Cla012469 (gene) Watermelon (97103) v1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Cla012469
Type	gene
Organism	Citrullus. lanatus (Watermelon (97103) v1)
Description	RNA polymerase II transcription mediator (AHRD V1 ***- F4K460_ARATH)
Location	Chr8 : 835239 .. 836372 (-)

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.

ATGGACGAAGACATGAAAGTCTCTCTCGACAAGCTTCCCGTCAAGCGCTTGGAGGCCATAGAAGAGAGCGGTCTAGAACGATTTCCATCGTATGTTCCTTCTTCCCGGGGTTTTCCCTCATTTTTTTGATTCCTGAGATAACAGAGGAAACATTATCTAGTTCGTATGTGTGTTAAGGTAGAAGAAGAAATGTCTTAGTTGATGAATGTCTGCTTGTCCTTCGACATTGTTAATTCTGATTACGTTTGTGTCTGTAAGTTGGCGATTGCTTGGAGTGAACTCACAATTGATCCCATTCTGCTAAATTGACCAGAATCTAATCTTTAAATGTGTTCCTTGATTTTTCCTGGTGAAAGTTTATGCTTAATTTCCTTGATTAATTGAGATTGATTGTGTTATATTGTTAACAGAGATGTTGGTTATGAAGAGAAACGGTTGTCACTTATTCGGAGAATTGACTTTGCTTGGGCAATAGAGAAGGACGATGACAAAAAGAAGCAGAAGAAGAGCTCCAAGGAGAGTTCAACACCGTGGCAATGGCAGAACATGATAGAAAACTTGCAGTTGGCTCATCAAGAGCTCTCTGTTATCATAGACCTTATCAACACTGTGAGTTTATATATCAAACGCCTCTAAGTTTCTAGATTTTTTTACCATACTGTTCTTTTTATAAATAATGGGAAAACGTTACTTGTATTAGTTTCAATCAATAAATGTGCCTGCAAATATTTCTTTGTTCTAAAGAAAAAAAGGTGCATGCAAATGTAGAGGCAAGTTGTTTTAGATTTTACATTACATATATGTCTTGGCATATTTTTATTTTTTTAGAAAGCGTGGTACTGAAGTGCAATAGTTCTTTCGGACTTAAGTGCAAGGTGCAGTAAAGAGAGGGGAAAAAAACAAGGTGCTCACTGGAAAATGCTAATAATTTTCTTTACACATGAAGTAAAATAGTATTATGAATATTAAGATAATGAAAAATTGAAATTAGAGGTTTTATTGGTGATTGTTGAAAAAAAACAAACATTATAAAAGAATATTTCTTAGTTTCTTCCTTCTATTGGGCTTCAGGCACTGAAGCGCGTATCTCAAGTGCCCTTCATTAAGGGTGCCTTTTCTGGTAAGTCCATGTAG

mRNA sequence

ATGGACGAAGACATGAAAGTCTCTCTCGACAAGCTTCCCGTCAAGCGCTTGGAGGCCATAGAAGAGAGCGGTCTAGAACGATTTCCATCAGATGTTGGTTATGAAGAGAAACGGTTGTCACTTATTCGGAGAATTGACTTTGCTTGGGCAATAGAGAAGGACGATGACAAAAAGAAGCAGAAGAAGAGCTCCAAGGAGAGTTCAACACCGTGGCAATGGCAGAACATGATAGAAAACTTGCAGTTGGCTCATCAAGAGCTCTCTGTTATCATAGACCTTATCAACACTGCACTGAAGCGCGTATCTCAAGTGCCCTTCATTAAGGGTGCCTTTTCTGGTAAGTCCATGTAG

Coding sequence (CDS)

ATGGACGAAGACATGAAAGTCTCTCTCGACAAGCTTCCCGTCAAGCGCTTGGAGGCCATAGAAGAGAGCGGTCTAGAACGATTTCCATCAGATGTTGGTTATGAAGAGAAACGGTTGTCACTTATTCGGAGAATTGACTTTGCTTGGGCAATAGAGAAGGACGATGACAAAAAGAAGCAGAAGAAGAGCTCCAAGGAGAGTTCAACACCGTGGCAATGGCAGAACATGATAGAAAACTTGCAGTTGGCTCATCAAGAGCTCTCTGTTATCATAGACCTTATCAACACTGCACTGAAGCGCGTATCTCAAGTGCCCTTCATTAAGGGTGCCTTTTCTGGTAAGTCCATGTAG

Protein sequence

MDEDMKVSLDKLPVKRLEAIEESGLERFPSDVGYEEKRLSLIRRIDFAWAIEKDDDKKKQKKSSKESSTPWQWQNMIENLQLAHQELSVIIDLINTALKRVSQVPFIKGAFSGKSM

Homology

[Close]

BLAST of Cla012469 vs. Swiss-Prot
Match: MED17_ARATH (Mediator of RNA polymerase II transcription subunit 17 OS=Arabidopsis thaliana GN=MED17 PE=1 SV=1)

HSP 1 Score: 149.4 bits (376), Expect = 2.4e-35
Identity = 70/98 (71.43%), Postives = 87/98 (88.78%), Query Frame = 1


Query: 1  MDEDMKVSLDKLPVKRLEAIEESGLERFPSDVGYEEKRLSLIRRIDFAWAIEKDDD--KK 60
          MD DM++SLD+LP+KRLE+IEE+G ERFPSDV Y++KR+SLIRRIDFAWA+E++D+  KK
Sbjct: 1  MDSDMEISLDRLPIKRLESIEENGAERFPSDVDYDDKRVSLIRRIDFAWALEEEDELKKK 60

Query: 61 KQKKSSKESSTPWQWQNMIENLQLAHQELSVIIDLINT 97
          KQKKSSK+S   W+W+ M+ENLQLAHQEL+VIIDLI+T
Sbjct: 61 KQKKSSKDSVEQWKWKGMVENLQLAHQELTVIIDLIDT 98

[Close]

BLAST of Cla012469 vs. TrEMBL
Match: A0A0A0KXX2_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_5G650410 PE=4 SV=1)

HSP 1 Score: 190.3 bits (482), Expect = 1.3e-45
Identity = 94/96 (97.92%), Postives = 96/96 (100.00%), Query Frame = 1


Query: 1  MDEDMKVSLDKLPVKRLEAIEESGLERFPSDVGYEEKRLSLIRRIDFAWAIEKDDDKKKQ 60
          MDEDMKVSLDKLPVKRLEAIEE+GLERFPSDVGYEEKRLSLIRRIDFAWAIEKDDDKKKQ
Sbjct: 1  MDEDMKVSLDKLPVKRLEAIEENGLERFPSDVGYEEKRLSLIRRIDFAWAIEKDDDKKKQ 60

Query: 61 KKSSKESSTPWQWQNMIENLQLAHQELSVIIDLINT 97
          KKSSKESSTPWQWQ+MIENLQLAHQELSVIIDLINT
Sbjct: 61 KKSSKESSTPWQWQSMIENLQLAHQELSVIIDLINT 96

[Close]

BLAST of Cla012469 vs. TrEMBL
Match: A0A0L9TSD8_PHAAN (Uncharacterized protein OS=Phaseolus angularis GN=LR48_Vigan01g262000 PE=4 SV=1)

HSP 1 Score: 168.7 bits (426), Expect = 4.2e-39
Identity = 78/95 (82.11%), Postives = 92/95 (96.84%), Query Frame = 1


Query: 2  DEDMKVSLDKLPVKRLEAIEESGLERFPSDVGYEEKRLSLIRRIDFAWAIEKDDDKKKQK 61
          D D+++SLDKLP+KRL++IEE+G+ERFP DV Y+EKRLSLIRRIDFAWAIEKD++KKKQK
Sbjct: 3  DMDLQISLDKLPIKRLDSIEENGMERFPPDVDYDEKRLSLIRRIDFAWAIEKDEEKKKQK 62

Query: 62 KSSKESSTPWQWQNMIENLQLAHQELSVIIDLINT 97
          KSSKE+STPWQWQ+M+ENLQLAHQELSVIIDLINT
Sbjct: 63 KSSKETSTPWQWQSMVENLQLAHQELSVIIDLINT 97

[Close]

BLAST of Cla012469 vs. TrEMBL
Match: A0A0S3R6V4_PHAAN (Uncharacterized protein OS=Vigna angularis var. angularis GN=Vigan.01G438000 PE=4 SV=1)

HSP 1 Score: 168.7 bits (426), Expect = 4.2e-39
Identity = 78/95 (82.11%), Postives = 92/95 (96.84%), Query Frame = 1


Query: 2  DEDMKVSLDKLPVKRLEAIEESGLERFPSDVGYEEKRLSLIRRIDFAWAIEKDDDKKKQK 61
          D D+++SLDKLP+KRL++IEE+G+ERFP DV Y+EKRLSLIRRIDFAWAIEKD++KKKQK
Sbjct: 3  DMDLQISLDKLPIKRLDSIEENGMERFPPDVDYDEKRLSLIRRIDFAWAIEKDEEKKKQK 62

Query: 62 KSSKESSTPWQWQNMIENLQLAHQELSVIIDLINT 97
          KSSKE+STPWQWQ+M+ENLQLAHQELSVIIDLINT
Sbjct: 63 KSSKETSTPWQWQSMVENLQLAHQELSVIIDLINT 97

[Close]

BLAST of Cla012469 vs. TrEMBL
Match: V7CCF7_PHAVU (Uncharacterized protein OS=Phaseolus vulgaris GN=PHAVU_003G161800g PE=4 SV=1)

HSP 1 Score: 167.2 bits (422), Expect = 1.2e-38
Identity = 77/93 (82.80%), Postives = 91/93 (97.85%), Query Frame = 1


Query: 4  DMKVSLDKLPVKRLEAIEESGLERFPSDVGYEEKRLSLIRRIDFAWAIEKDDDKKKQKKS 63
          D+++SLDKLP+KRL++IEE+G+ERFP DV Y+EKRLSLIRRIDFAWAIEKD++KKKQKKS
Sbjct: 6  DLQISLDKLPIKRLDSIEENGMERFPPDVDYDEKRLSLIRRIDFAWAIEKDEEKKKQKKS 65

Query: 64 SKESSTPWQWQNMIENLQLAHQELSVIIDLINT 97
          SKE+STPWQWQ+M+ENLQLAHQELSVIIDLINT
Sbjct: 66 SKETSTPWQWQSMVENLQLAHQELSVIIDLINT 98

[Close]

BLAST of Cla012469 vs. TrEMBL
Match: K7KNJ6_SOYBN (Uncharacterized protein OS=Glycine max GN=GLYMA_05G009700 PE=4 SV=1)

HSP 1 Score: 161.8 bits (408), Expect = 5.1e-37
Identity = 76/98 (77.55%), Postives = 92/98 (93.88%), Query Frame = 1


Query: 1  MDEDMK--VSLDKLPVKRLEAIEESGLERFPSDVGYEEKRLSLIRRIDFAWAIEKDDDKK 60
          MD+ M+  +SLDKLP+KRL++IEE+G+ERFP DV Y+EKRLSLIRRIDFAWA+EKD++KK
Sbjct: 1  MDDGMQLQISLDKLPIKRLDSIEENGIERFPPDVDYDEKRLSLIRRIDFAWAVEKDEEKK 60

Query: 61 KQKKSSKESSTPWQWQNMIENLQLAHQELSVIIDLINT 97
          K++KSSKE+STPWQWQ M+ENLQLAHQELSVIIDLINT
Sbjct: 61 KKQKSSKETSTPWQWQGMVENLQLAHQELSVIIDLINT 98

[Close]

BLAST of Cla012469 vs. NCBI nr
Match: gi|449447591|ref|XP_004141551.1| (PREDICTED: mediator of RNA polymerase II transcription subunit 17 [Cucumis sativus])

HSP 1 Score: 190.3 bits (482), Expect = 1.9e-45
Identity = 94/96 (97.92%), Postives = 96/96 (100.00%), Query Frame = 1


Query: 1  MDEDMKVSLDKLPVKRLEAIEESGLERFPSDVGYEEKRLSLIRRIDFAWAIEKDDDKKKQ 60
          MDEDMKVSLDKLPVKRLEAIEE+GLERFPSDVGYEEKRLSLIRRIDFAWAIEKDDDKKKQ
Sbjct: 1  MDEDMKVSLDKLPVKRLEAIEENGLERFPSDVGYEEKRLSLIRRIDFAWAIEKDDDKKKQ 60

Query: 61 KKSSKESSTPWQWQNMIENLQLAHQELSVIIDLINT 97
          KKSSKESSTPWQWQ+MIENLQLAHQELSVIIDLINT
Sbjct: 61 KKSSKESSTPWQWQSMIENLQLAHQELSVIIDLINT 96

[Close]

BLAST of Cla012469 vs. NCBI nr
Match: gi|659119352|ref|XP_008459609.1| (PREDICTED: mediator of RNA polymerase II transcription subunit 17 [Cucumis melo])

HSP 1 Score: 188.0 bits (476), Expect = 9.6e-45
Identity = 91/96 (94.79%), Postives = 96/96 (100.00%), Query Frame = 1


Query: 1  MDEDMKVSLDKLPVKRLEAIEESGLERFPSDVGYEEKRLSLIRRIDFAWAIEKDDDKKKQ 60
          MDED+KVSLDKLP+KRLEAIEE+GLERFP+DVGYEEKRLSLIRRIDFAWAIEKDD+KKKQ
Sbjct: 1  MDEDLKVSLDKLPIKRLEAIEENGLERFPTDVGYEEKRLSLIRRIDFAWAIEKDDEKKKQ 60

Query: 61 KKSSKESSTPWQWQNMIENLQLAHQELSVIIDLINT 97
          KKSSKESSTPWQWQNMIENLQLAHQELSVIIDLINT
Sbjct: 61 KKSSKESSTPWQWQNMIENLQLAHQELSVIIDLINT 96

[Close]

BLAST of Cla012469 vs. NCBI nr
Match: gi|1009133312|ref|XP_015883833.1| (PREDICTED: mediator of RNA polymerase II transcription subunit 17-like isoform X1 [Ziziphus jujuba])

HSP 1 Score: 170.6 bits (431), Expect = 1.6e-39
Identity = 83/96 (86.46%), Postives = 92/96 (95.83%), Query Frame = 1


Query: 1  MDEDMKVSLDKLPVKRLEAIEESGLERFPSDVGYEEKRLSLIRRIDFAWAIEKDDDKKKQ 60
          MDE +++SLDKLPVKRLE+IEE+G ERFPSDVGY+EKRLSLIRRIDFAWA+EK DDKKKQ
Sbjct: 1  MDEKVQISLDKLPVKRLESIEENGAERFPSDVGYDEKRLSLIRRIDFAWAVEK-DDKKKQ 60

Query: 61 KKSSKESSTPWQWQNMIENLQLAHQELSVIIDLINT 97
          KKSSKE+STPWQWQ M+ENLQLAHQELSVIIDLINT
Sbjct: 61 KKSSKETSTPWQWQGMVENLQLAHQELSVIIDLINT 95

[Close]

BLAST of Cla012469 vs. NCBI nr
Match: gi|1009170839|ref|XP_015866413.1| (PREDICTED: mediator of RNA polymerase II transcription subunit 17 isoform X1 [Ziziphus jujuba])

HSP 1 Score: 170.6 bits (431), Expect = 1.6e-39
Identity = 83/96 (86.46%), Postives = 92/96 (95.83%), Query Frame = 1


Query: 1  MDEDMKVSLDKLPVKRLEAIEESGLERFPSDVGYEEKRLSLIRRIDFAWAIEKDDDKKKQ 60
          MDE +++SLDKLPVKRLE+IEE+G ERFPSDVGY+EKRLSLIRRIDFAWA+EK DDKKKQ
Sbjct: 1  MDEKVQISLDKLPVKRLESIEENGAERFPSDVGYDEKRLSLIRRIDFAWAVEK-DDKKKQ 60

Query: 61 KKSSKESSTPWQWQNMIENLQLAHQELSVIIDLINT 97
          KKSSKE+STPWQWQ M+ENLQLAHQELSVIIDLINT
Sbjct: 61 KKSSKETSTPWQWQGMVENLQLAHQELSVIIDLINT 95

[Close]

BLAST of Cla012469 vs. NCBI nr
Match: gi|920689081|gb|KOM33064.1| (hypothetical protein LR48_Vigan01g262000 [Vigna angularis])

HSP 1 Score: 168.7 bits (426), Expect = 6.0e-39
Identity = 78/95 (82.11%), Postives = 92/95 (96.84%), Query Frame = 1


Query: 2  DEDMKVSLDKLPVKRLEAIEESGLERFPSDVGYEEKRLSLIRRIDFAWAIEKDDDKKKQK 61
          D D+++SLDKLP+KRL++IEE+G+ERFP DV Y+EKRLSLIRRIDFAWAIEKD++KKKQK
Sbjct: 3  DMDLQISLDKLPIKRLDSIEENGMERFPPDVDYDEKRLSLIRRIDFAWAIEKDEEKKKQK 62

Query: 62 KSSKESSTPWQWQNMIENLQLAHQELSVIIDLINT 97
          KSSKE+STPWQWQ+M+ENLQLAHQELSVIIDLINT
Sbjct: 63 KSSKETSTPWQWQSMVENLQLAHQELSVIIDLINT 97

The following BLAST results are available for this feature:

BLAST of Cla012469 vs. Swiss-Prot


Match Name	E-value	Identity	Description
MED17_ARATH	2.4e-35	71.43	Mediator of RNA polymerase II transcription subunit 17 OS=Arabidopsis thaliana G...	[more]

BLAST of Cla012469 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0KXX2_CUCSA	1.3e-45	97.92	Uncharacterized protein OS=Cucumis sativus GN=Csa_5G650410 PE=4 SV=1	[more]
A0A0L9TSD8_PHAAN	4.2e-39	82.11	Uncharacterized protein OS=Phaseolus angularis GN=LR48_Vigan01g262000 PE=4 SV=1	[more]
A0A0S3R6V4_PHAAN	4.2e-39	82.11	Uncharacterized protein OS=Vigna angularis var. angularis GN=Vigan.01G438000 PE=...	[more]
V7CCF7_PHAVU	1.2e-38	82.80	Uncharacterized protein OS=Phaseolus vulgaris GN=PHAVU_003G161800g PE=4 SV=1	[more]
K7KNJ6_SOYBN	5.1e-37	77.55	Uncharacterized protein OS=Glycine max GN=GLYMA_05G009700 PE=4 SV=1	[more]

BLAST of Cla012469 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|449447591\|ref\|XP_004141551.1\|	1.9e-45	97.92	PREDICTED: mediator of RNA polymerase II transcription subunit 17 [Cucumis sativ...	[more]
gi\|659119352\|ref\|XP_008459609.1\|	9.6e-45	94.79	PREDICTED: mediator of RNA polymerase II transcription subunit 17 [Cucumis melo]	[more]
gi\|1009133312\|ref\|XP_015883833.1\|	1.6e-39	86.46	PREDICTED: mediator of RNA polymerase II transcription subunit 17-like isoform X...	[more]
gi\|1009170839\|ref\|XP_015866413.1\|	1.6e-39	86.46	PREDICTED: mediator of RNA polymerase II transcription subunit 17 isoform X1 [Zi...	[more]
gi\|920689081\|gb\|KOM33064.1\|	6.0e-39	82.11	hypothetical protein LR48_Vigan01g262000 [Vigna angularis]	[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:0006357	regulation of transcription from RNA polymerase II promoter
cellular_component	GO:0016592	mediator complex
molecular_function	GO:0001104	RNA polymerase II transcription cofactor activity

Relationships

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


Feature Name	Unique Name	Type
Cla012469	Cla012469.1	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	PTHR13114	TRANSCRIPTIONAL CO-ACTIVATOR CRSP77-RELATED	coord: 1..98 score: 2.3
None	No IPR available	PANTHER	PTHR13114:SF7	MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 17	coord: 1..98 score: 2.3

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
Cla012469	Wax gourd	wgowmB127
Cla012469	Cucumber (Gy14) v1	cgywmB444
Cla012469	Cucurbita maxima (Rimu)	cmawmB015
Cla012469	Cucurbita maxima (Rimu)	cmawmB417
Cla012469	Cucurbita moschata (Rifu)	cmowmB011
Cla012469	Cucurbita moschata (Rifu)	cmowmB411
Cla012469	Wild cucumber (PI 183967)	cpiwmB385
Cla012469	Melon (DHL92) v3.5.1	mewmB009
Cla012469	Watermelon (Charleston Gray)	wcgwmB401
Cla012469	Cucumber (Chinese Long) v2	cuwmB379
Cla012469	Cucurbita pepo (Zucchini)	cpewmB544
Cla012469	Cucurbita pepo (Zucchini)	cpewmB759
Cla012469	Bottle gourd (USVL1VR-Ls)	lsiwmB467
Cla012469	Cucumber (Gy14) v2	cgybwmB351
Cla012469	Melon (DHL92) v3.6.1	medwmB007
Cla012469	Cucumber (Chinese Long) v3	cucwmB402
Cla012469	Watermelon (97103) v2	wmwmbB101