Cla011008 (gene) Watermelon (97103) v1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Cla011008
Type	gene
Organism	Citrullus. lanatus (Watermelon (97103) v1)
Description	Unknown Protein (AHRD V1); contains Interpro domain(s) IPR019404 Mediator complex, subunit Med11
Location	Chr1 : 17472442 .. 17473495 (+)

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.

ATGGATCCGCCGACCCAGAATACTTCGTTGCAACGCCTTCAAAATGTGGAGAAGGTTGGAATAATTTTCCATTCCTTAAATATTTTGTTTCTAGTTCTTTGCACGGTCTTTATTGTGCACAAGATGCTTTTCTACCAACTTTTGTGTTTCATTCTGGCAGAGAATTGTGAGGGTTTTGGAGCTAGCGGGAGGAGTCATGGAAGAGCTTGCCAACCCTGCCGGTCCAAGAAAGGAATTTGTCAACAATCATTGTAGTGAGTTCATGCAATTCATCAAGGTAAGCCCTCTGTGTATGACAGTGGTTCTTCACGTCAAATGATCTTTCAAATTTAGATAGGCTTATTGCCTCGTGTTGGGCGTCTGTGTTTAATGACTTTTGTACTTATTTGTTGGGTTTTATTCTTAAAACTTTTTCTTTCTCTATAGGTTGGCTGTTAGGGTCTGTTGGTTCCTTCTGTGCTTCACTTTTGTGTGTCCAACCCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGTTGCAATTGTTTATTTTTAATGTTCTGGTTAACCCTTCTTTCTTCTTTCATTTTTTTCTCCGTGGACGTTGGGTTCCTTTGGAGCAGTCACTTTTGTAGGTGAATTTTGACATTTATTTATTTATTATTATTTTTATTTATTTGATTTTTTCCCCTTTGATCGAATGATCTTTCAGGTTTAGTTTTAAGGGTTCTAGCAAACTTTCTTGGACTGGTATTGCTTGAGGTTTTCGTTTGTTTTCTTAGTTTGTTAATTATTTGATGGGGGATGGTGCTAACCATTATATTTCGGAGGATACTTGGGTGGGAAAAACCCCTTTGTGCTCTATTTCCTCAACTCTATCACTTGTTAGATAGTGCATGCATTCGATAGCCTTTGTCTTGCCTCTTTTGGTAGTTTCTTCCTCTTGTCCCTTAGTTTTCACCGTTCCCCTACCGACCGAGTTGTTGGCCTTCTTTCTATTGTTTCTGGTCAAGTAGTCCATCATGGGAGAAGGGATTCCAAGTTTTGGGCTCCAAGCCATCTAAGGGTTTCTCTGTAA

mRNA sequence

ATGGATCCGCCGACCCAGAATACTTCGTTGCAACGCCTTCAAAATGTGGAGAAGAGAATTGTGAGGGTTTTGGAGCTAGCGGGAGGAGTCATGGAAGAGCTTGCCAACCCTGCCGGTCCAAGAAAGGAATTTGTCAACAATCATTGTAGTGAGTTCATGCAATTCATCAAGATAGTGCATGCATTCGATAGCCTTTGTCTTGCCTCTTTTGGTAGTTTCTTCCTCTTGTCCCTTAGTTTTCACCGTTCCCCTACCGACCGAGTTGTTGGCCTTCTTTCTATTGTTTCTGGTCAAGTAGTCCATCATGGGAGAAGGGATTCCAAGTTTTGGGCTCCAAGCCATCTAAGGGTTTCTCTGTAA

Coding sequence (CDS)

ATGGATCCGCCGACCCAGAATACTTCGTTGCAACGCCTTCAAAATGTGGAGAAGAGAATTGTGAGGGTTTTGGAGCTAGCGGGAGGAGTCATGGAAGAGCTTGCCAACCCTGCCGGTCCAAGAAAGGAATTTGTCAACAATCATTGTAGTGAGTTCATGCAATTCATCAAGATAGTGCATGCATTCGATAGCCTTTGTCTTGCCTCTTTTGGTAGTTTCTTCCTCTTGTCCCTTAGTTTTCACCGTTCCCCTACCGACCGAGTTGTTGGCCTTCTTTCTATTGTTTCTGGTCAAGTAGTCCATCATGGGAGAAGGGATTCCAAGTTTTGGGCTCCAAGCCATCTAAGGGTTTCTCTGTAA

Protein sequence

MDPPTQNTSLQRLQNVEKRIVRVLELAGGVMEELANPAGPRKEFVNNHCSEFMQFIKIVHAFDSLCLASFGSFFLLSLSFHRSPTDRVVGLLSIVSGQVVHHGRRDSKFWAPSHLRVSL

Homology

[Close]

BLAST of Cla011008 vs. Swiss-Prot
Match: MED11_ARATH (Mediator of RNA polymerase II transcription subunit 11 OS=Arabidopsis thaliana GN=MED11 PE=1 SV=1)

HSP 1 Score: 99.4 bits (246), Expect = 2.9e-20
Identity = 46/57 (80.70%), Postives = 51/57 (89.47%), Query Frame = 1


Query: 1  MDPPTQNTSLQRLQNVEKRIVRVLELAGGVMEELANPAGPRKEFVNNHCSEFMQFIK 58
          MDP TQNTSLQRLQNVE R+V+VLELAGGVMEELA+P+GP+KEFVN+HC EFMQ +K
Sbjct: 1  MDPQTQNTSLQRLQNVENRVVKVLELAGGVMEELASPSGPKKEFVNSHCREFMQSMK 57

[Close]

BLAST of Cla011008 vs. TrEMBL
Match: A0A0A0L450_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_4G594450 PE=4 SV=1)

HSP 1 Score: 114.4 bits (285), Expect = 9.6e-23
Identity = 55/57 (96.49%), Postives = 55/57 (96.49%), Query Frame = 1


Query: 1  MDPPTQNTSLQRLQNVEKRIVRVLELAGGVMEELANPAGPRKEFVNNHCSEFMQFIK 58
          MDPP  NTSLQRLQNVEKRIVRVLELAGGVMEELANPAGPRKEFVNNHCSEFMQFIK
Sbjct: 1  MDPPAHNTSLQRLQNVEKRIVRVLELAGGVMEELANPAGPRKEFVNNHCSEFMQFIK 57

[Close]

BLAST of Cla011008 vs. TrEMBL
Match: A0A061GG64_THECC (Mediator of RNA polymerase II transcription subunit 11 OS=Theobroma cacao GN=TCM_030340 PE=4 SV=1)

HSP 1 Score: 106.3 bits (264), Expect = 2.6e-20
Identity = 50/57 (87.72%), Postives = 53/57 (92.98%), Query Frame = 1


Query: 1  MDPPTQNTSLQRLQNVEKRIVRVLELAGGVMEELANPAGPRKEFVNNHCSEFMQFIK 58
          MD PTQNTSLQRLQNVEKRIVRVLELAGGVM+ELANP GPRKEF+NNHC EFM+ IK
Sbjct: 1  MDSPTQNTSLQRLQNVEKRIVRVLELAGGVMDELANPTGPRKEFINNHCREFMKMIK 57

[Close]

BLAST of Cla011008 vs. TrEMBL
Match: A0A0B0N6V2_GOSAR (Mediator of RNA polymerase II transcription subunit 11 OS=Gossypium arboreum GN=F383_14611 PE=4 SV=1)

HSP 1 Score: 106.3 bits (264), Expect = 2.6e-20
Identity = 50/57 (87.72%), Postives = 53/57 (92.98%), Query Frame = 1


Query: 1  MDPPTQNTSLQRLQNVEKRIVRVLELAGGVMEELANPAGPRKEFVNNHCSEFMQFIK 58
          MD PTQNTSLQRLQNVEKRIVRVLELAGGVM+ELANP GPRKEF+NNHC EFM+ IK
Sbjct: 1  MDSPTQNTSLQRLQNVEKRIVRVLELAGGVMDELANPTGPRKEFINNHCREFMKMIK 57

[Close]

BLAST of Cla011008 vs. TrEMBL
Match: W9R6A2_9ROSA (Uncharacterized protein OS=Morus notabilis GN=L484_026253 PE=4 SV=1)

HSP 1 Score: 105.5 bits (262), Expect = 4.5e-20
Identity = 51/57 (89.47%), Postives = 53/57 (92.98%), Query Frame = 1


Query: 1  MDPPTQNTSLQRLQNVEKRIVRVLELAGGVMEELANPAGPRKEFVNNHCSEFMQFIK 58
          MD  TQNTSLQRLQNVEKRIVRVLELAGGVM+EL+NPAGPRKEFVNNHC EFMQ IK
Sbjct: 1  MDSQTQNTSLQRLQNVEKRIVRVLELAGGVMDELSNPAGPRKEFVNNHCREFMQLIK 57

[Close]

BLAST of Cla011008 vs. TrEMBL
Match: M1C635_SOLTU (Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400023560 PE=4 SV=1)

HSP 1 Score: 104.8 bits (260), Expect = 7.6e-20
Identity = 49/57 (85.96%), Postives = 54/57 (94.74%), Query Frame = 1


Query: 1  MDPPTQNTSLQRLQNVEKRIVRVLELAGGVMEELANPAGPRKEFVNNHCSEFMQFIK 58
          MD  +QNTSLQRLQNVEKRIVRVLELAGGVM+E+ANP+GPRKEF+NNHCSEFMQ IK
Sbjct: 1  MDSQSQNTSLQRLQNVEKRIVRVLELAGGVMDEMANPSGPRKEFINNHCSEFMQLIK 57

[Close]

BLAST of Cla011008 vs. NCBI nr
Match: gi|659082827|ref|XP_008442051.1| (PREDICTED: mediator of RNA polymerase II transcription subunit 11 [Cucumis melo])

HSP 1 Score: 116.3 bits (290), Expect = 3.6e-23
Identity = 56/57 (98.25%), Postives = 56/57 (98.25%), Query Frame = 1


Query: 1  MDPPTQNTSLQRLQNVEKRIVRVLELAGGVMEELANPAGPRKEFVNNHCSEFMQFIK 58
          MDPP QNTSLQRLQNVEKRIVRVLELAGGVMEELANPAGPRKEFVNNHCSEFMQFIK
Sbjct: 1  MDPPAQNTSLQRLQNVEKRIVRVLELAGGVMEELANPAGPRKEFVNNHCSEFMQFIK 57

[Close]

BLAST of Cla011008 vs. NCBI nr
Match: gi|449453808|ref|XP_004144648.1| (PREDICTED: mediator of RNA polymerase II transcription subunit 11 [Cucumis sativus])

HSP 1 Score: 114.4 bits (285), Expect = 1.4e-22
Identity = 55/57 (96.49%), Postives = 55/57 (96.49%), Query Frame = 1


Query: 1  MDPPTQNTSLQRLQNVEKRIVRVLELAGGVMEELANPAGPRKEFVNNHCSEFMQFIK 58
          MDPP  NTSLQRLQNVEKRIVRVLELAGGVMEELANPAGPRKEFVNNHCSEFMQFIK
Sbjct: 1  MDPPAHNTSLQRLQNVEKRIVRVLELAGGVMEELANPAGPRKEFVNNHCSEFMQFIK 57

[Close]

BLAST of Cla011008 vs. NCBI nr
Match: gi|700199753|gb|KGN54911.1| (hypothetical protein Csa_4G594450 [Cucumis sativus])

HSP 1 Score: 114.4 bits (285), Expect = 1.4e-22
Identity = 55/57 (96.49%), Postives = 55/57 (96.49%), Query Frame = 1


Query: 1  MDPPTQNTSLQRLQNVEKRIVRVLELAGGVMEELANPAGPRKEFVNNHCSEFMQFIK 58
          MDPP  NTSLQRLQNVEKRIVRVLELAGGVMEELANPAGPRKEFVNNHCSEFMQFIK
Sbjct: 1  MDPPAHNTSLQRLQNVEKRIVRVLELAGGVMEELANPAGPRKEFVNNHCSEFMQFIK 57

[Close]

BLAST of Cla011008 vs. NCBI nr
Match: gi|590626684|ref|XP_007026238.1| (Mediator of RNA polymerase II transcription subunit 11 [Theobroma cacao])

HSP 1 Score: 106.3 bits (264), Expect = 3.7e-20
Identity = 50/57 (87.72%), Postives = 53/57 (92.98%), Query Frame = 1


Query: 1  MDPPTQNTSLQRLQNVEKRIVRVLELAGGVMEELANPAGPRKEFVNNHCSEFMQFIK 58
          MD PTQNTSLQRLQNVEKRIVRVLELAGGVM+ELANP GPRKEF+NNHC EFM+ IK
Sbjct: 1  MDSPTQNTSLQRLQNVEKRIVRVLELAGGVMDELANPTGPRKEFINNHCREFMKMIK 57

[Close]

BLAST of Cla011008 vs. NCBI nr
Match: gi|728830775|gb|KHG10218.1| (Mediator of RNA polymerase II transcription subunit 11 [Gossypium arboreum])

HSP 1 Score: 106.3 bits (264), Expect = 3.7e-20
Identity = 50/57 (87.72%), Postives = 53/57 (92.98%), Query Frame = 1


Query: 1  MDPPTQNTSLQRLQNVEKRIVRVLELAGGVMEELANPAGPRKEFVNNHCSEFMQFIK 58
          MD PTQNTSLQRLQNVEKRIVRVLELAGGVM+ELANP GPRKEF+NNHC EFM+ IK
Sbjct: 1  MDSPTQNTSLQRLQNVEKRIVRVLELAGGVMDELANPTGPRKEFINNHCREFMKMIK 57

The following BLAST results are available for this feature:

BLAST of Cla011008 vs. Swiss-Prot


Match Name	E-value	Identity	Description
MED11_ARATH	2.9e-20	80.70	Mediator of RNA polymerase II transcription subunit 11 OS=Arabidopsis thaliana G...	[more]

BLAST of Cla011008 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0L450_CUCSA	9.6e-23	96.49	Uncharacterized protein OS=Cucumis sativus GN=Csa_4G594450 PE=4 SV=1	[more]
A0A061GG64_THECC	2.6e-20	87.72	Mediator of RNA polymerase II transcription subunit 11 OS=Theobroma cacao GN=TCM...	[more]
A0A0B0N6V2_GOSAR	2.6e-20	87.72	Mediator of RNA polymerase II transcription subunit 11 OS=Gossypium arboreum GN=...	[more]
W9R6A2_9ROSA	4.5e-20	89.47	Uncharacterized protein OS=Morus notabilis GN=L484_026253 PE=4 SV=1	[more]
M1C635_SOLTU	7.6e-20	85.96	Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400023560 PE=4 SV=1	[more]

BLAST of Cla011008 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|659082827\|ref\|XP_008442051.1\|	3.6e-23	98.25	PREDICTED: mediator of RNA polymerase II transcription subunit 11 [Cucumis melo]	[more]
gi\|449453808\|ref\|XP_004144648.1\|	1.4e-22	96.49	PREDICTED: mediator of RNA polymerase II transcription subunit 11 [Cucumis sativ...	[more]
gi\|700199753\|gb\|KGN54911.1\|	1.4e-22	96.49	hypothetical protein Csa_4G594450 [Cucumis sativus]	[more]
gi\|590626684\|ref\|XP_007026238.1\|	3.7e-20	87.72	Mediator of RNA polymerase II transcription subunit 11 [Theobroma cacao]	[more]
gi\|728830775\|gb\|KHG10218.1\|	3.7e-20	87.72	Mediator of RNA polymerase II transcription subunit 11 [Gossypium arboreum]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR019404	Mediator_Med11

Vocabulary: **Molecular Function**
Term	Definition
GO:0001104	RNA polymerase II transcription cofactor activity

Vocabulary: **Biological Process**
Term	Definition
GO:0006357	regulation of transcription from RNA polymerase II promoter

Vocabulary: **Cellular Component**
Term	Definition
GO:0016592	mediator complex

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006357	regulation of transcription from RNA polymerase II promoter
biological_process	GO:0006355	regulation of transcription, DNA-templated
cellular_component	GO:0016592	mediator complex
cellular_component	GO:0016021	integral component of membrane
cellular_component	GO:0005667	transcription factor complex
molecular_function	GO:0001104	RNA polymerase II transcription cofactor activity
molecular_function	GO:0003712	transcription cofactor activity

Relationships

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


Feature Name	Unique Name	Type
Cla011008	Cla011008.1	mRNA

InterPro

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


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR019404	Mediator complex, subunit Med11	PFAM	PF10280	Med11	coord: 8..60 score: 2.
None	No IPR available	PANTHER	PTHR22890	UNCHARACTERIZED	coord: 1..61 score: 3.3

Synteny

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


Gene	Orthologue	Organism	Block
Cla011008	Cla97C01G010970	Watermelon (97103) v2	wmwmbB246
Cla011008	ClCG01G011300	Watermelon (Charleston Gray)	wcgwmB155
Cla011008	CmaCh13G003220	Cucurbita maxima (Rimu)	cmawmB202
Cla011008	Lsi02G011700	Bottle gourd (USVL1VR-Ls)	lsiwmB205
Cla011008	Carg24385	Silver-seed gourd	carwmB0051

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
Cla011008	Cucumber (Gy14) v2	cgybwmB043
Cla011008	Cucumber (Gy14) v2	cgybwmB059
Cla011008	Melon (DHL92) v3.6.1	medwmB156
Cla011008	Melon (DHL92) v3.6.1	medwmB162
Cla011008	Melon (DHL92) v3.6.1	medwmB168
Cla011008	Cucumber (Chinese Long) v3	cucwmB049
Cla011008	Cucumber (Chinese Long) v3	cucwmB067
Cla011008	Wax gourd	wgowmB500
Cla011008	Wax gourd	wgowmB513
Cla011008	Cucumber (Gy14) v1	cgywmB345
Cla011008	Cucumber (Gy14) v1	cgywmB581
Cla011008	Cucurbita maxima (Rimu)	cmawmB386
Cla011008	Cucurbita moschata (Rifu)	cmowmB189
Cla011008	Cucurbita moschata (Rifu)	cmowmB378
Cla011008	Melon (DHL92) v3.5.1	mewmB160
Cla011008	Melon (DHL92) v3.5.1	mewmB164
Cla011008	Cucumber (Chinese Long) v2	cuwmB042
Cla011008	Cucumber (Chinese Long) v2	cuwmB059
Cla011008	Cucurbita pepo (Zucchini)	cpewmB516