Cla002688 (gene) Watermelon (97103) v1

Overview
NameCla002688
Typegene
OrganismCitrullus. lanatus (Watermelon (97103) v1)
DescriptionRNA-directed DNA polymerase (Reverse transcriptase) (AHRD V1 *-*- A2Q518_MEDTR); contains Interpro domain(s) IPR015706 RNA-directed DNA polymerase (reverse transcriptase), related
LocationChr7 : 69950 .. 70917 (-)
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.
ATGATAAAACTGAGGAAATGCAAAGGAGGGGTTTATCCCCACTCCAAAATCTTCCCAAAAGTACTTTTCCTTGTCGTCTGCCACCACGCAGAAAACAAGATGGGAAACGGAAGGGATAAGAGGAGCAATATATCTCCACAGGTTTCGGTGTGTGCCTTTAACCCCTTTGGCCACCCACTCATAGGGGTGGAGACCGTACTTGCTCGCAATAATCTTCTGTCACAAGGATTTAGGATAAGGGCAAACTGCCAAAGCCATTTAGCCAACAGAGCTTTGGCGGTTGAAAGTCGATTCATTTATGGTTATGACGTGCCTCAAACATCCATCGACATTAGTCATCTCCTTTTTGTTGACGATACTTTGCCTTTCTCCACCAACAATGAAGAGAAGATTGAAAATCTCATCATTTTGGTTAGTCTTTTTTAGGAAGCCTCTTGTCTCAATATTAATAGGGTATCAATTGTAAGGATTCTTGGTGGAAAATATTGCTTTGAAGTTTGATTATAAGGTGGATCAATGGCCGACCATCTACTTAGGGCTCCCTTTTTATCGTAAACCTTCCTCTCTATCTTTTTGGCAACCCATTTTGGCCAGGATTGACAAGAGACTTCACTCTTGGCAACACAACCATCTCTCCAAAGGAGGTAAACTCACACTATTGGAACCTATGTTAGCCAATCAACACATATGCTTTTTACCCTCTTCAAAGTACCATCAAAAGTGGCTGAGAACATTGAAAAGTGTTTTACAAATTTCTTGTGGTCTGGATACAGGGGCAACAACTTATCCCACCTCTTTCATTTATTGTGCACTTGGTCCGAAAAAGTGCATGCCTTTGTGGGTGTGATTCAAATGTAGGAGTGAGCAATGTGCGCTGCACCACACAAGAGAGTTCAGCTTGCATATCTGGCTGTGCTAGGTCATCTTCGAATTCCTCATCCTCCTCACATGATTCTTGGTCATCTTGA

mRNA sequence

ATGATAAAACTGAGGAAATGCAAAGGAGGGGTTTATCCCCACTCCAAAATCTTCCCAAAAGTACTTTTCCTTGTCGTCTGCCACCACGCAGAAAACAAGATGGGAAACGGAAGGGATAAGAGGAGCAATATATCTCCACAGGTTTCGGTGTGTGCCTTTAACCCCTTTGGCCACCCACTCATAGGGGTGGAGACCGTACTTGCTCGCAATAATCTTCTGTCACAAGGATTTAGGATAAGGGCAAACTGCCAAAGCCATTTAGCCAACAGAGCTTTGGCGGTTGAAAGTCGATTCATTTATGGTTATGACGTGCCTCAAACATCCATCGACATTAGTCATCTCCTTTTTGTTGACGATACTTTGCCTTTCTCCACCAACAATGAAGAGAAGATTGAAAATCTCATCATTTTGGTGGATCAATGGCCGACCATCTACTTAGGGCTCCCTTTTTATCGTAAACCTTCCTCTCTATCTTTTTGGCAACCCATTTTGGCCAGGATTGACAAGAGACTTCACTCTTGGCAACACAACCATCTCTCCAAAGGAGGAGTGAGCAATGTGCGCTGCACCACACAAGAGAGTTCAGCTTGCATATCTGGCTGTGCTAGGTCATCTTCGAATTCCTCATCCTCCTCACATGATTCTTGGTCATCTTGA

Coding sequence (CDS)

ATGATAAAACTGAGGAAATGCAAAGGAGGGGTTTATCCCCACTCCAAAATCTTCCCAAAAGTACTTTTCCTTGTCGTCTGCCACCACGCAGAAAACAAGATGGGAAACGGAAGGGATAAGAGGAGCAATATATCTCCACAGGTTTCGGTGTGTGCCTTTAACCCCTTTGGCCACCCACTCATAGGGGTGGAGACCGTACTTGCTCGCAATAATCTTCTGTCACAAGGATTTAGGATAAGGGCAAACTGCCAAAGCCATTTAGCCAACAGAGCTTTGGCGGTTGAAAGTCGATTCATTTATGGTTATGACGTGCCTCAAACATCCATCGACATTAGTCATCTCCTTTTTGTTGACGATACTTTGCCTTTCTCCACCAACAATGAAGAGAAGATTGAAAATCTCATCATTTTGGTGGATCAATGGCCGACCATCTACTTAGGGCTCCCTTTTTATCGTAAACCTTCCTCTCTATCTTTTTGGCAACCCATTTTGGCCAGGATTGACAAGAGACTTCACTCTTGGCAACACAACCATCTCTCCAAAGGAGGAGTGAGCAATGTGCGCTGCACCACACAAGAGAGTTCAGCTTGCATATCTGGCTGTGCTAGGTCATCTTCGAATTCCTCATCCTCCTCACATGATTCTTGGTCATCTTGA

Protein sequence

MIKLRKCKGGVYPHSKIFPKVLFLVVCHHAENKMGNGRDKRSNISPQVSVCAFNPFGHPLIGVETVLARNNLLSQGFRIRANCQSHLANRALAVESRFIYGYDVPQTSIDISHLLFVDDTLPFSTNNEEKIENLIILVDQWPTIYLGLPFYRKPSSLSFWQPILARIDKRLHSWQHNHLSKGGVSNVRCTTQESSACISGCARSSSNSSSSSHDSWSS
Homology
[Close]
BLAST of Cla002688 vs. TrEMBL
Match: A5AYC5_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_023495 PE=4 SV=1)

HSP 1 Score: 62.0 bits (149), Expect = 1.0e-06
Identity = 36/107 (33.64%), Postives = 58/107 (54.21%), Query Frame = 1 

Query: 87  LANRALAVESRFIY-GYDVPQTSIDISHLLFVDDTLPFSTNNEEKIE---NLIILVDQ-- 146
           L+   L  E R +  G+ V +  + ++HL F DDT+ F+ +  E+++   NL+++  Q  
Sbjct: 297 LSRMLLKTEERSVLEGFRVGRNRVRVTHLQFADDTIFFADSCAEELQTLKNLLLVCGQIS 356

Query: 147 ------WPTIYLGLPFYRKPSSLSFWQPILARIDKRLHSW-QHNHLS 181
                 WP +YLGLP    P++  FW P++ RI KRL    +  HLS
Sbjct: 357 GLKASDWPILYLGLPLGGNPTTCGFWDPVIERISKRLAGGKRRTHLS 403

[Close]
BLAST of Cla002688 vs. TrEMBL
Match: A5BE85_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_042969 PE=4 SV=1)

HSP 1 Score: 60.5 bits (145), Expect = 3.0e-06
Identity = 25/46 (54.35%), Postives = 31/46 (67.39%), Query Frame = 1 

Query: 138 VDQWPTIYLGLPFYRKPSSLSFWQPILARIDKRLHSWQHNHLSKGG 184
           V  WP +YLGLP  R P+S+SFW P+L R+ KRL  W+   LS GG
Sbjct: 224 VSDWPLMYLGLPLGRNPNSISFWDPVLDRVSKRLDRWKRVFLSLGG 269

[Close]
BLAST of Cla002688 vs. TrEMBL
Match: M1BBU9_SOLTU (Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400016171 PE=4 SV=1)

HSP 1 Score: 58.9 bits (141), Expect = 8.8e-06
Identity = 35/116 (30.17%), Postives = 51/116 (43.97%), Query Frame = 1 

Query: 106 QTSIDISHLLFVDDTLPFSTNNEEKIE--NLIIL-------------------------- 165
           +TS+ +SHLL+ DDTL F      ++E  NL +L                          
Sbjct: 79  ETSVSVSHLLYADDTLIFCGAERSQVEHLNLTLLIFEAISGLHINMLKSVIYPVNTVPDL 138

Query: 166 ----------VDQWPTIYLGLPFYRKPSSLSFWQPILARIDKRLHSWQHNHLSKGG 184
                     V  +PT YLGLP   K  S+  W  ++ +++KRL +WQ  +LS GG
Sbjct: 139 HDLAEQLCCSVGSFPTTYLGLPLGAKYKSIDIWSSVIEKVEKRLATWQRQYLSMGG 194

[Close]
BLAST of Cla002688 vs. TrEMBL
Match: M1BBU8_SOLTU (Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400016171 PE=4 SV=1)

HSP 1 Score: 58.9 bits (141), Expect = 8.8e-06
Identity = 35/116 (30.17%), Postives = 51/116 (43.97%), Query Frame = 1 

Query: 106 QTSIDISHLLFVDDTLPFSTNNEEKIE--NLIIL-------------------------- 165
           +TS+ +SHLL+ DDTL F      ++E  NL +L                          
Sbjct: 79  ETSVSVSHLLYADDTLIFCGAERSQVEHLNLTLLIFEAISGLHINMLKSVIYPVNTVPDL 138

Query: 166 ----------VDQWPTIYLGLPFYRKPSSLSFWQPILARIDKRLHSWQHNHLSKGG 184
                     V  +PT YLGLP   K  S+  W  ++ +++KRL +WQ  +LS GG
Sbjct: 139 HDLAEQLCCSVGSFPTTYLGLPLGAKYKSIDIWSSVIEKVEKRLATWQRQYLSMGG 194

[Close]
BLAST of Cla002688 vs. TrEMBL
Match: A5BYB2_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_031500 PE=4 SV=1)

HSP 1 Score: 58.9 bits (141), Expect = 8.8e-06
Identity = 25/61 (40.98%), Postives = 37/61 (60.66%), Query Frame = 1 

Query: 127 NEEKIENLIILVD----QWPTIYLGLPFYRKPSSLSFWQPILARIDKRLHSWQHNHLSKG 184
           ++  +  L +L+D     WP +YLGLP  R P++  FW P++ RI +RL  WQ  +LS G
Sbjct: 487 DQNHLSRLALLLDCKASDWPILYLGLPLGRNPTAYGFWDPVIERISRRLDGWQKAYLSFG 546

[Close]
BLAST of Cla002688 vs. NCBI nr
Match: gi|698535804|ref|XP_009764302.1| (PREDICTED: uncharacterized protein LOC104216045 [Nicotiana sylvestris])

HSP 1 Score: 67.0 bits (162), Expect = 4.6e-08
Identity = 33/91 (36.26%), Postives = 52/91 (57.14%), Query Frame = 1 

Query: 98  FIYGYDVP---QTSIDISHLLFVDDTLPFSTNNEEKI---ENLIILVDQWPTIYLGLPFY 157
           F+ G+  P    ++  +SHLLF DDTL F   + +++   + ++  V  +PT YLGLP  
Sbjct: 151 FLRGFSAPIGVPSARRVSHLLFADDTLVFCDADMDQLTYLKQVLYKVSSFPTTYLGLPLG 210

Query: 158 RKPSSLSFWQPILARIDKRLHSWQHNHLSKG 183
                 + W P++ R++KRL  WQ  +LSKG
Sbjct: 211 ASHKDTTVWNPVIERVEKRLAGWQKRYLSKG 241

[Close]
BLAST of Cla002688 vs. NCBI nr
Match: gi|697152449|ref|XP_009630460.1| (PREDICTED: uncharacterized protein LOC104120408 [Nicotiana tomentosiformis])

HSP 1 Score: 63.9 bits (154), Expect = 3.9e-07
Identity = 36/94 (38.30%), Postives = 50/94 (53.19%), Query Frame = 1 

Query: 93  AVESRFIYGYDVPQTSID---ISHLLFVDDTLPFSTNNEEKIENLIILVDQWPTIYLGLP 152
           A    F+ G+  P   +    +SHLLF DDTL F   + +++  L  L    PT YLGLP
Sbjct: 63  AASGGFLRGFSAPIGVLSARRVSHLLFADDTLVFCDADMDQLTFLKQL-GSLPTTYLGLP 122

Query: 153 FYRKPSSLSFWQPILARIDKRLHSWQHNHLSKGG 184
                   S W P++ R++K+L  WQ  +LSKGG
Sbjct: 123 LGALQKDTSVWNPVIERVEKQLAGWQKWYLSKGG 155

[Close]
BLAST of Cla002688 vs. NCBI nr
Match: gi|658031110|ref|XP_008351012.1| (PREDICTED: putative ribonuclease H protein At1g65750 [Malus domestica])

HSP 1 Score: 63.5 bits (153), Expect = 5.1e-07
Identity = 37/127 (29.13%), Postives = 53/127 (41.73%), Query Frame = 1 

Query: 96  SRFIYGYDVPQTSIDISHLLFVDDTLPFSTNNEEKIENLII------------------- 155
           +  I G  V   +++ISHL F DDT+ F   +EE   NL++                   
Sbjct: 130 NHLIKGLRVGVDNVEISHLQFADDTIFFLNGHEENWNNLLLLLDLFGKVSXLKINKTKCS 189

Query: 156 --------------------LVDQWPTIYLGLPFYRKPSSLSFWQPILARIDKRLHSWQH 184
                                V  WP  YLGLP   KP S+ FW P++ +++ RL  W+ 
Sbjct: 190 LVGINSDCEKIYRLASSWGCEVGAWPMSYLGLPLGGKPKSIKFWDPVVEKVELRLQGWKK 249

[Close]
BLAST of Cla002688 vs. NCBI nr
Match: gi|697185141|ref|XP_009601594.1| (PREDICTED: uncharacterized protein LOC104096858 [Nicotiana tomentosiformis])

HSP 1 Score: 62.4 bits (150), Expect = 1.1e-06
Identity = 35/94 (37.23%), Postives = 49/94 (52.13%), Query Frame = 1 

Query: 93  AVESRFIYGYDVPQTSID---ISHLLFVDDTLPFSTNNEEKIENLIILVDQWPTIYLGLP 152
           A    F+ G+  P   +    +SHLL  DDTL F   + +++  L  L    PT YLGLP
Sbjct: 261 AASGGFLRGFSAPIGVLSARRVSHLLSADDTLVFCDADMDQLTCLKQL-GSLPTTYLGLP 320

Query: 153 FYRKPSSLSFWQPILARIDKRLHSWQHNHLSKGG 184
                   + W P++ R++KRL  WQ  +LSKGG
Sbjct: 321 LGALQKDTTVWNPVIERVEKRLARWQKRYLSKGG 353

[Close]
BLAST of Cla002688 vs. NCBI nr
Match: gi|147818638|emb|CAN65045.1| (hypothetical protein VITISV_023495 [Vitis vinifera])

HSP 1 Score: 62.0 bits (149), Expect = 1.5e-06
Identity = 36/107 (33.64%), Postives = 58/107 (54.21%), Query Frame = 1 

Query: 87  LANRALAVESRFIY-GYDVPQTSIDISHLLFVDDTLPFSTNNEEKIE---NLIILVDQ-- 146
           L+   L  E R +  G+ V +  + ++HL F DDT+ F+ +  E+++   NL+++  Q  
Sbjct: 297 LSRMLLKTEERSVLEGFRVGRNRVRVTHLQFADDTIFFADSCAEELQTLKNLLLVCGQIS 356

Query: 147 ------WPTIYLGLPFYRKPSSLSFWQPILARIDKRLHSW-QHNHLS 181
                 WP +YLGLP    P++  FW P++ RI KRL    +  HLS
Sbjct: 357 GLKASDWPILYLGLPLGGNPTTCGFWDPVIERISKRLAGGKRRTHLS 403

The following BLAST results are available for this feature:
BLAST of Cla002688 vs. TrEMBL
Match NameE-valueIdentityDescription
A5AYC5_VITVI1.0e-0633.64Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_023495 PE=4 SV=1[more]
A5BE85_VITVI3.0e-0654.35Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_042969 PE=4 SV=1[more]
M1BBU9_SOLTU8.8e-0630.17Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400016171 PE=4 SV=1[more]
M1BBU8_SOLTU8.8e-0630.17Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400016171 PE=4 SV=1[more]
A5BYB2_VITVI8.8e-0640.98Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_031500 PE=4 SV=1[more]
BLAST of Cla002688 vs. NCBI nr
Match NameE-valueIdentityDescription
gi|698535804|ref|XP_009764302.1|4.6e-0836.26PREDICTED: uncharacterized protein LOC104216045 [Nicotiana sylvestris][more]
gi|697152449|ref|XP_009630460.1|3.9e-0738.30PREDICTED: uncharacterized protein LOC104120408 [Nicotiana tomentosiformis][more]
gi|658031110|ref|XP_008351012.1|5.1e-0729.13PREDICTED: putative ribonuclease H protein At1g65750 [Malus domestica][more]
gi|697185141|ref|XP_009601594.1|1.1e-0637.23PREDICTED: uncharacterized protein LOC104096858 [Nicotiana tomentosiformis][more]
gi|147818638|emb|CAN65045.1|1.5e-0633.64hypothetical protein VITISV_023495 [Vitis vinifera][more]
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:0006412 translation
cellular_component GO:0005575 cellular_component
cellular_component GO:0005622 intracellular
cellular_component GO:0005840 ribosome
molecular_function GO:0003674 molecular_function
molecular_function GO:0003824 catalytic activity
molecular_function GO:0003735 structural constituent of ribosome
Unigene
This gene is associated with the following unigenes:
Unigene NameAnalysis NameSequence type in Unigene
WMU36065watermelon unigene v2 vs TrEMBLtranscribed_cluster
WMU78087watermelon EST collection version 2.0transcribed_cluster
Relationships

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

Feature NameUnique NameType
Cla002688Cla002688.1mRNA


The following transcribed_cluster feature(s) are associated with this gene:

Feature NameUnique NameType
WMU36065WMU36065transcribed_cluster
WMU78087WMU78087transcribed_cluster