Cla002546 (gene) Watermelon (97103) v1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Cla002546
Type	gene
Organism	Citrullus. lanatus (Watermelon (97103) v1)
Description	Gag/pol protein (Fragment) (AHRD V1 ***- E2GK51_BRYDI)
Location	Chr2 : 16427549 .. 16427932 (+)

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.

ATGGTCACTGCTCGTGAAATCATGGATTCATTGCAAGAGATATTTGGACAACCATCCTCACAAATCAAACATGATACTCTGAAATTCATTTATAATGCACATATGAACGAGGAGTCATCAGTGCAAGAACATGTTCTCAACATGATGGTCCACTTCAATGTGGCTGAAATTAATGGGGTCATTATCAATGAGGCTAGTCAAATTAGTTTTATTATGGAGAGACTTGAGAGTTTCCTTCAGTTCAGGACAAATGTTGTTATGAACAAACTGACCTACTCTCTTACTACCCTCCTTAACGAGCTACAAATATATGAGTCCATGCATAAAGGCGAAGGACAAGATGGGAAGACAAATGTTCCTCTAAGAAGTTCCACAGAAGTTTGA

mRNA sequence

ATGGTCACTGCTCGTGAAATCATGGATTCATTGCAAGAGATATTTGGACAACCATCCTCACAAATCAAACATGATACTCTGAAATTCATTTATAATGCACATATGAACGAGGAGTCATCAGTGCAAGAACATGTTCTCAACATGATGGTCCACTTCAATGTGGCTGAAATTAATGGGGTCATTATCAATGAGGCTAGTCAAATTAGTTTTATTATGGAGAGACTTGAGAGTTTCCTTCAGTTCAGGACAAATGTTGTTATGAACAAACTGACCTACTCTCTTACTACCCTCCTTAACGAGCTACAAATATATGAGTCCATGCATAAAGGCGAAGGACAAGATGGGAAGACAAATGTTCCTCTAAGAAGTTCCACAGAAGTTTGA

Coding sequence (CDS)

ATGGTCACTGCTCGTGAAATCATGGATTCATTGCAAGAGATATTTGGACAACCATCCTCACAAATCAAACATGATACTCTGAAATTCATTTATAATGCACATATGAACGAGGAGTCATCAGTGCAAGAACATGTTCTCAACATGATGGTCCACTTCAATGTGGCTGAAATTAATGGGGTCATTATCAATGAGGCTAGTCAAATTAGTTTTATTATGGAGAGACTTGAGAGTTTCCTTCAGTTCAGGACAAATGTTGTTATGAACAAACTGACCTACTCTCTTACTACCCTCCTTAACGAGCTACAAATATATGAGTCCATGCATAAAGGCGAAGGACAAGATGGGAAGACAAATGTTCCTCTAAGAAGTTCCACAGAAGTTTGA

Protein sequence

MVTAREIMDSLQEIFGQPSSQIKHDTLKFIYNAHMNEESSVQEHVLNMMVHFNVAEINGVIINEASQISFIMERLESFLQFRTNVVMNKLTYSLTTLLNELQIYESMHKGEGQDGKTNVPLRSSTEV

Homology

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BLAST of Cla002546 vs. TrEMBL
Match: E2GK51_BRYDI (Gag/pol protein (Fragment) OS=Bryonia dioica PE=4 SV=1)

HSP 1 Score: 129.8 bits (325), Expect = 2.4e-27
Identity = 61/120 (50.83%), Postives = 95/120 (79.17%), Query Frame = 1


Query: 1   MVTAREIMDSLQEIFGQPSSQIKHDTLKFIYNAHMNEESSVQEHVLNMMVHFNVAEINGV 60
           + TA+ IMDSL+E+FGQPS  ++H+ +K IY   M E +SV+EHVL+MM+HFN+AE+NG 
Sbjct: 88  IATAKGIMDSLREMFGQPSWSLRHEAIKHIYTKRMKEGTSVREHVLDMMMHFNIAEVNGG 147

Query: 61  IINEASQISFIMERL-ESFLQFRTNVVMNKLTYSLTTLLNELQIYESMHKGEGQDGKTNV 120
            I+EA+Q+SFI++ L +SF+ F+TN  +NK+ ++LTTLLNELQ ++++   +G++ + NV
Sbjct: 148 PIDEANQVSFILQSLPKSFVPFQTNASLNKIEFNLTTLLNELQRFQNLTLSKGKEVEANV 207

[Close]

BLAST of Cla002546 vs. TrEMBL
Match: A5AVN4_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_017217 PE=4 SV=1)

HSP 1 Score: 119.8 bits (299), Expect = 2.4e-24
Identity = 63/118 (53.39%), Postives = 84/118 (71.19%), Query Frame = 1


Query: 3   TAREIMDSLQEIFGQPSSQIKHDTLKFIYNAHMNEESSVQEHVLNMMVHFNVAEINGVII 62
           TA EIM+SLQ++FG+PS Q +H+ +K + N+ M   SSV+EHVL M+ HFN AEING  I
Sbjct: 13  TASEIMESLQQMFGRPSEQARHEAVKAVMNSKMKNGSSVREHVLKMIHHFNKAEINGAKI 72

Query: 63  NEASQISFIMERLE-SFLQFRTNVVMNKLTYSLTTLLNELQIYESMHKGEGQDGKTNV 120
           +E +Q+  I+E L  SFLQFRTN +MN    +LT LLNELQ YE++   +G  GK N+
Sbjct: 73  DEKTQVGMILETLSPSFLQFRTNYIMNHKKCNLTELLNELQSYETLIDDKG--GKANI 128

[Close]

BLAST of Cla002546 vs. TrEMBL
Match: W9SH28_9ROSA (Uncharacterized protein OS=Morus notabilis GN=L484_004989 PE=4 SV=1)

HSP 1 Score: 96.3 bits (238), Expect = 2.9e-17
Identity = 52/117 (44.44%), Postives = 77/117 (65.81%), Query Frame = 1


Query: 1   MVTAREIMDSLQEIFGQPSSQIKHDTLKFIYNAHMNEESSVQEHVLNMMVHFNVAEINGV 60
           M TA EIM+SL+ +FG PS + + D ++   N  M + SSV+ HVLNM+ H + AE+NG 
Sbjct: 88  METAYEIMESLEAMFGAPSEKARLDAVRAFMNDKMKKGSSVKAHVLNMIDHLHDAELNGA 147

Query: 61  IINEASQISFIMERLE-SFLQFRTNVVMNKLTYSLTTLLNELQIYESMHKGEGQDGK 117
            I+EA+Q+  I+E L   F +F  N VMNK   +LT L+N+LQ +ES ++ +G+  K
Sbjct: 148 RIDEATQLGIILESLSPDFHEFVNNFVMNKKKSNLTELMNDLQNFESTNQAKGRRSK 204

[Close]

BLAST of Cla002546 vs. TrEMBL
Match: W9ST61_9ROSA (Uncharacterized protein OS=Morus notabilis GN=L484_003432 PE=4 SV=1)

HSP 1 Score: 95.9 bits (237), Expect = 3.8e-17
Identity = 56/120 (46.67%), Postives = 77/120 (64.17%), Query Frame = 1


Query: 1   MVTAREIMDSLQEIFGQPSSQIKHDTLKFIYNAHMNEESSVQEHVLNMMVHFNVAEINGV 60
           M TA EIM+SL+ +FG PS + + D +    N  M + SSV+ HVLNM+ H + AE+NG 
Sbjct: 63  METAYEIMESLEAMFGTPSEKARLDAVWAFMNDKMKKGSSVKAHVLNMIDHLHDAELNGA 122

Query: 61  IINEASQISFIMERLE-SFLQFRTNVVMNKLTYSLTTLLNELQIYESMHKGEGQDGKTNV 120
            I+EA+Q+  I+E L  +F QF  N VMNK   +LT L+N LQ +ES +K  G  G+ NV
Sbjct: 123 RIDEATQVGIILESLSPNFHQFVNNFVMNKKKSNLTELMNNLQNFESTNKRRG--GEANV 180

[Close]

BLAST of Cla002546 vs. TrEMBL
Match: W9SUE5_9ROSA (Retrovirus-related Pol polyprotein from transposon TNT 1-94 OS=Morus notabilis GN=L484_000602 PE=4 SV=1)

HSP 1 Score: 94.4 bits (233), Expect = 1.1e-16
Identity = 52/120 (43.33%), Postives = 75/120 (62.50%), Query Frame = 1


Query: 1   MVTAREIMDSLQEIFGQPSSQIKHDTLKFIYNAHMNEESSVQEHVLNMMVHFNVAEINGV 60
           M TA EIM+SL+ +F  PS + + D ++   N  M + SSV+ HVLNM+ H   AE+NG 
Sbjct: 12  METAYEIMESLEAMFSAPSEKARLDAVRAFMNDKMKKSSSVKAHVLNMIDHLYDAELNGA 71

Query: 61  IINEASQISFIMERLE-SFLQFRTNVVMNKLTYSLTTLLNELQIYESMHKGEGQDGKTNV 120
            I+EA+Q+  I+E L   F +F  N VMNK   +LT L+N+LQ +ES +K  G++    V
Sbjct: 72  RIDEATQVGIILESLSPDFHEFVNNFVMNKKKSNLTELMNDLQNFESTNKRRGREANVVV 131

[Close]

BLAST of Cla002546 vs. NCBI nr
Match: gi|659113933|ref|XP_008456826.1| (PREDICTED: uncharacterized protein LOC103496664 [Cucumis melo])

HSP 1 Score: 170.2 bits (430), Expect = 2.3e-39
Identity = 85/120 (70.83%), Postives = 105/120 (87.50%), Query Frame = 1


Query: 1   MVTAREIMDSLQEIFGQPSSQIKHDTLKFIYNAHMNEESSVQEHVLNMMVHFNVAEINGV 60
           M+TAREIMDSLQE+FGQ S QIKHD LK+IYNA MN+ + V+EHVLNMMV+FNVAE+NG 
Sbjct: 88  MLTAREIMDSLQEMFGQASYQIKHDALKYIYNARMNDGALVREHVLNMMVYFNVAEMNGA 147

Query: 61  IINEASQISFIMER-LESFLQFRTNVVMNKLTYSLTTLLNELQIYESMHKGEGQDGKTNV 120
           +I+EA+Q+SFI+E  LESFLQFR+NVVMNK+ Y+LTTLLNELQ +ES+ K +GQ G+ NV
Sbjct: 148 VIDEANQVSFILESLLESFLQFRSNVVMNKIAYTLTTLLNELQTFESLMKIKGQKGEANV 207

[Close]

BLAST of Cla002546 vs. NCBI nr
Match: gi|659113937|ref|XP_008456829.1| (PREDICTED: uncharacterized protein LOC103496667 [Cucumis melo])

HSP 1 Score: 151.8 bits (382), Expect = 8.3e-34
Identity = 75/107 (70.09%), Postives = 92/107 (85.98%), Query Frame = 1


Query: 14  IFGQPSSQIKHDTLKFIYNAHMNEESSVQEHVLNMMVHFNVAEINGVIINEASQISFIME 73
           +FGQ S QIKHD LK+IYNA +NE +SV+EHVLNMMVHFNVAE+NG +I+EASQ+SFI+E
Sbjct: 1   MFGQASYQIKHDALKYIYNARINEGASVREHVLNMMVHFNVAEMNGAVIDEASQVSFILE 60

Query: 74  RL-ESFLQFRTNVVMNKLTYSLTTLLNELQIYESMHKGEGQDGKTNV 120
            L ESFLQFR+N VMNK+ Y+LTTLLNELQ +ES+ K +GQ G+ NV
Sbjct: 61  SLPESFLQFRSNAVMNKIAYTLTTLLNELQTFESLMKIKGQKGEANV 107

[Close]

BLAST of Cla002546 vs. NCBI nr
Match: gi|299474487|gb|ADJ18449.1| (gag/pol protein [Bryonia dioica])

HSP 1 Score: 129.8 bits (325), Expect = 3.4e-27
Identity = 61/120 (50.83%), Postives = 95/120 (79.17%), Query Frame = 1


Query: 1   MVTAREIMDSLQEIFGQPSSQIKHDTLKFIYNAHMNEESSVQEHVLNMMVHFNVAEINGV 60
           + TA+ IMDSL+E+FGQPS  ++H+ +K IY   M E +SV+EHVL+MM+HFN+AE+NG 
Sbjct: 88  IATAKGIMDSLREMFGQPSWSLRHEAIKHIYTKRMKEGTSVREHVLDMMMHFNIAEVNGG 147

Query: 61  IINEASQISFIMERL-ESFLQFRTNVVMNKLTYSLTTLLNELQIYESMHKGEGQDGKTNV 120
            I+EA+Q+SFI++ L +SF+ F+TN  +NK+ ++LTTLLNELQ ++++   +G++ + NV
Sbjct: 148 PIDEANQVSFILQSLPKSFVPFQTNASLNKIEFNLTTLLNELQRFQNLTLSKGKEVEANV 207

[Close]

BLAST of Cla002546 vs. NCBI nr
Match: gi|659118732|ref|XP_008459275.1| (PREDICTED: uncharacterized protein LOC103498451 [Cucumis melo])

HSP 1 Score: 125.9 bits (315), Expect = 4.9e-26
Identity = 60/110 (54.55%), Postives = 86/110 (78.18%), Query Frame = 1


Query: 1   MVTAREIMDSLQEIFGQPSSQIKHDTLKFIYNAHMNEESSVQEHVLNMMVHFNVAEINGV 60
           MVT R+I+DSL+E+FGQ S QIK +T+K++YNA M +  SV++HVLNM+VHFNV E+N V
Sbjct: 77  MVTTRQIVDSLREMFGQLSIQIKQETIKYVYNARMKDSQSVKKHVLNMIVHFNVVEMNVV 136

Query: 61  IINEASQISFIMERL-ESFLQFRTNVVMNKLTYSLTTLLNELQIYESMHK 110
           + +E SQ+SFI++ L +S LQF  N  MNK+ Y++T  LNELQ ++S+ +
Sbjct: 137 VFDEKSQVSFILKYLPKSSLQFNNNAEMNKIKYNMTIFLNELQTFQSLKR 186

[Close]

BLAST of Cla002546 vs. NCBI nr
Match: gi|147777398|emb|CAN67199.1| (hypothetical protein VITISV_017217 [Vitis vinifera])

HSP 1 Score: 119.8 bits (299), Expect = 3.5e-24
Identity = 63/118 (53.39%), Postives = 84/118 (71.19%), Query Frame = 1


Query: 3   TAREIMDSLQEIFGQPSSQIKHDTLKFIYNAHMNEESSVQEHVLNMMVHFNVAEINGVII 62
           TA EIM+SLQ++FG+PS Q +H+ +K + N+ M   SSV+EHVL M+ HFN AEING  I
Sbjct: 13  TASEIMESLQQMFGRPSEQARHEAVKAVMNSKMKNGSSVREHVLKMIHHFNKAEINGAKI 72

Query: 63  NEASQISFIMERLE-SFLQFRTNVVMNKLTYSLTTLLNELQIYESMHKGEGQDGKTNV 120
           +E +Q+  I+E L  SFLQFRTN +MN    +LT LLNELQ YE++   +G  GK N+
Sbjct: 73  DEKTQVGMILETLSPSFLQFRTNYIMNHKKCNLTELLNELQSYETLIDDKG--GKANI 128

The following BLAST results are available for this feature:

BLAST of Cla002546 vs. TrEMBL


Match Name	E-value	Identity	Description
E2GK51_BRYDI	2.4e-27	50.83	Gag/pol protein (Fragment) OS=Bryonia dioica PE=4 SV=1	[more]
A5AVN4_VITVI	2.4e-24	53.39	Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_017217 PE=4 SV=1	[more]
W9SH28_9ROSA	2.9e-17	44.44	Uncharacterized protein OS=Morus notabilis GN=L484_004989 PE=4 SV=1	[more]
W9ST61_9ROSA	3.8e-17	46.67	Uncharacterized protein OS=Morus notabilis GN=L484_003432 PE=4 SV=1	[more]
W9SUE5_9ROSA	1.1e-16	43.33	Retrovirus-related Pol polyprotein from transposon TNT 1-94 OS=Morus notabilis G...	[more]

BLAST of Cla002546 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|659113933\|ref\|XP_008456826.1\|	2.3e-39	70.83	PREDICTED: uncharacterized protein LOC103496664 [Cucumis melo]	[more]
gi\|659113937\|ref\|XP_008456829.1\|	8.3e-34	70.09	PREDICTED: uncharacterized protein LOC103496667 [Cucumis melo]	[more]
gi\|299474487\|gb\|ADJ18449.1\|	3.4e-27	50.83	gag/pol protein [Bryonia dioica]	[more]
gi\|659118732\|ref\|XP_008459275.1\|	4.9e-26	54.55	PREDICTED: uncharacterized protein LOC103498451 [Cucumis melo]	[more]
gi\|147777398\|emb\|CAN67199.1\|	3.5e-24	53.39	hypothetical protein VITISV_017217 [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:0015074	DNA integration
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0003676	nucleic acid binding
molecular_function	GO:0008270	zinc ion binding

Relationships

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


Feature Name	Unique Name	Type
Cla002546	Cla002546.1	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	PFAM	PF14223	Retrotran_gag_2	coord: 3..109 score: 6.

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
Cla002546	Watermelon (97103) v2	wmwmbB321
Cla002546	Watermelon (97103) v1	wmwmB005
Cla002546	Watermelon (Charleston Gray)	wcgwmB199