 MHTALVAGWAGSMALYELAVFDPSDPVLDPMWRQGM 60

[Close]
BLAST of CmoCh05G008850 vs. Swiss-Prot
Match: PSBB_NICSY (Photosystem II CP47 reaction center protein OS=Nicotiana sylvestris GN=psbB PE=3 SV=1)

HSP 1 Score: 72.8 bits (177), Expect = 1.6e-12
Identity = 32/36 (88.89%), Postives = 34/36 (94.44%), Query Frame = 1 

Query: 1  MHIALVAGWADSMALYELAVFDPSDPVLDPIWRQGI 37
          MH ALVAGWA SMALYELAVFDPSDPVLDP+WRQG+
Sbjct: 25 MHTALVAGWAGSMALYELAVFDPSDPVLDPMWRQGM 60

[Close]
BLAST of CmoCh05G008850 vs. Swiss-Prot
Match: PSBB_NASOF (Photosystem II CP47 reaction center protein OS=Nasturtium officinale GN=psbB PE=3 SV=1)

HSP 1 Score: 72.8 bits (177), Expect = 1.6e-12
Identity = 32/36 (88.89%), Postives = 34/36 (94.44%), Query Frame = 1 

Query: 1  MHIALVAGWADSMALYELAVFDPSDPVLDPIWRQGI 37
          MH ALVAGWA SMALYELAVFDPSDPVLDP+WRQG+
Sbjct: 25 MHTALVAGWAGSMALYELAVFDPSDPVLDPMWRQGM 60

[Close]
BLAST of CmoCh05G008850 vs. Swiss-Prot
Match: PSBB_SOYBN (Photosystem II CP47 reaction center protein OS=Glycine max GN=psbB PE=3 SV=1)

HSP 1 Score: 72.8 bits (177), Expect = 1.6e-12
Identity = 32/36 (88.89%), Postives = 34/36 (94.44%), Query Frame = 1 

Query: 1  MHIALVAGWADSMALYELAVFDPSDPVLDPIWRQGI 37
          MH ALVAGWA SMALYELAVFDPSDPVLDP+WRQG+
Sbjct: 25 MHTALVAGWAGSMALYELAVFDPSDPVLDPMWRQGM 60

[Close]
BLAST of CmoCh05G008850 vs. TrEMBL
Match: B9S1B8_RICCO (Photosystem II P680 chlorophyll A apoprotein, putative OS=Ricinus communis GN=RCOM_1655470 PE=4 SV=1)

HSP 1 Score: 75.5 bits (184), Expect = 2.7e-11
Identity = 33/36 (91.67%), Postives = 35/36 (97.22%), Query Frame = 1 

Query: 1  MHIALVAGWADSMALYELAVFDPSDPVLDPIWRQGI 37
          MH ALVAGWADSMALYELAVFDPSDPV+DPIWRQG+
Sbjct: 1  MHTALVAGWADSMALYELAVFDPSDPVVDPIWRQGM 36

[Close]
BLAST of CmoCh05G008850 vs. TrEMBL
Match: A9XVI4_9ROSI (Photosystem II CP47 reaction center protein (Fragment) OS=Helianthemum canum GN=psbB PE=3 SV=1)

HSP 1 Score: 73.6 bits (179), Expect = 1.0e-10
Identity = 32/36 (88.89%), Postives = 34/36 (94.44%), Query Frame = 1 

Query: 1  MHIALVAGWADSMALYELAVFDPSDPVLDPIWRQGI 37
          MH ALVAGWA SMALYELAVFDPSDPVLDP+WRQG+
Sbjct: 4  MHTALVAGWAGSMALYELAVFDPSDPVLDPVWRQGM 39

[Close]
BLAST of CmoCh05G008850 vs. TrEMBL
Match: A0A078H874_BRANA (BnaC04g29390D protein OS=Brassica napus GN=BnaC04g29390D PE=4 SV=1)

HSP 1 Score: 73.6 bits (179), Expect = 1.0e-10
Identity = 32/36 (88.89%), Postives = 34/36 (94.44%), Query Frame = 1 

Query: 1  MHIALVAGWADSMALYELAVFDPSDPVLDPIWRQGI 37
          MH ALVAGWA SMALYELAVFDPSDPVLDP+WRQG+
Sbjct: 25 MHTALVAGWAGSMALYELAVFDPSDPVLDPMWRQGV 60

[Close]
BLAST of CmoCh05G008850 vs. TrEMBL
Match: Q9GFA5_CABCA (Photosystem II CP47 reaction center protein (Fragment) OS=Cabomba caroliniana GN=psbB PE=3 SV=1)

HSP 1 Score: 73.2 bits (178), Expect = 1.4e-10
Identity = 32/36 (88.89%), Postives = 34/36 (94.44%), Query Frame = 1 

Query: 1  MHIALVAGWADSMALYELAVFDPSDPVLDPIWRQGI 37
          MH ALVAGWA SMALYELAVFDPSDPVLDP+WRQG+
Sbjct: 12 MHTALVAGWAGSMALYELAVFDPSDPVLDPMWRQGL 47

[Close]
BLAST of CmoCh05G008850 vs. TrEMBL
Match: A0A0M3SU71_VISAL (Photosystem II CP47 reaction center protein OS=Viscum album GN=psbB PE=3 SV=1)

HSP 1 Score: 73.2 bits (178), Expect = 1.4e-10
Identity = 32/36 (88.89%), Postives = 34/36 (94.44%), Query Frame = 1 

Query: 1  MHIALVAGWADSMALYELAVFDPSDPVLDPIWRQGI 37
          MH ALVAGWA SMALYELAVFDPSDPVLDP+WRQG+
Sbjct: 25 MHTALVAGWAGSMALYELAVFDPSDPVLDPMWRQGL 60

[Close]
BLAST of CmoCh05G008850 vs. TAIR10
Match: ATCG00680.1 (ATCG00680.1 photosystem II reaction center protein B)

HSP 1 Score: 72.8 bits (177), Expect = 9.0e-14
Identity = 32/36 (88.89%), Postives = 34/36 (94.44%), Query Frame = 1 

Query: 1  MHIALVAGWADSMALYELAVFDPSDPVLDPIWRQGI 37
          MH ALVAGWA SMALYELAVFDPSDPVLDP+WRQG+
Sbjct: 25 MHTALVAGWAGSMALYELAVFDPSDPVLDPMWRQGM 60

[Close]
BLAST of CmoCh05G008850 vs. NCBI nr
Match: gi|922465007|ref|XP_013633081.1| (PREDICTED: photosystem II CP47 reaction center protein-like [Brassica oleracea var. oleracea])

HSP 1 Score: 76.3 bits (186), Expect = 2.3e-11
Identity = 34/38 (89.47%), Postives = 35/38 (92.11%), Query Frame = 1 

Query: 1  MHIALVAGWADSMALYELAVFDPSDPVLDPIWRQGIRN 39
          MH ALVAGWA SMALYELAVFDPSDPVLDP+WRQGI N
Sbjct: 25 MHTALVAGWAGSMALYELAVFDPSDPVLDPMWRQGISN 62

[Close]
BLAST of CmoCh05G008850 vs. NCBI nr
Match: gi|223541026|gb|EEF42583.1| (Photosystem II P680 chlorophyll A apoprotein, putative [Ricinus communis])

HSP 1 Score: 75.5 bits (184), Expect = 3.9e-11
Identity = 33/36 (91.67%), Postives = 35/36 (97.22%), Query Frame = 1 

Query: 1  MHIALVAGWADSMALYELAVFDPSDPVLDPIWRQGI 37
          MH ALVAGWADSMALYELAVFDPSDPV+DPIWRQG+
Sbjct: 1  MHTALVAGWADSMALYELAVFDPSDPVVDPIWRQGM 36

[Close]
BLAST of CmoCh05G008850 vs. NCBI nr
Match: gi|157689768|gb|ABV65494.1| (photosystem II CP47 chlorophyll apoprotein, partial (chloroplast) [Helianthemum canum])

HSP 1 Score: 73.6 bits (179), Expect = 1.5e-10
Identity = 32/36 (88.89%), Postives = 34/36 (94.44%), Query Frame = 1 

Query: 1  MHIALVAGWADSMALYELAVFDPSDPVLDPIWRQGI 37
          MH ALVAGWA SMALYELAVFDPSDPVLDP+WRQG+
Sbjct: 4  MHTALVAGWAGSMALYELAVFDPSDPVLDPVWRQGM 39

[Close]
BLAST of CmoCh05G008850 vs. NCBI nr
Match: gi|674899249|emb|CDY33712.1| (BnaC04g29390D [Brassica napus])

HSP 1 Score: 73.6 bits (179), Expect = 1.5e-10
Identity = 32/36 (88.89%), Postives = 34/36 (94.44%), Query Frame = 1 

Query: 1  MHIALVAGWADSMALYELAVFDPSDPVLDPIWRQGI 37
          MH ALVAGWA SMALYELAVFDPSDPVLDP+WRQG+
Sbjct: 25 MHTALVAGWAGSMALYELAVFDPSDPVLDPMWRQGV 60

[Close]
BLAST of CmoCh05G008850 vs. NCBI nr
Match: gi|11022994|gb|AAG26257.1| (photosystem II CP47 protein [Cabomba caroliniana])

HSP 1 Score: 73.2 bits (178), Expect = 2.0e-10
Identity = 32/36 (88.89%), Postives = 34/36 (94.44%), Query Frame = 1 

Query: 1  MHIALVAGWADSMALYELAVFDPSDPVLDPIWRQGI 37
          MH ALVAGWA SMALYELAVFDPSDPVLDP+WRQG+
Sbjct: 12 MHTALVAGWAGSMALYELAVFDPSDPVLDPMWRQGL 47

The following BLAST results are available for this feature:
BLAST of CmoCh05G008850 vs. Swiss-Prot
Match NameE-valueIdentityDescription
PSBB_AETCO1.6e-1288.89Photosystem II CP47 reaction center protein OS=Aethionema cordifolium GN=psbB PE... [more]
PSBB_MORIN1.6e-1288.89Photosystem II CP47 reaction center protein OS=Morus indica GN=psbB PE=3 SV=1[more]
PSBB_NICSY1.6e-1288.89Photosystem II CP47 reaction center protein OS=Nicotiana sylvestris GN=psbB PE=3... [more]
PSBB_NASOF1.6e-1288.89Photosystem II CP47 reaction center protein OS=Nasturtium officinale GN=psbB PE=... [more]
PSBB_SOYBN1.6e-1288.89Photosystem II CP47 reaction center protein OS=Glycine max GN=psbB PE=3 SV=1[more]
BLAST of CmoCh05G008850 vs. TrEMBL
Match NameE-valueIdentityDescription
B9S1B8_RICCO2.7e-1191.67Photosystem II P680 chlorophyll A apoprotein, putative OS=Ricinus communis GN=RC... [more]
A9XVI4_9ROSI1.0e-1088.89Photosystem II CP47 reaction center protein (Fragment) OS=Helianthemum canum GN=... [more]
A0A078H874_BRANA1.0e-1088.89BnaC04g29390D protein OS=Brassica napus GN=BnaC04g29390D PE=4 SV=1[more]
Q9GFA5_CABCA1.4e-1088.89Photosystem II CP47 reaction center protein (Fragment) OS=Cabomba caroliniana GN... [more]
A0A0M3SU71_VISAL1.4e-1088.89Photosystem II CP47 reaction center protein OS=Viscum album GN=psbB PE=3 SV=1[more]
BLAST of CmoCh05G008850 vs. TAIR10
Match NameE-valueIdentityDescription
ATCG00680.19.0e-1488.89ATCG00680.1 photosystem II reaction center protein B[more]
BLAST of CmoCh05G008850 vs. NCBI nr
Match NameE-valueIdentityDescription
gi|922465007|ref|XP_013633081.1|2.3e-1189.47PREDICTED: photosystem II CP47 reaction center protein-like [Brassica oleracea v... [more]
gi|223541026|gb|EEF42583.1|3.9e-1191.67Photosystem II P680 chlorophyll A apoprotein, putative [Ricinus communis][more]
gi|157689768|gb|ABV65494.1|1.5e-1088.89photosystem II CP47 chlorophyll apoprotein, partial (chloroplast) [Helianthemum ... [more]
gi|674899249|emb|CDY33712.1|1.5e-1088.89BnaC04g29390D [Brassica napus][more]
gi|11022994|gb|AAG26257.1|2.0e-1088.89photosystem II CP47 protein [Cabomba caroliniana][more]
Annotated Terms
The following terms have been associated with this gene:
Vocabulary: INTERPRO
TermDefinition
IPR000932PS_antenna-like
Vocabulary: Biological Process
TermDefinition
GO:0019684photosynthesis, light reaction
GO:0009767photosynthetic electron transport chain
Vocabulary: Cellular Component
TermDefinition
GO:0009521photosystem
GO:0016020membrane
Vocabulary: Molecular Function
TermDefinition
GO:0016168chlorophyll binding
GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0009772 photosynthetic electron transport in photosystem II
biological_process GO:0018298 protein-chromophore linkage
biological_process GO:0019684 photosynthesis, light reaction
biological_process GO:0009767 photosynthetic electron transport chain
cellular_component GO:0009535 chloroplast thylakoid membrane
cellular_component GO:0016021 integral component of membrane
cellular_component GO:0009523 photosystem II
cellular_component GO:0016020 membrane
cellular_component GO:0009521 photosystem
molecular_function GO:0016168 chlorophyll binding
molecular_function GO:0045156 electron transporter, transferring electrons within the cyclic electron transport pathway of photosynthesis activity
Relationships

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

Feature NameUnique NameType
CmoCh05G008850.1CmoCh05G008850.1mRNA


InterPro
Analysis Name: InterPro Annotations of Cucurbita moschata
Date Performed: 2017-05-19
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR000932Photosystem antenna protein-likePFAMPF00421PSIIcoord: 1..36
score: 3.4
IPR000932Photosystem antenna protein-likeunknownSSF161077Photosystem II antenna protein-likecoord: 1..36
score: 1.65
NoneNo IPR availablePANTHERPTHR33180FAMILY NOT NAMEDcoord: 1..36
score: 9.2
NoneNo IPR availablePANTHERPTHR33180:SF8SUBFAMILY NOT NAMEDcoord: 1..36
score: 9.2

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

None

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

None

The following block(s) are covering this gene:
GeneOrganismBlock
CmoCh05G008850Watermelon (Charleston Gray)cmowcgB686
CmoCh05G008850Watermelon (97103) v1cmowmB743
CmoCh05G008850Cucurbita pepo (Zucchini)cmocpeB753
CmoCh05G008850Bottle gourd (USVL1VR-Ls)cmolsiB713
CmoCh05G008850Watermelon (97103) v2cmowmbB803
CmoCh05G008850Wax gourdcmowgoB0930
CmoCh05G008850Cucurbita moschata (Rifu)cmocmoB157
CmoCh05G008850Cucurbita maxima (Rimu)cmacmoB197
CmoCh05G008850Cucurbita maxima (Rimu)cmacmoB787
CmoCh05G008850Cucurbita maxima (Rimu)cmacmoB789