CSPI03G21620 (gene) Wild cucumber (PI 183967) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CSPI03G21620
Type	gene
Organism	Cucumis sativus (Wild cucumber (PI 183967))
Description	Retrotransposon protein, putative, Ty3-gypsy subclass
Location	Chr3 : 17915161 .. 17915768 (+)

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.

ATGAAATATGATAGGTTGTGTGTCCCTAGAAACCAAGGCATAAAAGATCAAATTTTAGAGGAAGCATATAGTTCTGCATATGATATTCATTCTGGCAGTACAAAGATGTATAGAACTTTAAAGAAGCACTATTGGTGGCTTGGTATGAAGCGTGAAACTGCAGAATATGTAGTTAAGTGTTTAATCTATCAACAAGTTAAACCTGAATGATAGATAGCAGCAGAAATTTTAAACGTACTTCTAGTGCTGAAATGGAAATGGAAACATGTTACCATGGACTTTTTATTTGGACTTCCTCGCACATCGAGTGGGTTTGATGGCATTTGGGTGATAGTTGACAGACTTACAAAGACAACAAGATTTTGACTAGTGAAGGTCACTTTCACCTTCGATAAGTTGGCCAAATTGTAGATTAGTAAGATTGTAAGTGCGAATGGAGCTCCCGTATCTATTATGTCTAATAGAGATTCCAAGTTTACCCTAAAGTTTTGTCTGAGTTTGCAACAAGTAATGGGCACCAATTTACATTTCAGTACCAGATTTCGTCCTCTGATATATTGTCAATCATAAAGAACCAAGACCTTGGAAGATATGCTTCAAGCTTGTGA

mRNA sequence

ATGAAATATGATAGGTTGTGTGTCCCTAGAAACCAAGGCATAAAAGATCAAATTTTAGAGGAAGCATATAGTTCTGCATATGATATTCATTCTGGCAGTACAAAGATGTATAGAACTTTAAAGAAGCACTATTGGTGGCTTGTGCTGAAATGGAAATGGAAACATGTTACCATGGACTTTTTATTTGGACTTCCTCGCACATCGAGTGGGTTTGATGGCATTTGGAGATTCCAAGTTTACCCTAAAGTTTTGTCTGAGTTTGCAACAAGTAATGGGCACCAATTTACATTTCAGTACCAGATTTCGTCCTCTGATATATTGTCAATCATAAAGAACCAAGACCTTGGAAGATATGCTTCAAGCTTGTGA

Coding sequence (CDS)

ATGAAATATGATAGGTTGTGTGTCCCTAGAAACCAAGGCATAAAAGATCAAATTTTAGAGGAAGCATATAGTTCTGCATATGATATTCATTCTGGCAGTACAAAGATGTATAGAACTTTAAAGAAGCACTATTGGTGGCTTGTGCTGAAATGGAAATGGAAACATGTTACCATGGACTTTTTATTTGGACTTCCTCGCACATCGAGTGGGTTTGATGGCATTTGGAGATTCCAAGTTTACCCTAAAGTTTTGTCTGAGTTTGCAACAAGTAATGGGCACCAATTTACATTTCAGTACCAGATTTCGTCCTCTGATATATTGTCAATCATAAAGAACCAAGACCTTGGAAGATATGCTTCAAGCTTGTGA

Homology

[Close]

BLAST of CSPI03G21620 vs. TrEMBL
Match: Q8S656_ORYSJ (Putative Sorghum bicolor 22 kDa kafirin cluster OS=Oryza sativa subsp. japonica GN=OSJNBa0004A10.12 PE=4 SV=1)

HSP 1 Score: 97.8 bits (242), Expect = 9.6e-18
Identity = 42/74 (56.76%), Postives = 55/74 (74.32%), Query Frame = 1


Query: 4   DRLCVPRNQGIKDQILEEAYSSAYDIHSGSTKMYRTLKKHYWW--LVLKWKWKHVTMDFL 63
           +RLCVP N+ +KD IL EA+ + Y IH GSTKMY+ LK+ +WW   + +WKW+ + MDF+
Sbjct: 731 ERLCVPENKELKDLILTEAHQTQYSIHPGSTKMYQDLKEKFWWPLQIPEWKWEEIGMDFI 790

Query: 64  FGLPRTSSGFDGIW 76
            GLPRTSSG D IW
Sbjct: 791 TGLPRTSSGHDSIW 804

[Close]

BLAST of CSPI03G21620 vs. TrEMBL
Match: Q7XXG1_ORYSJ (OSJNBb0089K24.9 protein OS=Oryza sativa subsp. japonica GN=OSJNBb0089K24.9 PE=4 SV=2)

HSP 1 Score: 95.9 bits (237), Expect = 3.6e-17
Identity = 42/83 (50.60%), Postives = 56/83 (67.47%), Query Frame = 1


Query: 4   DRLCVPRNQGIKDQILEEAYSSAYDIHSGSTKMYRTLKKHYWWLVLK-----------WK 63
           +R+CVP N+ +KD IL+EA+ + Y IH GSTKMY+ LK+ +WW  +K           WK
Sbjct: 899 ERMCVPDNRELKDTILKEAHDTLYSIHPGSTKMYQDLKEKFWWASMKREIAEYVAISEWK 958

Query: 64  WKHVTMDFLFGLPRTSSGFDGIW 76
           W+ + MDF+ GLPRTSSG D IW
Sbjct: 959 WEEIGMDFITGLPRTSSGHDSIW 981

[Close]

BLAST of CSPI03G21620 vs. TrEMBL
Match: Q75GY7_ORYSJ (Putative polyprotein OS=Oryza sativa subsp. japonica GN=LOC_Os03g46170 PE=4 SV=1)

HSP 1 Score: 95.5 bits (236), Expect = 4.8e-17
Identity = 42/86 (48.84%), Postives = 56/86 (65.12%), Query Frame = 1


Query: 4    DRLCVPRNQGIKDQILEEAYSSAYDIHSGSTKMYRTLKKHYWWLVLK------------- 63
            +R+CVP N+ +KD IL+EA+ + Y IH GSTKMY+ LK+ +WW  +K             
Sbjct: 959  ERICVPENKELKDAILKEAHDTLYSIHPGSTKMYQDLKEKFWWASMKREIAEYVAPLKIP 1018

Query: 64   -WKWKHVTMDFLFGLPRTSSGFDGIW 76
             WKW+ + MDF+ GLPRTSSG D IW
Sbjct: 1019 EWKWEEIGMDFITGLPRTSSGHDSIW 1044

[Close]

BLAST of CSPI03G21620 vs. TrEMBL
Match: Q2QRU8_ORYSJ (Retrotransposon protein, putative, Ty3-gypsy subclass OS=Oryza sativa subsp. japonica GN=LOC_Os12g26340 PE=4 SV=2)

HSP 1 Score: 95.5 bits (236), Expect = 4.8e-17
Identity = 40/77 (51.95%), Postives = 55/77 (71.43%), Query Frame = 1


Query: 5    RLCVPRNQGIKDQILEEAYSSAYDIHSGSTKMYRTLKKHYWWLVLK------WKWKHVTM 64
            R+CVP  + ++D IL+EA+ SAY IH GSTKMY+ +K ++WW  +K      WKW+ + M
Sbjct: 1282 RICVPAKKELRDLILKEAHESAYSIHPGSTKMYQDIKAYFWWAGMKRDVAEYWKWEEIGM 1341

Query: 65   DFLFGLPRTSSGFDGIW 76
            DF+ GLPRT SG+D IW
Sbjct: 1342 DFITGLPRTPSGYDSIW 1358

[Close]

BLAST of CSPI03G21620 vs. TrEMBL
Match: Q7XXI0_ORYSJ (OSJNBa0059H15.9 protein OS=Oryza sativa subsp. japonica GN=OSJNBa0059H15.9 PE=4 SV=2)

HSP 1 Score: 95.1 bits (235), Expect = 6.2e-17
Identity = 42/86 (48.84%), Postives = 56/86 (65.12%), Query Frame = 1


Query: 4   DRLCVPRNQGIKDQILEEAYSSAYDIHSGSTKMYRTLKKHYWWLVLK------------- 63
           +R+CVP N+ +KD IL+EA+ + Y IH GSTKMY+ LK+ +WW  +K             
Sbjct: 466 ERICVPDNKDLKDAILKEAHDTLYSIHPGSTKMYQDLKERFWWANMKREIAEYVAPLKIP 525

Query: 64  -WKWKHVTMDFLFGLPRTSSGFDGIW 76
            WKW+ + MDF+ GLPRTSSG D IW
Sbjct: 526 EWKWEEIGMDFITGLPRTSSGHDSIW 551

[Close]

BLAST of CSPI03G21620 vs. NCBI nr
Match: gi|19881707|gb|AAM01108.1|AC098682_12 (Putative Sorghum bicolor 22 kDa kafirin cluster [Oryza sativa Japonica Group])

HSP 1 Score: 97.8 bits (242), Expect = 1.4e-17
Identity = 42/74 (56.76%), Postives = 55/74 (74.32%), Query Frame = 1


Query: 4   DRLCVPRNQGIKDQILEEAYSSAYDIHSGSTKMYRTLKKHYWW--LVLKWKWKHVTMDFL 63
           +RLCVP N+ +KD IL EA+ + Y IH GSTKMY+ LK+ +WW   + +WKW+ + MDF+
Sbjct: 731 ERLCVPENKELKDLILTEAHQTQYSIHPGSTKMYQDLKEKFWWPLQIPEWKWEEIGMDFI 790

Query: 64  FGLPRTSSGFDGIW 76
            GLPRTSSG D IW
Sbjct: 791 TGLPRTSSGHDSIW 804

[Close]

BLAST of CSPI03G21620 vs. NCBI nr
Match: gi|38344103|emb|CAD39399.2| (OSJNBb0089K24.9 [Oryza sativa Japonica Group])

HSP 1 Score: 95.9 bits (237), Expect = 5.2e-17
Identity = 42/83 (50.60%), Postives = 56/83 (67.47%), Query Frame = 1


Query: 4   DRLCVPRNQGIKDQILEEAYSSAYDIHSGSTKMYRTLKKHYWWLVLK-----------WK 63
           +R+CVP N+ +KD IL+EA+ + Y IH GSTKMY+ LK+ +WW  +K           WK
Sbjct: 899 ERMCVPDNRELKDTILKEAHDTLYSIHPGSTKMYQDLKEKFWWASMKREIAEYVAISEWK 958

Query: 64  WKHVTMDFLFGLPRTSSGFDGIW 76
           W+ + MDF+ GLPRTSSG D IW
Sbjct: 959 WEEIGMDFITGLPRTSSGHDSIW 981

[Close]

BLAST of CSPI03G21620 vs. NCBI nr
Match: gi|108862640|gb|ABA98065.2| (retrotransposon protein, putative, Ty3-gypsy subclass [Oryza sativa Japonica Group])

HSP 1 Score: 95.5 bits (236), Expect = 6.8e-17
Identity = 40/77 (51.95%), Postives = 55/77 (71.43%), Query Frame = 1


Query: 5    RLCVPRNQGIKDQILEEAYSSAYDIHSGSTKMYRTLKKHYWWLVLK------WKWKHVTM 64
            R+CVP  + ++D IL+EA+ SAY IH GSTKMY+ +K ++WW  +K      WKW+ + M
Sbjct: 1282 RICVPAKKELRDLILKEAHESAYSIHPGSTKMYQDIKAYFWWAGMKRDVAEYWKWEEIGM 1341

Query: 65   DFLFGLPRTSSGFDGIW 76
            DF+ GLPRT SG+D IW
Sbjct: 1342 DFITGLPRTPSGYDSIW 1358

[Close]

BLAST of CSPI03G21620 vs. NCBI nr
Match: gi|41469587|gb|AAS07330.1| (putative polyprotein [Oryza sativa Japonica Group])

HSP 1 Score: 95.5 bits (236), Expect = 6.8e-17
Identity = 42/86 (48.84%), Postives = 56/86 (65.12%), Query Frame = 1


Query: 4    DRLCVPRNQGIKDQILEEAYSSAYDIHSGSTKMYRTLKKHYWWLVLK------------- 63
            +R+CVP N+ +KD IL+EA+ + Y IH GSTKMY+ LK+ +WW  +K             
Sbjct: 959  ERICVPENKELKDAILKEAHDTLYSIHPGSTKMYQDLKEKFWWASMKREIAEYVAPLKIP 1018

Query: 64   -WKWKHVTMDFLFGLPRTSSGFDGIW 76
             WKW+ + MDF+ GLPRTSSG D IW
Sbjct: 1019 EWKWEEIGMDFITGLPRTSSGHDSIW 1044

[Close]

BLAST of CSPI03G21620 vs. NCBI nr
Match: gi|38347245|emb|CAD39358.2| (OSJNBa0059H15.9 [Oryza sativa Japonica Group])

HSP 1 Score: 95.1 bits (235), Expect = 8.9e-17
Identity = 42/86 (48.84%), Postives = 56/86 (65.12%), Query Frame = 1


Query: 4   DRLCVPRNQGIKDQILEEAYSSAYDIHSGSTKMYRTLKKHYWWLVLK------------- 63
           +R+CVP N+ +KD IL+EA+ + Y IH GSTKMY+ LK+ +WW  +K             
Sbjct: 466 ERICVPDNKDLKDAILKEAHDTLYSIHPGSTKMYQDLKERFWWANMKREIAEYVAPLKIP 525

Query: 64  -WKWKHVTMDFLFGLPRTSSGFDGIW 76
            WKW+ + MDF+ GLPRTSSG D IW
Sbjct: 526 EWKWEEIGMDFITGLPRTSSGHDSIW 551

The following BLAST results are available for this feature:

BLAST of CSPI03G21620 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CSPI03G21620 vs. TrEMBL


Match Name	E-value	Identity	Description
Q8S656_ORYSJ	9.6e-18	56.76	Putative Sorghum bicolor 22 kDa kafirin cluster OS=Oryza sativa subsp. japonica ...	[more]
Q7XXG1_ORYSJ	3.6e-17	50.60	OSJNBb0089K24.9 protein OS=Oryza sativa subsp. japonica GN=OSJNBb0089K24.9 PE=4 ...	[more]
Q75GY7_ORYSJ	4.8e-17	48.84	Putative polyprotein OS=Oryza sativa subsp. japonica GN=LOC_Os03g46170 PE=4 SV=1	[more]
Q2QRU8_ORYSJ	4.8e-17	51.95	Retrotransposon protein, putative, Ty3-gypsy subclass OS=Oryza sativa subsp. jap...	[more]
Q7XXI0_ORYSJ	6.2e-17	48.84	OSJNBa0059H15.9 protein OS=Oryza sativa subsp. japonica GN=OSJNBa0059H15.9 PE=4 ...	[more]

BLAST of CSPI03G21620 vs. TAIR10


Match Name	E-value	Identity	Description

BLAST of CSPI03G21620 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|19881707\|gb\|AAM01108.1\|AC098682_12	1.4e-17	56.76	Putative Sorghum bicolor 22 kDa kafirin cluster [Oryza sativa Japonica Group]	[more]
gi\|38344103\|emb\|CAD39399.2\|	5.2e-17	50.60	OSJNBb0089K24.9 [Oryza sativa Japonica Group]	[more]
gi\|108862640\|gb\|ABA98065.2\|	6.8e-17	51.95	retrotransposon protein, putative, Ty3-gypsy subclass [Oryza sativa Japonica Gro...	[more]
gi\|41469587\|gb\|AAS07330.1\|	6.8e-17	48.84	putative polyprotein [Oryza sativa Japonica Group]	[more]
gi\|38347245\|emb\|CAD39358.2\|	8.9e-17	48.84	OSJNBa0059H15.9 [Oryza sativa Japonica Group]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006310	DNA recombination
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0003779	actin binding
molecular_function	GO:0003677	DNA binding
molecular_function	GO:0046872	metal ion binding

Relationships

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


Feature Name	Unique Name	Type
CSPI03G21620.1	CSPI03G21620.1	mRNA

InterPro

Analysis Name: InterPro Annotations of cucumber (PI183967)
Date Performed: 2017-01-17


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PANTHER	PTHR24559	FAMILY NOT NAMED	coord: 5..75 score: 4.9
None	No IPR available	PANTHER	PTHR24559:SF207	SUBFAMILY NOT NAMED	coord: 5..75 score: 4.9

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:


Gene	Organism	Block
CSPI03G21620	Cucumber (Gy14) v1	cgycpiB554
CSPI03G21620	Cucurbita maxima (Rimu)	cmacpiB244
CSPI03G21620	Cucurbita maxima (Rimu)	cmacpiB458
CSPI03G21620	Cucurbita moschata (Rifu)	cmocpiB232
CSPI03G21620	Cucurbita moschata (Rifu)	cmocpiB446
CSPI03G21620	Cucumber (Chinese Long) v2	cpicuB120
CSPI03G21620	Melon (DHL92) v3.5.1	cpimeB243
CSPI03G21620	Watermelon (Charleston Gray)	cpiwcgB240
CSPI03G21620	Watermelon (97103) v1	cpiwmB245
CSPI03G21620	Cucurbita pepo (Zucchini)	cpecpiB552
CSPI03G21620	Cucurbita pepo (Zucchini)	cpecpiB602
CSPI03G21620	Bottle gourd (USVL1VR-Ls)	cpilsiB210
CSPI03G21620	Melon (DHL92) v3.6.1	cpimedB240
CSPI03G21620	Cucumber (Gy14) v2	cgybcpiB110
CSPI03G21620	Silver-seed gourd	carcpiB0798
CSPI03G21620	Cucumber (Chinese Long) v3	cpicucB144
CSPI03G21620	Watermelon (97103) v2	cpiwmbB224