CSPI03G24430.1 (mRNA) Wild cucumber (PI 183967) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CSPI03G24430.1
Type	mRNA
Organism	Cucumis sativus (Wild cucumber (PI 183967))
Description	RNA-directed DNA polymerase (reverse transcriptase)
Location	Chr3 : 21488576 .. 21488854 (-)
Sequence length	279

Genome Viewer

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

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BLAST of CSPI03G24430.1 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 CSPI03G24430.1 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 CSPI03G24430.1 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 CSPI03G24430.1 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 CSPI03G24430.1 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 CSPI03G24430.1 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 CSPI03G24430.1 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 CSPI03G24430.1 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 CSPI03G24430.1 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 CSPI03G24430.1 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 CSPI03G24430.1 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 CSPI03G24430.1 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CSPI03G24430.1 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 CSPI03G24430.1 vs. TAIR10


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

BLAST of CSPI03G24430.1 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 mRNA:

Vocabulary: **INTERPRO**
Term	Definition

GO Annotation

GO Assignments

This mRNA 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

This mRNA is a part of the following gene feature(s):


Feature Name	Unique Name	Type
CSPI03G24430	CSPI03G24430	gene

The following polypeptide feature(s) derives from this mRNA:


Feature Name	Unique Name	Type
CSPI03G24430.1	CSPI03G24430.1-protein	polypeptide

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


Feature Name	Unique Name	Type
CSPI03G24430.1.cds1	CSPI03G24430.1.cds1	CDS

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