Cla002667 (gene) Watermelon (97103) v1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Cla002667
Type	gene
Organism	Citrullus. lanatus (Watermelon (97103) v1)
Description	Retrotransposon gag protein (AHRD V1 ***- E5GB67_CUCME)
Location	Chr3 : 13539048 .. 13539561 (+)

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.

ATGGAAAGAGAGCGTCGCAACGCTGCTGTTGTGATGCGCGGACGCTGCTCTCAGGTTTTAGCGTCGCAACGCTACCCCAATTTTGGTAACTTTGTTATTTTCTTCTCTTTTTCACCGTATTCTTGCTCGGTTTTGATCTTTTGGTATTTTCTTCTAATTTTCCTCATTTTAACCTGAAAATCACTAGCAAACAAGTTAAATCTATTATAAACTCCCATAATTTGAGAGAATAGAAAGCACTTTTCAAGTGCTTATCAAGAGGCGTCGTCTAACCTTAAAAGAAAGACAAGAAAAGGTTTACCCGTTTCCTGACTCCGATGTTGCAGACATGTTGGAGCAACTATTGGAGAAACAAGTCATTCAATTGCCAGAGTGCAAGCAACCTGAGCAGTTAGGGAAGGTCAGTGATTCCAATTACTGTAAGTATCATCGAGTCGTTAGCCATCCGGTTGAGAAATGCTTCATGCTGAAAGAGCTAATTCTGAAGTTGGCTTGCAAAAGAAGATTGACTTAG

mRNA sequence

ATGGAAAGAGAGCGTCGCAACGCTGCTGTTGTGATGCGCGGACGCTGCTCTCAGGTTTTAGCGTCGCAACGCTACCCCAATTTTGTGCTTATCAAGAGGCGTCGTCTAACCTTAAAAGAAAGACAAGAAAAGGTTTACCCGTTTCCTGACTCCGATGTTGCAGACATGTTGGAGCAACTATTGGAGAAACAAGTCATTCAATTGCCAGAGTGCAAGCAACCTGAGCAGTTAGGGAAGGTCAGTGATTCCAATTACTGTAAGTATCATCGAGTCGTTAGCCATCCGGTTGAGAAATGCTTCATGCTGAAAGAGCTAATTCTGAAGTTGGCTTGCAAAAGAAGATTGACTTAG

Coding sequence (CDS)

ATGGAAAGAGAGCGTCGCAACGCTGCTGTTGTGATGCGCGGACGCTGCTCTCAGGTTTTAGCGTCGCAACGCTACCCCAATTTTGTGCTTATCAAGAGGCGTCGTCTAACCTTAAAAGAAAGACAAGAAAAGGTTTACCCGTTTCCTGACTCCGATGTTGCAGACATGTTGGAGCAACTATTGGAGAAACAAGTCATTCAATTGCCAGAGTGCAAGCAACCTGAGCAGTTAGGGAAGGTCAGTGATTCCAATTACTGTAAGTATCATCGAGTCGTTAGCCATCCGGTTGAGAAATGCTTCATGCTGAAAGAGCTAATTCTGAAGTTGGCTTGCAAAAGAAGATTGACTTAG

Protein sequence

MERERRNAAVVMRGRCSQVLASQRYPNFVLIKRRRLTLKERQEKVYPFPDSDVADMLEQLLEKQVIQLPECKQPEQLGKVSDSNYCKYHRVVSHPVEKCFMLKELILKLACKRRLT

Homology

[Close]

BLAST of Cla002667 vs. TrEMBL
Match: E5GCP6_CUCME (Ty3-gypsy retrotransposon protein OS=Cucumis melo subsp. melo PE=4 SV=1)

HSP 1 Score: 144.8 bits (364), Expect = 6.5e-32
Identity = 66/84 (78.57%), Postives = 78/84 (92.86%), Query Frame = 1


Query: 32  KRRRLTLKERQEKVYPFPDSDVADMLEQLLEKQVIQLPECKQPEQLGKVSDSNYCKYHRV 91
           ++RR TL+ERQ+KVYPFPDSDVADMLEQL+EKQ+IQLPECK+PEQ GKV D NYCKYHRV
Sbjct: 426 EKRRPTLRERQKKVYPFPDSDVADMLEQLIEKQLIQLPECKRPEQAGKVDDPNYCKYHRV 485

Query: 92  VSHPVEKCFMLKELILKLACKRRL 116
           +SHPVEKCF+LKELILKLA + ++
Sbjct: 486 ISHPVEKCFVLKELILKLARENKI 509

[Close]

BLAST of Cla002667 vs. TrEMBL
Match: E5GBB0_CUCME (Ty3-gypsy retrotransposon protein OS=Cucumis melo subsp. melo PE=4 SV=1)

HSP 1 Score: 134.0 bits (336), Expect = 1.1e-28
Identity = 63/126 (50.00%), Postives = 92/126 (73.02%), Query Frame = 1


Query: 2   ERERRNAAVVMRGRCSQVLASQRYPNFVLIKRRRL------------TLKERQEKVYPFP 61
           ++E ++   V++G   + +     P  ++ K +++            TLKERQEKVYPFP
Sbjct: 188 KKEVKSTQKVLKGATKEAMVVSTTPLKLVSKEKKMEKRQDEGEKRCPTLKERQEKVYPFP 247

Query: 62  DSDVADMLEQLLEKQVIQLPECKQPEQLGKVSDSNYCKYHRVVSHPVEKCFMLKELILKL 116
           DSD++DML+QLL+KQ+IQLPE K+P ++G+V+D NYCKYHRV+SHP+EKCF+LKELILKL
Sbjct: 248 DSDLSDMLDQLLKKQLIQLPEFKRPVEMGRVNDPNYCKYHRVISHPIEKCFVLKELILKL 307

[Close]

BLAST of Cla002667 vs. TrEMBL
Match: E5GB67_CUCME (Retrotransposon gag protein OS=Cucumis melo subsp. melo PE=4 SV=1)

HSP 1 Score: 124.0 bits (310), Expect = 1.2e-25
Identity = 58/84 (69.05%), Postives = 73/84 (86.90%), Query Frame = 1


Query: 32  KRRRLTLKERQEKVYPFPDSDVADMLEQLLEKQVIQLPECKQPEQLGKVSDSNYCKYHRV 91
           ++R  TL+ERQ+KVYPF DS+VA+MLEQL+EKQ+IQLPEC++PEQ  KV D NYCKYH V
Sbjct: 363 EKRCPTLRERQKKVYPFLDSNVANMLEQLIEKQLIQLPECERPEQARKVDDPNYCKYHWV 422

Query: 92  VSHPVEKCFMLKELILKLACKRRL 116
           +SHPVEKCF+LKE ILKLA + ++
Sbjct: 423 ISHPVEKCFVLKERILKLARENKI 446

[Close]

BLAST of Cla002667 vs. TrEMBL
Match: A5C4T7_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_020798 PE=4 SV=1)

HSP 1 Score: 123.6 bits (309), Expect = 1.5e-25
Identity = 54/84 (64.29%), Postives = 71/84 (84.52%), Query Frame = 1


Query: 32  KRRRLTLKERQEKVYPFPDSDVADMLEQLLEKQVIQLPECKQPEQLGKVSDSNYCKYHRV 91
           +R R TLKE +E  YPFPDSDV+ MLE LL+K+VI+LPECK+PE++G V+D NYC YHR+
Sbjct: 347 ERCRFTLKELEENKYPFPDSDVSSMLEDLLQKKVIELPECKRPEEMGHVNDPNYCHYHRI 406

Query: 92  VSHPVEKCFMLKELILKLACKRRL 116
           +SHPVEKCF+LK+LI+KL  + R+
Sbjct: 407 ISHPVEKCFILKDLIMKLVKQGRI 430

[Close]

BLAST of Cla002667 vs. TrEMBL
Match: A5BJG4_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_037641 PE=4 SV=1)

HSP 1 Score: 118.6 bits (296), Expect = 5.0e-24
Identity = 54/84 (64.29%), Postives = 70/84 (83.33%), Query Frame = 1


Query: 32  KRRRLTLKERQEKVYPFPDSDVADMLEQLLEKQVIQLPECKQPEQLGKVSDSNYCKYHRV 91
           +R R TLKE +EK YPFPDS+V  MLE LL K+VI+L ECK+P+++G V+D NYC YHR+
Sbjct: 299 ERCRFTLKELEEKKYPFPDSNVPSMLEDLLHKKVIELSECKRPKEMGCVNDPNYCHYHRI 358

Query: 92  VSHPVEKCFMLKELILKLACKRRL 116
           VSHPVEKCF+LK+LI+KLA + R+
Sbjct: 359 VSHPVEKCFILKDLIMKLAKQGRI 382

[Close]

BLAST of Cla002667 vs. NCBI nr
Match: gi|307136441|gb|ADN34247.1| (ty3-gypsy retrotransposon protein [Cucumis melo subsp. melo])

HSP 1 Score: 144.8 bits (364), Expect = 9.3e-32
Identity = 66/84 (78.57%), Postives = 78/84 (92.86%), Query Frame = 1


Query: 32  KRRRLTLKERQEKVYPFPDSDVADMLEQLLEKQVIQLPECKQPEQLGKVSDSNYCKYHRV 91
           ++RR TL+ERQ+KVYPFPDSDVADMLEQL+EKQ+IQLPECK+PEQ GKV D NYCKYHRV
Sbjct: 426 EKRRPTLRERQKKVYPFPDSDVADMLEQLIEKQLIQLPECKRPEQAGKVDDPNYCKYHRV 485

Query: 92  VSHPVEKCFMLKELILKLACKRRL 116
           +SHPVEKCF+LKELILKLA + ++
Sbjct: 486 ISHPVEKCFVLKELILKLARENKI 509

[Close]

BLAST of Cla002667 vs. NCBI nr
Match: gi|659124357|ref|XP_008462116.1| (PREDICTED: uncharacterized protein LOC103500544 [Cucumis melo])

HSP 1 Score: 136.7 bits (343), Expect = 2.5e-29
Identity = 60/84 (71.43%), Postives = 76/84 (90.48%), Query Frame = 1


Query: 32  KRRRLTLKERQEKVYPFPDSDVADMLEQLLEKQVIQLPECKQPEQLGKVSDSNYCKYHRV 91
           ++RR TLKERQEKVYP PDSD+ DML+QLLEKQ+IQ+PECK+P ++G+V+D NYCKYHRV
Sbjct: 64  EKRRPTLKERQEKVYPIPDSDLPDMLDQLLEKQLIQIPECKRPAEMGRVNDPNYCKYHRV 123

Query: 92  VSHPVEKCFMLKELILKLACKRRL 116
           +SHPVEKCF+LKELIL LA  +++
Sbjct: 124 ISHPVEKCFVLKELILNLALDKKI 147

[Close]

BLAST of Cla002667 vs. NCBI nr
Match: gi|307135887|gb|ADN33752.1| (ty3-gypsy retrotransposon protein [Cucumis melo subsp. melo])

HSP 1 Score: 134.0 bits (336), Expect = 1.6e-28
Identity = 63/126 (50.00%), Postives = 92/126 (73.02%), Query Frame = 1


Query: 2   ERERRNAAVVMRGRCSQVLASQRYPNFVLIKRRRL------------TLKERQEKVYPFP 61
           ++E ++   V++G   + +     P  ++ K +++            TLKERQEKVYPFP
Sbjct: 188 KKEVKSTQKVLKGATKEAMVVSTTPLKLVSKEKKMEKRQDEGEKRCPTLKERQEKVYPFP 247

Query: 62  DSDVADMLEQLLEKQVIQLPECKQPEQLGKVSDSNYCKYHRVVSHPVEKCFMLKELILKL 116
           DSD++DML+QLL+KQ+IQLPE K+P ++G+V+D NYCKYHRV+SHP+EKCF+LKELILKL
Sbjct: 248 DSDLSDMLDQLLKKQLIQLPEFKRPVEMGRVNDPNYCKYHRVISHPIEKCFVLKELILKL 307

[Close]

BLAST of Cla002667 vs. NCBI nr
Match: gi|307135838|gb|ADN33709.1| (retrotransposon gag protein [Cucumis melo subsp. melo])

HSP 1 Score: 124.0 bits (310), Expect = 1.7e-25
Identity = 58/84 (69.05%), Postives = 73/84 (86.90%), Query Frame = 1


Query: 32  KRRRLTLKERQEKVYPFPDSDVADMLEQLLEKQVIQLPECKQPEQLGKVSDSNYCKYHRV 91
           ++R  TL+ERQ+KVYPF DS+VA+MLEQL+EKQ+IQLPEC++PEQ  KV D NYCKYH V
Sbjct: 363 EKRCPTLRERQKKVYPFLDSNVANMLEQLIEKQLIQLPECERPEQARKVDDPNYCKYHWV 422

Query: 92  VSHPVEKCFMLKELILKLACKRRL 116
           +SHPVEKCF+LKE ILKLA + ++
Sbjct: 423 ISHPVEKCFVLKERILKLARENKI 446

[Close]

BLAST of Cla002667 vs. NCBI nr
Match: gi|147858200|emb|CAN81822.1| (hypothetical protein VITISV_020798 [Vitis vinifera])

HSP 1 Score: 123.6 bits (309), Expect = 2.2e-25
Identity = 54/84 (64.29%), Postives = 71/84 (84.52%), Query Frame = 1


Query: 32  KRRRLTLKERQEKVYPFPDSDVADMLEQLLEKQVIQLPECKQPEQLGKVSDSNYCKYHRV 91
           +R R TLKE +E  YPFPDSDV+ MLE LL+K+VI+LPECK+PE++G V+D NYC YHR+
Sbjct: 347 ERCRFTLKELEENKYPFPDSDVSSMLEDLLQKKVIELPECKRPEEMGHVNDPNYCHYHRI 406

Query: 92  VSHPVEKCFMLKELILKLACKRRL 116
           +SHPVEKCF+LK+LI+KL  + R+
Sbjct: 407 ISHPVEKCFILKDLIMKLVKQGRI 430

The following BLAST results are available for this feature:

BLAST of Cla002667 vs. TrEMBL


Match Name	E-value	Identity	Description
E5GCP6_CUCME	6.5e-32	78.57	Ty3-gypsy retrotransposon protein OS=Cucumis melo subsp. melo PE=4 SV=1	[more]
E5GBB0_CUCME	1.1e-28	50.00	Ty3-gypsy retrotransposon protein OS=Cucumis melo subsp. melo PE=4 SV=1	[more]
E5GB67_CUCME	1.2e-25	69.05	Retrotransposon gag protein OS=Cucumis melo subsp. melo PE=4 SV=1	[more]
A5C4T7_VITVI	1.5e-25	64.29	Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_020798 PE=4 SV=1	[more]
A5BJG4_VITVI	5.0e-24	64.29	Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_037641 PE=4 SV=1	[more]

BLAST of Cla002667 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|307136441\|gb\|ADN34247.1\|	9.3e-32	78.57	ty3-gypsy retrotransposon protein [Cucumis melo subsp. melo]	[more]
gi\|659124357\|ref\|XP_008462116.1\|	2.5e-29	71.43	PREDICTED: uncharacterized protein LOC103500544 [Cucumis melo]	[more]
gi\|307135887\|gb\|ADN33752.1\|	1.6e-28	50.00	ty3-gypsy retrotransposon protein [Cucumis melo subsp. melo]	[more]
gi\|307135838\|gb\|ADN33709.1\|	1.7e-25	69.05	retrotransposon gag protein [Cucumis melo subsp. melo]	[more]
gi\|147858200\|emb\|CAN81822.1\|	2.2e-25	64.29	hypothetical protein VITISV_020798 [Vitis vinifera]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition

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
Cla002667	Cla002667.1	mRNA

InterPro

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


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PANTHER	PTHR33437	FAMILY NOT NAMED	coord: 33..113 score: 1.2
None	No IPR available	PANTHER	PTHR33437:SF2	SUBFAMILY NOT NAMED	coord: 33..113 score: 1.2

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
Cla002667	Cucumber (Gy14) v1	cgywmB713
Cla002667	Melon (DHL92) v3.5.1	mewmB270
Cla002667	Watermelon (Charleston Gray)	wcgwmB225
Cla002667	Watermelon (Charleston Gray)	wcgwmB231
Cla002667	Cucumber (Chinese Long) v2	cuwmB018
Cla002667	Cucumber (Gy14) v2	cgybwmB021
Cla002667	Melon (DHL92) v3.6.1	medwmB261
Cla002667	Watermelon (97103) v2	wmwmbB126