Cla016893.1 (mRNA) Watermelon (97103) v1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Cla016893
Type	mRNA
Organism	Citrullus. lanatus (Watermelon (97103) v1)
Description	PHD finger protein MALE STERILITY 1 (AHRD V1 ***- MS1_ARATH)
Location	Chr11 : 25811813 .. 25812148 (+)
Sequence length	336

Genome Viewer

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

[Close]

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

[Close]

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

[Close]

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

[Close]

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 mRNA:

Vocabulary: **INTERPRO**
Term	Definition

GO Annotation

GO Assignments

This mRNA 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

This mRNA is a part of the following gene feature(s):


Feature Name	Unique Name	Type
Cla016893	Cla016893	gene

The following polypeptide feature(s) derives from this mRNA:


Feature Name	Unique Name	Type
Cla016893	Cla016893.1-protein	polypeptide

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


Feature Name	Unique Name	Type
Cla016893.1.cds1	Cla016893.1.cds1	CDS

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