Clc08G09530 (gene) Watermelon (cordophanus) v2

Overview


Name	Clc08G09530
Type	gene
Organism	Citrullus lanatus subsp. cordophanus cv. cordophanus (Watermelon (cordophanus) v2)
Description	Reverse transcriptase domain-containing protein
Location	ClcChr08: 20892736 .. 20894422 (+)
RNA-Seq Expression	Clc08G09530
Synteny	Clc08G09530

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.

ATGTTAGTCCTCTCATGGAATGCAAGGGGTCTTAATGCTTGCCTCAAAAGAGCTTTGGTGAAGGATCTATTGGTGAAATTCAATCCAGATGTTATTCTTCAAGAGTCTAAACTTGATGAGGTTGATCGTCGTATAGTGAAGTCCCTCTGGAGCAGTCGCCATGTTGGTTGGGTGGCCCTAAACGCCATCGGTTCTTCTAGTAGCATTCTGATTATTTGGAAGGAGGAAAATATCATTGTGGTTGACACAATCAAAGGTTAGTTCTCCCTCTCTATTGTGTGTAGAACTAACGTAGATTTTAGTGGATGGATTATAGGCGTGTATGGCCCCTCATCGAACAAAAATAGAGACAATTTCTAGCAAGAAATTTCCGATATGTATGGGCTTTGTAATGAATGTTGGTGCATTGGAGGGATTTTAACGTTGTTACGTGGGTTAATGAGAAAAGCTCTGGGGTCGATCTACTAGAAGTATAGATTTGTTCAACAGCCTTATCTACGAGATGGACCTTGTCGACACTCCTCTTCAGAATAGGTCCTTTTCGTGGTCCAGGACAGGTAGGGTTGGCAACAGGGTTGGGCCAAGGTAGGGGAGGATTCCCCATCCTCGCAAGGGGTATTTCCCCCATCCCCACCAATTGAAGCTGGGGACGGGGACAAGGATTCCCCACTGGGGGAAATGGGTCCCCTTCAAAACATGAAGATCCAATAGTATACAAGAGGGATAGTACCAAGGAATACATCATGGCTTACTTCAAAATGGTAGGTGGTAACACCAAATCGGCTATAGGATTGGCAAAAACGAAGGGGGTTGACAGGCAAAATAAAAAAAAAAAAAGTCGATATTTCTTCACTATTCGCCTTCTTGAATTGCTTTCCCCTAGAAGAGATAGAACTCTAGTAATAGAACTAAGAGTGACTTTACAGTGAACTTTTAGTTAGTAAACAGGGAAAAGAACAAATATTGTTATAACTATAACAACTAATTCACATACCCTTTTACAGGTATATAAATATCATCTTTATCTTTACTTGTCTATTTTACTCATCTATAAATAGAGTAAAAGAATATATATAGTTTAGTTAAAGGATAGATTTCCAAACATCATGATGTATCAGTATTTTTCATGATCTATGTTATTAATGAATTCGTAGAATAGATACTTATACAAATTCAAGATGTGCCAAGAACCAGATTTGAACTGGTGACTTCAGTCCTCTGCTTTACGAATTGAGCTATCCCGGCCATTTCCAACACATTATCCTTTTTTTAATAAATGAATTTAGTCTATGTCAATTGTAAATAAGAAAAAAGGTATTCCGAAGTCCTGGTCGTTGATTTTCTTTTCTTTTTTTCCTTAATAATATGAAATTTGATGGTTGAGTTGGGCCACAATTATTTTGATAAATTAATTCCATATTTCCATAACATATTAAATAAAATAAATACTCATTGGTAAAATTAATTAATATCTATAATTATAGGGTTTAGGCCTTTAGGGTATATATGTAATTATATATTTATTTGTAAAATTAATATATATTTATAGGGTATATATATATTTATTTGTAAAATTAATATATATTCATACCTTTTGTCAAAAAAAGGGGTGATCTACTCCACAGGACTCAACTCCGCAGGGAGTTTTGCCAACCCTAAGGACAGGAAGCAGACCGACTGCTTCTAA

mRNA sequence

ATGTTAGTCCTCTCATGGAATGCAAGGGGTCTTAATGCTTGCCTCAAAAGAGCTTTGGTGAAGGATCTATTGGTGAAATTCAATCCAGATGTTATTCTTCAAGAGTCTAAACTTGATGAGGTTGATCGTCGTATAGTGAAGTCCCTCTGGAGCAGTCGCCATGTTGGTTGGGTGGCCCTAAACGCCATCGGTTCTTCTAGTAGCATTCTGATTATTTGGAAGGAGGAAAATATCATTGTGGTTGACACAATCAAAGGACTCAACTCCGCAGGGAGTTTTGCCAACCCTAAGGACAGGAAGCAGACCGACTGCTTCTAA

Coding sequence (CDS)

ATGTTAGTCCTCTCATGGAATGCAAGGGGTCTTAATGCTTGCCTCAAAAGAGCTTTGGTGAAGGATCTATTGGTGAAATTCAATCCAGATGTTATTCTTCAAGAGTCTAAACTTGATGAGGTTGATCGTCGTATAGTGAAGTCCCTCTGGAGCAGTCGCCATGTTGGTTGGGTGGCCCTAAACGCCATCGGTTCTTCTAGTAGCATTCTGATTATTTGGAAGGAGGAAAATATCATTGTGGTTGACACAATCAAAGGACTCAACTCCGCAGGGAGTTTTGCCAACCCTAAGGACAGGAAGCAGACCGACTGCTTCTAA

Protein sequence

MLVLSWNARGLNACLKRALVKDLLVKFNPDVILQESKLDEVDRRIVKSLWSSRHVGWVALNAIGSSSSILIIWKEENIIVVDTIKGLNSAGSFANPKDRKQTDCF

Homology

[Close]

BLAST of Clc08G09530 vs. NCBI nr
Match: XP_031739979.1 (uncharacterized protein LOC116403332 [Cucumis sativus])

HSP 1 Score: 92.8 bits (229), Expect = 1.9e-15
Identity = 46/78 (58.97%), Postives = 60/78 (76.92%), Query Frame = 0


Query: 10 GLNACLKRALVKDLLVKFNPD-VILQESKLDEVDRRIVKSLWSSRHVGWVALNAIGSSSS 69
          G+     +A+VK+LLVKFNPD VILQ+SK+  V+R +VKS+WSS  VGW  L A GSS  
Sbjct: 3  GVTMLATKAVVKELLVKFNPDVVILQKSKVSTVNRHLVKSVWSSWFVGWATLEAYGSSGG 62

Query: 70 ILIIWKEENIIVVDTIKG 87
          ILI+WKE++I VVD+I+G
Sbjct: 63 ILILWKEDSITVVDSIQG 80

[Close]

BLAST of Clc08G09530 vs. NCBI nr
Match: RVW27472.1 (Transposon TX1 uncharacterized 149 kDa protein [Vitis vinifera])

HSP 1 Score: 83.6 bits (205), Expect = 1.1e-12
Identity = 41/87 (47.13%), Postives = 58/87 (66.67%), Query Frame = 0


Query: 1   MLVLSWNARGLNACLKRALVKDLLVKFNPDVI-LQESKLDEVDRRIVKSLWSSRHVGWVA 60
           M ++SWN RGL +  KR +VKD L   NPDV+ +QE+K +  DRR V S+W++R+  WVA
Sbjct: 273 MKIISWNVRGLGSRNKRRMVKDFLRSENPDVVMIQETKKENCDRRFVGSVWTARNKDWVA 332

Query: 61  LNAIGSSSSILIIWKEENIIVVDTIKG 87
           L A G+S  ILIIW  +N+   + + G
Sbjct: 333 LPASGASGGILIIWDSKNLRREEVVTG 359

[Close]

BLAST of Clc08G09530 vs. NCBI nr
Match: TYK11577.1 (hypothetical protein E5676_scaffold263G00140 [Cucumis melo var. makuwa])

HSP 1 Score: 83.2 bits (204), Expect = 1.5e-12
Identity = 38/77 (49.35%), Postives = 59/77 (76.62%), Query Frame = 0


Query: 10  GLNACLKRALVKDLLVKFNPDVIL-QESKLDEVDRRIVKSLWSSRHVGWVALNAIGSSSS 69
           GL A  KRAL+KDL+VKFN +V++  E+K  +++RR +K +W +R  GWVAL+AI  S+ 
Sbjct: 111 GLKARPKRALIKDLIVKFNRNVVIFHETKSSDINRRFIKYVWRNRRTGWVALDAIRMSAG 170

Query: 70  ILIIWKEENIIVVDTIK 86
           ILI+WKE++I ++D ++
Sbjct: 171 ILIMWKEDSITMIDAMQ 187

[Close]

BLAST of Clc08G09530 vs. NCBI nr
Match: RVW62762.1 (hypothetical protein CK203_060223 [Vitis vinifera])

HSP 1 Score: 82.8 bits (203), Expect = 1.9e-12
Identity = 43/93 (46.24%), Postives = 60/93 (64.52%), Query Frame = 0


Query: 1   MLVLSWNARGLNACLKRALVKDLLVKFNPDVI-LQESKLDEVDRRIVKSLWSSRHVGWVA 60
           M ++SWN RGL +  KR +VKD L   NPDV+ +QE+K +  DRR V S+W+ R+  WVA
Sbjct: 533 MKIISWNVRGLGSRNKRRMVKDFLRSENPDVVMIQETKKENCDRRFVGSVWTVRNKDWVA 592

Query: 61  LNAIGSSSSILIIWKEENIIVVDTIKGLNSAGS 93
           L A G+S  ILIIW  +N+   + + G  S+ S
Sbjct: 593 LPASGASGGILIIWDSKNLRREEVVIGSFSSQS 625

[Close]

BLAST of Clc08G09530 vs. NCBI nr
Match: RVX11533.1 (hypothetical protein CK203_015752 [Vitis vinifera])

HSP 1 Score: 82.8 bits (203), Expect = 1.9e-12
Identity = 41/87 (47.13%), Postives = 57/87 (65.52%), Query Frame = 0


Query: 1  MLVLSWNARGLNACLKRALVKDLLVKFNPDVI-LQESKLDEVDRRIVKSLWSSRHVGWVA 60
          M ++SWN RGL +  KR +VKD L   NPDV+ +QE+K +  DRR V S+W +R+  WVA
Sbjct: 1  MKIISWNVRGLGSRNKRRMVKDFLRSENPDVVMIQETKKENCDRRFVGSVWMARNKDWVA 60

Query: 61 LNAIGSSSSILIIWKEENIIVVDTIKG 87
          L A G+S  ILIIW  +N+   + + G
Sbjct: 61 LPASGASGGILIIWDSKNLRREEVVTG 87

[Close]

BLAST of Clc08G09530 vs. ExPASy TrEMBL
Match: A0A438CWA7 (Transposon TX1 uncharacterized 149 kDa protein OS=Vitis vinifera OX=29760 GN=YTX2_126 PE=4 SV=1)

HSP 1 Score: 83.6 bits (205), Expect = 5.5e-13
Identity = 41/87 (47.13%), Postives = 58/87 (66.67%), Query Frame = 0


Query: 1   MLVLSWNARGLNACLKRALVKDLLVKFNPDVI-LQESKLDEVDRRIVKSLWSSRHVGWVA 60
           M ++SWN RGL +  KR +VKD L   NPDV+ +QE+K +  DRR V S+W++R+  WVA
Sbjct: 273 MKIISWNVRGLGSRNKRRMVKDFLRSENPDVVMIQETKKENCDRRFVGSVWTARNKDWVA 332

Query: 61  LNAIGSSSSILIIWKEENIIVVDTIKG 87
           L A G+S  ILIIW  +N+   + + G
Sbjct: 333 LPASGASGGILIIWDSKNLRREEVVTG 359

[Close]

BLAST of Clc08G09530 vs. ExPASy TrEMBL
Match: A0A5D3CI31 (Reverse transcriptase domain-containing protein OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold263G00140 PE=4 SV=1)

HSP 1 Score: 83.2 bits (204), Expect = 7.2e-13
Identity = 38/77 (49.35%), Postives = 59/77 (76.62%), Query Frame = 0


Query: 10  GLNACLKRALVKDLLVKFNPDVIL-QESKLDEVDRRIVKSLWSSRHVGWVALNAIGSSSS 69
           GL A  KRAL+KDL+VKFN +V++  E+K  +++RR +K +W +R  GWVAL+AI  S+ 
Sbjct: 111 GLKARPKRALIKDLIVKFNRNVVIFHETKSSDINRRFIKYVWRNRRTGWVALDAIRMSAG 170

Query: 70  ILIIWKEENIIVVDTIK 86
           ILI+WKE++I ++D ++
Sbjct: 171 ILIMWKEDSITMIDAMQ 187

[Close]

BLAST of Clc08G09530 vs. ExPASy TrEMBL
Match: A0A2N9J9W3 (Reverse transcriptase domain-containing protein OS=Fagus sylvatica OX=28930 GN=FSB_LOCUS62008 PE=4 SV=1)

HSP 1 Score: 83.2 bits (204), Expect = 7.2e-13
Identity = 39/85 (45.88%), Postives = 60/85 (70.59%), Query Frame = 0


Query: 3   VLSWNARGLNACLKRALVKDLLVKFNPDVI-LQESKLDEVDRRIVKSLWSSRHVGWVALN 62
           +LSWN RGLN   KR +VK+LL  +  DV+ LQE+KLD +D  +V+SLWS+ +VGW  +N
Sbjct: 508 ILSWNVRGLNNPQKREIVKNLLRDWRCDVVCLQETKLDHMDLLLVRSLWSNPYVGWEVVN 567

Query: 63  AIGSSSSILIIWKEENIIVVDTIKG 87
           A+ ++  IL++W +  +  +D+I G
Sbjct: 568 AVNTAGGILLMWDQRVVDKIDSILG 592

[Close]

BLAST of Clc08G09530 vs. ExPASy TrEMBL
Match: A0A438JRF7 (Endo/exonuclease/phosphatase domain-containing protein OS=Vitis vinifera OX=29760 GN=CK203_015752 PE=3 SV=1)

HSP 1 Score: 82.8 bits (203), Expect = 9.4e-13
Identity = 41/87 (47.13%), Postives = 57/87 (65.52%), Query Frame = 0


Query: 1  MLVLSWNARGLNACLKRALVKDLLVKFNPDVI-LQESKLDEVDRRIVKSLWSSRHVGWVA 60
          M ++SWN RGL +  KR +VKD L   NPDV+ +QE+K +  DRR V S+W +R+  WVA
Sbjct: 1  MKIISWNVRGLGSRNKRRMVKDFLRSENPDVVMIQETKKENCDRRFVGSVWMARNKDWVA 60

Query: 61 LNAIGSSSSILIIWKEENIIVVDTIKG 87
          L A G+S  ILIIW  +N+   + + G
Sbjct: 61 LPASGASGGILIIWDSKNLRREEVVTG 87

[Close]

BLAST of Clc08G09530 vs. ExPASy TrEMBL
Match: A0A438FS30 (Uncharacterized protein OS=Vitis vinifera OX=29760 GN=CK203_060223 PE=4 SV=1)

HSP 1 Score: 82.8 bits (203), Expect = 9.4e-13
Identity = 43/93 (46.24%), Postives = 60/93 (64.52%), Query Frame = 0


Query: 1   MLVLSWNARGLNACLKRALVKDLLVKFNPDVI-LQESKLDEVDRRIVKSLWSSRHVGWVA 60
           M ++SWN RGL +  KR +VKD L   NPDV+ +QE+K +  DRR V S+W+ R+  WVA
Sbjct: 533 MKIISWNVRGLGSRNKRRMVKDFLRSENPDVVMIQETKKENCDRRFVGSVWTVRNKDWVA 592

Query: 61  LNAIGSSSSILIIWKEENIIVVDTIKGLNSAGS 93
           L A G+S  ILIIW  +N+   + + G  S+ S
Sbjct: 593 LPASGASGGILIIWDSKNLRREEVVIGSFSSQS 625

The following BLAST results are available for this feature:

BLAST of Clc08G09530 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_031739979.1	1.9e-15	58.97	uncharacterized protein LOC116403332 [Cucumis sativus]	[more]
RVW27472.1	1.1e-12	47.13	Transposon TX1 uncharacterized 149 kDa protein [Vitis vinifera]	[more]
TYK11577.1	1.5e-12	49.35	hypothetical protein E5676_scaffold263G00140 [Cucumis melo var. makuwa]	[more]
RVW62762.1	1.9e-12	46.24	hypothetical protein CK203_060223 [Vitis vinifera]	[more]
RVX11533.1	1.9e-12	47.13	hypothetical protein CK203_015752 [Vitis vinifera]	[more]

BLAST of Clc08G09530 vs. NCBI nr


Match Name	E-value	Identity	Description

BLAST of Clc08G09530 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A438CWA7	5.5e-13	47.13	Transposon TX1 uncharacterized 149 kDa protein OS=Vitis vinifera OX=29760 GN=YTX...	[more]
A0A5D3CI31	7.2e-13	49.35	Reverse transcriptase domain-containing protein OS=Cucumis melo var. makuwa OX=1...	[more]
A0A2N9J9W3	7.2e-13	45.88	Reverse transcriptase domain-containing protein OS=Fagus sylvatica OX=28930 GN=F...	[more]
A0A438JRF7	9.4e-13	47.13	Endo/exonuclease/phosphatase domain-containing protein OS=Vitis vinifera OX=2976...	[more]
A0A438FS30	9.4e-13	46.24	Uncharacterized protein OS=Vitis vinifera OX=29760 GN=CK203_060223 PE=4 SV=1	[more]

BLAST of Clc08G09530 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
IPR036691	Endonuclease/exonuclease/phosphatase superfamily	GENE3D	3.60.10.10	Endonuclease/exonuclease/phosphatase	coord: 1..103 e-value: 2.9E-7 score: 32.4
IPR036691	Endonuclease/exonuclease/phosphatase superfamily	SUPERFAMILY	56219	DNase I-like	coord: 1..84
None	No IPR available	PANTHER	PTHR22748:SF11	DNA-(APURINIC OR APYRIMIDINIC SITE) LYASE CHLOROPLASTIC	coord: 1..87
IPR004808	AP endonuclease 1	PANTHER	PTHR22748	AP ENDONUCLEASE	coord: 1..87

Relationships

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


Feature Name	Unique Name	Type
Clc08G09530.1	Clc08G09530.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006281	DNA repair
molecular_function	GO:0004518	nuclease activity