Clc09G13956 (gene) Watermelon (cordophanus) v2

Overview


Name	Clc09G13956
Type	gene
Organism	Citrullus lanatus subsp. cordophanus cv. cordophanus (Watermelon (cordophanus) v2)
Description	Ribonuclease H
Location	ClcChr09: 16514401 .. 16514805 (+)
RNA-Seq Expression	Clc09G13956
Synteny	Clc09G13956

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDSpolypeptide

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

ATGTTTAATGTGGCTCGTAATAAAGAAATTCAACCTATAAGTATTGAGAAGCATGAAGCACCAGCATATTGCCTAAGTGTTGAGCAGGAACCTGACAGGAAGCTTTGGTATCATGACATTAAGCACTACATCACATGTCAAGCATATCTGCTAGGAGCTTCTGAAAACGATAAGCGCACCATTAGAAAGTTGGTCATGAGTTTCTTTTTTAATGGAGATGTGTTATACAAAAGAAATTGCGATATGACTCTCCTGAGATGTGTTGATGCTTCGGAAGCCAAGAGAATTCTAGAAGAAGTTCACGAGGGAGTTTGTGGGACGCATACAAATGGACACATGATGTCAAGACAAGTTTTACGTGCCGGATATTATTGGTTGACTATGGAGTCAGATTGCATTAAGTAA

mRNA sequence

ATGTTTAATGTGGCTCGTAATAAAGAAATTCAACCTATAAGTATTGAGAAGCATGAAGCACCAGCATATTGCCTAAGTGTTGAGCAGGAACCTGACAGGAAGCTTTGGTATCATGACATTAAGCACTACATCACATGTCAAGCATATCTGCTAGGAGCTTCTGAAAACGATAAGCGCACCATTAGAAAGTTGGTCATGAGTTTCTTTTTTAATGGAGATGTGTTATACAAAAGAAATTGCGATATGACTCTCCTGAGATGTGTTGATGCTTCGGAAGCCAAGAGAATTCTAGAAGAAGTTCACGAGGGAGTTTGTGGGACGCATACAAATGGACACATGATGTCAAGACAAGTTTTACGTGCCGGATATTATTGGTTGACTATGGAGTCAGATTGCATTAAGTAA

Coding sequence (CDS)

ATGTTTAATGTGGCTCGTAATAAAGAAATTCAACCTATAAGTATTGAGAAGCATGAAGCACCAGCATATTGCCTAAGTGTTGAGCAGGAACCTGACAGGAAGCTTTGGTATCATGACATTAAGCACTACATCACATGTCAAGCATATCTGCTAGGAGCTTCTGAAAACGATAAGCGCACCATTAGAAAGTTGGTCATGAGTTTCTTTTTTAATGGAGATGTGTTATACAAAAGAAATTGCGATATGACTCTCCTGAGATGTGTTGATGCTTCGGAAGCCAAGAGAATTCTAGAAGAAGTTCACGAGGGAGTTTGTGGGACGCATACAAATGGACACATGATGTCAAGACAAGTTTTACGTGCCGGATATTATTGGTTGACTATGGAGTCAGATTGCATTAAGTAA

Protein sequence

MFNVARNKEIQPISIEKHEAPAYCLSVEQEPDRKLWYHDIKHYITCQAYLLGASENDKRTIRKLVMSFFFNGDVLYKRNCDMTLLRCVDASEAKRILEEVHEGVCGTHTNGHMMSRQVLRAGYYWLTMESDCIK

Homology

[Close]

BLAST of Clc09G13956 vs. NCBI nr
Match: KAA0046609.1 (hypothetical protein E6C27_scaffold114G001550 [Cucumis melo var. makuwa])

HSP 1 Score: 219.5 bits (558), Expect = 1.7e-53
Identity = 97/134 (72.39%), Postives = 115/134 (85.82%), Query Frame = 0


Query: 1   MFNVARNKEIQPISIEKHEAPAYCLSVEQEPDRKLWYHDIKHYITCQAYLLGASENDKRT 60
           MFNVA ++E+QPI +EK++ P+YC+S+E+EPD K WYHDIKHYI  + Y  GASEN KRT
Sbjct: 617 MFNVAYSEEVQPIRMEKYKTPSYCMSLEREPDGKSWYHDIKHYIAYREYPPGASENSKRT 676

Query: 61  IRKLVMSFFFNGDVLYKRNCDMTLLRCVDASEAKRILEEVHEGVCGTHTNGHMMSRQVLR 120
           IR+L M FF +G+VLYKRN DMTLLRCVDA EAK  LEE+HEGVCGTH NGHMM+RQ+LR
Sbjct: 677 IRRLAMKFFLSGEVLYKRNYDMTLLRCVDALEAKIFLEEIHEGVCGTHANGHMMARQILR 736

Query: 121 AGYYWLTMESDCIK 135
           AGY+WLTMESDCIK
Sbjct: 737 AGYFWLTMESDCIK 750

[Close]

BLAST of Clc09G13956 vs. NCBI nr
Match: KAA0033220.1 (putative RNA-directed DNA polymerase (Reverse transcriptase), Ribonuclease H [Cucumis melo var. makuwa])

HSP 1 Score: 215.7 bits (548), Expect = 2.4e-52
Identity = 93/134 (69.40%), Postives = 115/134 (85.82%), Query Frame = 0


Query: 1   MFNVARNKEIQPISIEKHEAPAYCLSVEQEPDRKLWYHDIKHYITCQAYLLGASENDKRT 60
           MFNVA ++E+QPI +EK++ P+YC+S+E++PD K WYHDIKHYI  + Y  G SEN KRT
Sbjct: 85  MFNVAYSEEVQPIRMEKYKTPSYCMSLERKPDGKPWYHDIKHYIAYREYPSGVSENSKRT 144

Query: 61  IRKLVMSFFFNGDVLYKRNCDMTLLRCVDASEAKRILEEVHEGVCGTHTNGHMMSRQVLR 120
           +R+L M FF +G+VLYKRN DMTLLRCVDA +AK+ LEE+HEGVCGTH NGHMM+RQ+LR
Sbjct: 145 VRRLAMKFFLSGEVLYKRNYDMTLLRCVDALKAKKSLEEIHEGVCGTHANGHMMARQILR 204

Query: 121 AGYYWLTMESDCIK 135
           AGY+WLTMESDCIK
Sbjct: 205 AGYFWLTMESDCIK 218

[Close]

BLAST of Clc09G13956 vs. NCBI nr
Match: KAA0032022.1 (RNA-directed DNA polymerase [Cucumis melo var. makuwa] >TYK16843.1 RNA-directed DNA polymerase [Cucumis melo var. makuwa])

HSP 1 Score: 215.3 bits (547), Expect = 3.2e-52
Identity = 95/134 (70.90%), Postives = 114/134 (85.07%), Query Frame = 0


Query: 1   MFNVARNKEIQPISIEKHEAPAYCLSVEQEPDRKLWYHDIKHYITCQAYLLGASENDKRT 60
           MFNVA ++E+QPI +EK++ P+YC+S+E+EPD K WYHDIKHYI  + Y L ASEN K T
Sbjct: 1   MFNVAYSEEVQPIRMEKYKTPSYCMSLEREPDSKPWYHDIKHYIAYREYPLEASENSKHT 60

Query: 61  IRKLVMSFFFNGDVLYKRNCDMTLLRCVDASEAKRILEEVHEGVCGTHTNGHMMSRQVLR 120
           IR+L M FF NG+VLYKRN DMTLL+CVDA EA++ILEE+HEGVCG H NGHMM+RQVLR
Sbjct: 61  IRRLAMKFFLNGEVLYKRNYDMTLLQCVDALEAEKILEEIHEGVCGAHANGHMMARQVLR 120

Query: 121 AGYYWLTMESDCIK 135
           A Y+WLTMESDCIK
Sbjct: 121 ADYFWLTMESDCIK 134

[Close]

BLAST of Clc09G13956 vs. NCBI nr
Match: XP_038874966.1 (uncharacterized protein LOC120067484 [Benincasa hispida])

HSP 1 Score: 213.8 bits (543), Expect = 9.3e-52
Identity = 102/134 (76.12%), Postives = 113/134 (84.33%), Query Frame = 0


Query: 1   MFNVARNKEIQPISIEKHEAPAYCLSVEQEPDRKLWYHDIKHYITCQAYLLGASENDKRT 60
           MFNV  N+EIQ ISIEK EA AYC+S++QE D K WY+DIKHYIT + Y LGAS+N K T
Sbjct: 1   MFNVVYNEEIQLISIEKREASAYCMSIKQEFDGKPWYYDIKHYITYREYPLGASKNSKCT 60

Query: 61  IRKLVMSFFFNGDVLYKRNCDMTLLRCVDASEAKRILEEVHEGVCGTHTNGHMMSRQVLR 120
           IRKLVMSFF NG+VLYKRN DM+LLRCVDASEAKRIL EVHEG+C TH NGHMM+ QVL 
Sbjct: 61  IRKLVMSFFMNGEVLYKRNYDMSLLRCVDASEAKRILGEVHEGICRTHANGHMMATQVLH 120

Query: 121 AGYYWLTMESDCIK 135
           A YYWLTMESDCIK
Sbjct: 121 ACYYWLTMESDCIK 134

[Close]

BLAST of Clc09G13956 vs. NCBI nr
Match: TYK10941.1 (putative RNA-directed DNA polymerase (Reverse transcriptase), Ribonuclease H [Cucumis melo var. makuwa])

HSP 1 Score: 210.3 bits (534), Expect = 1.0e-50
Identity = 93/134 (69.40%), Postives = 113/134 (84.33%), Query Frame = 0


Query: 1   MFNVARNKEIQPISIEKHEAPAYCLSVEQEPDRKLWYHDIKHYITCQAYLLGASENDKRT 60
           MFNVA  +E+QPI +EK++ P+YC+S+E+EPD K WYHDIKHYI  + Y  GASEN KRT
Sbjct: 295 MFNVAYTEEVQPIRMEKYKTPSYCMSLEREPDGKPWYHDIKHYIAYREYPTGASENSKRT 354

Query: 61  IRKLVMSFFFNGDVLYKRNCDMTLLRCVDASEAKRILEEVHEGVCGTHTNGHMMSRQVLR 120
           I++L M FF +G VLYKRN DMTLLRCVDA E+++ILEE HEGVCGTH NG+MM+RQVLR
Sbjct: 355 IKRLAMKFFLSGKVLYKRNYDMTLLRCVDALESEKILEENHEGVCGTHANGYMMARQVLR 414

Query: 121 AGYYWLTMESDCIK 135
           +GY+WLTME DCIK
Sbjct: 415 SGYFWLTMELDCIK 428

[Close]

BLAST of Clc09G13956 vs. ExPASy TrEMBL
Match: A0A5A7TZF3 (Ribonuclease H OS=Cucumis melo var. makuwa OX=1194695 GN=E6C27_scaffold114G001550 PE=4 SV=1)

HSP 1 Score: 219.5 bits (558), Expect = 8.2e-54
Identity = 97/134 (72.39%), Postives = 115/134 (85.82%), Query Frame = 0


Query: 1   MFNVARNKEIQPISIEKHEAPAYCLSVEQEPDRKLWYHDIKHYITCQAYLLGASENDKRT 60
           MFNVA ++E+QPI +EK++ P+YC+S+E+EPD K WYHDIKHYI  + Y  GASEN KRT
Sbjct: 617 MFNVAYSEEVQPIRMEKYKTPSYCMSLEREPDGKSWYHDIKHYIAYREYPPGASENSKRT 676

Query: 61  IRKLVMSFFFNGDVLYKRNCDMTLLRCVDASEAKRILEEVHEGVCGTHTNGHMMSRQVLR 120
           IR+L M FF +G+VLYKRN DMTLLRCVDA EAK  LEE+HEGVCGTH NGHMM+RQ+LR
Sbjct: 677 IRRLAMKFFLSGEVLYKRNYDMTLLRCVDALEAKIFLEEIHEGVCGTHANGHMMARQILR 736

Query: 121 AGYYWLTMESDCIK 135
           AGY+WLTMESDCIK
Sbjct: 737 AGYFWLTMESDCIK 750

[Close]

BLAST of Clc09G13956 vs. ExPASy TrEMBL
Match: A0A5A7SQN1 (Ribonuclease H OS=Cucumis melo var. makuwa OX=1194695 GN=E6C27_scaffold845G00090 PE=4 SV=1)

HSP 1 Score: 215.7 bits (548), Expect = 1.2e-52
Identity = 93/134 (69.40%), Postives = 115/134 (85.82%), Query Frame = 0


Query: 1   MFNVARNKEIQPISIEKHEAPAYCLSVEQEPDRKLWYHDIKHYITCQAYLLGASENDKRT 60
           MFNVA ++E+QPI +EK++ P+YC+S+E++PD K WYHDIKHYI  + Y  G SEN KRT
Sbjct: 85  MFNVAYSEEVQPIRMEKYKTPSYCMSLERKPDGKPWYHDIKHYIAYREYPSGVSENSKRT 144

Query: 61  IRKLVMSFFFNGDVLYKRNCDMTLLRCVDASEAKRILEEVHEGVCGTHTNGHMMSRQVLR 120
           +R+L M FF +G+VLYKRN DMTLLRCVDA +AK+ LEE+HEGVCGTH NGHMM+RQ+LR
Sbjct: 145 VRRLAMKFFLSGEVLYKRNYDMTLLRCVDALKAKKSLEEIHEGVCGTHANGHMMARQILR 204

Query: 121 AGYYWLTMESDCIK 135
           AGY+WLTMESDCIK
Sbjct: 205 AGYFWLTMESDCIK 218

[Close]

BLAST of Clc09G13956 vs. ExPASy TrEMBL
Match: A0A5A7SLW0 (RNA-directed DNA polymerase OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold96G001190 PE=4 SV=1)

HSP 1 Score: 215.3 bits (547), Expect = 1.5e-52
Identity = 95/134 (70.90%), Postives = 114/134 (85.07%), Query Frame = 0


Query: 1   MFNVARNKEIQPISIEKHEAPAYCLSVEQEPDRKLWYHDIKHYITCQAYLLGASENDKRT 60
           MFNVA ++E+QPI +EK++ P+YC+S+E+EPD K WYHDIKHYI  + Y L ASEN K T
Sbjct: 1   MFNVAYSEEVQPIRMEKYKTPSYCMSLEREPDSKPWYHDIKHYIAYREYPLEASENSKHT 60

Query: 61  IRKLVMSFFFNGDVLYKRNCDMTLLRCVDASEAKRILEEVHEGVCGTHTNGHMMSRQVLR 120
           IR+L M FF NG+VLYKRN DMTLL+CVDA EA++ILEE+HEGVCG H NGHMM+RQVLR
Sbjct: 61  IRRLAMKFFLNGEVLYKRNYDMTLLQCVDALEAEKILEEIHEGVCGAHANGHMMARQVLR 120

Query: 121 AGYYWLTMESDCIK 135
           A Y+WLTMESDCIK
Sbjct: 121 ADYFWLTMESDCIK 134

[Close]

BLAST of Clc09G13956 vs. ExPASy TrEMBL
Match: A0A5D3CGL1 (Putative RNA-directed DNA polymerase (Reverse transcriptase), Ribonuclease H OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold107G00230 PE=4 SV=1)

HSP 1 Score: 210.3 bits (534), Expect = 5.0e-51
Identity = 93/134 (69.40%), Postives = 113/134 (84.33%), Query Frame = 0


Query: 1   MFNVARNKEIQPISIEKHEAPAYCLSVEQEPDRKLWYHDIKHYITCQAYLLGASENDKRT 60
           MFNVA  +E+QPI +EK++ P+YC+S+E+EPD K WYHDIKHYI  + Y  GASEN KRT
Sbjct: 295 MFNVAYTEEVQPIRMEKYKTPSYCMSLEREPDGKPWYHDIKHYIAYREYPTGASENSKRT 354

Query: 61  IRKLVMSFFFNGDVLYKRNCDMTLLRCVDASEAKRILEEVHEGVCGTHTNGHMMSRQVLR 120
           I++L M FF +G VLYKRN DMTLLRCVDA E+++ILEE HEGVCGTH NG+MM+RQVLR
Sbjct: 355 IKRLAMKFFLSGKVLYKRNYDMTLLRCVDALESEKILEENHEGVCGTHANGYMMARQVLR 414

Query: 121 AGYYWLTMESDCIK 135
           +GY+WLTME DCIK
Sbjct: 415 SGYFWLTMELDCIK 428

[Close]

BLAST of Clc09G13956 vs. ExPASy TrEMBL
Match: A0A5A7T2W3 (Putative RNA-directed DNA polymerase (Reverse transcriptase), Ribonuclease H OS=Cucumis melo var. makuwa OX=1194695 GN=E6C27_scaffold141G00120 PE=4 SV=1)

HSP 1 Score: 209.5 bits (532), Expect = 8.5e-51
Identity = 93/134 (69.40%), Postives = 113/134 (84.33%), Query Frame = 0


Query: 1   MFNVARNKEIQPISIEKHEAPAYCLSVEQEPDRKLWYHDIKHYITCQAYLLGASENDKRT 60
           MFNVA ++E+QPI +EK++ P+YC+S+E+EPD K WYHDIKHYI  + Y  GAS+N KRT
Sbjct: 352 MFNVAYSEEVQPIRMEKYKTPSYCMSLEREPDGKPWYHDIKHYIAYREYPTGASKNSKRT 411

Query: 61  IRKLVMSFFFNGDVLYKRNCDMTLLRCVDASEAKRILEEVHEGVCGTHTNGHMMSRQVLR 120
           I++L M FF +G VLYKRN DMTLLRCVDA EA+ ILEE HEGVCGTH NG+MM+RQVLR
Sbjct: 412 IKRLAMKFFLSGKVLYKRNYDMTLLRCVDALEAENILEENHEGVCGTHANGYMMARQVLR 471

Query: 121 AGYYWLTMESDCIK 135
           +GY+WLTME DCIK
Sbjct: 472 SGYFWLTMELDCIK 485

The following BLAST results are available for this feature:

BLAST of Clc09G13956 vs. NCBI nr


Match Name	E-value	Identity	Description
KAA0046609.1	1.7e-53	72.39	hypothetical protein E6C27_scaffold114G001550 [Cucumis melo var. makuwa]	[more]
KAA0033220.1	2.4e-52	69.40	putative RNA-directed DNA polymerase (Reverse transcriptase), Ribonuclease H [Cu...	[more]
KAA0032022.1	3.2e-52	70.90	RNA-directed DNA polymerase [Cucumis melo var. makuwa] >TYK16843.1 RNA-directed ...	[more]
XP_038874966.1	9.3e-52	76.12	uncharacterized protein LOC120067484 [Benincasa hispida]	[more]
TYK10941.1	1.0e-50	69.40	putative RNA-directed DNA polymerase (Reverse transcriptase), Ribonuclease H [Cu...	[more]

BLAST of Clc09G13956 vs. NCBI nr


Match Name	E-value	Identity	Description

BLAST of Clc09G13956 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A5A7TZF3	8.2e-54	72.39	Ribonuclease H OS=Cucumis melo var. makuwa OX=1194695 GN=E6C27_scaffold114G00155...	[more]
A0A5A7SQN1	1.2e-52	69.40	Ribonuclease H OS=Cucumis melo var. makuwa OX=1194695 GN=E6C27_scaffold845G00090...	[more]
A0A5A7SLW0	1.5e-52	70.90	RNA-directed DNA polymerase OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaf...	[more]
A0A5D3CGL1	5.0e-51	69.40	Putative RNA-directed DNA polymerase (Reverse transcriptase), Ribonuclease H OS=...	[more]
A0A5A7T2W3	8.5e-51	69.40	Putative RNA-directed DNA polymerase (Reverse transcriptase), Ribonuclease H OS=...	[more]

BLAST of Clc09G13956 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description

InterPro

Analysis Name: InterPro Annotations of Watermelon (cordophanus) v2
Date Performed: 2022-01-31


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	GENE3D	1.10.340.70		coord: 53..134 e-value: 9.4E-9 score: 37.4
None	No IPR available	PANTHER	PTHR46387	POLYNUCLEOTIDYL TRANSFERASE, RIBONUCLEASE H-LIKE SUPERFAMILY PROTEIN	coord: 1..116
None	No IPR available	PANTHER	PTHR46387:SF5	DNA POLYMERASE (REVERSE TRANSCRIPTASE), RIBONUCLEASE H, PUTATIVE-RELATED	coord: 1..116

Relationships

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


Feature Name	Unique Name	Type
Clc09G13956.1	Clc09G13956.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0015074	DNA integration
biological_process	GO:0006310	DNA recombination
biological_process	GO:0006278	RNA-dependent DNA biosynthetic process
biological_process	GO:0090502	RNA phosphodiester bond hydrolysis, endonucleolytic
cellular_component	GO:0030430	host cell cytoplasm
cellular_component	GO:0005634	nucleus
molecular_function	GO:0003887	DNA-directed DNA polymerase activity
molecular_function	GO:0003723	RNA binding
molecular_function	GO:0003964	RNA-directed DNA polymerase activity
molecular_function	GO:0004523	RNA-DNA hybrid ribonuclease activity