Cla012456 (gene) Watermelon (97103) v1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Cla012456
Type	gene
Organism	Citrullus. lanatus (Watermelon (97103) v1)
Description	Retrotransposon gag protein (AHRD V1 ***- E5GB67_CUCME); contains Interpro domain(s) IPR005162 Retrotransposon gag protein
Location	Chr8 : 1093884 .. 1094342 (-)

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.

ATGGAGGTGTTAGTCAGACTTCACACTTGTATTCCAAACCGTATACAAAGAGGATTGACAAGCTTAGGATGTCAAACGGGTACCAGCCACCCAAGTTTCAGTAGTTTGATGGAATGGGGCAATTCAAAGCAACATGTTGCTCATTTCATCGAAACATGTGAAAATGCTAGTACGCGAGGGGACTTGGAGTCTGAGTCAATTGACAGCTGGAAACAACTCGAAAGAGAGTTTTTAATTCGCTTTTACAACACAAGACGAATAGCCAGTATGTTCGAGCTCACCAACACTAAGCAACGAAAAGGTGAACCCGTCATCGATTACATAAATCGTTGGAGAGCCGCAAGTCTAGATTGCAAAGATCGTCTCACTGAACTCTCTGTCGTTGAGAGGTGCATTCAAGGCATGCATTGGGGACTCCTTTACATTCTCCAAGGTATAAAGCCTCGCACCTTTGAGTAA

mRNA sequence

ATGGAGGTGTTAGTCAGACTTCACACTTGTATTCCAAACCGTATACAAAGAGGATTGACAAGCTTAGGATGTCAAACGGGTACCAGCCACCCAAGTTTCAGTAGTTTGATGGAATGGGGCAATTCAAAGCAACATGTTGCTCATTTCATCGAAACATGTGAAAATGCTAGTACGCGAGGGGACTTGGAGTCTGAGTCAATTGACAGCTGGAAACAACTCGAAAGAGAGTTTTTAATTCGCTTTTACAACACAAGACGAATAGCCAGTATGTTCGAGCTCACCAACACTAAGCAACGAAAAGGTGAACCCGTCATCGATTACATAAATCGTTGGAGAGCCGCAAGTCTAGATTGCAAAGATCGTCTCACTGAACTCTCTGTCGTTGAGAGGTGCATTCAAGGCATGCATTGGGGACTCCTTTACATTCTCCAAGGTATAAAGCCTCGCACCTTTGAGTAA

Coding sequence (CDS)

ATGGAGGTGTTAGTCAGACTTCACACTTGTATTCCAAACCGTATACAAAGAGGATTGACAAGCTTAGGATGTCAAACGGGTACCAGCCACCCAAGTTTCAGTAGTTTGATGGAATGGGGCAATTCAAAGCAACATGTTGCTCATTTCATCGAAACATGTGAAAATGCTAGTACGCGAGGGGACTTGGAGTCTGAGTCAATTGACAGCTGGAAACAACTCGAAAGAGAGTTTTTAATTCGCTTTTACAACACAAGACGAATAGCCAGTATGTTCGAGCTCACCAACACTAAGCAACGAAAAGGTGAACCCGTCATCGATTACATAAATCGTTGGAGAGCCGCAAGTCTAGATTGCAAAGATCGTCTCACTGAACTCTCTGTCGTTGAGAGGTGCATTCAAGGCATGCATTGGGGACTCCTTTACATTCTCCAAGGTATAAAGCCTCGCACCTTTGAGTAA

Protein sequence

MEVLVRLHTCIPNRIQRGLTSLGCQTGTSHPSFSSLMEWGNSKQHVAHFIETCENASTRGDLESESIDSWKQLEREFLIRFYNTRRIASMFELTNTKQRKGEPVIDYINRWRAASLDCKDRLTELSVVERCIQGMHWGLLYILQGIKPRTFE

Homology

[Close]

BLAST of Cla012456 vs. TrEMBL
Match: E5GCP6_CUCME (Ty3-gypsy retrotransposon protein OS=Cucumis melo subsp. melo PE=4 SV=1)

HSP 1 Score: 189.9 bits (481), Expect = 2.3e-45
Identity = 96/154 (62.34%), Postives = 106/154 (68.83%), Query Frame = 1


Query: 19  LTSLGCQTGTSHPSFSSLMEWGNSKQHVAHFIETCENASTRGD----------------- 78
           + +L    G   P F      GN KQH+AHF+ETCENA +RGD                 
Sbjct: 199 IDNLRMPLGYQPPKFQQFDGRGNPKQHIAHFVETCENAGSRGDQLVKQFVRSLKGNAFEW 258

Query: 79  ---LESESIDSWKQLEREFLIRFYNTRRIASMFELTNTKQRKGEPVIDYINRWRAASLDC 138
              LE E ID+W+QLE EFL RFY+TRR+ SM ELTNTKQRKGEPVIDYINRWRA SLDC
Sbjct: 259 YTDLEPEVIDNWEQLEIEFLNRFYSTRRVVSMMELTNTKQRKGEPVIDYINRWRALSLDC 318

Query: 139 KDRLTELSVVERCIQGMHWGLLYILQGIKPRTFE 153
           KD+LTELS VE C QGMHW LLYILQGIKPRTFE
Sbjct: 319 KDKLTELSAVEMCTQGMHWELLYILQGIKPRTFE 352

[Close]

BLAST of Cla012456 vs. TrEMBL
Match: M5WXF7_PRUPE (Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa020726mg PE=4 SV=1)

HSP 1 Score: 186.0 bits (471), Expect = 3.3e-44
Identity = 94/144 (65.28%), Postives = 103/144 (71.53%), Query Frame = 1


Query: 17  RGLTSLGCQTGTSHPSFSSLMEWGNSKQHVAHFIETCENASTRGD--------LESESID 76
           R + +L   TG   P F      GN KQ +AHFIETC NA T GD        LESES++
Sbjct: 249 RRIENLRMPTGYQPPKFQQFDGKGNPKQRIAHFIETCNNAGTEGDHLVKQFVHLESESLN 308

Query: 77  SWKQLEREFLIRFYNTRRIASMFELTNTKQRKGEPVIDYINRWRAASLDCKDRLTELSVV 136
           SW Q+EREFL RFY+TRR  SM ELTNTKQ K EPV+DYINRW + SLDCK RL ELS V
Sbjct: 309 SWDQMEREFLNRFYSTRRTVSMMELTNTKQWKDEPVVDYINRWLSLSLDCKYRLLELSAV 368

Query: 137 ERCIQGMHWGLLYILQGIKPRTFE 153
           E CIQGMHWGLLYILQGIKPRTFE
Sbjct: 369 EMCIQGMHWGLLYILQGIKPRTFE 392

[Close]

BLAST of Cla012456 vs. TrEMBL
Match: E5GBB6_CUCME (Retrotransposon protein putative ty3-gypsy sub-class (Fragment) OS=Cucumis melo subsp. melo PE=4 SV=1)

HSP 1 Score: 185.3 bits (469), Expect = 5.7e-44
Identity = 91/126 (72.22%), Postives = 97/126 (76.98%), Query Frame = 1


Query: 27  GTSHPSFSSLMEWGNSKQHVAHFIETCENASTRGDLESESIDSWKQLEREFLIRFYNTRR 86
           G   P F      GN KQHVAHFIETCE + TRGD        W+QLER+FL RFY+TRR
Sbjct: 36  GYQPPKFQQFDGKGNPKQHVAHFIETCETSGTRGDF-------WEQLERDFLNRFYSTRR 95

Query: 87  IASMFELTNTKQRKGEPVIDYINRWRAASLDCKDRLTELSVVERCIQGMHWGLLYILQGI 146
           I SM ELT TK+RKGEPVIDYINRWRA SLDCKDRL+ELS VE C QGMHWGLLYILQGI
Sbjct: 96  IVSMIELTATKKRKGEPVIDYINRWRALSLDCKDRLSELSAVEMCTQGMHWGLLYILQGI 154

Query: 147 KPRTFE 153
           KPRTFE
Sbjct: 156 KPRTFE 154

[Close]

BLAST of Cla012456 vs. TrEMBL
Match: M5W7Y6_PRUPE (Uncharacterized protein (Fragment) OS=Prunus persica GN=PRUPE_ppa018422mg PE=4 SV=1)

HSP 1 Score: 179.5 bits (454), Expect = 3.1e-42
Identity = 88/136 (64.71%), Postives = 102/136 (75.00%), Query Frame = 1


Query: 19  LTSLGCQTGTSHPSFSSLMEWGNSKQHVAHFIETCENASTRGD--LESESIDSWKQLERE 78
           L +L   TG   P F      GN KQHVAHFIE C +A T  D  ++  SI +W+Q+ERE
Sbjct: 252 LDNLRMPTGYQPPKFMQFNGKGNPKQHVAHFIEMCNSAGTNDDYLVKQFSIHNWEQMERE 311

Query: 79  FLIRFYNTRRIASMFELTNTKQRKGEPVIDYINRWRAASLDCKDRLTELSVVERCIQGMH 138
           FL RFY+TRR  SM ELT+TKQR+ EPV+DYINRWR+ SLDCKDR++ELS VE CIQGMH
Sbjct: 312 FLNRFYSTRRSVSMLELTSTKQRQDEPVVDYINRWRSLSLDCKDRVSELSAVEMCIQGMH 371

Query: 139 WGLLYILQGIKPRTFE 153
           W LLYILQGIKPRTFE
Sbjct: 372 WSLLYILQGIKPRTFE 387

[Close]

BLAST of Cla012456 vs. TrEMBL
Match: E5GB67_CUCME (Retrotransposon gag protein OS=Cucumis melo subsp. melo PE=4 SV=1)

HSP 1 Score: 178.3 bits (451), Expect = 6.9e-42
Identity = 90/154 (58.44%), Postives = 102/154 (66.23%), Query Frame = 1


Query: 19  LTSLGCQTGTSHPSFSSLMEWGNSKQHVAHFIETCENASTRGD----------------- 78
           + +L    G   P F      GN KQH+AHF+ETCENA +RGD                 
Sbjct: 136 IDNLRMPLGYQPPKFQQFDGKGNPKQHIAHFVETCENAGSRGDQLVRQFVRSLKGNAFEW 195

Query: 79  ---LESESIDSWKQLEREFLIRFYNTRRIASMFELTNTKQRKGEPVIDYINRWRAASLDC 138
              LE E  DSW+QLE+EFL RFY+T+   SM ELT TKQRKG+ +IDYINRWRA SLDC
Sbjct: 196 YTDLEPEVTDSWEQLEKEFLNRFYSTKCTVSMMELTTTKQRKGDSIIDYINRWRALSLDC 255

Query: 139 KDRLTELSVVERCIQGMHWGLLYILQGIKPRTFE 153
           KD+LTELS VE C QGMHW LLYILQGIKPRTFE
Sbjct: 256 KDKLTELSAVEMCTQGMHWELLYILQGIKPRTFE 289

[Close]

BLAST of Cla012456 vs. NCBI nr
Match: gi|307136441|gb|ADN34247.1| (ty3-gypsy retrotransposon protein [Cucumis melo subsp. melo])

HSP 1 Score: 189.9 bits (481), Expect = 3.3e-45
Identity = 96/154 (62.34%), Postives = 106/154 (68.83%), Query Frame = 1


Query: 19  LTSLGCQTGTSHPSFSSLMEWGNSKQHVAHFIETCENASTRGD----------------- 78
           + +L    G   P F      GN KQH+AHF+ETCENA +RGD                 
Sbjct: 199 IDNLRMPLGYQPPKFQQFDGRGNPKQHIAHFVETCENAGSRGDQLVKQFVRSLKGNAFEW 258

Query: 79  ---LESESIDSWKQLEREFLIRFYNTRRIASMFELTNTKQRKGEPVIDYINRWRAASLDC 138
              LE E ID+W+QLE EFL RFY+TRR+ SM ELTNTKQRKGEPVIDYINRWRA SLDC
Sbjct: 259 YTDLEPEVIDNWEQLEIEFLNRFYSTRRVVSMMELTNTKQRKGEPVIDYINRWRALSLDC 318

Query: 139 KDRLTELSVVERCIQGMHWGLLYILQGIKPRTFE 153
           KD+LTELS VE C QGMHW LLYILQGIKPRTFE
Sbjct: 319 KDKLTELSAVEMCTQGMHWELLYILQGIKPRTFE 352

[Close]

BLAST of Cla012456 vs. NCBI nr
Match: gi|595883646|ref|XP_007212829.1| (hypothetical protein PRUPE_ppa020726mg [Prunus persica])

HSP 1 Score: 186.0 bits (471), Expect = 4.8e-44
Identity = 94/144 (65.28%), Postives = 103/144 (71.53%), Query Frame = 1


Query: 17  RGLTSLGCQTGTSHPSFSSLMEWGNSKQHVAHFIETCENASTRGD--------LESESID 76
           R + +L   TG   P F      GN KQ +AHFIETC NA T GD        LESES++
Sbjct: 249 RRIENLRMPTGYQPPKFQQFDGKGNPKQRIAHFIETCNNAGTEGDHLVKQFVHLESESLN 308

Query: 77  SWKQLEREFLIRFYNTRRIASMFELTNTKQRKGEPVIDYINRWRAASLDCKDRLTELSVV 136
           SW Q+EREFL RFY+TRR  SM ELTNTKQ K EPV+DYINRW + SLDCK RL ELS V
Sbjct: 309 SWDQMEREFLNRFYSTRRTVSMMELTNTKQWKDEPVVDYINRWLSLSLDCKYRLLELSAV 368

Query: 137 ERCIQGMHWGLLYILQGIKPRTFE 153
           E CIQGMHWGLLYILQGIKPRTFE
Sbjct: 369 EMCIQGMHWGLLYILQGIKPRTFE 392

[Close]

BLAST of Cla012456 vs. NCBI nr
Match: gi|307135894|gb|ADN33758.1| (retrotransposon protein putative ty3-gypsy sub-class [Cucumis melo subsp. melo])

HSP 1 Score: 185.3 bits (469), Expect = 8.1e-44
Identity = 91/126 (72.22%), Postives = 97/126 (76.98%), Query Frame = 1


Query: 27  GTSHPSFSSLMEWGNSKQHVAHFIETCENASTRGDLESESIDSWKQLEREFLIRFYNTRR 86
           G   P F      GN KQHVAHFIETCE + TRGD        W+QLER+FL RFY+TRR
Sbjct: 36  GYQPPKFQQFDGKGNPKQHVAHFIETCETSGTRGDF-------WEQLERDFLNRFYSTRR 95

Query: 87  IASMFELTNTKQRKGEPVIDYINRWRAASLDCKDRLTELSVVERCIQGMHWGLLYILQGI 146
           I SM ELT TK+RKGEPVIDYINRWRA SLDCKDRL+ELS VE C QGMHWGLLYILQGI
Sbjct: 96  IVSMIELTATKKRKGEPVIDYINRWRALSLDCKDRLSELSAVEMCTQGMHWGLLYILQGI 154

Query: 147 KPRTFE 153
           KPRTFE
Sbjct: 156 KPRTFE 154

[Close]

BLAST of Cla012456 vs. NCBI nr
Match: gi|698468031|ref|XP_009783263.1| (PREDICTED: uncharacterized protein LOC104231895 [Nicotiana sylvestris])

HSP 1 Score: 180.6 bits (457), Expect = 2.0e-42
Identity = 87/133 (65.41%), Postives = 98/133 (73.68%), Query Frame = 1


Query: 40  GNSKQHVAHFIETCENASTRG--------------------DLESESIDSWKQLEREFLI 99
           GN +QH+AHF+ETC NA T G                    DLE+ESIDSW+QLE+EFL 
Sbjct: 17  GNPRQHIAHFVETCSNAGTHGDLLVKQFVRSLKGNAFGWYIDLETESIDSWEQLEKEFLN 76

Query: 100 RFYNTRRIASMFELTNTKQRKGEPVIDYINRWRAASLDCKDRLTELSVVERCIQGMHWGL 153
           RFY+TRR  SM ELT TKQRK EPV+DYIN W+A  LDCKDRL+E+SVVE CIQGMHW L
Sbjct: 77  RFYSTRRTVSMIELTGTKQRKDEPVVDYINHWKALGLDCKDRLSEISVVEMCIQGMHWDL 136

[Close]

BLAST of Cla012456 vs. NCBI nr
Match: gi|595841541|ref|XP_007208227.1| (hypothetical protein PRUPE_ppa018422mg, partial [Prunus persica])

HSP 1 Score: 179.5 bits (454), Expect = 4.5e-42
Identity = 88/136 (64.71%), Postives = 102/136 (75.00%), Query Frame = 1


Query: 19  LTSLGCQTGTSHPSFSSLMEWGNSKQHVAHFIETCENASTRGD--LESESIDSWKQLERE 78
           L +L   TG   P F      GN KQHVAHFIE C +A T  D  ++  SI +W+Q+ERE
Sbjct: 252 LDNLRMPTGYQPPKFMQFNGKGNPKQHVAHFIEMCNSAGTNDDYLVKQFSIHNWEQMERE 311

Query: 79  FLIRFYNTRRIASMFELTNTKQRKGEPVIDYINRWRAASLDCKDRLTELSVVERCIQGMH 138
           FL RFY+TRR  SM ELT+TKQR+ EPV+DYINRWR+ SLDCKDR++ELS VE CIQGMH
Sbjct: 312 FLNRFYSTRRSVSMLELTSTKQRQDEPVVDYINRWRSLSLDCKDRVSELSAVEMCIQGMH 371

Query: 139 WGLLYILQGIKPRTFE 153
           W LLYILQGIKPRTFE
Sbjct: 372 WSLLYILQGIKPRTFE 387

The following BLAST results are available for this feature:

BLAST of Cla012456 vs. TrEMBL


Match Name	E-value	Identity	Description
E5GCP6_CUCME	2.3e-45	62.34	Ty3-gypsy retrotransposon protein OS=Cucumis melo subsp. melo PE=4 SV=1	[more]
M5WXF7_PRUPE	3.3e-44	65.28	Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa020726mg PE=4 SV=1	[more]
E5GBB6_CUCME	5.7e-44	72.22	Retrotransposon protein putative ty3-gypsy sub-class (Fragment) OS=Cucumis melo ...	[more]
M5W7Y6_PRUPE	3.1e-42	64.71	Uncharacterized protein (Fragment) OS=Prunus persica GN=PRUPE_ppa018422mg PE=4 S...	[more]
E5GB67_CUCME	6.9e-42	58.44	Retrotransposon gag protein OS=Cucumis melo subsp. melo PE=4 SV=1	[more]

BLAST of Cla012456 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|307136441\|gb\|ADN34247.1\|	3.3e-45	62.34	ty3-gypsy retrotransposon protein [Cucumis melo subsp. melo]	[more]
gi\|595883646\|ref\|XP_007212829.1\|	4.8e-44	65.28	hypothetical protein PRUPE_ppa020726mg [Prunus persica]	[more]
gi\|307135894\|gb\|ADN33758.1\|	8.1e-44	72.22	retrotransposon protein putative ty3-gypsy sub-class [Cucumis melo subsp. melo]	[more]
gi\|698468031\|ref\|XP_009783263.1\|	2.0e-42	65.41	PREDICTED: uncharacterized protein LOC104231895 [Nicotiana sylvestris]	[more]
gi\|595841541\|ref\|XP_007208227.1\|	4.5e-42	64.71	hypothetical protein PRUPE_ppa018422mg, partial [Prunus persica]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR005162	Retrotrans_gag_dom

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 Name	Unique Name	Type
Cla012456	Cla012456.1	mRNA

InterPro

Analysis Name: InterPro Annotations of watermelon (97103)
Date Performed: 2016-09-28


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR005162	Retrotransposon gag domain	PFAM	PF03732	Retrotrans_gag	coord: 62..136 score: 2.

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:


Gene	Organism	Block
Cla012456	Cucurbita pepo (Zucchini)	cpewmB544
Cla012456	Cucurbita pepo (Zucchini)	cpewmB759
Cla012456	Bottle gourd (USVL1VR-Ls)	lsiwmB467
Cla012456	Cucumber (Gy14) v2	cgybwmB351
Cla012456	Melon (DHL92) v3.6.1	medwmB007
Cla012456	Silver-seed gourd	carwmB0154
Cla012456	Silver-seed gourd	carwmB0676
Cla012456	Cucumber (Chinese Long) v3	cucwmB402
Cla012456	Watermelon (97103) v2	wmwmbB101
Cla012456	Wax gourd	wgowmB124
Cla012456	Cucumber (Gy14) v1	cgywmB444
Cla012456	Cucurbita maxima (Rimu)	cmawmB022
Cla012456	Cucurbita maxima (Rimu)	cmawmB417
Cla012456	Cucurbita moschata (Rifu)	cmowmB011
Cla012456	Cucurbita moschata (Rifu)	cmowmB411
Cla012456	Wild cucumber (PI 183967)	cpiwmB385
Cla012456	Melon (DHL92) v3.5.1	mewmB009
Cla012456	Watermelon (Charleston Gray)	wcgwmB401
Cla012456	Cucumber (Chinese Long) v2	cuwmB379