Cla008069 (gene) Watermelon (97103) v1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Cla008069
Type	gene
Organism	Citrullus. lanatus (Watermelon (97103) v1)
Description	40S ribosomal protein S25-2 (AHRD V1 ***- F4IHJ8_ARATH); contains Interpro domain(s) IPR004977 Ribosomal protein S25
Location	Chr4 : 2624941 .. 2625947 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDS

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

ATGGTATTGTTTGATCAGGGAACCTATGACAAGCTTCTTTCAGAAGCTCCAAAGTTCAAGCTTATTACTCCGTCCATCCTTTCAGATAGATTAAGGGTATGGCTTGCTCAATCCCATTTGGCTTGCATCTTCACATGTTATAAATGCATGTCTTTTGATTGTGAAATATGGACTATGTTTCTTAATTTTTGTTTGAAATTTGTGTGCCTCGCACTACTTTACCCTTCAAACCCATCCTTAAAAATGGAATGGAAAAGAAATGGTGGTGGGTGATATAGGTTGAGCTTTCTTTCTCTGTTGTTATGAACTCCATTGTATGATAATCACATGATTTGAAATCTATGTCAAAGACTGCATATACTATAGTGGTATATATCGAACTCTATTTGTTAAATCTTCATTTAGTTAAATATGACATTGTATTTTTATATCCTCTGCTTCCCAAGCACGTGATCGGATTCGCTCCAGGGATGACTCAAATTACAGTTGCATAGTTTATGTATTGCAAATTACATTTTGATAATTTCTCTCCTGCTTTTACCTACCATATTCCAAATGTGTCGTAGATGCTGCAGCACTCCCATTTTTAAACTACGTATGTATCCATATGGTTAACACAGTTACAAAGTAATCTCTTTCAGTTTGATGTCATGTAAGCTCGGTGTTATATTATATTAATCCATGTGAGGATAAACAATTCTTCAACCACTTGAACTCACATTATTAAACCATAAGAGTAGGGTACCTTTTGTAACTATCACTTGATGTGAAGTATCTGATATGTTTCCTTTTTCTACAAGTGAAATTTTCTTTGGTTAGGATATCATTCCTGTGACTGATTCTATTTGGATGGATTGTTATGAAGATGTTTGTTGTTCTTTACTGTTCATCAGATCAATGGATCGTTGGCACGTCGGGCGATTAGGGATTTAATGGCAAGAGGTTCTATTAGGCTCGTATCTGCTCATTCTAGCCAGCAAATATACACTAGAGCCACTAATACATGA

mRNA sequence

ATGGTATTGTTTGATCAGGGAACCTATGACAAGCTTCTTTCAGAAGCTCCAAAGTTCAAGCTTATTACTCCGTCCATCCTTTCAGATAGATTAAGGATCAATGGATCGTTGGCACGTCGGGCGATTAGGGATTTAATGGCAAGAGGTTCTATTAGGCTCGTATCTGCTCATTCTAGCCAGCAAATATACACTAGAGCCACTAATACATGA

Coding sequence (CDS)

ATGGTATTGTTTGATCAGGGAACCTATGACAAGCTTCTTTCAGAAGCTCCAAAGTTCAAGCTTATTACTCCGTCCATCCTTTCAGATAGATTAAGGATCAATGGATCGTTGGCACGTCGGGCGATTAGGGATTTAATGGCAAGAGGTTCTATTAGGCTCGTATCTGCTCATTCTAGCCAGCAAATATACACTAGAGCCACTAATACATGA

Protein sequence

MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARRAIRDLMARGSIRLVSAHSSQQIYTRATNT

Homology

[Close]

BLAST of Cla008069 vs. Swiss-Prot
Match: RS252_ARATH (40S ribosomal protein S25-2 OS=Arabidopsis thaliana GN=RPS25B PE=2 SV=1)

HSP 1 Score: 126.3 bits (316), Expect = 1.3e-28
Identity = 63/69 (91.30%), Postives = 66/69 (95.65%), Query Frame = 1


Query: 1   MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARRAIRDLMARGSIRLVSAHSSQ 60
           MVLFDQGTYDKLL+EAPKFKLITPSILSDR+RINGSLARRAIR+LMA+G IR+VSAHSSQ
Sbjct: 40  MVLFDQGTYDKLLTEAPKFKLITPSILSDRMRINGSLARRAIRELMAKGLIRMVSAHSSQ 99

Query: 61  QIYTRATNT 70
           QIYTRATNT
Sbjct: 100 QIYTRATNT 108

[Close]

BLAST of Cla008069 vs. Swiss-Prot
Match: RS25_SOLLC (40S ribosomal protein S25 OS=Solanum lycopersicum GN=RPS25 PE=3 SV=1)

HSP 1 Score: 123.6 bits (309), Expect = 8.2e-28
Identity = 61/69 (88.41%), Postives = 66/69 (95.65%), Query Frame = 1


Query: 1   MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARRAIRDLMARGSIRLVSAHSSQ 60
           MVLFD+ TYDKLLSEAPK+KLITPS+LSDRLRI+GSLAR+AIRDLMARGSIR+VSAH+SQ
Sbjct: 40  MVLFDKSTYDKLLSEAPKYKLITPSVLSDRLRISGSLARKAIRDLMARGSIRMVSAHASQ 99

Query: 61  QIYTRATNT 70
           QIYTRATNT
Sbjct: 100 QIYTRATNT 108

[Close]

BLAST of Cla008069 vs. Swiss-Prot
Match: RS253_ARATH (40S ribosomal protein S25-3 OS=Arabidopsis thaliana GN=RPS25D PE=3 SV=2)

HSP 1 Score: 123.2 bits (308), Expect = 1.1e-27
Identity = 62/68 (91.18%), Postives = 65/68 (95.59%), Query Frame = 1


Query: 1   MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARRAIRDLMARGSIRLVSAHSSQ 60
           MVLFDQ TYDKLLSEAPKFKLITPSILSDRLRINGSLARRAIR+LMA+G+IR+VSAHSSQ
Sbjct: 40  MVLFDQATYDKLLSEAPKFKLITPSILSDRLRINGSLARRAIRELMAKGTIRMVSAHSSQ 99

Query: 61  QIYTRATN 69
           QIYTRAT+
Sbjct: 100 QIYTRATH 107

[Close]

BLAST of Cla008069 vs. Swiss-Prot
Match: RS254_ARATH (40S ribosomal protein S25-4 OS=Arabidopsis thaliana GN=RPS25E PE=2 SV=1)

HSP 1 Score: 122.9 bits (307), Expect = 1.4e-27
Identity = 61/69 (88.41%), Postives = 65/69 (94.20%), Query Frame = 1


Query: 1   MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARRAIRDLMARGSIRLVSAHSSQ 60
           MVLFDQ TYDKLL+EAPKFKLITPSILSDR+RINGSLARRAIR+LMA+G IR+V+AHSSQ
Sbjct: 40  MVLFDQATYDKLLTEAPKFKLITPSILSDRMRINGSLARRAIRELMAKGVIRMVAAHSSQ 99

Query: 61  QIYTRATNT 70
           QIYTRATNT
Sbjct: 100 QIYTRATNT 108

[Close]

BLAST of Cla008069 vs. Swiss-Prot
Match: RS251_ARATH (40S ribosomal protein S25-1 OS=Arabidopsis thaliana GN=RPS25A PE=3 SV=3)

HSP 1 Score: 115.9 bits (289), Expect = 1.7e-25
Identity = 58/67 (86.57%), Postives = 61/67 (91.04%), Query Frame = 1


Query: 1   MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARRAIRDLMARGSIRLVSAHSSQ 60
           MVLFDQ TYDKL+SEAPKFKLITPSILSDRLRINGSLAR+AIRDLM +G+IR+VS HSSQ
Sbjct: 40  MVLFDQATYDKLMSEAPKFKLITPSILSDRLRINGSLARKAIRDLMVKGTIRMVSTHSSQ 99

Query: 61  QIYTRAT 68
           QI TRAT
Sbjct: 100 QINTRAT 106

[Close]

BLAST of Cla008069 vs. TrEMBL
Match: B0BLI2_LOTJA (CM0216.350.nc protein (Fragment) OS=Lotus japonicus GN=CM0216.350.nc PE=4 SV=1)

HSP 1 Score: 130.2 bits (326), Expect = 9.8e-28
Identity = 65/69 (94.20%), Postives = 69/69 (100.00%), Query Frame = 1


Query: 1   MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARRAIRDLMARGSIRLVSAHSSQ 60
           MVLFDQGTYDKLLSEAPKFKLITPSILSDRLR+NGSLARRAIR+LMARGSIR+VSAH+SQ
Sbjct: 40  MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRVNGSLARRAIRELMARGSIRMVSAHASQ 99

Query: 61  QIYTRATNT 70
           QIYTRATNT
Sbjct: 100 QIYTRATNT 108

[Close]

BLAST of Cla008069 vs. TrEMBL
Match: I3TAL6_LOTJA (Uncharacterized protein OS=Lotus japonicus PE=2 SV=1)

HSP 1 Score: 130.2 bits (326), Expect = 9.8e-28
Identity = 65/69 (94.20%), Postives = 69/69 (100.00%), Query Frame = 1


Query: 1   MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARRAIRDLMARGSIRLVSAHSSQ 60
           MVLFDQGTYDKLLSEAPKFKLITPSILSDRLR+NGSLARRAIR+LMARGSIR+VSAH+SQ
Sbjct: 40  MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRVNGSLARRAIRELMARGSIRMVSAHASQ 99

Query: 61  QIYTRATNT 70
           QIYTRATNT
Sbjct: 100 QIYTRATNT 108

[Close]

BLAST of Cla008069 vs. TrEMBL
Match: C6TBE7_SOYBN (Putative uncharacterized protein OS=Glycine max PE=2 SV=1)

HSP 1 Score: 129.4 bits (324), Expect = 1.7e-27
Identity = 65/69 (94.20%), Postives = 69/69 (100.00%), Query Frame = 1


Query: 1   MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARRAIRDLMARGSIRLVSAHSSQ 60
           MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLAR+AIR+LMARGSIR+VSAH+SQ
Sbjct: 40  MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARKAIRELMARGSIRMVSAHASQ 99

Query: 61  QIYTRATNT 70
           QIYTRATNT
Sbjct: 100 QIYTRATNT 108

[Close]

BLAST of Cla008069 vs. TrEMBL
Match: I1LJB4_SOYBN (Uncharacterized protein OS=Glycine max GN=GLYMA_11G115400 PE=4 SV=2)

HSP 1 Score: 129.4 bits (324), Expect = 1.7e-27
Identity = 65/69 (94.20%), Postives = 69/69 (100.00%), Query Frame = 1


Query: 1   MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARRAIRDLMARGSIRLVSAHSSQ 60
           MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLAR+AIR+LMARGSIR+VSAH+SQ
Sbjct: 37  MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARKAIRELMARGSIRMVSAHASQ 96

Query: 61  QIYTRATNT 70
           QIYTRATNT
Sbjct: 97  QIYTRATNT 105

[Close]

BLAST of Cla008069 vs. TrEMBL
Match: A0A0A0KYW1_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_4G571760 PE=4 SV=1)

HSP 1 Score: 129.4 bits (324), Expect = 1.7e-27
Identity = 64/69 (92.75%), Postives = 69/69 (100.00%), Query Frame = 1


Query: 1   MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARRAIRDLMARGSIRLVSAHSSQ 60
           MVLFDQGTYDKL+SEAPKFKLITP+I+SDRLRINGSLARRAI+DLMARGSIRL+SAHSSQ
Sbjct: 40  MVLFDQGTYDKLVSEAPKFKLITPAIISDRLRINGSLARRAIKDLMARGSIRLISAHSSQ 99

Query: 61  QIYTRATNT 70
           QIYTRATNT
Sbjct: 100 QIYTRATNT 108

[Close]

BLAST of Cla008069 vs. NCBI nr
Match: gi|659083221|ref|XP_008442240.1| (PREDICTED: 40S ribosomal protein S25-2 [Cucumis melo])

HSP 1 Score: 132.5 bits (332), Expect = 2.8e-28
Identity = 67/69 (97.10%), Postives = 69/69 (100.00%), Query Frame = 1


Query: 1   MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARRAIRDLMARGSIRLVSAHSSQ 60
           MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARRAI+DLMARGSIRL+SAHSSQ
Sbjct: 40  MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARRAIKDLMARGSIRLISAHSSQ 99

Query: 61  QIYTRATNT 70
           QIYTRATNT
Sbjct: 100 QIYTRATNT 108

[Close]

BLAST of Cla008069 vs. NCBI nr
Match: gi|470110659|ref|XP_004291591.1| (PREDICTED: 40S ribosomal protein S25-2 [Fragaria vesca subsp. vesca])

HSP 1 Score: 130.6 bits (327), Expect = 1.1e-27
Identity = 65/69 (94.20%), Postives = 69/69 (100.00%), Query Frame = 1


Query: 1   MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARRAIRDLMARGSIRLVSAHSSQ 60
           MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARRAI+DLMARGSIR++SAH+SQ
Sbjct: 40  MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARRAIKDLMARGSIRMISAHASQ 99

Query: 61  QIYTRATNT 70
           QIYTRATNT
Sbjct: 100 QIYTRATNT 108

[Close]

BLAST of Cla008069 vs. NCBI nr
Match: gi|388504588|gb|AFK40360.1| (unknown [Lotus japonicus])

HSP 1 Score: 130.2 bits (326), Expect = 1.4e-27
Identity = 65/69 (94.20%), Postives = 69/69 (100.00%), Query Frame = 1


Query: 1   MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARRAIRDLMARGSIRLVSAHSSQ 60
           MVLFDQGTYDKLLSEAPKFKLITPSILSDRLR+NGSLARRAIR+LMARGSIR+VSAH+SQ
Sbjct: 40  MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRVNGSLARRAIRELMARGSIRMVSAHASQ 99

Query: 61  QIYTRATNT 70
           QIYTRATNT
Sbjct: 100 QIYTRATNT 108

[Close]

BLAST of Cla008069 vs. NCBI nr
Match: gi|164564736|dbj|BAF98218.1| (CM0216.350.nc, partial [Lotus japonicus])

HSP 1 Score: 130.2 bits (326), Expect = 1.4e-27
Identity = 65/69 (94.20%), Postives = 69/69 (100.00%), Query Frame = 1


Query: 1   MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARRAIRDLMARGSIRLVSAHSSQ 60
           MVLFDQGTYDKLLSEAPKFKLITPSILSDRLR+NGSLARRAIR+LMARGSIR+VSAH+SQ
Sbjct: 40  MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRVNGSLARRAIRELMARGSIRMVSAHASQ 99

Query: 61  QIYTRATNT 70
           QIYTRATNT
Sbjct: 100 QIYTRATNT 108

[Close]

BLAST of Cla008069 vs. NCBI nr
Match: gi|947080634|gb|KRH29423.1| (hypothetical protein GLYMA_11G115400 [Glycine max])

HSP 1 Score: 129.4 bits (324), Expect = 2.4e-27
Identity = 65/69 (94.20%), Postives = 69/69 (100.00%), Query Frame = 1


Query: 1   MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARRAIRDLMARGSIRLVSAHSSQ 60
           MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLAR+AIR+LMARGSIR+VSAH+SQ
Sbjct: 37  MVLFDQGTYDKLLSEAPKFKLITPSILSDRLRINGSLARKAIRELMARGSIRMVSAHASQ 96

Query: 61  QIYTRATNT 70
           QIYTRATNT
Sbjct: 97  QIYTRATNT 105

The following BLAST results are available for this feature:

BLAST of Cla008069 vs. Swiss-Prot


Match Name	E-value	Identity	Description
RS252_ARATH	1.3e-28	91.30	40S ribosomal protein S25-2 OS=Arabidopsis thaliana GN=RPS25B PE=2 SV=1	[more]
RS25_SOLLC	8.2e-28	88.41	40S ribosomal protein S25 OS=Solanum lycopersicum GN=RPS25 PE=3 SV=1	[more]
RS253_ARATH	1.1e-27	91.18	40S ribosomal protein S25-3 OS=Arabidopsis thaliana GN=RPS25D PE=3 SV=2	[more]
RS254_ARATH	1.4e-27	88.41	40S ribosomal protein S25-4 OS=Arabidopsis thaliana GN=RPS25E PE=2 SV=1	[more]
RS251_ARATH	1.7e-25	86.57	40S ribosomal protein S25-1 OS=Arabidopsis thaliana GN=RPS25A PE=3 SV=3	[more]

BLAST of Cla008069 vs. TrEMBL


Match Name	E-value	Identity	Description
B0BLI2_LOTJA	9.8e-28	94.20	CM0216.350.nc protein (Fragment) OS=Lotus japonicus GN=CM0216.350.nc PE=4 SV=1	[more]
I3TAL6_LOTJA	9.8e-28	94.20	Uncharacterized protein OS=Lotus japonicus PE=2 SV=1	[more]
C6TBE7_SOYBN	1.7e-27	94.20	Putative uncharacterized protein OS=Glycine max PE=2 SV=1	[more]
I1LJB4_SOYBN	1.7e-27	94.20	Uncharacterized protein OS=Glycine max GN=GLYMA_11G115400 PE=4 SV=2	[more]
A0A0A0KYW1_CUCSA	1.7e-27	92.75	Uncharacterized protein OS=Cucumis sativus GN=Csa_4G571760 PE=4 SV=1	[more]

BLAST of Cla008069 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|659083221\|ref\|XP_008442240.1\|	2.8e-28	97.10	PREDICTED: 40S ribosomal protein S25-2 [Cucumis melo]	[more]
gi\|470110659\|ref\|XP_004291591.1\|	1.1e-27	94.20	PREDICTED: 40S ribosomal protein S25-2 [Fragaria vesca subsp. vesca]	[more]
gi\|388504588\|gb\|AFK40360.1\|	1.4e-27	94.20	unknown [Lotus japonicus]	[more]
gi\|164564736\|dbj\|BAF98218.1\|	1.4e-27	94.20	CM0216.350.nc, partial [Lotus japonicus]	[more]
gi\|947080634\|gb\|KRH29423.1\|	2.4e-27	94.20	hypothetical protein GLYMA_11G115400 [Glycine max]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR004977	Ribosomal_S25

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:0009658	chloroplast organization
biological_process	GO:0009662	etioplast organization
biological_process	GO:0016310	phosphorylation
biological_process	GO:0006355	regulation of transcription, DNA-templated
biological_process	GO:0042793	transcription from plastid promoter
cellular_component	GO:0005840	ribosome
cellular_component	GO:0042644	chloroplast nucleoid
cellular_component	GO:0000427	plastid-encoded plastid RNA polymerase complex
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0003674	molecular_function
molecular_function	GO:0016301	kinase activity

Unigene

This gene is associated with the following unigenes:


Unigene Name	Analysis Name	Sequence type in Unigene
WMU36888	watermelon unigene v2 vs TrEMBL	transcribed_cluster
WMU49590	watermelon EST collection version 2.0	transcribed_cluster
WMU59166	watermelon EST collection version 2.0	transcribed_cluster
WMU60767	watermelon EST collection version 2.0	transcribed_cluster

Relationships

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


Feature Name	Unique Name	Type
Cla008069	Cla008069.1	mRNA

The following transcribed_cluster feature(s) are associated with this gene:


Feature Name	Unique Name	Type
WMU49590	WMU49590	transcribed_cluster
WMU36888	WMU36888	transcribed_cluster
WMU59166	WMU59166	transcribed_cluster
WMU60767	WMU60767	transcribed_cluster

InterPro

Analysis Name: InterPro Annotations of watermelon (97103)
Date Performed: 2016-09-28


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR004977	Ribosomal protein S25	PRODOM	PD012268		coord: 1..68 score: 7.0
IPR004977	Ribosomal protein S25	PANTHER	PTHR12850	FAMILY NOT NAMED	coord: 1..69 score: 5.4
IPR004977	Ribosomal protein S25	PFAM	PF03297	Ribosomal_S25	coord: 1..66 score: 9.3

Synteny

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


Gene	Orthologue	Organism	Block
Cla008069	Cla97C04G068980	Watermelon (97103) v2	wmwmbB297
Cla008069	Csa4G571760	Cucumber (Chinese Long) v2	cuwmB334
Cla008069	MELO3C009036	Melon (DHL92) v3.5.1	mewmB579
Cla008069	ClCG04G000630	Watermelon (Charleston Gray)	wcgwmB260
Cla008069	CSPI04G21020	Wild cucumber (PI 183967)	cpiwmB338
Cla008069	Cucsa.357230	Cucumber (Gy14) v1	cgywmB644
Cla008069	CmaCh03G000920	Cucurbita maxima (Rimu)	cmawmB641
Cla008069	CmoCh03G000980	Cucurbita moschata (Rifu)	cmowmB634
Cla008069	Lsi01G019250	Bottle gourd (USVL1VR-Ls)	lsiwmB153
Cla008069	Cp4.1LG10g11870	Cucurbita pepo (Zucchini)	cpewmB080
Cla008069	CsGy4G019690	Cucumber (Gy14) v2	cgybwmB308
Cla008069	MELO3C009036.2	Melon (DHL92) v3.6.1	medwmB569
Cla008069	CsaV3_4G031420	Cucumber (Chinese Long) v3	cucwmB348

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
Cla008069	Silver-seed gourd	carwmB0274
Cla008069	Wax gourd	wgowmB454
Cla008069	Cucurbita maxima (Rimu)	cmawmB828
Cla008069	Cucurbita moschata (Rifu)	cmowmB819
Cla008069	Cucurbita pepo (Zucchini)	cpewmB493