CmoCh04G010050 (gene) Cucurbita moschata (Rifu) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CmoCh04G010050
Type	gene
Organism	Cucurbita moschata (Cucurbita moschata (Rifu))
Description	Ribosomal RNA small subunit methyltransferase E
Location	Cmo_Chr04 : 5067527 .. 5067733 (+)

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.

ATGGACGGCAAAACGCAAAAATCTAGGGCTGCGTTGATGAATCTATCGCCCTGCGATGTTGAAGCTCTCAGGAAATGTTTGCAGGAAAACAATGGGGATCGCATTAAGTGCGAGTCTCAAATACAAGCCTTCAAGTTGTCTTGCTCCCTGAAGAAACCAAATCCATCCTTGCAATCGGTAAGAGACGGCCTCGAGACTGGTGTTTGA

mRNA sequence

ATGGACGGCAAAACGCAAAAATCTAGGGCTGCGTTGATGAATCTATCGCCCTGCGATGTTGAAGCTCTCAGGAAATGTTTGCAGGAAAACAATGGGGATCGCATTAAGTGCGAGTCTCAAATACAAGCCTTCAAGTTGTCTTGCTCCCTGAAGAAACCAAATCCATCCTTGCAATCGGTAAGAGACGGCCTCGAGACTGGTGTTTGA

Coding sequence (CDS)

ATGGACGGCAAAACGCAAAAATCTAGGGCTGCGTTGATGAATCTATCGCCCTGCGATGTTGAAGCTCTCAGGAAATGTTTGCAGGAAAACAATGGGGATCGCATTAAGTGCGAGTCTCAAATACAAGCCTTCAAGTTGTCTTGCTCCCTGAAGAAACCAAATCCATCCTTGCAATCGGTAAGAGACGGCCTCGAGACTGGTGTTTGA

Homology

[Close]

BLAST of CmoCh04G010050 vs. TrEMBL
Match: A0A0A0L2G8_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_3G081365 PE=4 SV=1)

HSP 1 Score: 109.0 bits (271), Expect = 2.3e-21
Identity = 52/68 (76.47%), Postives = 57/68 (83.82%), Query Frame = 1


Query: 1  MDGKTQKSRAALMNLSPCDVEALRKCLQENNGDRIKCESQIQAFKLSCSLKKPNPSLQSV 60
          MDG T+KSRA   N SPCDVEAL+KCLQENNGDR+KCESQIQAF  SCSLKK NPSLQS 
Sbjct: 1  MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKSNPSLQSG 60

Query: 61 RDGLETGV 69
          R+  +TGV
Sbjct: 61 RNDFDTGV 68

[Close]

BLAST of CmoCh04G010050 vs. TrEMBL
Match: B9RIW7_RICCO (Putative uncharacterized protein OS=Ricinus communis GN=RCOM_1583260 PE=4 SV=1)

HSP 1 Score: 80.1 bits (196), Expect = 1.1e-12
Identity = 38/59 (64.41%), Postives = 47/59 (79.66%), Query Frame = 1


Query: 1  MDGKTQKSRAALMNLSPCDVEALRKCLQENNGDRIKCESQIQAFKLSCSLKKPNPSLQS 60
          MD K + S A  + LSPCDVEAL+KCL+EN GD +KC+SQI+AFK SCSLKKP PS+ +
Sbjct: 1  MDEKGESSSAKKV-LSPCDVEALKKCLEENKGDYVKCQSQIEAFKSSCSLKKPTPSMDT 58

[Close]

BLAST of CmoCh04G010050 vs. TrEMBL
Match: A0A067EDM2_CITSI (Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g035370mg PE=4 SV=1)

HSP 1 Score: 79.7 bits (195), Expect = 1.5e-12
Identity = 36/56 (64.29%), Postives = 46/56 (82.14%), Query Frame = 1


Query: 4  KTQKSRAALMNLSPCDVEALRKCLQENNGDRIKCESQIQAFKLSCSLKKPNPSLQS 60
          +T +S  A   +SPCDVEAL+KCL+EN GD +KC+SQI+AFK SCSLKKP+ SL+S
Sbjct: 3  ETAESNGAKKIMSPCDVEALKKCLEENKGDYVKCQSQIEAFKSSCSLKKPSSSLES 58

[Close]

BLAST of CmoCh04G010050 vs. TrEMBL
Match: A0A0D2TDZ1_GOSRA (Uncharacterized protein OS=Gossypium raimondii GN=B456_008G276000 PE=4 SV=1)

HSP 1 Score: 77.8 bits (190), Expect = 5.7e-12
Identity = 35/45 (77.78%), Postives = 39/45 (86.67%), Query Frame = 1


Query: 15 LSPCDVEALRKCLQENNGDRIKCESQIQAFKLSCSLKKPNPSLQS 60
          LSPCDVEAL+KCLQEN GD +KC+SQI+AFK SCSLKKP PS  S
Sbjct: 14 LSPCDVEALKKCLQENKGDYVKCQSQIEAFKSSCSLKKPTPSAGS 58

[Close]

BLAST of CmoCh04G010050 vs. TrEMBL
Match: A0A0L9V8P8_PHAAN (Uncharacterized protein OS=Phaseolus angularis GN=LR48_Vigan08g210900 PE=4 SV=1)

HSP 1 Score: 77.8 bits (190), Expect = 5.7e-12
Identity = 37/59 (62.71%), Postives = 43/59 (72.88%), Query Frame = 1


Query: 1  MDGKTQKSRAALMNLSPCDVEALRKCLQENNGDRIKCESQIQAFKLSCSLKKPNPSLQS 60
          MD K   S       S CDVEAL+KCL+EN GD +KC++QI+AFK SCSLKKPNPSL S
Sbjct: 37 MDQKAGDSSTVKKINSACDVEALKKCLEENKGDYVKCQTQIEAFKSSCSLKKPNPSLDS 95

[Close]

BLAST of CmoCh04G010050 vs. NCBI nr
Match: gi|700201027|gb|KGN56160.1| (hypothetical protein Csa_3G081365 [Cucumis sativus])

HSP 1 Score: 109.0 bits (271), Expect = 3.3e-21
Identity = 52/68 (76.47%), Postives = 57/68 (83.82%), Query Frame = 1


Query: 1  MDGKTQKSRAALMNLSPCDVEALRKCLQENNGDRIKCESQIQAFKLSCSLKKPNPSLQSV 60
          MDG T+KSRA   N SPCDVEAL+KCLQENNGDR+KCESQIQAF  SCSLKK NPSLQS 
Sbjct: 1  MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKSNPSLQSG 60

Query: 61 RDGLETGV 69
          R+  +TGV
Sbjct: 61 RNDFDTGV 68

[Close]

BLAST of CmoCh04G010050 vs. NCBI nr
Match: gi|223547594|gb|EEF49089.1| (conserved hypothetical protein [Ricinus communis])

HSP 1 Score: 80.1 bits (196), Expect = 1.6e-12
Identity = 38/59 (64.41%), Postives = 47/59 (79.66%), Query Frame = 1


Query: 1  MDGKTQKSRAALMNLSPCDVEALRKCLQENNGDRIKCESQIQAFKLSCSLKKPNPSLQS 60
          MD K + S A  + LSPCDVEAL+KCL+EN GD +KC+SQI+AFK SCSLKKP PS+ +
Sbjct: 1  MDEKGESSSAKKV-LSPCDVEALKKCLEENKGDYVKCQSQIEAFKSSCSLKKPTPSMDT 58

[Close]

BLAST of CmoCh04G010050 vs. NCBI nr
Match: gi|641832977|gb|KDO52000.1| (hypothetical protein CISIN_1g035370mg [Citrus sinensis])

HSP 1 Score: 79.7 bits (195), Expect = 2.1e-12
Identity = 36/56 (64.29%), Postives = 46/56 (82.14%), Query Frame = 1


Query: 4  KTQKSRAALMNLSPCDVEALRKCLQENNGDRIKCESQIQAFKLSCSLKKPNPSLQS 60
          +T +S  A   +SPCDVEAL+KCL+EN GD +KC+SQI+AFK SCSLKKP+ SL+S
Sbjct: 3  ETAESNGAKKIMSPCDVEALKKCLEENKGDYVKCQSQIEAFKSSCSLKKPSSSLES 58

[Close]

BLAST of CmoCh04G010050 vs. NCBI nr
Match: gi|920709285|gb|KOM51282.1| (hypothetical protein LR48_Vigan08g210900 [Vigna angularis])

HSP 1 Score: 77.8 bits (190), Expect = 8.2e-12
Identity = 37/59 (62.71%), Postives = 43/59 (72.88%), Query Frame = 1


Query: 1  MDGKTQKSRAALMNLSPCDVEALRKCLQENNGDRIKCESQIQAFKLSCSLKKPNPSLQS 60
          MD K   S       S CDVEAL+KCL+EN GD +KC++QI+AFK SCSLKKPNPSL S
Sbjct: 37 MDQKAGDSSTVKKINSACDVEALKKCLEENKGDYVKCQTQIEAFKSSCSLKKPNPSLDS 95

[Close]

BLAST of CmoCh04G010050 vs. NCBI nr
Match: gi|763785700|gb|KJB52771.1| (hypothetical protein B456_008G276000 [Gossypium raimondii])

HSP 1 Score: 77.8 bits (190), Expect = 8.2e-12
Identity = 35/45 (77.78%), Postives = 39/45 (86.67%), Query Frame = 1


Query: 15 LSPCDVEALRKCLQENNGDRIKCESQIQAFKLSCSLKKPNPSLQS 60
          LSPCDVEAL+KCLQEN GD +KC+SQI+AFK SCSLKKP PS  S
Sbjct: 14 LSPCDVEALKKCLQENKGDYVKCQSQIEAFKSSCSLKKPTPSAGS 58

The following BLAST results are available for this feature:

BLAST of CmoCh04G010050 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CmoCh04G010050 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0L2G8_CUCSA	2.3e-21	76.47	Uncharacterized protein OS=Cucumis sativus GN=Csa_3G081365 PE=4 SV=1	[more]
B9RIW7_RICCO	1.1e-12	64.41	Putative uncharacterized protein OS=Ricinus communis GN=RCOM_1583260 PE=4 SV=1	[more]
A0A067EDM2_CITSI	1.5e-12	64.29	Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g035370mg PE=4 SV=1	[more]
A0A0D2TDZ1_GOSRA	5.7e-12	77.78	Uncharacterized protein OS=Gossypium raimondii GN=B456_008G276000 PE=4 SV=1	[more]
A0A0L9V8P8_PHAAN	5.7e-12	62.71	Uncharacterized protein OS=Phaseolus angularis GN=LR48_Vigan08g210900 PE=4 SV=1	[more]

BLAST of CmoCh04G010050 vs. TAIR10


Match Name	E-value	Identity	Description

BLAST of CmoCh04G010050 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|700201027\|gb\|KGN56160.1\|	3.3e-21	76.47	hypothetical protein Csa_3G081365 [Cucumis sativus]	[more]
gi\|223547594\|gb\|EEF49089.1\|	1.6e-12	64.41	conserved hypothetical protein [Ricinus communis]	[more]
gi\|641832977\|gb\|KDO52000.1\|	2.1e-12	64.29	hypothetical protein CISIN_1g035370mg [Citrus sinensis]	[more]
gi\|920709285\|gb\|KOM51282.1\|	8.2e-12	62.71	hypothetical protein LR48_Vigan08g210900 [Vigna angularis]	[more]
gi\|763785700\|gb\|KJB52771.1\|	8.2e-12	77.78	hypothetical protein B456_008G276000 [Gossypium raimondii]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR009069	Cys_alpha_HP_mot_SF

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0032259	methylation
biological_process	GO:0006810	transport
biological_process	GO:0010089	xylem development
biological_process	GO:0005985	sucrose metabolic process
biological_process	GO:0005982	starch metabolic process
biological_process	GO:0009832	plant-type cell wall biogenesis
biological_process	GO:0045489	pectin biosynthetic process
biological_process	GO:0009117	nucleotide metabolic process
biological_process	GO:0010417	glucuronoxylan biosynthetic process
biological_process	GO:0071555	cell wall organization
biological_process	GO:0008152	metabolic process
cellular_component	GO:0005575	cellular_component
cellular_component	GO:0000139	Golgi membrane
cellular_component	GO:0016021	integral component of membrane
molecular_function	GO:0016740	transferase activity
molecular_function	GO:0008168	methyltransferase activity
molecular_function	GO:0047262	polygalacturonate 4-alpha-galacturonosyltransferase activity

Relationships

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


Feature Name	Unique Name	Type
CmoCh04G010050.1	CmoCh04G010050.1	mRNA

InterPro

Analysis Name: InterPro Annotations of Cucurbita moschata
Date Performed: 2017-05-19


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR009069	Cysteine alpha-hairpin motif superfamily	GENE3D	G3DSA:1.10.810.10		coord: 17..48 score: 3.
IPR009069	Cysteine alpha-hairpin motif superfamily	unknown	SSF47072	Cysteine alpha-hairpin motif	coord: 16..45 score: 3.1
None	No IPR available	PANTHER	PTHR36856	FAMILY NOT NAMED	coord: 7..68 score: 4.2

Synteny

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


Gene	Orthologue	Organism	Block
CmoCh04G010050	Cucsa.059670	Cucumber (Gy14) v1	cgycmoB0076
CmoCh04G010050	Cla005269	Watermelon (97103) v1	cmowmB653
CmoCh04G010050	MELO3C025428	Melon (DHL92) v3.5.1	cmomeB684
CmoCh04G010050	ClCG10G005770	Watermelon (Charleston Gray)	cmowcgB615
CmoCh04G010050	Lsi05G006330	Bottle gourd (USVL1VR-Ls)	cmolsiB684
CmoCh04G010050	MELO3C025428.2	Melon (DHL92) v3.6.1	cmomedB776
CmoCh04G010050	CsaV3_3G005460	Cucumber (Chinese Long) v3	cmocucB0822
CmoCh04G010050	Cla97C10G189960	Watermelon (97103) v2	cmowmbB689
CmoCh04G010050	Bhi11G000525	Wax gourd	cmowgoB0817

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


Gene	Paralogue	Organism	Block
CmoCh04G010050	CmoCh16G009170	Cucurbita moschata (Rifu)	cmocmoB290

The following block(s) are covering this gene:


Gene	Organism	Block
CmoCh04G010050	Wild cucumber (PI 183967)	cmocpiB703
CmoCh04G010050	Cucumber (Chinese Long) v2	cmocuB693
CmoCh04G010050	Cucurbita pepo (Zucchini)	cmocpeB644
CmoCh04G010050	Cucurbita pepo (Zucchini)	cmocpeB673
CmoCh04G010050	Bottle gourd (USVL1VR-Ls)	cmolsiB678
CmoCh04G010050	Bottle gourd (USVL1VR-Ls)	cmolsiB682
CmoCh04G010050	Cucumber (Gy14) v2	cgybcmoB393
CmoCh04G010050	Silver-seed gourd	carcmoB0923
CmoCh04G010050	Silver-seed gourd	carcmoB1070
CmoCh04G010050	Cucurbita moschata (Rifu)	cmocmoB285
CmoCh04G010050	Cucurbita maxima (Rimu)	cmacmoB337
CmoCh04G010050	Cucurbita maxima (Rimu)	cmacmoB728