CmoCh12G007900 (gene) Cucurbita moschata (Rifu) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CmoCh12G007900
Type	gene
Organism	Cucurbita moschata (Cucurbita moschata (Rifu))
Description	structural constituent of ribosome;protein binding
Location	Cmo_Chr12 : 6618678 .. 6619198 (+)

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.

ATGGAAAAACTTTTGTTCGTTGTAAGATCACTGAAGGAAGGGTTGGTCATAAATTTGGAGAGTTTGCTTCAACACAAAAACGAAGACTTTCGAGAACAAATATTGGACCGGGAAAAGAAAGGGGAGAAAGGCAAGGCGCATATGGCACGAAAAGGAAATCCGATTTCGGTAAGACTTGATCTGAATCGTAGTTCAGATTCAAGTTGGTTCAGTGAGGGCGACCGCAAAAGTCATCGAATAGGTCGTCTTTTCCTTTTGTCCTATATTGAAAATCAAAAAAGCGTGGGAGGACATTGCACAGATGTCCAGGACGGACACGACTTCTTCTAACGCTAGAAGACCACTGGAAGACACCCGGGACCAGAGCATGTCGTGAAAGAAGCACACTGGCCGTGCTTCGACCGTGTCTCTGGGGCACAGTTGAATGTAGATATCATGAACGCGAGGTGCAACCACTACCCTATGTGCTGATCGCTAGCGCATCCGGGGCCCCGGGGCCCAGCAGAGCTGGAGAGGCCTAG

mRNA sequence

ATGGAAAAACTTTTGTTCGTTGTAAGATCACTGAAGGAAGGGTTGGTCATAAATTTGGAGAGTTTGCTTCAACACAAAAACGAAGACTTTCGAGAACAAATATTGGACCGGGAAAAGAAAGGGGAGAAAGGCAAGGCGCATATGGCACGAAAAGGAAATCCGATTTCGGTAAGACTTGATCTGAATCGTAGTTCAGATTCAAGTTGGTTCAGTGAGGGCGACCGCAAAAGTCATCGAATAGGACGGACACGACTTCTTCTAACGCTAGAAGACCACTGGAAGACACCCGGGACCAGAGCATGTCGTGAAAGAAGCACACTGGCCGTGCTTCGACCGTGTCTCTGGGGCACAGTTGAATGTAGATATCATGAACGCGAGGTGCAACCACTACCCTATGTGCTGATCGCTAGCGCATCCGGGGCCCCGGGGCCCAGCAGAGCTGGAGAGGCCTAG

Coding sequence (CDS)

ATGGAAAAACTTTTGTTCGTTGTAAGATCACTGAAGGAAGGGTTGGTCATAAATTTGGAGAGTTTGCTTCAACACAAAAACGAAGACTTTCGAGAACAAATATTGGACCGGGAAAAGAAAGGGGAGAAAGGCAAGGCGCATATGGCACGAAAAGGAAATCCGATTTCGGTAAGACTTGATCTGAATCGTAGTTCAGATTCAAGTTGGTTCAGTGAGGGCGACCGCAAAAGTCATCGAATAGGACGGACACGACTTCTTCTAACGCTAGAAGACCACTGGAAGACACCCGGGACCAGAGCATGTCGTGAAAGAAGCACACTGGCCGTGCTTCGACCGTGTCTCTGGGGCACAGTTGAATGTAGATATCATGAACGCGAGGTGCAACCACTACCCTATGTGCTGATCGCTAGCGCATCCGGGGCCCCGGGGCCCAGCAGAGCTGGAGAGGCCTAG

Homology

[Close]

BLAST of CmoCh12G007900 vs. Swiss-Prot
Match: M690_ARATH (Uncharacterized ribosomal S3-like protein AtMg00690, mitochondrial OS=Arabidopsis thaliana GN=AtMg00690 PE=2 SV=2)

HSP 1 Score: 58.9 bits (141), Expect = 5.4e-08
Identity = 39/67 (58.21%), Postives = 44/67 (65.67%), Query Frame = 1


Query: 7  VVRSLKEGLVINLESLLQHKNEDFREQILDREKKGEKG--KAHMARKGNPISVRLDLNRS 66
          V+RSL+  LVINLES    K    R  I+   KKG+K     +MARKGNPI VRL  NRS
Sbjct: 5  VLRSLRGRLVINLEST--RKLRLSRTNIVPGRKKGQKSIKSKNMARKGNPILVRLGKNRS 64

Query: 67 SDSSWFS 72
          SDSSWFS
Sbjct: 65 SDSSWFS 69

[Close]

BLAST of CmoCh12G007900 vs. Swiss-Prot
Match: RT03_OENBE (Ribosomal protein S3, mitochondrial OS=Oenothera berteroana GN=RPS3 PE=3 SV=2)

HSP 1 Score: 52.8 bits (125), Expect = 3.9e-06
Identity = 24/25 (96.00%), Postives = 25/25 (100.00%), Query Frame = 1


Query: 48 MARKGNPISVRLDLNRSSDSSWFSE 73
          MARKGNPISVRLDLNRSSDSSWFS+
Sbjct: 1  MARKGNPISVRLDLNRSSDSSWFSD 25

[Close]

BLAST of CmoCh12G007900 vs. Swiss-Prot
Match: RT03_PETHY (Ribosomal protein S3, mitochondrial OS=Petunia hybrida GN=YRPS3 PE=2 SV=1)

HSP 1 Score: 52.0 bits (123), Expect = 6.6e-06
Identity = 24/24 (100.00%), Postives = 24/24 (100.00%), Query Frame = 1


Query: 48 MARKGNPISVRLDLNRSSDSSWFS 72
          MARKGNPISVRLDLNRSSDSSWFS
Sbjct: 1  MARKGNPISVRLDLNRSSDSSWFS 24

[Close]

BLAST of CmoCh12G007900 vs. TrEMBL
Match: B9TAP1_RICCO (Putative uncharacterized protein OS=Ricinus communis GN=RCOM_2111140 PE=4 SV=1)

HSP 1 Score: 95.1 bits (235), Expect = 7.6e-17
Identity = 54/82 (65.85%), Postives = 55/82 (67.07%), Query Frame = 1


Query: 48  MARKGNPISVRLDLNRSSDSSWFSEGDRKSHR----------------------IGRTRL 107
           MARKGNPISVRLDLNRSSDSS FSEGDR+SHR                       GRTRL
Sbjct: 1   MARKGNPISVRLDLNRSSDSSRFSEGDRESHRKWVSLFLCPILKKKSVGGRCRCPGRTRL 60

[Close]

BLAST of CmoCh12G007900 vs. TrEMBL
Match: Q1KK94_MAIZE (Putative uncharacterized protein orf159-a OS=Zea mays subsp. mays GN=orf159-a PE=4 SV=1)

HSP 1 Score: 92.8 bits (229), Expect = 3.8e-16
Identity = 52/82 (63.41%), Postives = 54/82 (65.85%), Query Frame = 1


Query: 48  MARKGNPISVRLDLNRSSDSSWFSEGDRKSHRI-----------------------GRTR 107
           MARKGNPISVRLDLNRSSD S FSEGDR+SHR+                       GRTR
Sbjct: 1   MARKGNPISVRLDLNRSSDPSRFSEGDRESHRMGSVRLFLIFVCPPKGVRGRCRCPGRTR 60

[Close]

BLAST of CmoCh12G007900 vs. TrEMBL
Match: Q1KKH3_MAIZE (Putative uncharacterized protein orf163-b OS=Zea mays subsp. mays GN=orf163-b PE=4 SV=1)

HSP 1 Score: 92.8 bits (229), Expect = 3.8e-16
Identity = 52/82 (63.41%), Postives = 54/82 (65.85%), Query Frame = 1


Query: 48  MARKGNPISVRLDLNRSSDSSWFSEGDRKSHRI-----------------------GRTR 107
           MARKGNPISVRLDLNRSSD S FSEGDR+SHR+                       GRTR
Sbjct: 1   MARKGNPISVRLDLNRSSDPSRFSEGDRESHRMGSVRLFLIFVCPPKGVRGRCRCPGRTR 60

[Close]

BLAST of CmoCh12G007900 vs. TrEMBL
Match: K7VAH0_MAIZE (Uncharacterized protein OS=Zea mays GN=orf127 PE=4 SV=1)

HSP 1 Score: 92.8 bits (229), Expect = 3.8e-16
Identity = 52/82 (63.41%), Postives = 54/82 (65.85%), Query Frame = 1


Query: 48  MARKGNPISVRLDLNRSSDSSWFSEGDRKSHRI-----------------------GRTR 107
           MARKGNPISVRLDLNRSSD S FSEGDR+SHR+                       GRTR
Sbjct: 1   MARKGNPISVRLDLNRSSDPSRFSEGDRESHRMGSVRLFLIFVCPPKGVRGRCRCPGRTR 60

[Close]

BLAST of CmoCh12G007900 vs. TrEMBL
Match: B9SU91_RICCO (Putative uncharacterized protein OS=Ricinus communis GN=RCOM_0571590 PE=4 SV=1)

HSP 1 Score: 75.9 bits (185), Expect = 4.8e-11
Identity = 46/81 (56.79%), Postives = 50/81 (61.73%), Query Frame = 1


Query: 48  MARKGNPISVRLDLNRSSDSSWFSEGDRKSH--------------RIGRTRLL------- 107
           MARKGNPISVRLDLNRSSDSS FSEGD +SH              + GRT  +       
Sbjct: 1   MARKGNPISVRLDLNRSSDSSRFSEGDCESHQKWASLFLCPILKKKRGRTLQMSGTDTTS 60

[Close]

BLAST of CmoCh12G007900 vs. TAIR10
Match: ATMG00690.1 (ATMG00690.1 hypothetical protein)

HSP 1 Score: 53.5 bits (127), Expect = 1.3e-07
Identity = 38/67 (56.72%), Postives = 43/67 (64.18%), Query Frame = 1


Query: 7  VVRSLKEGLVINLESLLQHKNEDFREQILDREKKGEKG--KAHMARKGNPISVRLDLNRS 66
          V+RSL+  LVINLES    K    R  I+   KKG+K     +MARKGNPI VRL  NRS
Sbjct: 5  VLRSLRGRLVINLEST--RKLRLSRTNIVPGRKKGQKSIKSKNMARKGNPILVRLGKNRS 64

Query: 67 SDSSWFS 72
          SDSS FS
Sbjct: 65 SDSSRFS 69

[Close]

BLAST of CmoCh12G007900 vs. NCBI nr
Match: gi|223523262|gb|EEF26991.1| (conserved hypothetical protein [Ricinus communis])

HSP 1 Score: 95.1 bits (235), Expect = 1.1e-16
Identity = 54/82 (65.85%), Postives = 55/82 (67.07%), Query Frame = 1


Query: 48  MARKGNPISVRLDLNRSSDSSWFSEGDRKSHR----------------------IGRTRL 107
           MARKGNPISVRLDLNRSSDSS FSEGDR+SHR                       GRTRL
Sbjct: 1   MARKGNPISVRLDLNRSSDSSRFSEGDRESHRKWVSLFLCPILKKKSVGGRCRCPGRTRL 60

[Close]

BLAST of CmoCh12G007900 vs. NCBI nr
Match: gi|93116112|gb|ABE98744.1| (hypothetical protein (mitochondrion) [Zea mays subsp. mays])

HSP 1 Score: 92.8 bits (229), Expect = 5.4e-16
Identity = 52/82 (63.41%), Postives = 54/82 (65.85%), Query Frame = 1


Query: 48  MARKGNPISVRLDLNRSSDSSWFSEGDRKSHRI-----------------------GRTR 107
           MARKGNPISVRLDLNRSSD S FSEGDR+SHR+                       GRTR
Sbjct: 1   MARKGNPISVRLDLNRSSDPSRFSEGDRESHRMGSVRLFLIFVCPPKGVRGRCRCPGRTR 60

[Close]

BLAST of CmoCh12G007900 vs. NCBI nr
Match: gi|93116068|gb|ABE98701.1| (hypothetical protein (mitochondrion) [Zea mays subsp. mays])

HSP 1 Score: 92.8 bits (229), Expect = 5.4e-16
Identity = 52/82 (63.41%), Postives = 54/82 (65.85%), Query Frame = 1


Query: 48  MARKGNPISVRLDLNRSSDSSWFSEGDRKSHRI-----------------------GRTR 107
           MARKGNPISVRLDLNRSSD S FSEGDR+SHR+                       GRTR
Sbjct: 1   MARKGNPISVRLDLNRSSDPSRFSEGDRESHRMGSVRLFLIFVCPPKGVRGRCRCPGRTR 60

[Close]

BLAST of CmoCh12G007900 vs. NCBI nr
Match: gi|223530972|gb|EEF32829.1| (conserved hypothetical protein [Ricinus communis])

HSP 1 Score: 75.9 bits (185), Expect = 6.8e-11
Identity = 46/81 (56.79%), Postives = 50/81 (61.73%), Query Frame = 1


Query: 48  MARKGNPISVRLDLNRSSDSSWFSEGDRKSH--------------RIGRTRLL------- 107
           MARKGNPISVRLDLNRSSDSS FSEGD +SH              + GRT  +       
Sbjct: 1   MARKGNPISVRLDLNRSSDSSRFSEGDCESHQKWASLFLCPILKKKRGRTLQMSGTDTTS 60

[Close]

BLAST of CmoCh12G007900 vs. NCBI nr
Match: gi|620598335|gb|AHY20324.1| (hypothetical protein (mitochondrion) (mitochondrion) [Brassica juncea var. tumida])

HSP 1 Score: 72.8 bits (177), Expect = 5.8e-10
Identity = 47/79 (59.49%), Postives = 55/79 (69.62%), Query Frame = 1


Query: 7  VVRSLKEGLVINLESLLQHKNEDFREQILDREKKGEKG--KAHMARKGNPISVRLDLNRS 66
          V+RSL+  LVINLES    K    R  I    KKG+K     +MARKGNPISVRL  NRS
Sbjct: 5  VLRSLRGRLVINLEST--RKLRLSRTNIGPGRKKGQKSIKSKNMARKGNPISVRLGKNRS 64

Query: 67 SDSSWFSEGDRKSHRIGRT 84
          SDSS FSEGDR+SHR+G++
Sbjct: 65 SDSSRFSEGDRESHRMGKS 81

The following BLAST results are available for this feature:

BLAST of CmoCh12G007900 vs. Swiss-Prot


Match Name	E-value	Identity	Description
M690_ARATH	5.4e-08	58.21	Uncharacterized ribosomal S3-like protein AtMg00690, mitochondrial OS=Arabidopsi...	[more]
RT03_OENBE	3.9e-06	96.00	Ribosomal protein S3, mitochondrial OS=Oenothera berteroana GN=RPS3 PE=3 SV=2	[more]
RT03_PETHY	6.6e-06	100.00	Ribosomal protein S3, mitochondrial OS=Petunia hybrida GN=YRPS3 PE=2 SV=1	[more]

BLAST of CmoCh12G007900 vs. TrEMBL


Match Name	E-value	Identity	Description
B9TAP1_RICCO	7.6e-17	65.85	Putative uncharacterized protein OS=Ricinus communis GN=RCOM_2111140 PE=4 SV=1	[more]
Q1KK94_MAIZE	3.8e-16	63.41	Putative uncharacterized protein orf159-a OS=Zea mays subsp. mays GN=orf159-a PE...	[more]
Q1KKH3_MAIZE	3.8e-16	63.41	Putative uncharacterized protein orf163-b OS=Zea mays subsp. mays GN=orf163-b PE...	[more]
K7VAH0_MAIZE	3.8e-16	63.41	Uncharacterized protein OS=Zea mays GN=orf127 PE=4 SV=1	[more]
B9SU91_RICCO	4.8e-11	56.79	Putative uncharacterized protein OS=Ricinus communis GN=RCOM_0571590 PE=4 SV=1	[more]

BLAST of CmoCh12G007900 vs. TAIR10


Match Name	E-value	Identity	Description
ATMG00690.1	1.3e-07	56.72	ATMG00690.1 hypothetical protein	[more]

BLAST of CmoCh12G007900 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|223523262\|gb\|EEF26991.1\|	1.1e-16	65.85	conserved hypothetical protein [Ricinus communis]	[more]
gi\|93116112\|gb\|ABE98744.1\|	5.4e-16	63.41	hypothetical protein (mitochondrion) [Zea mays subsp. mays]	[more]
gi\|93116068\|gb\|ABE98701.1\|	5.4e-16	63.41	hypothetical protein (mitochondrion) [Zea mays subsp. mays]	[more]
gi\|223530972\|gb\|EEF32829.1\|	6.8e-11	56.79	conserved hypothetical protein [Ricinus communis]	[more]
gi\|620598335\|gb\|AHY20324.1\|	5.8e-10	59.49	hypothetical protein (mitochondrion) (mitochondrion) [Brassica juncea var. tumid...	[more]

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0071897	DNA biosynthetic process
biological_process	GO:0051788	response to misfolded protein
biological_process	GO:0006260	DNA replication
biological_process	GO:0006412	translation
biological_process	GO:0042254	ribosome biogenesis
biological_process	GO:0006511	ubiquitin-dependent protein catabolic process
biological_process	GO:0080129	proteasome core complex assembly
biological_process	GO:0009853	photorespiration
biological_process	GO:0090305	nucleic acid phosphodiester bond hydrolysis
biological_process	GO:0006354	DNA-templated transcription, elongation
cellular_component	GO:0042575	DNA polymerase complex
cellular_component	GO:0015934	large ribosomal subunit
molecular_function	GO:0008408	3'-5' exonuclease activity
molecular_function	GO:0003677	DNA binding
molecular_function	GO:0003887	DNA-directed DNA polymerase activity
molecular_function	GO:0000166	nucleotide binding
molecular_function	GO:0003723	RNA binding
molecular_function	GO:0003735	structural constituent of ribosome

Relationships

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


Feature Name	Unique Name	Type
CmoCh12G007900.1	CmoCh12G007900.1	mRNA

Synteny

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


Gene	Orthologue	Organism	Block
CmoCh12G007900	CsaV3_UNG208620	Cucumber (Chinese Long) v3	cmocucB0194

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CmoCh12G007900	Cucurbita moschata (Rifu)	cmocmoB135
CmoCh12G007900	Cucumber (Gy14) v1	cgycmoB0593
CmoCh12G007900	Cucurbita maxima (Rimu)	cmacmoB177
CmoCh12G007900	Wild cucumber (PI 183967)	cmocpiB148
CmoCh12G007900	Cucumber (Chinese Long) v2	cmocuB148
CmoCh12G007900	Watermelon (Charleston Gray)	cmowcgB138
CmoCh12G007900	Watermelon (97103) v1	cmowmB154
CmoCh12G007900	Bottle gourd (USVL1VR-Ls)	cmolsiB158
CmoCh12G007900	Cucumber (Gy14) v2	cgybcmoB054
CmoCh12G007900	Melon (DHL92) v3.6.1	cmomedB151
CmoCh12G007900	Cucumber (Chinese Long) v3	cmocucB0172
CmoCh12G007900	Watermelon (97103) v2	cmowmbB145
CmoCh12G007900	Wax gourd	cmowgoB0214