Cla012907 (gene) Watermelon (97103) v1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Cla012907
Type	gene
Organism	Citrullus. lanatus (Watermelon (97103) v1)
Description	MADS-box transcription factor (AHRD V1 ***- Q9M725_CANLI); contains Interpro domain(s) IPR002100 Transcription factor, MADS-box
Location	Chr9 : 20699596 .. 20699793 (-)

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.

ATGACAAGGAAGAAAATTCAGATCAAGAAGATTGACAACATAGCTGCAAGACAAGTTGCATTTTCAAAGAGAAGAAAAGGGCTTTTCAAGAAGGCTAAAGAGCTTGCAATTCTTTGTGATGCTGAGATTGGCCTTCTTGTTTTTTCTGCTTCTGGGAAGCTCTTTGACTATGCAAGTTCAAGGTTTTCTCTCTCTTAA

mRNA sequence

ATGACAAGGAAGAAAATTCAGATCAAGAAGATTGACAACATAGCTGCAAGACAAGTTGCATTTTCAAAGAGAAGAAAAGGGCTTTTCAAGAAGGCTAAAGAGCTTGCAATTCTTTGTGATGCTGAGATTGGCCTTCTTGTTTTTTCTGCTTCTGGGAAGCTCTTTGACTATGCAAGTTCAAGGTTTTCTCTCTCTTAA

Coding sequence (CDS)

ATGACAAGGAAGAAAATTCAGATCAAGAAGATTGACAACATAGCTGCAAGACAAGTTGCATTTTCAAAGAGAAGAAAAGGGCTTTTCAAGAAGGCTAAAGAGCTTGCAATTCTTTGTGATGCTGAGATTGGCCTTCTTGTTTTTTCTGCTTCTGGGAAGCTCTTTGACTATGCAAGTTCAAGGTTTTCTCTCTCTTAA

Protein sequence

MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASSRFSLS

Homology

[Close]

BLAST of Cla012907 vs. Swiss-Prot
Match: JOIN_SOLLC (MADS-box protein JOINTLESS OS=Solanum lycopersicum GN=J PE=1 SV=1)

HSP 1 Score: 94.7 bits (234), Expect = 3.9e-19
Identity = 43/60 (71.67%), Postives = 53/60 (88.33%), Query Frame = 1


Query: 1  MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS 60
          M R+KIQIKKIDN  ARQV FSKRR+GLFKKA+EL++LCDA++ L++FS++GKLFDY+SS
Sbjct: 1  MAREKIQIKKIDNSTARQVTFSKRRRGLFKKAEELSVLCDADVALIIFSSTGKLFDYSSS 60

[Close]

BLAST of Cla012907 vs. Swiss-Prot
Match: AGL24_ARATH (MADS-box protein AGL24 OS=Arabidopsis thaliana GN=AGL24 PE=1 SV=1)

HSP 1 Score: 94.0 bits (232), Expect = 6.6e-19
Identity = 42/61 (68.85%), Postives = 54/61 (88.52%), Query Frame = 1


Query: 1  MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS 60
          M R+KI+IKKIDNI ARQV FSKRR+G+FKKA EL++LCDA++ L++FSA+GKLF+++SS
Sbjct: 1  MAREKIRIKKIDNITARQVTFSKRRRGIFKKADELSVLCDADVALIIFSATGKLFEFSSS 60

Query: 61 R 62
          R
Sbjct: 61 R 61

[Close]

BLAST of Cla012907 vs. Swiss-Prot
Match: MAD47_ORYSJ (MADS-box transcription factor 47 OS=Oryza sativa subsp. japonica GN=MADS47 PE=1 SV=2)

HSP 1 Score: 91.3 bits (225), Expect = 4.3e-18
Identity = 42/58 (72.41%), Postives = 53/58 (91.38%), Query Frame = 1


Query: 3  RKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS 61
          R++I I++IDN+AARQV FSKRR+GLFKKA+EL+ILCDAE+GL+VFSA+GKLF +AS+
Sbjct: 22 RERIAIRRIDNLAARQVTFSKRRRGLFKKAEELSILCDAEVGLVVFSATGKLFQFAST 79

[Close]

BLAST of Cla012907 vs. Swiss-Prot
Match: SVP_ARATH (MADS-box protein SVP OS=Arabidopsis thaliana GN=SVP PE=1 SV=1)

HSP 1 Score: 90.5 bits (223), Expect = 7.3e-18
Identity = 40/60 (66.67%), Postives = 52/60 (86.67%), Query Frame = 1


Query: 1  MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS 60
          M R+KIQI+KIDN  ARQV FSKRR+GLFKKA+EL++LCDA++ L++FS++GKLF++ SS
Sbjct: 1  MAREKIQIRKIDNATARQVTFSKRRRGLFKKAEELSVLCDADVALIIFSSTGKLFEFCSS 60

[Close]

BLAST of Cla012907 vs. Swiss-Prot
Match: MAD23_ORYSJ (MADS-box transcription factor 23 OS=Oryza sativa subsp. japonica GN=MADS23 PE=2 SV=1)

HSP 1 Score: 89.4 bits (220), Expect = 1.6e-17
Identity = 42/60 (70.00%), Postives = 51/60 (85.00%), Query Frame = 1


Query: 1  MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS 60
          M R KI+IK+IDN  +RQV FSKRR GLFKKA+EL+ILCDAE+GLLVFS++ +L+D+ASS
Sbjct: 1  MGRGKIEIKRIDNATSRQVTFSKRRSGLFKKARELSILCDAEVGLLVFSSTSRLYDFASS 60

[Close]

BLAST of Cla012907 vs. TrEMBL
Match: B9S9I4_RICCO (Mads box protein, putative OS=Ricinus communis GN=RCOM_0885720 PE=4 SV=1)

HSP 1 Score: 101.7 bits (252), Expect = 3.5e-19
Identity = 51/61 (83.61%), Postives = 56/61 (91.80%), Query Frame = 1


Query: 1  MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS 60
          MTR+KIQIKKIDNI ARQV FSKRR+GLFKKA EL+ LCDAEI LLVFSA+GKLF+YASS
Sbjct: 1  MTRQKIQIKKIDNITARQVTFSKRRRGLFKKAYELSTLCDAEIALLVFSATGKLFEYASS 60

Query: 61 R 62
          R
Sbjct: 61 R 61

[Close]

BLAST of Cla012907 vs. TrEMBL
Match: B0FLP5_EUPES (Dormancy associated MADS-box protein OS=Euphorbia esula GN=DAM1 PE=4 SV=1)

HSP 1 Score: 101.3 bits (251), Expect = 4.6e-19
Identity = 50/61 (81.97%), Postives = 56/61 (91.80%), Query Frame = 1


Query: 1  MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS 60
          MTR+KIQIKKIDNI ARQV FSKRR+GLFKKA EL+ LCDAEI L+VFSA+GKLF+YASS
Sbjct: 1  MTRQKIQIKKIDNITARQVTFSKRRRGLFKKAHELSTLCDAEIALIVFSATGKLFEYASS 60

Query: 61 R 62
          R
Sbjct: 61 R 61

[Close]

BLAST of Cla012907 vs. TrEMBL
Match: A0A0R0KBY2_SOYBN (Uncharacterized protein OS=Glycine max GN=GLYMA_04G093900 PE=4 SV=1)

HSP 1 Score: 101.3 bits (251), Expect = 4.6e-19
Identity = 46/62 (74.19%), Postives = 59/62 (95.16%), Query Frame = 1


Query: 1  MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS 60
          MTR KI+IKKIDNI ARQV FSKRR+GLFKKA+EL++LCDAE+GL+VFS++GKLFDY+++
Sbjct: 1  MTRAKIKIKKIDNITARQVTFSKRRRGLFKKAEELSVLCDAEVGLIVFSSTGKLFDYSNA 60

Query: 61 RF 63
          R+
Sbjct: 61 RY 62

[Close]

BLAST of Cla012907 vs. TrEMBL
Match: K7KJ40_SOYBN (Uncharacterized protein OS=Glycine max PE=4 SV=1)

HSP 1 Score: 101.3 bits (251), Expect = 4.6e-19
Identity = 46/62 (74.19%), Postives = 59/62 (95.16%), Query Frame = 1


Query: 1  MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS 60
          MTR KI+IKKIDNI ARQV FSKRR+GLFKKA+EL++LCDAE+GL+VFS++GKLFDY+++
Sbjct: 5  MTRAKIKIKKIDNITARQVTFSKRRRGLFKKAEELSVLCDAEVGLIVFSSTGKLFDYSNA 64

Query: 61 RF 63
          R+
Sbjct: 65 RY 66

[Close]

BLAST of Cla012907 vs. TrEMBL
Match: A0A0D2SLU8_GOSRA (Uncharacterized protein OS=Gossypium raimondii GN=B456_005G225500 PE=4 SV=1)

HSP 1 Score: 100.5 bits (249), Expect = 7.8e-19
Identity = 48/60 (80.00%), Postives = 56/60 (93.33%), Query Frame = 1


Query: 1  MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS 60
          MTRK+IQIKKIDN+AARQV FSKRR+GLFKKA EL++LCDAEI L+VFSA+GKLFDY S+
Sbjct: 9  MTRKRIQIKKIDNVAARQVTFSKRRRGLFKKAHELSVLCDAEIALIVFSATGKLFDYFST 68

[Close]

BLAST of Cla012907 vs. NCBI nr
Match: gi|778724526|ref|XP_004136891.2| (PREDICTED: MADS-box protein SVP-like [Cucumis sativus])

HSP 1 Score: 116.3 bits (290), Expect = 2.0e-23
Identity = 60/60 (100.00%), Postives = 60/60 (100.00%), Query Frame = 1


Query: 1  MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS 60
          MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS
Sbjct: 1  MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS 60

[Close]

BLAST of Cla012907 vs. NCBI nr
Match: gi|659110273|ref|XP_008455140.1| (PREDICTED: MADS-box protein SVP-like isoform X1 [Cucumis melo])

HSP 1 Score: 116.3 bits (290), Expect = 2.0e-23
Identity = 60/60 (100.00%), Postives = 60/60 (100.00%), Query Frame = 1


Query: 1  MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS 60
          MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS
Sbjct: 1  MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS 60

[Close]

BLAST of Cla012907 vs. NCBI nr
Match: gi|659110275|ref|XP_008455141.1| (PREDICTED: MADS-box protein JOINTLESS-like isoform X2 [Cucumis melo])

HSP 1 Score: 116.3 bits (290), Expect = 2.0e-23
Identity = 60/60 (100.00%), Postives = 60/60 (100.00%), Query Frame = 1


Query: 1  MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS 60
          MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS
Sbjct: 1  MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS 60

[Close]

BLAST of Cla012907 vs. NCBI nr
Match: gi|1009151879|ref|XP_015893790.1| (PREDICTED: MADS-box protein JOINTLESS-like [Ziziphus jujuba])

HSP 1 Score: 104.4 bits (259), Expect = 7.8e-20
Identity = 51/60 (85.00%), Postives = 57/60 (95.00%), Query Frame = 1


Query: 1  MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS 60
          MTR+KIQIKKIDN+ ARQV FSKRR+GLFKKAKEL+ILCDAEI L+VFSA+GKLFDYASS
Sbjct: 1  MTRQKIQIKKIDNLTARQVTFSKRRRGLFKKAKELSILCDAEIALIVFSATGKLFDYASS 60

[Close]

BLAST of Cla012907 vs. NCBI nr
Match: gi|223538129|gb|EEF39740.1| (mads box protein, putative [Ricinus communis])

HSP 1 Score: 101.7 bits (252), Expect = 5.0e-19
Identity = 51/61 (83.61%), Postives = 56/61 (91.80%), Query Frame = 1


Query: 1  MTRKKIQIKKIDNIAARQVAFSKRRKGLFKKAKELAILCDAEIGLLVFSASGKLFDYASS 60
          MTR+KIQIKKIDNI ARQV FSKRR+GLFKKA EL+ LCDAEI LLVFSA+GKLF+YASS
Sbjct: 1  MTRQKIQIKKIDNITARQVTFSKRRRGLFKKAYELSTLCDAEIALLVFSATGKLFEYASS 60

Query: 61 R 62
          R
Sbjct: 61 R 61

The following BLAST results are available for this feature:

BLAST of Cla012907 vs. Swiss-Prot


Match Name	E-value	Identity	Description
JOIN_SOLLC	3.9e-19	71.67	MADS-box protein JOINTLESS OS=Solanum lycopersicum GN=J PE=1 SV=1	[more]
AGL24_ARATH	6.6e-19	68.85	MADS-box protein AGL24 OS=Arabidopsis thaliana GN=AGL24 PE=1 SV=1	[more]
MAD47_ORYSJ	4.3e-18	72.41	MADS-box transcription factor 47 OS=Oryza sativa subsp. japonica GN=MADS47 PE=1 ...	[more]
SVP_ARATH	7.3e-18	66.67	MADS-box protein SVP OS=Arabidopsis thaliana GN=SVP PE=1 SV=1	[more]
MAD23_ORYSJ	1.6e-17	70.00	MADS-box transcription factor 23 OS=Oryza sativa subsp. japonica GN=MADS23 PE=2 ...	[more]

BLAST of Cla012907 vs. TrEMBL


Match Name	E-value	Identity	Description
B9S9I4_RICCO	3.5e-19	83.61	Mads box protein, putative OS=Ricinus communis GN=RCOM_0885720 PE=4 SV=1	[more]
B0FLP5_EUPES	4.6e-19	81.97	Dormancy associated MADS-box protein OS=Euphorbia esula GN=DAM1 PE=4 SV=1	[more]
A0A0R0KBY2_SOYBN	4.6e-19	74.19	Uncharacterized protein OS=Glycine max GN=GLYMA_04G093900 PE=4 SV=1	[more]
K7KJ40_SOYBN	4.6e-19	74.19	Uncharacterized protein OS=Glycine max PE=4 SV=1	[more]
A0A0D2SLU8_GOSRA	7.8e-19	80.00	Uncharacterized protein OS=Gossypium raimondii GN=B456_005G225500 PE=4 SV=1	[more]

BLAST of Cla012907 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|778724526\|ref\|XP_004136891.2\|	2.0e-23	100.00	PREDICTED: MADS-box protein SVP-like [Cucumis sativus]	[more]
gi\|659110273\|ref\|XP_008455140.1\|	2.0e-23	100.00	PREDICTED: MADS-box protein SVP-like isoform X1 [Cucumis melo]	[more]
gi\|659110275\|ref\|XP_008455141.1\|	2.0e-23	100.00	PREDICTED: MADS-box protein JOINTLESS-like isoform X2 [Cucumis melo]	[more]
gi\|1009151879\|ref\|XP_015893790.1\|	7.8e-20	85.00	PREDICTED: MADS-box protein JOINTLESS-like [Ziziphus jujuba]	[more]
gi\|223538129\|gb\|EEF39740.1\|	5.0e-19	83.61	mads box protein, putative [Ricinus communis]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR002100	TF_MADSbox

Vocabulary: **Molecular Function**
Term	Definition
GO:0003677	DNA binding
GO:0046983	protein dimerization activity

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0055114	oxidation-reduction process
biological_process	GO:0045087	innate immune response
biological_process	GO:0048869	cellular developmental process
biological_process	GO:0070727	cellular macromolecule localization
biological_process	GO:0006464	cellular protein modification process
biological_process	GO:0071229	cellular response to acid chemical
biological_process	GO:0071310	cellular response to organic substance
biological_process	GO:1901701	cellular response to oxygen-containing compound
biological_process	GO:0048438	floral whorl development
biological_process	GO:0010073	meristem maintenance
biological_process	GO:0006355	regulation of transcription, DNA-templated
biological_process	GO:0006796	phosphate-containing compound metabolic process
biological_process	GO:0048827	phyllome development
biological_process	GO:0032268	regulation of cellular protein metabolic process
biological_process	GO:0031347	regulation of defense response
biological_process	GO:0051707	response to other organism
biological_process	GO:0007165	signal transduction
biological_process	GO:0045944	positive regulation of transcription from RNA polymerase II promoter
biological_process	GO:0000165	MAPK cascade
biological_process	GO:0016043	cellular component organization
biological_process	GO:0006351	transcription, DNA-templated
biological_process	GO:0048510	regulation of timing of transition from vegetative to reproductive phase
biological_process	GO:0050793	regulation of developmental process
biological_process	GO:0009908	flower development
biological_process	GO:0048507	meristem development
biological_process	GO:2000113	negative regulation of cellular macromolecule biosynthetic process
biological_process	GO:0000060	protein import into nucleus, translocation
biological_process	GO:0010629	negative regulation of gene expression
biological_process	GO:0051172	negative regulation of nitrogen compound metabolic process
biological_process	GO:0051093	negative regulation of developmental process
biological_process	GO:2000026	regulation of multicellular organismal development
biological_process	GO:0010582	floral meristem determinacy
biological_process	GO:0010076	maintenance of floral meristem identity
biological_process	GO:0010077	maintenance of inflorescence meristem identity
biological_process	GO:0048481	plant ovule development
cellular_component	GO:0005667	transcription factor complex
cellular_component	GO:0005634	nucleus
molecular_function	GO:0043565	sequence-specific DNA binding
molecular_function	GO:0042803	protein homodimerization activity
molecular_function	GO:0003700	transcription factor activity, sequence-specific DNA binding
molecular_function	GO:0046983	protein dimerization activity
molecular_function	GO:0003677	DNA binding
molecular_function	GO:0032440	2-alkenal reductase [NAD(P)] activity
molecular_function	GO:0000977	RNA polymerase II regulatory region sequence-specific DNA binding
molecular_function	GO:0046982	protein heterodimerization activity

Relationships

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


Feature Name	Unique Name	Type
Cla012907	Cla012907.1	mRNA

InterPro

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


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR002100	Transcription factor, MADS-box	PRINTS	PR00404	MADSDOMAIN	coord: 23..38 score: 1.9E-25coord: 38..59 score: 1.9E-25coord: 3..23 score: 1.9
IPR002100	Transcription factor, MADS-box	PFAM	PF00319	SRF-TF	coord: 10..57 score: 2.4
IPR002100	Transcription factor, MADS-box	SMART	SM00432	madsneu2	coord: 1..60 score: 1.0
IPR002100	Transcription factor, MADS-box	PROFILE	PS50066	MADS_BOX_2	coord: 1..61 score: 27
IPR002100	Transcription factor, MADS-box	unknown	SSF55455	SRF-like	coord: 1..61 score: 3.66
None	No IPR available	PANTHER	PTHR11945	MADS BOX PROTEIN	coord: 2..61 score: 9.6

Synteny

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


Gene	Orthologue	Organism	Block
Cla012907	Cla97C09G177810	Watermelon (97103) v2	wmwmbB043
Cla012907	MELO3C018601	Melon (DHL92) v3.5.1	mewmB191
Cla012907	ClCG09G016020	Watermelon (Charleston Gray)	wcgwmB009
Cla012907	CmaCh19G004750	Cucurbita maxima (Rimu)	cmawmB473
Cla012907	CmoCh19G004920	Cucurbita moschata (Rifu)	cmowmB466
Cla012907	CsGy7G005640	Cucumber (Gy14) v2	cgybwmB518
Cla012907	MELO3C018601.2	Melon (DHL92) v3.6.1	medwmB185
Cla012907	Carg22814	Silver-seed gourd	carwmB0282
Cla012907	CsaV3_7G006940	Cucumber (Chinese Long) v3	cucwmB580
Cla012907	Bhi05G000779	Wax gourd	wgowmB254

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
Cla012907	Cucumber (Chinese Long) v3	cucwmB596
Cla012907	Wax gourd	wgowmB243
Cla012907	Cucurbita maxima (Rimu)	cmawmB075
Cla012907	Cucurbita moschata (Rifu)	cmowmB071
Cla012907	Wild cucumber (PI 183967)	cpiwmB589
Cla012907	Cucurbita pepo (Zucchini)	cpewmB237
Cla012907	Cucurbita pepo (Zucchini)	cpewmB632
Cla012907	Bottle gourd (USVL1VR-Ls)	lsiwmB233
Cla012907	Cucumber (Gy14) v2	cgybwmB533