Clc04G07970 (gene) Watermelon (cordophanus) v2

Overview


Name	Clc04G07970
Type	gene
Organism	Citrullus lanatus subsp. cordophanus cv. cordophanus (Watermelon (cordophanus) v2)
Description	Retrovirus-related Pol polyprotein from transposon TNT 1-94
Location	ClcChr04: 21717979 .. 21718739 (-)
RNA-Seq Expression	Clc04G07970
Synteny	Clc04G07970

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideexonCDSthree_prime_UTR

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

ATGATGTTAAGTTTGGTCTAAAAATTTTCCACAAGCAAACACAAAGAGGCAAAGAGGAAGGAAATTTCCTTCACATTTCGACCAACCCTCAATGAAAAGACATTCTAATTTTTAAAACTAGAAAACGTGTTGTATATTCCCACTTCCTCCCCTTTCACAATAATAAAAATGCTACATTCATCTCATTATTCCTTCAAGTTTCTTCTTGTTTAATTTAAAGGCTGTTTTTTGAGATGGTTTTTTGGAATTGGAGGTGTTTGTTTCTGAGTTTTCTTCTGGTGGCTGTTTCTTTTAGAAATGGAGTTATTGTGGAAGCTAGTAGCAGACCCTTCTCAATCTTCCCAATACTAGAACCTAAAAAAGGTATATATAATATATATACACTGTATATGAGGGAAGATGGTCACTTTAATTTCTCTCTTTGGTCTCTCTTGTGATTTACATATAATTTGATTTTATGGGGGCTTTTTGATGACAGGTTTTAAGGGATATTATAATTCAAAGATTTTTGCAACAGTGGGAATTGAATGCAAGTGTTGTGATGGGATTGGAGGTAAATGTTCTACTGAGTTTACTACTTCTTGCTCTAATCTCCATTGTTCCCCTTGGAAACAATATTGAATCCAATCTCTATTTCCTTCCTTGCAATTCTCTCTCTCTCTCTCTGTTTTTTTTCCCTTGTAAAATACAAATGAGATAATATGGAATACGAGTATTTGGTGATGACAATGATATTATATATAAAACAATACTTATAGTGT

mRNA sequence

ATGATGCTGTTTTTTGAGATGGTTTTTTGGAATTGGAGGTGTTTGTTTCTGAGTTTTCTTCTGGTGGCTGTTTCTTTTAGAAATGGAGTTATTGTGGAAGCTAGTAGCAGACCCTTCTCAATCTTCCCAATACTAGAACCTAAAAAAGGTTTTAAGGGATATTATAATTCAAAGATTTTTGCAACAGTGGGAATTGAATGCAAGTGTTGTGATGGGATTGGAGGTAAATGTTCTACTGAGTTTACTACTTCTTGCTCTAATCTCCATTGTTCCCCTTGGAAACAATATTGAATCCAATCTCTATTTCCTTCCTTGCAATTCTCTCTCTCTCTCTCTGTTTTTTTTCCCTTGTAAAATACAAATGAGATAATATGGAATACGAGTATTTGGTGATGACAATGATATTATATATAAAACAATACTTATAGTGT

Coding sequence (CDS)

ATGATGCTGTTTTTTGAGATGGTTTTTTGGAATTGGAGGTGTTTGTTTCTGAGTTTTCTTCTGGTGGCTGTTTCTTTTAGAAATGGAGTTATTGTGGAAGCTAGTAGCAGACCCTTCTCAATCTTCCCAATACTAGAACCTAAAAAAGGTTTTAAGGGATATTATAATTCAAAGATTTTTGCAACAGTGGGAATTGAATGCAAGTGTTGTGATGGGATTGGAGGTAAATGTTCTACTGAGTTTACTACTTCTTGCTCTAATCTCCATTGTTCCCCTTGGAAACAATATTGA

Protein sequence

MMLFFEMVFWNWRCLFLSFLLVAVSFRNGVIVEASSRPFSIFPILEPKKGFKGYYNSKIFATVGIECKCCDGIGGKCSTEFTTSCSNLHCSPWKQY

Homology

[Close]

BLAST of Clc04G07970 vs. NCBI nr
Match: KAE8649554.1 (hypothetical protein Csa_018195 [Cucumis sativus])

HSP 1 Score: 105.9 bits (263), Expect = 2.0e-19
Identity = 54/75 (72.00%), Postives = 61/75 (81.33%), Query Frame = 0


Query: 7  MVFWNWRCLFLSFLLVAVSFRNGVI-VEASSRPFSIFPILEPKKGFKGYYNSKIFATVGI 66
          M F N++CLFL FLL  V FRNGVI VE SSRPFSI PIL+ +KGFKGYY+S+IFAT+GI
Sbjct: 1  MGFVNFKCLFLGFLLTFVPFRNGVIVVEGSSRPFSISPILKLQKGFKGYYDSQIFATMGI 60

Query: 67 ECKCCDGIGGKCSTE 81
          ECKCCD IGGK   E
Sbjct: 61 ECKCCDEIGGKKKRE 75

[Close]

BLAST of Clc04G07970 vs. NCBI nr
Match: KAG6595355.1 (hypothetical protein SDJN03_11908, partial [Cucurbita argyrosperma subsp. sororia])

HSP 1 Score: 94.4 bits (233), Expect = 5.9e-16
Identity = 49/93 (52.69%), Postives = 59/93 (63.44%), Query Frame = 0


Query: 6  EMVFWNWRCLFLSFLLVAVSFRNGVIVEASSRPFSIFPILEPKKGFKGYYNSKIFATVGI 65
          EM    W+   +  +LV   F NGV+VE SSR   + P+   K GF+  Y+S + AT+GI
Sbjct: 5  EMDLREWKWALVGLVLVGACFSNGVVVEGSSRRSWMLPVKLHKGGFEA-YDSNMIATLGI 64

Query: 66 ECKCCDG-IGGKCSTEF-TTSCSNLHCSPWKQY 97
          ECKCCD  IGGKCST F   SCSNL CSPWK Y
Sbjct: 65 ECKCCDDEIGGKCSTHFAAASCSNLRCSPWKHY 96

[Close]

BLAST of Clc04G07970 vs. NCBI nr
Match: PRQ43088.1 (hypothetical protein RchiOBHm_Chr3g0464651 [Rosa chinensis])

HSP 1 Score: 73.9 bits (180), Expect = 8.2e-10
Identity = 39/82 (47.56%), Postives = 52/82 (63.41%), Query Frame = 0


Query: 15 LFLSFLLVAVSFRNGVIVEASSRPFSIFPILEPKKGFKGYYNSKIFATVGIECKCCDGIG 74
          L L  LLVA +    + VEA  RP S+F         +GY  SK+F T+GI C+CCDG+G
Sbjct: 11 LALVILLVACASEKSLAVEA--RPLSLF-------SQQGY--SKVFGTLGIACECCDGVG 70

Query: 75 GKCSTEFTTSCSNLHCSPWKQY 97
          G+C + +T SCS+L C PWKQ+
Sbjct: 71 GECKSRWTGSCSSLKCLPWKQH 81

[Close]

BLAST of Clc04G07970 vs. NCBI nr
Match: KAB2013589.1 (hypothetical protein ES319_D09G166000v1 [Gossypium barbadense] >KAG4130504.1 hypothetical protein ERO13_D09G148100v2 [Gossypium hirsutum] >KAG8483956.1 hypothetical protein CXB51_023535 [Gossypium anomalum] >KJB36657.1 hypothetical protein B456_006G169100 [Gossypium raimondii] >MBA0615811.1 hypothetical protein [Gossypium davidsonii] >MBA0651052.1 hypothetical protein [Gossypium klotzschianum] >TYH54572.1 hypothetical protein ES332_D09G178200v1 [Gossypium tomentosum] >TYI65670.1 hypothetical protein E1A91_D09G171800v1 [Gossypium mustelinum])

HSP 1 Score: 73.6 bits (179), Expect = 1.1e-09
Identity = 38/78 (48.72%), Postives = 48/78 (61.54%), Query Frame = 0


Query: 17 LSFLLVAVSFRNGVIVEASSRPFSIFPILEPKKGFKGYYNSKIFATVGIECKCCDGIGGK 76
          L FLLV     + V + +++RPFSI P  +          SKIFAT+G+ CKCCDG GG+
Sbjct: 9  LLFLLVISVSSSQVPMVSAARPFSILPDQQ--------RYSKIFATLGVVCKCCDGSGGE 68

Query: 77 CSTEFTTSCSNLHCSPWK 95
          CST +T  CS L C PWK
Sbjct: 69 CSTTWTQPCSKLKCLPWK 78

[Close]

BLAST of Clc04G07970 vs. NCBI nr
Match: TYJ19036.1 (hypothetical protein E1A91_A09G163400v1 [Gossypium mustelinum])

HSP 1 Score: 73.2 bits (178), Expect = 1.4e-09
Identity = 37/78 (47.44%), Postives = 48/78 (61.54%), Query Frame = 0


Query: 17 LSFLLVAVSFRNGVIVEASSRPFSIFPILEPKKGFKGYYNSKIFATVGIECKCCDGIGGK 76
          L FLLV     + + + +++RPFSI P  +          SKIFAT+G+ CKCCDG GG+
Sbjct: 9  LLFLLVISVSSSQIPMVSAARPFSILPDQQ--------RYSKIFATLGVVCKCCDGSGGE 68

Query: 77 CSTEFTTSCSNLHCSPWK 95
          CST +T  CS L C PWK
Sbjct: 69 CSTTWTQPCSKLKCLPWK 78

[Close]

BLAST of Clc04G07970 vs. ExPASy TrEMBL
Match: A0A0A0KXD1 (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_4G303090 PE=4 SV=1)

HSP 1 Score: 152.5 bits (384), Expect = 8.8e-34
Identity = 73/91 (80.22%), Postives = 80/91 (87.91%), Query Frame = 0


Query: 7  MVFWNWRCLFLSFLLVAVSFRNGVI-VEASSRPFSIFPILEPKKGFKGYYNSKIFATVGI 66
          M F N++CLFL FLL  V FRNGVI VE SSRPFSI PIL+ +KGFKGYY+S+IFAT+GI
Sbjct: 1  MGFVNFKCLFLGFLLTFVPFRNGVIVVEGSSRPFSISPILKLQKGFKGYYDSQIFATMGI 60

Query: 67 ECKCCDGIGGKCSTEFTTSCSNLHCSPWKQY 97
          ECKCCD IGGKCSTEFTTSCSNLHCSPWKQY
Sbjct: 61 ECKCCDEIGGKCSTEFTTSCSNLHCSPWKQY 91

[Close]

BLAST of Clc04G07970 vs. ExPASy TrEMBL
Match: A0A2P6R9H6 (Uncharacterized protein OS=Rosa chinensis OX=74649 GN=RchiOBHm_Chr3g0464651 PE=4 SV=1)

HSP 1 Score: 73.9 bits (180), Expect = 4.0e-10
Identity = 39/82 (47.56%), Postives = 52/82 (63.41%), Query Frame = 0


Query: 15 LFLSFLLVAVSFRNGVIVEASSRPFSIFPILEPKKGFKGYYNSKIFATVGIECKCCDGIG 74
          L L  LLVA +    + VEA  RP S+F         +GY  SK+F T+GI C+CCDG+G
Sbjct: 11 LALVILLVACASEKSLAVEA--RPLSLF-------SQQGY--SKVFGTLGIACECCDGVG 70

Query: 75 GKCSTEFTTSCSNLHCSPWKQY 97
          G+C + +T SCS+L C PWKQ+
Sbjct: 71 GECKSRWTGSCSSLKCLPWKQH 81

[Close]

BLAST of Clc04G07970 vs. ExPASy TrEMBL
Match: A0A5D2JJ88 (Uncharacterized protein OS=Gossypium tomentosum OX=34277 GN=ES332_D09G178200v1 PE=4 SV=1)

HSP 1 Score: 73.6 bits (179), Expect = 5.2e-10
Identity = 38/78 (48.72%), Postives = 48/78 (61.54%), Query Frame = 0


Query: 17 LSFLLVAVSFRNGVIVEASSRPFSIFPILEPKKGFKGYYNSKIFATVGIECKCCDGIGGK 76
          L FLLV     + V + +++RPFSI P  +          SKIFAT+G+ CKCCDG GG+
Sbjct: 9  LLFLLVISVSSSQVPMVSAARPFSILPDQQ--------RYSKIFATLGVVCKCCDGSGGE 68

Query: 77 CSTEFTTSCSNLHCSPWK 95
          CST +T  CS L C PWK
Sbjct: 69 CSTTWTQPCSKLKCLPWK 78

[Close]

BLAST of Clc04G07970 vs. ExPASy TrEMBL
Match: A0A0D2NTZ8 (Uncharacterized protein OS=Gossypium raimondii OX=29730 GN=B456_006G169100 PE=4 SV=1)

HSP 1 Score: 73.6 bits (179), Expect = 5.2e-10
Identity = 38/78 (48.72%), Postives = 48/78 (61.54%), Query Frame = 0


Query: 17 LSFLLVAVSFRNGVIVEASSRPFSIFPILEPKKGFKGYYNSKIFATVGIECKCCDGIGGK 76
          L FLLV     + V + +++RPFSI P  +          SKIFAT+G+ CKCCDG GG+
Sbjct: 9  LLFLLVISVSSSQVPMVSAARPFSILPDQQ--------RYSKIFATLGVVCKCCDGSGGE 68

Query: 77 CSTEFTTSCSNLHCSPWK 95
          CST +T  CS L C PWK
Sbjct: 69 CSTTWTQPCSKLKCLPWK 78

[Close]

BLAST of Clc04G07970 vs. ExPASy TrEMBL
Match: A0A5J5Q4W0 (Uncharacterized protein OS=Gossypium barbadense OX=3634 GN=ES319_D09G166000v1 PE=4 SV=1)

HSP 1 Score: 73.6 bits (179), Expect = 5.2e-10
Identity = 38/78 (48.72%), Postives = 48/78 (61.54%), Query Frame = 0


Query: 17 LSFLLVAVSFRNGVIVEASSRPFSIFPILEPKKGFKGYYNSKIFATVGIECKCCDGIGGK 76
          L FLLV     + V + +++RPFSI P  +          SKIFAT+G+ CKCCDG GG+
Sbjct: 9  LLFLLVISVSSSQVPMVSAARPFSILPDQQ--------RYSKIFATLGVVCKCCDGSGGE 68

Query: 77 CSTEFTTSCSNLHCSPWK 95
          CST +T  CS L C PWK
Sbjct: 69 CSTTWTQPCSKLKCLPWK 78

The following BLAST results are available for this feature:

BLAST of Clc04G07970 vs. NCBI nr


Match Name	E-value	Identity	Description
KAE8649554.1	2.0e-19	72.00	hypothetical protein Csa_018195 [Cucumis sativus]	[more]
KAG6595355.1	5.9e-16	52.69	hypothetical protein SDJN03_11908, partial [Cucurbita argyrosperma subsp. sorori...	[more]
PRQ43088.1	8.2e-10	47.56	hypothetical protein RchiOBHm_Chr3g0464651 [Rosa chinensis]	[more]
KAB2013589.1	1.1e-09	48.72	hypothetical protein ES319_D09G166000v1 [Gossypium barbadense] >KAG4130504.1 hyp...	[more]
TYJ19036.1	1.4e-09	47.44	hypothetical protein E1A91_A09G163400v1 [Gossypium mustelinum]	[more]

BLAST of Clc04G07970 vs. NCBI nr


Match Name	E-value	Identity	Description

BLAST of Clc04G07970 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A0A0KXD1	8.8e-34	80.22	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_4G303090 PE=4 SV=1	[more]
A0A2P6R9H6	4.0e-10	47.56	Uncharacterized protein OS=Rosa chinensis OX=74649 GN=RchiOBHm_Chr3g0464651 PE=4...	[more]
A0A5D2JJ88	5.2e-10	48.72	Uncharacterized protein OS=Gossypium tomentosum OX=34277 GN=ES332_D09G178200v1 P...	[more]
A0A0D2NTZ8	5.2e-10	48.72	Uncharacterized protein OS=Gossypium raimondii OX=29730 GN=B456_006G169100 PE=4 ...	[more]
A0A5J5Q4W0	5.2e-10	48.72	Uncharacterized protein OS=Gossypium barbadense OX=3634 GN=ES319_D09G166000v1 PE...	[more]

BLAST of Clc04G07970 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description

InterPro

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

Position :

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IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PANTHER	PTHR37078	FAMILY NOT NAMED	coord: 14..95

Relationships

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


Feature Name	Unique Name	Type
Clc04G07970.2	Clc04G07970.2	mRNA