CsaV3_3G005460 (gene) Cucumber (Chinese Long) v3 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CsaV3_3G005460
Type	gene
Organism	Cucumis sativus (Cucumber (Chinese Long) v3)
Description	Ribosomal RNA small subunit methyltransferase E
Location	chr3 : 4586022 .. 4586220 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideCDSexon

Hold the cursor over a type above to highlight its positions in the sequence below.

ATGGATGGTATAACCGAGAAATCTAGGGCTGTGACGAAGAATCCATCGCCATGTGATGTTGAAGCTCTCAAGAAATGTTTGCAGGAAAATAATGGCGATCGTGTCAAGTGCGAGTCTCAAATACAAGCCTTCATGTTTTCTTGTTCCCTAAAGAAATCAAATCCATCTTTGCAATCCGGGAGAAATGACTTCGACACCG

mRNA sequence

ATGGATGGTATAACCGAGAAATCTAGGGCTGTGACGAAGAATCCATCGCCATGTGATGTTGAAGCTCTCAAGAAATGTTTGCAGGAAAATAATGGCGATCGTGTCAAGTGCGAGTCTCAAATACAAGCCTTCATGTTTTCTTGTTCCCTAAAGAAATCAAATCCATCTTTGCAATCCGGGAGAAATGACTTCGACACCG

Coding sequence (CDS)

ATGGATGGTATAACCGAGAAATCTAGGGCTGTGACGAAGAATCCATCGCCATGTGATGTTGAAGCTCTCAAGAAATGTTTGCAGGAAAATAATGGCGATCGTGTCAAGTGCGAGTCTCAAATACAAGCCTTCATGTTTTCTTGTTCCCTAAAGAAATCAAATCCATCTTTGCAATCCGGGAGAAATGACTTCGACACCG

Protein sequence

MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKSNPSLQSGRNDFDTX

Homology

[Close]

BLAST of CsaV3_3G005460 vs. NCBI nr
Match: KGN56160.1 (hypothetical protein Csa_3G081365 [Cucumis sativus])

HSP 1 Score: 138.3 bits (347), Expect = 9.7e-30
Identity = 66/66 (100.00%), Postives = 66/66 (100.00%), Query Frame = 0


Query: 1  MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKSNPSLQSG 60
          MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKSNPSLQSG
Sbjct: 1  MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKSNPSLQSG 60

Query: 61 RNDFDT 67
          RNDFDT
Sbjct: 61 RNDFDT 66

[Close]

BLAST of CsaV3_3G005460 vs. NCBI nr
Match: ESR35195.1 (hypothetical protein CICLE_v10006392mg [Citrus clementina])

HSP 1 Score: 75.1 bits (183), Expect = 1.0e-10
Identity = 36/55 (65.45%), Postives = 43/55 (78.18%), Query Frame = 0


Query: 5  TEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKSNPSLQS 60
          T +S    K  SPCDVEALKKCL+EN GD VKC+SQI+AF  SCSLKK++ SL+S
Sbjct: 4  TAESNGAKKIMSPCDVEALKKCLEENKGDYVKCQSQIEAFKSSCSLKKASSSLES 58

[Close]

BLAST of CsaV3_3G005460 vs. NCBI nr
Match: KOM51282.1 (hypothetical protein LR48_Vigan08g210900 [Vigna angularis] >BAT91334.1 hypothetical protein VIGAN_06265400 [Vigna angularis var. angularis])

HSP 1 Score: 75.1 bits (183), Expect = 1.0e-10
Identity = 38/59 (64.41%), Postives = 42/59 (71.19%), Query Frame = 0


Query: 1  MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKSNPSLQS 60
          MD     S  V K  S CDVEALKKCL+EN GD VKC++QI+AF  SCSLKK NPSL S
Sbjct: 37 MDQKAGDSSTVKKINSACDVEALKKCLEENKGDYVKCQTQIEAFKSSCSLKKPNPSLDS 95

[Close]

BLAST of CsaV3_3G005460 vs. NCBI nr
Match: PPD82997.1 (hypothetical protein GOBAR_DD20100 [Gossypium barbadense])

HSP 1 Score: 75.1 bits (183), Expect = 1.0e-10
Identity = 36/47 (76.60%), Postives = 38/47 (80.85%), Query Frame = 0


Query: 13 KNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKSNPSLQS 60
          K PSPCDVEALKKCLQEN GD VKC+SQI+AF  SCSLKK  PS  S
Sbjct: 12 KIPSPCDVEALKKCLQENKGDYVKCQSQIEAFKSSCSLKKPTPSAGS 58

[Close]

BLAST of CsaV3_3G005460 vs. NCBI nr
Match: POF26711.1 (hypothetical protein CFP56_60860 [Quercus suber])

HSP 1 Score: 74.7 bits (182), Expect = 1.3e-10
Identity = 36/53 (67.92%), Postives = 41/53 (77.36%), Query Frame = 0


Query: 7  KSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKSNPSLQS 60
          +S  V K  SPCDVEALKKCL EN GD VKC+SQI+AF  SCS+KK NPS +S
Sbjct: 6  ESYTVKKIMSPCDVEALKKCLDENKGDYVKCQSQIEAFKSSCSIKKPNPSQES 58

[Close]

BLAST of CsaV3_3G005460 vs. TrEMBL
Match: tr|A0A0A0L2G8|A0A0A0L2G8_CUCSA (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G081365 PE=4 SV=1)

HSP 1 Score: 138.3 bits (347), Expect = 6.4e-30
Identity = 66/66 (100.00%), Postives = 66/66 (100.00%), Query Frame = 0


Query: 1  MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKSNPSLQSG 60
          MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKSNPSLQSG
Sbjct: 1  MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKSNPSLQSG 60

Query: 61 RNDFDT 67
          RNDFDT
Sbjct: 61 RNDFDT 66

[Close]

BLAST of CsaV3_3G005460 vs. TrEMBL
Match: tr|V4S8P1|V4S8P1_9ROSI (Uncharacterized protein OS=Citrus clementina OX=85681 GN=CICLE_v10006392mg PE=4 SV=1)

HSP 1 Score: 75.1 bits (183), Expect = 6.7e-11
Identity = 36/55 (65.45%), Postives = 43/55 (78.18%), Query Frame = 0


Query: 5  TEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKSNPSLQS 60
          T +S    K  SPCDVEALKKCL+EN GD VKC+SQI+AF  SCSLKK++ SL+S
Sbjct: 4  TAESNGAKKIMSPCDVEALKKCLEENKGDYVKCQSQIEAFKSSCSLKKASSSLES 58

[Close]

BLAST of CsaV3_3G005460 vs. TrEMBL
Match: tr|A0A0L9V8P8|A0A0L9V8P8_PHAAN (Uncharacterized protein OS=Phaseolus angularis OX=3914 GN=LR48_Vigan08g210900 PE=4 SV=1)

HSP 1 Score: 75.1 bits (183), Expect = 6.7e-11
Identity = 38/59 (64.41%), Postives = 42/59 (71.19%), Query Frame = 0


Query: 1  MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKSNPSLQS 60
          MD     S  V K  S CDVEALKKCL+EN GD VKC++QI+AF  SCSLKK NPSL S
Sbjct: 37 MDQKAGDSSTVKKINSACDVEALKKCLEENKGDYVKCQTQIEAFKSSCSLKKPNPSLDS 95

[Close]

BLAST of CsaV3_3G005460 vs. TrEMBL
Match: tr|A0A0S3SEQ9|A0A0S3SEQ9_PHAAN (Uncharacterized protein OS=Vigna angularis var. angularis OX=157739 GN=Vigan.06G265400 PE=4 SV=1)

HSP 1 Score: 75.1 bits (183), Expect = 6.7e-11
Identity = 38/59 (64.41%), Postives = 42/59 (71.19%), Query Frame = 0


Query: 1  MDGITEKSRAVTKNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKSNPSLQS 60
          MD     S  V K  S CDVEALKKCL+EN GD VKC++QI+AF  SCSLKK NPSL S
Sbjct: 37 MDQKAGDSSTVKKINSACDVEALKKCLEENKGDYVKCQTQIEAFKSSCSLKKPNPSLDS 95

[Close]

BLAST of CsaV3_3G005460 vs. TrEMBL
Match: tr|A0A2P5R8D9|A0A2P5R8D9_GOSBA (Uncharacterized protein OS=Gossypium barbadense OX=3634 GN=GOBAR_DD20100 PE=4 SV=1)

HSP 1 Score: 75.1 bits (183), Expect = 6.7e-11
Identity = 36/47 (76.60%), Postives = 38/47 (80.85%), Query Frame = 0


Query: 13 KNPSPCDVEALKKCLQENNGDRVKCESQIQAFMFSCSLKKSNPSLQS 60
          K PSPCDVEALKKCLQEN GD VKC+SQI+AF  SCSLKK  PS  S
Sbjct: 12 KIPSPCDVEALKKCLQENKGDYVKCQSQIEAFKSSCSLKKPTPSAGS 58

The following BLAST results are available for this feature:

BLAST of CsaV3_3G005460 vs. NCBI nr


Match Name	E-value	Identity	Description
KGN56160.1	9.7e-30	100.00	hypothetical protein Csa_3G081365 [Cucumis sativus]	[more]
ESR35195.1	1.0e-10	65.45	hypothetical protein CICLE_v10006392mg [Citrus clementina]	[more]
KOM51282.1	1.0e-10	64.41	hypothetical protein LR48_Vigan08g210900 [Vigna angularis] >BAT91334.1 hypotheti...	[more]
PPD82997.1	1.0e-10	76.60	hypothetical protein GOBAR_DD20100 [Gossypium barbadense]	[more]
POF26711.1	1.3e-10	67.92	hypothetical protein CFP56_60860 [Quercus suber]	[more]

BLAST of CsaV3_3G005460 vs. TAIR10


Match Name	E-value	Identity	Description

BLAST of CsaV3_3G005460 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CsaV3_3G005460 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|A0A0A0L2G8\|A0A0A0L2G8_CUCSA	6.4e-30	100.00	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G081365 PE=4 SV=1	[more]
tr\|V4S8P1\|V4S8P1_9ROSI	6.7e-11	65.45	Uncharacterized protein OS=Citrus clementina OX=85681 GN=CICLE_v10006392mg PE=4 ...	[more]
tr\|A0A0L9V8P8\|A0A0L9V8P8_PHAAN	6.7e-11	64.41	Uncharacterized protein OS=Phaseolus angularis OX=3914 GN=LR48_Vigan08g210900 PE...	[more]
tr\|A0A0S3SEQ9\|A0A0S3SEQ9_PHAAN	6.7e-11	64.41	Uncharacterized protein OS=Vigna angularis var. angularis OX=157739 GN=Vigan.06G...	[more]
tr\|A0A2P5R8D9\|A0A2P5R8D9_GOSBA	6.7e-11	76.60	Uncharacterized protein OS=Gossypium barbadense OX=3634 GN=GOBAR_DD20100 PE=4 SV...	[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:0008150	biological_process
biological_process	GO:0008152	metabolic process
biological_process	GO:0006810	transport
biological_process	GO:0032259	methylation
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0003674	molecular_function
molecular_function	GO:0016740	transferase activity
molecular_function	GO:0008168	methyltransferase activity

Relationships

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


Feature Name	Unique Name	Type
CsaV3_3G005460.1	CsaV3_3G005460.1	mRNA

InterPro

Analysis Name: InterPro Annotations of cucumber chineselong genome (v3)
Date Performed: 2019-03-04


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PANTHER	PTHR36856	FAMILY NOT NAMED	coord: 6..63
IPR009069	Cysteine alpha-hairpin motif superfamily	SUPERFAMILY	SSF47072	Cysteine alpha-hairpin motif	coord: 14..45

Synteny

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


Gene	Orthologue	Organism	Block
CsaV3_3G005460	Cucsa.059670	Cucumber (Gy14) v1	cgycucB046
CsaV3_3G005460	CmoCh04G010050	Cucurbita moschata (Rifu)	cmocucB0822
CsaV3_3G005460	Cla005269	Watermelon (97103) v1	cucwmB204
CsaV3_3G005460	MELO3C025428	Melon (DHL92) v3.5.1	cucmeB237
CsaV3_3G005460	ClCG10G005770	Watermelon (Charleston Gray)	cucwcgB194
CsaV3_3G005460	Lsi05G006330	Bottle gourd (USVL1VR-Ls)	cuclsiB217
CsaV3_3G005460	MELO3C025428.2	Melon (DHL92) v3.6.1	cucmedB234
CsaV3_3G005460	Cla97C10G189960	Watermelon (97103) v2	cucwmbB182
CsaV3_3G005460	Bhi11G000525	Wax gourd	cucwgoB223

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CsaV3_3G005460	Silver-seed gourd	carcucB0698
CsaV3_3G005460	Silver-seed gourd	carcucB0832
CsaV3_3G005460	Cucumber (Gy14) v2	cgybcucB117
CsaV3_3G005460	Cucurbita maxima (Rimu)	cmacucB0026
CsaV3_3G005460	Cucurbita maxima (Rimu)	cmacucB0382
CsaV3_3G005460	Cucurbita maxima (Rimu)	cmacucB0837
CsaV3_3G005460	Cucurbita moschata (Rifu)	cmocucB0014
CsaV3_3G005460	Cucurbita moschata (Rifu)	cmocucB0372
CsaV3_3G005460	Cucurbita pepo (Zucchini)	cpecucB0011
CsaV3_3G005460	Cucurbita pepo (Zucchini)	cpecucB0491
CsaV3_3G005460	Wild cucumber (PI 183967)	cpicucB144