Cla001464 (gene) Watermelon (97103) v1

Overview
NameCla001464
Typegene
OrganismCitrullus. lanatus (Watermelon (97103) v1)
DescriptionTy3-gypsy retrotransposon protein (AHRD V1 ***- E5GBB0_CUCME)
LocationChr4 : 12173317 .. 12173775 (+)
Genome Viewer
Gene Expression
   



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.
ATGGCATCTAAAGACAATGCTTCTAAAGCTTCAAGTGACGCTATCAGAAGACCGATTACTCGCAGCTGCTCCAAGGAAATACAATTGGACGAGCAACCTACCTTTGAGATCGCGAGAAATATATGGGAGCGGATCTCCAGGGACCCAAAAGCTGGGGTTGTCATCAAAGAAAATCCTACCCTTGACAGGCATACCTCAGCTTTTGAACAATCAAGCAATGAGGCATCCCACCCAAATGTAATGTCAGTCATGATGGCTGACGTGGGGACAAGTGAGGAGAGGATGGCCGAGCTCGAAAATAAAGTTAACATGCTACTGAAGGCAGTTGAAGAAAGGGATTATGAGATTGCATCCCTCAAGAATCATATTGAAAGTCGTGATGCAGCTGAATCAAGTCATACACCTGCAGTCAAGAACAATGACAAAGGGAAGAAGGTTTCGCTAGACAGTCAACCCTAA

mRNA sequence

ATGGCATCTAAAGACAATGCTTCTAAAGCTTCAAGTGACGCTATCAGAAGACCGATTACTCGCAGCTGCTCCAAGGAAATACAATTGGACGAGCAACCTACCTTTGAGATCGCGAGAAATATATGGGAGCGGATCTCCAGGGACCCAAAAGCTGGGGTTGTCATCAAAGAAAATCCTACCCTTGACAGGCATACCTCAGCTTTTGAACAATCAAGCAATGAGGCATCCCACCCAAATGTAATGTCAGTCATGATGGCTGACGTGGGGACAAGTGAGGAGAGGATGGCCGAGCTCGAAAATAAAGTTAACATGCTACTGAAGGCAGTTGAAGAAAGGGATTATGAGATTGCATCCCTCAAGAATCATATTGAAAGTCGTGATGCAGCTGAATCAAGTCATACACCTGCAGTCAAGAACAATGACAAAGGGAAGAAGGTTTCGCTAGACAGTCAACCCTAA

Coding sequence (CDS)

ATGGCATCTAAAGACAATGCTTCTAAAGCTTCAAGTGACGCTATCAGAAGACCGATTACTCGCAGCTGCTCCAAGGAAATACAATTGGACGAGCAACCTACCTTTGAGATCGCGAGAAATATATGGGAGCGGATCTCCAGGGACCCAAAAGCTGGGGTTGTCATCAAAGAAAATCCTACCCTTGACAGGCATACCTCAGCTTTTGAACAATCAAGCAATGAGGCATCCCACCCAAATGTAATGTCAGTCATGATGGCTGACGTGGGGACAAGTGAGGAGAGGATGGCCGAGCTCGAAAATAAAGTTAACATGCTACTGAAGGCAGTTGAAGAAAGGGATTATGAGATTGCATCCCTCAAGAATCATATTGAAAGTCGTGATGCAGCTGAATCAAGTCATACACCTGCAGTCAAGAACAATGACAAAGGGAAGAAGGTTTCGCTAGACAGTCAACCCTAA

Protein sequence

MASKDNASKASSDAIRRPITRSCSKEIQLDEQPTFEIARNIWERISRDPKAGVVIKENPTLDRHTSAFEQSSNEASHPNVMSVMMADVGTSEERMAELENKVNMLLKAVEERDYEIASLKNHIESRDAAESSHTPAVKNNDKGKKVSLDSQP
Homology
[Close]
BLAST of Cla001464 vs. TrEMBL
Match: E5GBB0_CUCME (Ty3-gypsy retrotransposon protein OS=Cucumis melo subsp. melo PE=4 SV=1)

HSP 1 Score: 172.2 bits (435), Expect = 5.0e-40
Identity = 86/133 (64.66%), Postives = 104/133 (78.20%), Query Frame = 1 

Query: 1   MASKDNASKASSDAIRRPITRSCSKEIQLDEQPT-FEIARNIWERISRDPKAGVVIKENP 60
           M S+ N SKA SD  +RP TRSCS+EIQ  E    FE+A+NIWE+IS+ PK G++IKENP
Sbjct: 1   MTSQGNTSKALSDIGKRPNTRSCSREIQSSEDMLPFEVAKNIWEQISKPPKGGIIIKENP 60

Query: 61  TLDRHTSAFEQSSNEASHPNVMSVMMADVGTSEERMAELENKVNMLLKAVEERDYEIASL 120
            +D+H S  E S+ EA  PN+MSVM+ DV TSE RM ELE KVNML+KAVEERD++IASL
Sbjct: 61  AIDKHNSLSEHSNEEAPQPNIMSVMVTDVDTSEARMVELEKKVNMLMKAVEERDFKIASL 120

Query: 121 KNHIESRDAAESS 133
           KNHIESRD AES+
Sbjct: 121 KNHIESRDTAEST 133

[Close]
BLAST of Cla001464 vs. TrEMBL
Match: E5GCP6_CUCME (Ty3-gypsy retrotransposon protein OS=Cucumis melo subsp. melo PE=4 SV=1)

HSP 1 Score: 108.6 bits (270), Expect = 6.7e-21
Identity = 63/156 (40.38%), Postives = 99/156 (63.46%), Query Frame = 1 

Query: 1   MASKDNASKAS--SDAIRRPITRSCSKEI--QLDEQPTFEIARNIWERISRDPKAGVVIK 60
           MA+   ASK+S  SD+    +T+S  K    + +++  F + +   E++   PK G++I+
Sbjct: 1   MATNKAASKSSVASDSYIGLVTQSHLKRSMQEQEQEQGFVLKKKSLEQLIESPKGGIIIR 60

Query: 61  ENPTLDRHTSAFEQSSNEASHPNVMSVMMADVGTSEERMAELENKVNMLLKAVEERDYEI 120
           +NP  +  T A    S++ASH  V+SVMM DV T+E  + E+E K+N L+K +EERD+EI
Sbjct: 61  DNPLFNNSTPA-SNLSDKASHLEVVSVMMVDV-TAEATVTEMERKINFLMKVIEERDHEI 120

Query: 121 ASLKNHIESRDAAESSHTPAVKNNDKGKKVSLDSQP 153
           A+LK+ +++ +  ESS TP VK  DKGK V  ++QP
Sbjct: 121 AALKDQMKACETGESSQTPVVKATDKGKNVVQENQP 154

[Close]
BLAST of Cla001464 vs. TrEMBL
Match: E5GB67_CUCME (Retrotransposon gag protein OS=Cucumis melo subsp. melo PE=4 SV=1)

HSP 1 Score: 95.9 bits (237), Expect = 4.5e-17
Identity = 51/117 (43.59%), Postives = 76/117 (64.96%), Query Frame = 1 

Query: 30  DEQPTFEIARNIWERISRDPKAGVVIKENPTLDRHTSAFEQSSNEASHPNVMSVMMADVG 89
           +++  F + +   E++    K G++I++NP  +  T     S  E SH  V+SVMM DV 
Sbjct: 3   EQEQGFVLKKKSLEQLIESLKGGIIIRDNPLFNNSTPTSNLSDKE-SHLEVVSVMMIDV- 62

Query: 90  TSEERMAELENKVNMLLKAVEERDYEIASLKNHIESRDAAESSHTPAVKNNDKGKKV 147
           T+E  MAE+E K+N L+K VEERD+EIA+LK+ +++ ++AESS T  VK  DKGK V
Sbjct: 63  TAEATMAEMEKKINFLMKVVEERDHEIAALKDQMKACESAESSQTSVVKTTDKGKNV 117

[Close]
BLAST of Cla001464 vs. TrEMBL
Match: E5GCM2_CUCME (Putative uncharacterized protein OS=Cucumis melo subsp. melo PE=4 SV=1)

HSP 1 Score: 84.0 bits (206), Expect = 1.8e-13
Identity = 53/121 (43.80%), Postives = 69/121 (57.02%), Query Frame = 1 

Query: 1   MASKDNASKAS--SDAIRRPITRSCSKEIQLDEQPTFEIARNIWERISRDPKAGVVIKEN 60
           MA    ASKA   +D   R I +S SK     ++    +A+  WE++   PK G++IKEN
Sbjct: 1   MALMKVASKAIIINDTYTRLIVQSHSKRSTQKQEQNSVLAKKSWEQLMESPKCGIIIKEN 60

Query: 61  PTLDRHTSAFEQSSNEASHPNVMSVMMADVGTSEERMAELENKVNMLLKAVEERDYEIAS 120
           P  +  T A   S  E SH  V+S+MMADV T E  M E+E K+N L+K VEERDY I  
Sbjct: 61  PLFEDSTPASNLSEKE-SHLEVVSIMMADV-TVEAVMVEMEMKINFLMKVVEERDYGITV 119

[Close]
BLAST of Cla001464 vs. TrEMBL
Match: E5GCE3_CUCME (Putative uncharacterized protein OS=Cucumis melo subsp. melo PE=4 SV=1)

HSP 1 Score: 83.6 bits (205), Expect = 2.3e-13
Identity = 50/132 (37.88%), Postives = 82/132 (62.12%), Query Frame = 1 

Query: 1   MASKDNASKAS--SDAIRRPITRSCSKEIQLDEQPTFEIARNIWERISRDPKAGVVIKEN 60
           MA +  ASKA+  +D+    +T+S SK    +++ +  + +  WE++   PK G+ I+EN
Sbjct: 1   MAPRKVASKATVTNDSYTGLVTQSHSKRSIQEQEQSSVLKKKSWEQLIESPKGGINIREN 60

Query: 61  PTLDRHTSAFEQSSNEASHPNVMSVMMADVGTSEERMAELENKVNMLLKAVEERDYEIAS 120
           P  +  T A   S  E SH  V+SV+MA V T+E  M E+E K+N L+KAV++RD+EI +
Sbjct: 61  PLFNNSTPASNLSDKE-SHLEVVSVIMAAV-TAETTMVEMERKINFLMKAVKDRDHEITA 120

Query: 121 LKNHIESRDAAE 131
           L++ +++   AE
Sbjct: 121 LEDQMKACVTAE 130

[Close]
BLAST of Cla001464 vs. NCBI nr
Match: gi|307135887|gb|ADN33752.1| (ty3-gypsy retrotransposon protein [Cucumis melo subsp. melo])

HSP 1 Score: 172.2 bits (435), Expect = 7.1e-40
Identity = 86/133 (64.66%), Postives = 104/133 (78.20%), Query Frame = 1 

Query: 1   MASKDNASKASSDAIRRPITRSCSKEIQLDEQPT-FEIARNIWERISRDPKAGVVIKENP 60
           M S+ N SKA SD  +RP TRSCS+EIQ  E    FE+A+NIWE+IS+ PK G++IKENP
Sbjct: 1   MTSQGNTSKALSDIGKRPNTRSCSREIQSSEDMLPFEVAKNIWEQISKPPKGGIIIKENP 60

Query: 61  TLDRHTSAFEQSSNEASHPNVMSVMMADVGTSEERMAELENKVNMLLKAVEERDYEIASL 120
            +D+H S  E S+ EA  PN+MSVM+ DV TSE RM ELE KVNML+KAVEERD++IASL
Sbjct: 61  AIDKHNSLSEHSNEEAPQPNIMSVMVTDVDTSEARMVELEKKVNMLMKAVEERDFKIASL 120

Query: 121 KNHIESRDAAESS 133
           KNHIESRD AES+
Sbjct: 121 KNHIESRDTAEST 133

[Close]
BLAST of Cla001464 vs. NCBI nr
Match: gi|307136441|gb|ADN34247.1| (ty3-gypsy retrotransposon protein [Cucumis melo subsp. melo])

HSP 1 Score: 108.6 bits (270), Expect = 9.6e-21
Identity = 63/156 (40.38%), Postives = 99/156 (63.46%), Query Frame = 1 

Query: 1   MASKDNASKAS--SDAIRRPITRSCSKEI--QLDEQPTFEIARNIWERISRDPKAGVVIK 60
           MA+   ASK+S  SD+    +T+S  K    + +++  F + +   E++   PK G++I+
Sbjct: 1   MATNKAASKSSVASDSYIGLVTQSHLKRSMQEQEQEQGFVLKKKSLEQLIESPKGGIIIR 60

Query: 61  ENPTLDRHTSAFEQSSNEASHPNVMSVMMADVGTSEERMAELENKVNMLLKAVEERDYEI 120
           +NP  +  T A    S++ASH  V+SVMM DV T+E  + E+E K+N L+K +EERD+EI
Sbjct: 61  DNPLFNNSTPA-SNLSDKASHLEVVSVMMVDV-TAEATVTEMERKINFLMKVIEERDHEI 120

Query: 121 ASLKNHIESRDAAESSHTPAVKNNDKGKKVSLDSQP 153
           A+LK+ +++ +  ESS TP VK  DKGK V  ++QP
Sbjct: 121 AALKDQMKACETGESSQTPVVKATDKGKNVVQENQP 154

[Close]
BLAST of Cla001464 vs. NCBI nr
Match: gi|307135838|gb|ADN33709.1| (retrotransposon gag protein [Cucumis melo subsp. melo])

HSP 1 Score: 95.9 bits (237), Expect = 6.5e-17
Identity = 51/117 (43.59%), Postives = 76/117 (64.96%), Query Frame = 1 

Query: 30  DEQPTFEIARNIWERISRDPKAGVVIKENPTLDRHTSAFEQSSNEASHPNVMSVMMADVG 89
           +++  F + +   E++    K G++I++NP  +  T     S  E SH  V+SVMM DV 
Sbjct: 3   EQEQGFVLKKKSLEQLIESLKGGIIIRDNPLFNNSTPTSNLSDKE-SHLEVVSVMMIDV- 62

Query: 90  TSEERMAELENKVNMLLKAVEERDYEIASLKNHIESRDAAESSHTPAVKNNDKGKKV 147
           T+E  MAE+E K+N L+K VEERD+EIA+LK+ +++ ++AESS T  VK  DKGK V
Sbjct: 63  TAEATMAEMEKKINFLMKVVEERDHEIAALKDQMKACESAESSQTSVVKTTDKGKNV 117

[Close]
BLAST of Cla001464 vs. NCBI nr
Match: gi|659118742|ref|XP_008459280.1| (PREDICTED: uncharacterized protein LOC103498458 [Cucumis melo])

HSP 1 Score: 85.1 bits (209), Expect = 1.1e-13
Identity = 41/101 (40.59%), Postives = 69/101 (68.32%), Query Frame = 1 

Query: 39  RNIWERISRDPKAGVVIKENPTLDRHTSAFEQSSNEASHPNVMSVMMADVGTSEERMAEL 98
           ++I +++   PKAG+ IKENP  D   SA  +   EA HP+VMSVMM D+ T+E  M E+
Sbjct: 2   QSILKQLMLSPKAGIFIKENPLYDNFDSALSKLKKEA-HPDVMSVMMVDI-TAEAAMTEM 61

Query: 99  ENKVNMLLKAVEERDYEIASLKNHIESRDAAESSHTPAVKN 140
           E K+N+++K V+E+D++I +L+  ++  +  +SS TP +++
Sbjct: 62  ERKINLVMKVVKEQDHKITALREQMQIHETTKSSQTPQLQD 100

[Close]
BLAST of Cla001464 vs. NCBI nr
Match: gi|307136413|gb|ADN34221.1| (hypothetical protein [Cucumis melo subsp. melo])

HSP 1 Score: 84.0 bits (206), Expect = 2.5e-13
Identity = 53/121 (43.80%), Postives = 69/121 (57.02%), Query Frame = 1 

Query: 1   MASKDNASKAS--SDAIRRPITRSCSKEIQLDEQPTFEIARNIWERISRDPKAGVVIKEN 60
           MA    ASKA   +D   R I +S SK     ++    +A+  WE++   PK G++IKEN
Sbjct: 1   MALMKVASKAIIINDTYTRLIVQSHSKRSTQKQEQNSVLAKKSWEQLMESPKCGIIIKEN 60

Query: 61  PTLDRHTSAFEQSSNEASHPNVMSVMMADVGTSEERMAELENKVNMLLKAVEERDYEIAS 120
           P  +  T A   S  E SH  V+S+MMADV T E  M E+E K+N L+K VEERDY I  
Sbjct: 61  PLFEDSTPASNLSEKE-SHLEVVSIMMADV-TVEAVMVEMEMKINFLMKVVEERDYGITV 119

The following BLAST results are available for this feature:
BLAST of Cla001464 vs. TrEMBL
Match NameE-valueIdentityDescription
E5GBB0_CUCME5.0e-4064.66Ty3-gypsy retrotransposon protein OS=Cucumis melo subsp. melo PE=4 SV=1[more]
E5GCP6_CUCME6.7e-2140.38Ty3-gypsy retrotransposon protein OS=Cucumis melo subsp. melo PE=4 SV=1[more]
E5GB67_CUCME4.5e-1743.59Retrotransposon gag protein OS=Cucumis melo subsp. melo PE=4 SV=1[more]
E5GCM2_CUCME1.8e-1343.80Putative uncharacterized protein OS=Cucumis melo subsp. melo PE=4 SV=1[more]
E5GCE3_CUCME2.3e-1337.88Putative uncharacterized protein OS=Cucumis melo subsp. melo PE=4 SV=1[more]
BLAST of Cla001464 vs. NCBI nr
Match NameE-valueIdentityDescription
gi|307135887|gb|ADN33752.1|7.1e-4064.66ty3-gypsy retrotransposon protein [Cucumis melo subsp. melo][more]
gi|307136441|gb|ADN34247.1|9.6e-2140.38ty3-gypsy retrotransposon protein [Cucumis melo subsp. melo][more]
gi|307135838|gb|ADN33709.1|6.5e-1743.59retrotransposon gag protein [Cucumis melo subsp. melo][more]
gi|659118742|ref|XP_008459280.1|1.1e-1340.59PREDICTED: uncharacterized protein LOC103498458 [Cucumis melo][more]
gi|307136413|gb|ADN34221.1|2.5e-1343.80hypothetical protein [Cucumis melo subsp. 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
biological_process GO:0015074 DNA integration
biological_process GO:0051252 regulation of RNA metabolic process
cellular_component GO:0005575 cellular_component
molecular_function GO:0003674 molecular_function
molecular_function GO:0003676 nucleic acid binding
molecular_function GO:0004523 RNA-DNA hybrid ribonuclease activity
Relationships

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

Feature NameUnique NameType
Cla001464Cla001464.1mRNA


InterPro
Analysis Name: InterPro Annotations of watermelon (97103)
Date Performed: 2016-09-28
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableunknownCoilCoilcoord: 88..108
scor

Synteny
The following gene(s) are orthologous to this gene:
GeneOrthologueOrganismBlock
Cla001464Cucsa.170080Cucumber (Gy14) v1cgywmB324
The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:
GeneOrganismBlock
Cla001464Watermelon (97103) v2wmwmbB296
Cla001464Watermelon (Charleston Gray)wcgwmB263
Cla001464Bottle gourd (USVL1VR-Ls)lsiwmB149