CSPI03G24430 (gene) Wild cucumber (PI 183967) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CSPI03G24430
Type	gene
Organism	Cucumis sativus (Wild cucumber (PI 183967))
Description	RNA-directed DNA polymerase (reverse transcriptase)
Location	Chr3 : 21488576 .. 21488854 (-)

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.

ATGGAACTACAGGCTGTACCACCTTCAGTTCTACATCCACCAATGTCAGAGAAGGCAATCAGGGCAAGGAAGAAGTACACTAGACAGGAGGAATTTAGAGCAATAGAATTGAGAAATTCAAGCAAACTGGTGGGTTTAAATCTGAATTTCAAATTGAGAAGTCACAAGTATTTTCAGAAATTGGGCCGACGAAGGGTGCAAGATTTCTTTGAGTCCTCTGAAGATCGTGCAGAGTGGCACCGTGTGCGGTCAGCAGGTGATTTTTTGTATAGATCATAA

mRNA sequence

ATGGAACTACAGGCTGTACCACCTTCAGTTCTACATCCACCAATGTCAGAGAAGGCAATCAGGGCAAGGAAGAAGTACACTAGACAGGAGGAATTTAGAGCAATAGAATTGAGAAATTCAAGCAAACTGGTGGGTTTAAATCTGAATTTCAAATTGAGAAGTCACAAGTATTTTCAGAAATTGGGCCGACGAAGGGTGCAAGATTTCTTTGAGTCCTCTGAAGATCGTGCAGAGTGGCACCGTGTGCGGTCAGCAGGTGATTTTTTGTATAGATCATAA

Coding sequence (CDS)

ATGGAACTACAGGCTGTACCACCTTCAGTTCTACATCCACCAATGTCAGAGAAGGCAATCAGGGCAAGGAAGAAGTACACTAGACAGGAGGAATTTAGAGCAATAGAATTGAGAAATTCAAGCAAACTGGTGGGTTTAAATCTGAATTTCAAATTGAGAAGTCACAAGTATTTTCAGAAATTGGGCCGACGAAGGGTGCAAGATTTCTTTGAGTCCTCTGAAGATCGTGCAGAGTGGCACCGTGTGCGGTCAGCAGGTGATTTTTTGTATAGATCATAA

Homology

[Close]

BLAST of CSPI03G24430 vs. TrEMBL
Match: A0A0A0LDE9_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_3G500160 PE=4 SV=1)

HSP 1 Score: 165.2 bits (417), Expect = 3.7e-38
Identity = 84/85 (98.82%), Postives = 84/85 (98.82%), Query Frame = 1


Query: 1  MELQAVPPSVLHPPMSEKAIRARKKYTRQEEFRAIELRNSSKLVGLNLNFKLRSHKYFQK 60
          MELQAVPPSVLHPPMSEKAIRARKKYTRQEE RAIELRNSSKLVGLNLNFKLRSHKYFQK
Sbjct: 1  MELQAVPPSVLHPPMSEKAIRARKKYTRQEEVRAIELRNSSKLVGLNLNFKLRSHKYFQK 60

Query: 61 LGRRRVQDFFESSEDRAEWHRVRSA 86
          LGRRRVQDFFESSEDRAEWHRVRSA
Sbjct: 61 LGRRRVQDFFESSEDRAEWHRVRSA 85

[Close]

BLAST of CSPI03G24430 vs. TrEMBL
Match: M1C213_SOLTU (Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400022532 PE=4 SV=1)

HSP 1 Score: 93.6 bits (231), Expect = 1.4e-16
Identity = 54/111 (48.65%), Postives = 65/111 (58.56%), Query Frame = 1


Query: 1   MELQAVPPSVLHPPMSEKAIRARKKYTRQEEFRAIELRNSSKLVGLNLNFKLRSHKY--- 60
           MELQAV PS+LHPPMS+KAIRARKKY RQ+E RA+ELRN+ +     L  K+ SH +   
Sbjct: 359 MELQAVKPSILHPPMSQKAIRARKKYLRQKEVRALELRNAKESNRKKLGMKIFSHVFKKM 418

Query: 61  -------------------FQKLGRRRVQDFFESSEDRAEWHRVRSAGDFL 90
                              F       +QDF ES +DR EWHR+ SAGDFL
Sbjct: 419 KRANGFKTDFQIESEVNQIFDSWAEEVMQDFLESVDDRWEWHRMLSAGDFL 469

[Close]

BLAST of CSPI03G24430 vs. TrEMBL
Match: A0A0V0IU20_SOLCH (Putative RNA-directed DNA polymerase-like OS=Solanum chacoense PE=4 SV=1)

HSP 1 Score: 93.6 bits (231), Expect = 1.4e-16
Identity = 54/111 (48.65%), Postives = 65/111 (58.56%), Query Frame = 1


Query: 1   MELQAVPPSVLHPPMSEKAIRARKKYTRQEEFRAIELRNSSKLVGLNLNFKLRSHKY--- 60
           MELQAV PS+LHPPMS+KAIRARKKY RQ+E RA+ELRN+ +     L  K+ SH +   
Sbjct: 213 MELQAVKPSILHPPMSQKAIRARKKYLRQKEVRALELRNAKESNRKKLGMKIFSHVFKKM 272

Query: 61  -------------------FQKLGRRRVQDFFESSEDRAEWHRVRSAGDFL 90
                              F       +QDF ES +DR EWHR+ SAGDFL
Sbjct: 273 KRANGFKTDFQIESEVNQIFDSWAEEVMQDFLESVDDRWEWHRMLSAGDFL 323

[Close]

BLAST of CSPI03G24430 vs. TrEMBL
Match: K4BFM4_SOLLC (Uncharacterized protein OS=Solanum lycopersicum PE=4 SV=1)

HSP 1 Score: 92.8 bits (229), Expect = 2.3e-16
Identity = 54/111 (48.65%), Postives = 65/111 (58.56%), Query Frame = 1


Query: 1   MELQAVPPSVLHPPMSEKAIRARKKYTRQEEFRAIELRNSSKLVGLNLNFKLRSHKY--- 60
           MELQAV PSVLHPPMS+KAIRARKKY RQ+E RA+ELRN+ +     L  K+ SH +   
Sbjct: 230 MELQAVKPSVLHPPMSQKAIRARKKYLRQKEVRALELRNAKESNRKKLGMKIFSHVFKKM 289

Query: 61  -------------------FQKLGRRRVQDFFESSEDRAEWHRVRSAGDFL 90
                              F       +QDF ES +DR EWHR+ S+GDFL
Sbjct: 290 KRANGFKTDFQIESEVNQIFDSWAEEVMQDFLESVDDRWEWHRMLSSGDFL 340

[Close]

BLAST of CSPI03G24430 vs. TrEMBL
Match: A0A061FIF3_THECC (RNA-directed DNA polymerase OS=Theobroma cacao GN=TCM_033550 PE=4 SV=1)

HSP 1 Score: 90.1 bits (222), Expect = 1.5e-15
Identity = 54/112 (48.21%), Postives = 64/112 (57.14%), Query Frame = 1


Query: 1   MELQAVPPSVLHPPMSEKAIRARKKYTRQEEFRAIELRNSSKLVGLNLNFKLRSHKY--- 60
           MELQAVPPSVLHPPMSEKAIRARKKY RQ+E RA+ELRN+ +     L  K+ SH +   
Sbjct: 346 MELQAVPPSVLHPPMSEKAIRARKKYLRQKEVRALELRNARERNRKKLGLKILSHVFKKL 405

Query: 61  --------------------FQKLGRRRVQDFFESSEDRAEWHRVRSAGDFL 90
                               F+      VQ+F +S E R  WHR+ S GDFL
Sbjct: 406 KQSNNGFNFEFRIENEVTEIFRTWADEVVQEFLQSLEGRWNWHRLLSRGDFL 457

[Close]

BLAST of CSPI03G24430 vs. TAIR10
Match: AT5G04050.2 (AT5G04050.2 RNA-directed DNA polymerase (reverse transcriptase))

HSP 1 Score: 74.3 bits (181), Expect = 4.4e-14
Identity = 46/111 (41.44%), Postives = 58/111 (52.25%), Query Frame = 1


Query: 1   MELQAVPPSVLHPPMSEKAIRARKKYTRQEEFRAIELRNSSKLVGLNLNFKLRSH----- 60
           M LQAVPPSVL PP SEKA+RA KKY RQ++ R +ELRN+ +     L  K+  H     
Sbjct: 355 MYLQAVPPSVLRPPKSEKAVRAMKKYQRQKDVRKLELRNARERNRKTLGLKIFRHVLKKI 414

Query: 61  -----------------KYFQKLGRRRVQDFFESSEDRAEWHRVRSAGDFL 90
                              FQ  G   +QDF  S E+R +WH + + GDFL
Sbjct: 415 KQSNGFKFEGEIENEVRDIFQSWGEEVMQDFMGSLEERWKWHWLLTRGDFL 465

[Close]

BLAST of CSPI03G24430 vs. NCBI nr
Match: gi|700202958|gb|KGN58091.1| (hypothetical protein Csa_3G500160 [Cucumis sativus])

HSP 1 Score: 165.2 bits (417), Expect = 5.3e-38
Identity = 84/85 (98.82%), Postives = 84/85 (98.82%), Query Frame = 1


Query: 1  MELQAVPPSVLHPPMSEKAIRARKKYTRQEEFRAIELRNSSKLVGLNLNFKLRSHKYFQK 60
          MELQAVPPSVLHPPMSEKAIRARKKYTRQEE RAIELRNSSKLVGLNLNFKLRSHKYFQK
Sbjct: 1  MELQAVPPSVLHPPMSEKAIRARKKYTRQEEVRAIELRNSSKLVGLNLNFKLRSHKYFQK 60

Query: 61 LGRRRVQDFFESSEDRAEWHRVRSA 86
          LGRRRVQDFFESSEDRAEWHRVRSA
Sbjct: 61 LGRRRVQDFFESSEDRAEWHRVRSA 85

[Close]

BLAST of CSPI03G24430 vs. NCBI nr
Match: gi|778676093|ref|XP_011650528.1| (PREDICTED: uncharacterized protein LOC101217546 [Cucumis sativus])

HSP 1 Score: 106.7 bits (265), Expect = 2.2e-20
Identity = 64/111 (57.66%), Postives = 72/111 (64.86%), Query Frame = 1


Query: 1   MELQAVPPSVLHPPMSEKAIRARKKYTRQEEFRAIELRNSSKLVGLNLNFKLRSH--KYF 60
           MEL+AVPPSVLHPPMSEKAIRARKKY RQ+E RAIELRN+ +     L  K+ SH  K F
Sbjct: 364 MELRAVPPSVLHPPMSEKAIRARKKYLRQKEVRAIELRNARERNRKKLGLKILSHVFKKF 423

Query: 61  QKLGRRR--------------------VQDFFESSEDRAEWHRVRSAGDFL 90
           ++ G  +                    VQDFFESSED AEWHRV SAGDFL
Sbjct: 424 KRTGGFKSEFQIEKEVRSIFRNWADEVVQDFFESSEDHAEWHRVLSAGDFL 474

[Close]

BLAST of CSPI03G24430 vs. NCBI nr
Match: gi|659126896|ref|XP_008463418.1| (PREDICTED: putative COX1/OXI3 intron 1 protein [Cucumis melo])

HSP 1 Score: 105.1 bits (261), Expect = 6.5e-20
Identity = 64/111 (57.66%), Postives = 71/111 (63.96%), Query Frame = 1


Query: 1   MELQAVPPSVLHPPMSEKAIRARKKYTRQEEFRAIELRNSSKLVGLNLNFKLRSH--KYF 60
           MELQAV PSVLHPPMSEKAIRARKKY RQ+E RAIELRN+ +     L  K+ SH  K F
Sbjct: 361 MELQAVTPSVLHPPMSEKAIRARKKYLRQKEVRAIELRNARERNRKKLGLKILSHMFKKF 420

Query: 61  QKLGRRR--------------------VQDFFESSEDRAEWHRVRSAGDFL 90
           ++ G  +                    VQDFFESSED AEWHRV SAGDFL
Sbjct: 421 KRTGGFKSEFQIETEVRSIFRNWADEVVQDFFESSEDHAEWHRVLSAGDFL 471

[Close]

BLAST of CSPI03G24430 vs. NCBI nr
Match: gi|970013984|ref|XP_015067974.1| (PREDICTED: uncharacterized protein LOC107012610 [Solanum pennellii])

HSP 1 Score: 94.0 bits (232), Expect = 1.5e-16
Identity = 55/111 (49.55%), Postives = 65/111 (58.56%), Query Frame = 1


Query: 1   MELQAVPPSVLHPPMSEKAIRARKKYTRQEEFRAIELRNSSKLVGLNLNFKLRSHKY--- 60
           MELQAV PSVLHPPMS+KAIRARKKY RQ+E RA+ELRN+ +     L  K+ SH +   
Sbjct: 359 MELQAVKPSVLHPPMSQKAIRARKKYLRQKEVRALELRNAKESNRKKLGMKIFSHVFKKM 418

Query: 61  -------------------FQKLGRRRVQDFFESSEDRAEWHRVRSAGDFL 90
                              F       +QDF ES +DR EWHR+ SAGDFL
Sbjct: 419 KRANGFKTDFQIESEVNQIFDSWAEEVMQDFLESVDDRWEWHRMLSAGDFL 469

[Close]

BLAST of CSPI03G24430 vs. NCBI nr
Match: gi|565352880|ref|XP_006343366.1| (PREDICTED: uncharacterized protein LOC102587557 [Solanum tuberosum])

HSP 1 Score: 93.6 bits (231), Expect = 2.0e-16
Identity = 54/111 (48.65%), Postives = 65/111 (58.56%), Query Frame = 1


Query: 1   MELQAVPPSVLHPPMSEKAIRARKKYTRQEEFRAIELRNSSKLVGLNLNFKLRSHKY--- 60
           MELQAV PS+LHPPMS+KAIRARKKY RQ+E RA+ELRN+ +     L  K+ SH +   
Sbjct: 359 MELQAVKPSILHPPMSQKAIRARKKYLRQKEVRALELRNAKESNRKKLGMKIFSHVFKKM 418

Query: 61  -------------------FQKLGRRRVQDFFESSEDRAEWHRVRSAGDFL 90
                              F       +QDF ES +DR EWHR+ SAGDFL
Sbjct: 419 KRANGFKTDFQIESEVNQIFDSWAEEVMQDFLESVDDRWEWHRMLSAGDFL 469

The following BLAST results are available for this feature:

BLAST of CSPI03G24430 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CSPI03G24430 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0LDE9_CUCSA	3.7e-38	98.82	Uncharacterized protein OS=Cucumis sativus GN=Csa_3G500160 PE=4 SV=1	[more]
M1C213_SOLTU	1.4e-16	48.65	Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400022532 PE=4 SV=1	[more]
A0A0V0IU20_SOLCH	1.4e-16	48.65	Putative RNA-directed DNA polymerase-like OS=Solanum chacoense PE=4 SV=1	[more]
K4BFM4_SOLLC	2.3e-16	48.65	Uncharacterized protein OS=Solanum lycopersicum PE=4 SV=1	[more]
A0A061FIF3_THECC	1.5e-15	48.21	RNA-directed DNA polymerase OS=Theobroma cacao GN=TCM_033550 PE=4 SV=1	[more]

BLAST of CSPI03G24430 vs. TAIR10


Match Name	E-value	Identity	Description
AT5G04050.2	4.4e-14	41.44	RNA-directed DNA polymerase (reverse transcriptase)	[more]

BLAST of CSPI03G24430 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|700202958\|gb\|KGN58091.1\|	5.3e-38	98.82	hypothetical protein Csa_3G500160 [Cucumis sativus]	[more]
gi\|778676093\|ref\|XP_011650528.1\|	2.2e-20	57.66	PREDICTED: uncharacterized protein LOC101217546 [Cucumis sativus]	[more]
gi\|659126896\|ref\|XP_008463418.1\|	6.5e-20	57.66	PREDICTED: putative COX1/OXI3 intron 1 protein [Cucumis melo]	[more]
gi\|970013984\|ref\|XP_015067974.1\|	1.5e-16	49.55	PREDICTED: uncharacterized protein LOC107012610 [Solanum pennellii]	[more]
gi\|565352880\|ref\|XP_006343366.1\|	2.0e-16	48.65	PREDICTED: uncharacterized protein LOC102587557 [Solanum tuberosum]	[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:0008150	biological_process
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0003674	molecular_function

Relationships

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


Feature Name	Unique Name	Type
CSPI03G24430.1	CSPI03G24430.1	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	PTHR33642	FAMILY NOT NAMED	coord: 1..89 score: 2.8
None	No IPR available	PANTHER	PTHR33642:SF1	RNA-DIRECTED DNA POLYMERASE (REVERSE TRANSCRIPTASE)	coord: 1..89 score: 2.8

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
CSPI03G24430	Cucurbita pepo (Zucchini)	cpecpiB554
CSPI03G24430	Cucurbita pepo (Zucchini)	cpecpiB563
CSPI03G24430	Cucurbita pepo (Zucchini)	cpecpiB606
CSPI03G24430	Bottle gourd (USVL1VR-Ls)	cpilsiB235
CSPI03G24430	Melon (DHL92) v3.6.1	cpimedB212
CSPI03G24430	Cucumber (Gy14) v2	cgybcpiB110
CSPI03G24430	Cucumber (Gy14) v2	cgybcpiB167
CSPI03G24430	Silver-seed gourd	carcpiB0131
CSPI03G24430	Silver-seed gourd	carcpiB0231
CSPI03G24430	Silver-seed gourd	carcpiB0777
CSPI03G24430	Silver-seed gourd	carcpiB1062
CSPI03G24430	Cucumber (Chinese Long) v3	cpicucB144
CSPI03G24430	Cucumber (Chinese Long) v3	cpicucB162
CSPI03G24430	Watermelon (97103) v2	cpiwmbB251
CSPI03G24430	Wax gourd	cpiwgoB274
CSPI03G24430	Cucurbita maxima (Rimu)	cmacpiB248
CSPI03G24430	Cucurbita maxima (Rimu)	cmacpiB364
CSPI03G24430	Cucurbita maxima (Rimu)	cmacpiB451
CSPI03G24430	Cucurbita maxima (Rimu)	cmacpiB912
CSPI03G24430	Cucurbita moschata (Rifu)	cmocpiB237
CSPI03G24430	Cucurbita moschata (Rifu)	cmocpiB355
CSPI03G24430	Cucurbita moschata (Rifu)	cmocpiB440
CSPI03G24430	Cucurbita moschata (Rifu)	cmocpiB890
CSPI03G24430	Cucumber (Chinese Long) v2	cpicuB120
CSPI03G24430	Watermelon (Charleston Gray)	cpiwcgB265
CSPI03G24430	Watermelon (97103) v1	cpiwmB217