Cla003060 (gene) Watermelon (97103) v1

Overview
NameCla003060
Typegene
OrganismCitrullus. lanatus (Watermelon (97103) v1)
DescriptionTy3-gypsy retrotransposon protein (AHRD V1 ***- E5GBB0_CUCME)
LocationChr4 : 14548566 .. 14548889 (-)
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.
ATGGGAACGGATCTCAAAAGACCCAAAAGCTGGGGTCGTCATTCACTTGACAAGCGTACCTCAACTTCTAAACGACCAAACGAGGAGGCATCCCAACCAAATGTAATGTCAGTCATGATGGCTGACGTGGGAACAAGTGAGGAGAGAATGGCTGAACTTGAAAAGAAAGTTAACATGCTACTGAAGGCAGTTGAAGAAAGGGATTATGAGATTGCATCCCTCAAGAATCATATTGAAAGTCGTGATGCGACTGAATCAAGTCATACACCTGCAATCAAGAACAATGACAAAGGGAAGAAGGTTTTGCAAGATAGTCAGCCCTAA

mRNA sequence

ATGGGAACGGATCTCAAAAGACCCAAAAGCTGGGGTCGTCATTCACTTGACAAGCGTACCTCAACTTCTAAACGACCAAACGAGGAGGCATCCCAACCAAATGTAATGTCAGTCATGATGGCTGACGTGGGAACAAGTGAGGAGAGAATGGCTGAACTTGAAAAGAAAGTTAACATGCTACTGAAGGCAGTTGAAGAAAGGGATTATGAGATTGCATCCCTCAAGAATCATATTGAAAGTCGTGATGCGACTGAATCAAGTCATACACCTGCAATCAAGAACAATGACAAAGGGAAGAAGGTTTTGCAAGATAGTCAGCCCTAA

Coding sequence (CDS)

ATGGGAACGGATCTCAAAAGACCCAAAAGCTGGGGTCGTCATTCACTTGACAAGCGTACCTCAACTTCTAAACGACCAAACGAGGAGGCATCCCAACCAAATGTAATGTCAGTCATGATGGCTGACGTGGGAACAAGTGAGGAGAGAATGGCTGAACTTGAAAAGAAAGTTAACATGCTACTGAAGGCAGTTGAAGAAAGGGATTATGAGATTGCATCCCTCAAGAATCATATTGAAAGTCGTGATGCGACTGAATCAAGTCATACACCTGCAATCAAGAACAATGACAAAGGGAAGAAGGTTTTGCAAGATAGTCAGCCCTAA

Protein sequence

MGTDLKRPKSWGRHSLDKRTSTSKRPNEEASQPNVMSVMMADVGTSEERMAELEKKVNMLLKAVEERDYEIASLKNHIESRDATESSHTPAIKNNDKGKKVLQDSQP
Homology
[Close]
BLAST of Cla003060 vs. TrEMBL
Match: E5GBB0_CUCME (Ty3-gypsy retrotransposon protein OS=Cucumis melo subsp. melo PE=4 SV=1)

HSP 1 Score: 106.3 bits (264), Expect = 2.3e-20
Identity = 52/73 (71.23%), Postives = 61/73 (83.56%), Query Frame = 1 

Query: 15  SLDKRTSTSKRPNEEASQPNVMSVMMADVGTSEERMAELEKKVNMLLKAVEERDYEIASL 74
           ++DK  S S+  NEEA QPN+MSVM+ DV TSE RM ELEKKVNML+KAVEERD++IASL
Sbjct: 61  AIDKHNSLSEHSNEEAPQPNIMSVMVTDVDTSEARMVELEKKVNMLMKAVEERDFKIASL 120

Query: 75  KNHIESRDATESS 88
           KNHIESRD  ES+
Sbjct: 121 KNHIESRDTAEST 133

[Close]
BLAST of Cla003060 vs. TrEMBL
Match: E5GCP6_CUCME (Ty3-gypsy retrotransposon protein OS=Cucumis melo subsp. melo PE=4 SV=1)

HSP 1 Score: 84.3 bits (207), Expect = 9.6e-14
Identity = 40/81 (49.38%), Postives = 62/81 (76.54%), Query Frame = 1 

Query: 27  NEEASQPNVMSVMMADVGTSEERMAELEKKVNMLLKAVEERDYEIASLKNHIESRDATES 86
           +++AS   V+SVMM DV T+E  + E+E+K+N L+K +EERD+EIA+LK+ +++ +  ES
Sbjct: 75  SDKASHLEVVSVMMVDV-TAEATVTEMERKINFLMKVIEERDHEIAALKDQMKACETGES 134

Query: 87  SHTPAIKNNDKGKKVLQDSQP 108
           S TP +K  DKGK V+Q++QP
Sbjct: 135 SQTPVVKATDKGKNVVQENQP 154

[Close]
BLAST of Cla003060 vs. TrEMBL
Match: E5GB67_CUCME (Retrotransposon gag protein OS=Cucumis melo subsp. melo PE=4 SV=1)

HSP 1 Score: 78.2 bits (191), Expect = 6.9e-12
Identity = 43/82 (52.44%), Postives = 59/82 (71.95%), Query Frame = 1 

Query: 20  TSTSKRPNEEASQPNVMSVMMADVGTSEERMAELEKKVNMLLKAVEERDYEIASLKNHIE 79
           T TS   ++E S   V+SVMM DV T+E  MAE+EKK+N L+K VEERD+EIA+LK+ ++
Sbjct: 38  TPTSNLSDKE-SHLEVVSVMMIDV-TAEATMAEMEKKINFLMKVVEERDHEIAALKDQMK 97

Query: 80  SRDATESSHTPAIKNNDKGKKV 102
           + ++ ESS T  +K  DKGK V
Sbjct: 98  ACESAESSQTSVVKTTDKGKNV 117

[Close]
BLAST of Cla003060 vs. NCBI nr
Match: gi|307135887|gb|ADN33752.1| (ty3-gypsy retrotransposon protein [Cucumis melo subsp. melo])

HSP 1 Score: 106.3 bits (264), Expect = 3.4e-20
Identity = 52/73 (71.23%), Postives = 61/73 (83.56%), Query Frame = 1 

Query: 15  SLDKRTSTSKRPNEEASQPNVMSVMMADVGTSEERMAELEKKVNMLLKAVEERDYEIASL 74
           ++DK  S S+  NEEA QPN+MSVM+ DV TSE RM ELEKKVNML+KAVEERD++IASL
Sbjct: 61  AIDKHNSLSEHSNEEAPQPNIMSVMVTDVDTSEARMVELEKKVNMLMKAVEERDFKIASL 120

Query: 75  KNHIESRDATESS 88
           KNHIESRD  ES+
Sbjct: 121 KNHIESRDTAEST 133

[Close]
BLAST of Cla003060 vs. NCBI nr
Match: gi|307136441|gb|ADN34247.1| (ty3-gypsy retrotransposon protein [Cucumis melo subsp. melo])

HSP 1 Score: 84.3 bits (207), Expect = 1.4e-13
Identity = 40/81 (49.38%), Postives = 62/81 (76.54%), Query Frame = 1 

Query: 27  NEEASQPNVMSVMMADVGTSEERMAELEKKVNMLLKAVEERDYEIASLKNHIESRDATES 86
           +++AS   V+SVMM DV T+E  + E+E+K+N L+K +EERD+EIA+LK+ +++ +  ES
Sbjct: 75  SDKASHLEVVSVMMVDV-TAEATVTEMERKINFLMKVIEERDHEIAALKDQMKACETGES 134

Query: 87  SHTPAIKNNDKGKKVLQDSQP 108
           S TP +K  DKGK V+Q++QP
Sbjct: 135 SQTPVVKATDKGKNVVQENQP 154

[Close]
BLAST of Cla003060 vs. NCBI nr
Match: gi|307135838|gb|ADN33709.1| (retrotransposon gag protein [Cucumis melo subsp. melo])

HSP 1 Score: 78.2 bits (191), Expect = 9.8e-12
Identity = 43/82 (52.44%), Postives = 59/82 (71.95%), Query Frame = 1 

Query: 20  TSTSKRPNEEASQPNVMSVMMADVGTSEERMAELEKKVNMLLKAVEERDYEIASLKNHIE 79
           T TS   ++E S   V+SVMM DV T+E  MAE+EKK+N L+K VEERD+EIA+LK+ ++
Sbjct: 38  TPTSNLSDKE-SHLEVVSVMMIDV-TAEATMAEMEKKINFLMKVVEERDHEIAALKDQMK 97

Query: 80  SRDATESSHTPAIKNNDKGKKV 102
           + ++ ESS T  +K  DKGK V
Sbjct: 98  ACESAESSQTSVVKTTDKGKNV 117

[Close]
BLAST of Cla003060 vs. NCBI nr
Match: gi|659074577|ref|XP_008437679.1| (PREDICTED: uncharacterized protein LOC103483019 [Cucumis melo])

HSP 1 Score: 74.7 bits (182), Expect = 1.1e-10
Identity = 35/47 (74.47%), Postives = 41/47 (87.23%), Query Frame = 1 

Query: 61  LKAVEERDYEIASLKNHIESRDATESSHTPAIKNNDKGKKVLQDSQP 108
           +KAVEERD+EIA LKNHIESRDA ESSHT  IKN +KGK ++Q+SQP
Sbjct: 1   MKAVEERDFEIALLKNHIESRDAAESSHTHTIKNANKGKAIMQESQP 47

[Close]
BLAST of Cla003060 vs. NCBI nr
Match: gi|659118742|ref|XP_008459280.1| (PREDICTED: uncharacterized protein LOC103498458 [Cucumis melo])

HSP 1 Score: 62.0 bits (149), Expect = 7.3e-07
Identity = 26/67 (38.81%), Postives = 51/67 (76.12%), Query Frame = 1 

Query: 28  EEASQPNVMSVMMADVGTSEERMAELEKKVNMLLKAVEERDYEIASLKNHIESRDATESS 87
           ++ + P+VMSVMM D+ T+E  M E+E+K+N+++K V+E+D++I +L+  ++  + T+SS
Sbjct: 35  KKEAHPDVMSVMMVDI-TAEAAMTEMERKINLVMKVVKEQDHKITALREQMQIHETTKSS 94

Query: 88  HTPAIKN 95
            TP +++
Sbjct: 95  QTPQLQD 100

The following BLAST results are available for this feature:
BLAST of Cla003060 vs. TrEMBL
Match NameE-valueIdentityDescription
E5GBB0_CUCME2.3e-2071.23Ty3-gypsy retrotransposon protein OS=Cucumis melo subsp. melo PE=4 SV=1[more]
E5GCP6_CUCME9.6e-1449.38Ty3-gypsy retrotransposon protein OS=Cucumis melo subsp. melo PE=4 SV=1[more]
E5GB67_CUCME6.9e-1252.44Retrotransposon gag protein OS=Cucumis melo subsp. melo PE=4 SV=1[more]
BLAST of Cla003060 vs. NCBI nr
Match NameE-valueIdentityDescription
gi|307135887|gb|ADN33752.1|3.4e-2071.23ty3-gypsy retrotransposon protein [Cucumis melo subsp. melo][more]
gi|307136441|gb|ADN34247.1|1.4e-1349.38ty3-gypsy retrotransposon protein [Cucumis melo subsp. melo][more]
gi|307135838|gb|ADN33709.1|9.8e-1252.44retrotransposon gag protein [Cucumis melo subsp. melo][more]
gi|659074577|ref|XP_008437679.1|1.1e-1074.47PREDICTED: uncharacterized protein LOC103483019 [Cucumis melo][more]
gi|659118742|ref|XP_008459280.1|7.3e-0738.81PREDICTED: uncharacterized protein LOC103498458 [Cucumis melo][more]
Annotated Terms
The following terms have been associated with this gene:
Vocabulary: INTERPRO
TermDefinition
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 NameUnique NameType
Cla003060Cla003060.1mRNA


InterPro
Analysis Name: InterPro Annotations of watermelon (97103)
Date Performed: 2016-09-28
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableunknownCoilCoilcoord: 43..63
scor

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:
GeneOrganismBlock
Cla003060Watermelon (Charleston Gray)wcgwmB255
Cla003060Cucumber (Gy14) v2cgybwmB313
Cla003060Cucumber (Chinese Long) v3cucwmB354