Cla016893 (gene) Watermelon (97103) v1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Cla016893
Type	gene
Organism	Citrullus. lanatus (Watermelon (97103) v1)
Description	PHD finger protein MALE STERILITY 1 (AHRD V1 ***- MS1_ARATH)
Location	Chr11 : 25811813 .. 25812148 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideCDS

Hold the cursor over a type above to highlight its positions in the sequence below.

ATGACGGAGGCAATCGGGAAGAAGAGGAGGAGGGTCGGTGGCGGTGGCGGAGAGAGGGTGTTTAGATTCAACAACTTTGGGGAGAATGGTCATCCGGCAGAGCTTGTGGGGCAGTTCCGGGAGAATGTGGAGGCGCTACTAGAGTTCGGGCGGTGGGAGAGTGGAGAGTGTGGCGGGGGGTTCCAGTGTTGGTCGTTTCGTCTGCAGGTTCAGCGACAACCGCCTTTCCACGTCGTGCTGTTTGTGGTGGAGGAGGCGGTGGAGGCGGCCACGGTGGCGGCGAGGGAGTGTAAACAATGCCAGTATGTTGGTAAGGTTTCGAAAGCATATATATAA

mRNA sequence

ATGACGGAGGCAATCGGGAAGAAGAGGAGGAGGGTCGGTGGCGGTGGCGGAGAGAGGGTGTTTAGATTCAACAACTTTGGGGAGAATGGTCATCCGGCAGAGCTTGTGGGGCAGTTCCGGGAGAATGTGGAGGCGCTACTAGAGTTCGGGCGGTGGGAGAGTGGAGAGTGTGGCGGGGGGTTCCAGTGTTGGTCGTTTCGTCTGCAGGTTCAGCGACAACCGCCTTTCCACGTCGTGCTGTTTGTGGTGGAGGAGGCGGTGGAGGCGGCCACGGTGGCGGCGAGGGAGTGTAAACAATGCCAGTATGTTGGTAAGGTTTCGAAAGCATATATATAA

Coding sequence (CDS)

ATGACGGAGGCAATCGGGAAGAAGAGGAGGAGGGTCGGTGGCGGTGGCGGAGAGAGGGTGTTTAGATTCAACAACTTTGGGGAGAATGGTCATCCGGCAGAGCTTGTGGGGCAGTTCCGGGAGAATGTGGAGGCGCTACTAGAGTTCGGGCGGTGGGAGAGTGGAGAGTGTGGCGGGGGGTTCCAGTGTTGGTCGTTTCGTCTGCAGGTTCAGCGACAACCGCCTTTCCACGTCGTGCTGTTTGTGGTGGAGGAGGCGGTGGAGGCGGCCACGGTGGCGGCGAGGGAGTGTAAACAATGCCAGTATGTTGGTAAGGTTTCGAAAGCATATATATAA

Protein sequence

MTEAIGKKRRRVGGGGGERVFRFNNFGENGHPAELVGQFRENVEALLEFGRWESGECGGGFQCWSFRLQVQRQPPFHVVLFVVEEAVEAATVAARECKQCQYVGKVSKAYI

Homology

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BLAST of Cla016893 vs. Swiss-Prot
Match: MS1_ARATH (PHD finger protein MALE STERILITY 1 OS=Arabidopsis thaliana GN=MS1 PE=1 SV=1)

HSP 1 Score: 88.2 bits (217), Expect = 6.2e-17
Identity = 52/102 (50.98%), Postives = 63/102 (61.76%), Query Frame = 1


Query: 5   IGKKRRRVGGGGGERVFRFNNFGENGHPAELVG-QFRENVEALLEFGRWESGECGGGFQC 64
           I KKR+R    G  RVFR   FGE+GHPAE+    FR+N+  LLEFG +ES    G    
Sbjct: 13  IPKKRKR----GESRVFRLKTFGESGHPAEMNELSFRDNLAKLLEFGHFESSGLMGS--- 72

Query: 65  WSFRLQVQRQP-PFHVVLFVVEEAVEAATVAARECKQCQYVG 105
           WSF+L++QR P P +V+LFVVEE +EA+      C  CQYVG
Sbjct: 73  WSFQLEIQRNPNPLYVLLFVVEEPIEAS--LNLRCNHCQYVG 105

[Close]

BLAST of Cla016893 vs. Swiss-Prot
Match: PTC1_ORYSJ (PHD finger protein PERSISTENT TAPETAL CELL 1 OS=Oryza sativa subsp. japonica GN=PTC1 PE=2 SV=1)

HSP 1 Score: 76.6 bits (187), Expect = 1.9e-13
Identity = 46/106 (43.40%), Postives = 59/106 (55.66%), Query Frame = 1


Query: 1   MTEAIGKKRRRVGGGGGERVFRFNNFGENGHPAELVGQ--FRENVEALLEFGRWESGECG 60
           M  ++G  RRR  G   E +FRF  F + G+PA   G   FR+NV  LL F   E+G   
Sbjct: 5   MVISLGSSRRRKRG---EMLFRFEAFCQPGYPANFAGAGGFRDNVRTLLGFAHLEAG-VH 64

Query: 61  GGFQCWSFRLQVQRQPPFHVVLFVVEEAVEAATVAARECKQCQYVG 105
           G  +CWSF+L++ R PP  V LFVVEE  E A    R+C  C+++G
Sbjct: 65  GETKCWSFQLELHRHPPTVVRLFVVEE--EVAASPHRQCHLCRHIG 104

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BLAST of Cla016893 vs. TrEMBL
Match: A0A0A0KPP3_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_5G291670 PE=4 SV=1)

HSP 1 Score: 192.6 bits (488), Expect = 2.6e-46
Identity = 93/111 (83.78%), Postives = 101/111 (90.99%), Query Frame = 1


Query: 2   TEAIGKKRRRVGGGGGERVFRFNNFGENGHPAELVGQFRENVEALLEFGRWESGECG-GG 61
           T+ IGKKRRR GGGGGERVFRF +FGENGHPAELVG+FRENVEALL FG+WESGEC   G
Sbjct: 3   TDVIGKKRRR-GGGGGERVFRFKSFGENGHPAELVGRFRENVEALLGFGKWESGECSCEG 62

Query: 62  FQCWSFRLQVQRQPPFHVVLFVVEEAVEAATVAARECKQCQYVGKVSKAYI 112
           F+CWSFRLQVQRQPPFHVVLFV+EEAVE  TVAAR+CKQCQYVGK+SKA I
Sbjct: 63  FRCWSFRLQVQRQPPFHVVLFVLEEAVETVTVAARQCKQCQYVGKISKANI 112

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BLAST of Cla016893 vs. TrEMBL
Match: A0A0D2TC67_GOSRA (Uncharacterized protein OS=Gossypium raimondii GN=B456_008G246900 PE=4 SV=1)

HSP 1 Score: 112.5 bits (280), Expect = 3.4e-22
Identity = 54/100 (54.00%), Postives = 70/100 (70.00%), Query Frame = 1


Query: 7   KKRRRVGGGGGERVFRFNNFGENGHPAELVGQFRENVEALLEFGRWESGECGGGFQCWSF 66
           +KRRR    GGE+VF+F  FGENG P E  G FR+NV+AL+E+G  E   CG G   WSF
Sbjct: 11  RKRRR----GGEKVFKFKTFGENGCPVEFDGSFRDNVKALVEYGHLEVNLCGNGVFSWSF 70

Query: 67  RLQVQRQPPFHVVLFVVEEAVEAATVAA--RECKQCQYVG 105
           +L+V R PP HVVLF+VEE ++A++ ++    CK CQYVG
Sbjct: 71  QLEVHRHPPLHVVLFIVEEQIQASSSSSINLHCKHCQYVG 106

[Close]

BLAST of Cla016893 vs. TrEMBL
Match: M5Y027_PRUPE (Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa022178mg PE=4 SV=1)

HSP 1 Score: 110.9 bits (276), Expect = 9.9e-22
Identity = 61/103 (59.22%), Postives = 70/103 (67.96%), Query Frame = 1


Query: 7   KKRRRVGGGGGERVFRFNNFGENGHPAELVGQ-FRENVEALLEFGRWESGEC----GGGF 66
           KKR+R     GERVFRF +FGENG+P   VG  FRENV+ALLE+G  E G        G 
Sbjct: 11  KKRKR-----GERVFRFKSFGENGYPVGFVGSSFRENVKALLEYGHVEGGSLCSTSSTGM 70

Query: 67  QCWSFRLQVQRQPPFHVVLFVVEEAVEAATVAARECKQCQYVG 105
           +CWSF+LQV R  P HVVLFVVEE +EA+    R CKQCQYVG
Sbjct: 71  KCWSFQLQVHRHAPAHVVLFVVEEPIEAS--LNRHCKQCQYVG 106

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BLAST of Cla016893 vs. TrEMBL
Match: V4UG86_9ROSI (Uncharacterized protein (Fragment) OS=Citrus clementina GN=CICLE_v10017892mg PE=4 SV=1)

HSP 1 Score: 110.5 bits (275), Expect = 1.3e-21
Identity = 56/98 (57.14%), Postives = 67/98 (68.37%), Query Frame = 1


Query: 7   KKRRRVGGGGGERVFRFNNFGENGHPAELVGQFRENVEALLEFGRWESGECGGGFQCWSF 66
           KKR+R    G  RVFRF  FG+NG+P E  G FR NVEALLEFG+     C  G  CWSF
Sbjct: 1   KKRKR----GESRVFRFKKFGDNGYPVEFDGAFRHNVEALLEFGQIHRNLC-NGMPCWSF 60

Query: 67  RLQVQRQPPFHVVLFVVEEAVEAATVAARECKQCQYVG 105
           +L+V+R PPFHV LFV+EE VEA+     +CK C+YVG
Sbjct: 61  QLEVRRHPPFHVFLFVIEEPVEAS--MDHQCKHCRYVG 91

[Close]

BLAST of Cla016893 vs. TrEMBL
Match: A0A061GCH5_THECC (RING/FYVE/PHD zinc finger superfamily protein OS=Theobroma cacao GN=TCM_016252 PE=4 SV=1)

HSP 1 Score: 108.6 bits (270), Expect = 4.9e-21
Identity = 56/98 (57.14%), Postives = 67/98 (68.37%), Query Frame = 1


Query: 7   KKRRRVGGGGGERVFRFNNFGENGHPAELVGQFRENVEALLEFGRWESGECGGGFQCWSF 66
           +KRRR    GGERVF+F +FGENG P E  G FR+NV ALLE+G  ES  C  G   WSF
Sbjct: 13  RKRRR----GGERVFKFRSFGENGCPVEFDGSFRDNVNALLEYGHLESNLC-NGMLSWSF 72

Query: 67  RLQVQRQPPFHVVLFVVEEAVEAATVAARECKQCQYVG 105
           +L+V R PP H +LFVVEE +EA+   +  CK CQYVG
Sbjct: 73  QLEVHRHPPLHTLLFVVEEPIEAS--ISLYCKHCQYVG 103

[Close]

BLAST of Cla016893 vs. NCBI nr
Match: gi|700195682|gb|KGN50859.1| (hypothetical protein Csa_5G291670 [Cucumis sativus])

HSP 1 Score: 192.6 bits (488), Expect = 3.7e-46
Identity = 93/111 (83.78%), Postives = 101/111 (90.99%), Query Frame = 1


Query: 2   TEAIGKKRRRVGGGGGERVFRFNNFGENGHPAELVGQFRENVEALLEFGRWESGECG-GG 61
           T+ IGKKRRR GGGGGERVFRF +FGENGHPAELVG+FRENVEALL FG+WESGEC   G
Sbjct: 3   TDVIGKKRRR-GGGGGERVFRFKSFGENGHPAELVGRFRENVEALLGFGKWESGECSCEG 62

Query: 62  FQCWSFRLQVQRQPPFHVVLFVVEEAVEAATVAARECKQCQYVGKVSKAYI 112
           F+CWSFRLQVQRQPPFHVVLFV+EEAVE  TVAAR+CKQCQYVGK+SKA I
Sbjct: 63  FRCWSFRLQVQRQPPFHVVLFVLEEAVETVTVAARQCKQCQYVGKISKANI 112

[Close]

BLAST of Cla016893 vs. NCBI nr
Match: gi|449445324|ref|XP_004140423.1| (PREDICTED: PHD finger protein MALE STERILITY 1 [Cucumis sativus])

HSP 1 Score: 183.7 bits (465), Expect = 1.7e-43
Identity = 88/104 (84.62%), Postives = 95/104 (91.35%), Query Frame = 1


Query: 2   TEAIGKKRRRVGGGGGERVFRFNNFGENGHPAELVGQFRENVEALLEFGRWESGECG-GG 61
           T+ IGKKRRR GGGGGERVFRF +FGENGHPAELVG+FRENVEALL FG+WESGEC   G
Sbjct: 4   TDVIGKKRRR-GGGGGERVFRFKSFGENGHPAELVGRFRENVEALLGFGKWESGECSCEG 63

Query: 62  FQCWSFRLQVQRQPPFHVVLFVVEEAVEAATVAARECKQCQYVG 105
           F+CWSFRLQVQRQPPFHVVLFV+EEAVE  TVAAR+CKQCQYVG
Sbjct: 64  FRCWSFRLQVQRQPPFHVVLFVLEEAVETVTVAARQCKQCQYVG 106

[Close]

BLAST of Cla016893 vs. NCBI nr
Match: gi|659114276|ref|XP_008456986.1| (PREDICTED: PHD finger protein MALE STERILITY 1 [Cucumis melo])

HSP 1 Score: 180.6 bits (457), Expect = 1.5e-42
Identity = 86/104 (82.69%), Postives = 95/104 (91.35%), Query Frame = 1


Query: 2   TEAIGKKRRRVGGGGGERVFRFNNFGENGHPAELVGQFRENVEALLEFGRWESGECGG-G 61
           T+ IGKKRRR GGGGGERVF F +FGENGHPAELVG+FRENVEALL FG+WESGEC G G
Sbjct: 3   TDVIGKKRRR-GGGGGERVFGFKSFGENGHPAELVGRFRENVEALLGFGKWESGECSGEG 62

Query: 62  FQCWSFRLQVQRQPPFHVVLFVVEEAVEAATVAARECKQCQYVG 105
           F+CWSFRLQVQRQPP HVVLFV+EEAVE+ TVA+R+CKQCQYVG
Sbjct: 63  FRCWSFRLQVQRQPPVHVVLFVLEEAVESCTVASRQCKQCQYVG 105

[Close]

BLAST of Cla016893 vs. NCBI nr
Match: gi|694321265|ref|XP_009351795.1| (PREDICTED: PHD finger protein MALE STERILITY 1-like [Pyrus x bretschneideri])

HSP 1 Score: 115.2 bits (287), Expect = 7.5e-23
Identity = 60/99 (60.61%), Postives = 70/99 (70.71%), Query Frame = 1


Query: 7   KKRRRVGGGGGERVFRFNNFGENGHPAELVGQ-FRENVEALLEFGRWESGECGGGFQCWS 66
           KKR+R     GERVFRF +FGENG+P  LVG  FRENV++LLE+G  E    G G QCWS
Sbjct: 14  KKRKR-----GERVFRFRSFGENGYPVVLVGSSFRENVKSLLEYGHVEGNLAGHGMQCWS 73

Query: 67  FRLQVQRQPPFHVVLFVVEEAVEAATVAARECKQCQYVG 105
           F+LQV R  P HVVLFV+EE +EA+      CKQCQYVG
Sbjct: 74  FQLQVHRHAPGHVVLFVIEEPIEAS--LNHHCKQCQYVG 105

[Close]

BLAST of Cla016893 vs. NCBI nr
Match: gi|657979664|ref|XP_008381804.1| (PREDICTED: PHD finger protein MALE STERILITY 1 [Malus domestica])

HSP 1 Score: 115.2 bits (287), Expect = 7.5e-23
Identity = 60/99 (60.61%), Postives = 70/99 (70.71%), Query Frame = 1


Query: 7   KKRRRVGGGGGERVFRFNNFGENGHPAELVGQ-FRENVEALLEFGRWESGECGGGFQCWS 66
           KKR+R     GERVFRF +FGENG+P  LVG  FRENV++LLE+G  E    G G QCWS
Sbjct: 14  KKRKR-----GERVFRFRSFGENGYPVGLVGSSFRENVKSLLEYGHVEGNLAGHGMQCWS 73

Query: 67  FRLQVQRQPPFHVVLFVVEEAVEAATVAARECKQCQYVG 105
           F+LQV R  P HVVLFV+EE +EA+      CKQCQYVG
Sbjct: 74  FQLQVHRHAPGHVVLFVIEEPIEAS--LNHHCKQCQYVG 105

The following BLAST results are available for this feature:

BLAST of Cla016893 vs. Swiss-Prot


Match Name	E-value	Identity	Description
MS1_ARATH	6.2e-17	50.98	PHD finger protein MALE STERILITY 1 OS=Arabidopsis thaliana GN=MS1 PE=1 SV=1	[more]
PTC1_ORYSJ	1.9e-13	43.40	PHD finger protein PERSISTENT TAPETAL CELL 1 OS=Oryza sativa subsp. japonica GN=...	[more]

BLAST of Cla016893 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0KPP3_CUCSA	2.6e-46	83.78	Uncharacterized protein OS=Cucumis sativus GN=Csa_5G291670 PE=4 SV=1	[more]
A0A0D2TC67_GOSRA	3.4e-22	54.00	Uncharacterized protein OS=Gossypium raimondii GN=B456_008G246900 PE=4 SV=1	[more]
M5Y027_PRUPE	9.9e-22	59.22	Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa022178mg PE=4 SV=1	[more]
V4UG86_9ROSI	1.3e-21	57.14	Uncharacterized protein (Fragment) OS=Citrus clementina GN=CICLE_v10017892mg PE=...	[more]
A0A061GCH5_THECC	4.9e-21	57.14	RING/FYVE/PHD zinc finger superfamily protein OS=Theobroma cacao GN=TCM_016252 P...	[more]

BLAST of Cla016893 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|700195682\|gb\|KGN50859.1\|	3.7e-46	83.78	hypothetical protein Csa_5G291670 [Cucumis sativus]	[more]
gi\|449445324\|ref\|XP_004140423.1\|	1.7e-43	84.62	PREDICTED: PHD finger protein MALE STERILITY 1 [Cucumis sativus]	[more]
gi\|659114276\|ref\|XP_008456986.1\|	1.5e-42	82.69	PREDICTED: PHD finger protein MALE STERILITY 1 [Cucumis melo]	[more]
gi\|694321265\|ref\|XP_009351795.1\|	7.5e-23	60.61	PREDICTED: PHD finger protein MALE STERILITY 1-like [Pyrus x bretschneideri]	[more]
gi\|657979664\|ref\|XP_008381804.1\|	7.5e-23	60.61	PREDICTED: PHD finger protein MALE STERILITY 1 [Malus domestica]	[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
biological_process	GO:0048856	anatomical structure development
biological_process	GO:0007275	multicellular organism development
biological_process	GO:0022414	reproductive process
biological_process	GO:0048655	anther wall tapetum morphogenesis
biological_process	GO:0071367	cellular response to brassinosteroid stimulus
biological_process	GO:0055046	microgametogenesis
biological_process	GO:0009846	pollen germination
biological_process	GO:0010208	pollen wall assembly
biological_process	GO:0045893	positive regulation of transcription, DNA-templated
cellular_component	GO:0005575	cellular_component
cellular_component	GO:0005634	nucleus
molecular_function	GO:0003674	molecular_function
molecular_function	GO:0005515	protein binding
molecular_function	GO:0008270	zinc ion binding
molecular_function	GO:0046872	metal ion binding

Relationships

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


Feature Name	Unique Name	Type
Cla016893	Cla016893.1	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	PTHR15856	PHD FINGER PROTEIN 20-RELATED	coord: 17..104 score: 8.0
None	No IPR available	PANTHER	PTHR15856:SF15	MBD-R2, ISOFORM B	coord: 17..104 score: 8.0

Synteny

The following gene(s) are orthologous to this gene:


Gene	Orthologue	Organism	Block
Cla016893	Cla97C11G207430	Watermelon (97103) v2	wmwmbB366
Cla016893	Csa5G291670	Cucumber (Chinese Long) v2	cuwmB434
Cla016893	MELO3C020043	Melon (DHL92) v3.5.1	mewmB079
Cla016893	ClCG11G001060	Watermelon (Charleston Gray)	wcgwmB110
Cla016893	CSPI05G12650	Wild cucumber (PI 183967)	cpiwmB445
Cla016893	Cucsa.373430	Cucumber (Gy14) v1	cgywmB674
Cla016893	Lsi11G000050	Bottle gourd (USVL1VR-Ls)	lsiwmB114
Cla016893	CsGy5G009870	Cucumber (Gy14) v2	cgybwmB410
Cla016893	MELO3C020044.2	Melon (DHL92) v3.6.1	medwmB072
Cla016893	CsaV3_5G013130	Cucumber (Chinese Long) v3	cucwmB463
Cla016893	Bhi07G000135	Wax gourd	wgowmB566

The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:


Gene	Organism	Block
Cla016893	Cucurbita moschata (Rifu)	cmowmB727
Cla016893	Cucurbita moschata (Rifu)	cmowmB736
Cla016893	Watermelon (Charleston Gray)	wcgwmB107
Cla016893	Cucurbita pepo (Zucchini)	cpewmB460
Cla016893	Cucurbita pepo (Zucchini)	cpewmB455
Cla016893	Cucurbita pepo (Zucchini)	cpewmB468
Cla016893	Bottle gourd (USVL1VR-Ls)	lsiwmB109
Cla016893	Silver-seed gourd	carwmB0343
Cla016893	Silver-seed gourd	carwmB0170
Cla016893	Watermelon (97103) v2	wmwmbB361
Cla016893	Wax gourd	wgowmB569
Cla016893	Cucurbita maxima (Rimu)	cmawmB732
Cla016893	Cucurbita maxima (Rimu)	cmawmB734
Cla016893	Cucurbita maxima (Rimu)	cmawmB743