MELO3C011381 (gene) Melon (DHL92) v3.5.1

Overview
NameMELO3C011381
Typegene
OrganismCucumis melo (Melon (DHL92) v3.5.1)
DescriptionDNA-directed RNA polymerase
Locationchr3 : 24193711 .. 24194313 (-)
Genome Viewer
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.
ATGGCAGATGTTTGTTTTCAATACGATGAAAAAGCTGTCATAAGAGAGAAGTTTAACTTTGGGCAATTTCCGATAATGCTGAAGGTTTGTTTTTCGTGGCTTAGTTTCGTTTGTTTATGTTGGCTCTATAATTCTGTTACTGAATGATGGCATCTTTGTTCTTTTCCTTTGTTAAATTGTTATACTTAAAAACTGGAAGGCTTTTTTCTGTGATAGTCTTTTTTGGGAGGCTCTCTCTACTCATTGTACTTAAGTTGTTTTCCTTTGTCCAATATGAATATAGTTTTCACTTGTTTCATATAAAACAAGAGAATATGATCTTCAATTATTTTTCCCCATGTAGAAGGAACTCTATAGTTGCTTATGTCTATTGGAATGTGATTTTTTAAAAGAATAGAAACAGGTAGAAAGCCGCAAACAAGTGCATCAACAAACAAGTGCCTGGGATTTCTTAAAACTCGGGTAATCTTTGTTTCCCTAGTTTTGCCTGGCCATTGATCTACTTTCTGTATTTTTGCTCAGTCAAAGCTTTGTCACTTGAGAGGTCTTGATCCCAAGAAGTTGGTCTCCTACAACGAAGAGGCATCAGAAATGGGTGGGTAA

mRNA sequence

ATGGCAGATGTTTGTTTTCAATACGATGAAAAAGCTGTCATAAGAGAGAAGTTTAACTTTGGGCAATTTCCGATAATGCTGAAGTCAAAGCTTTGTCACTTGAGAGGTCTTGATCCCAAGAAGTTGGTCTCCTACAACGAAGAGGCATCAGAAATGGGTGGGTAA

Coding sequence (CDS)

ATGGCAGATGTTTGTTTTCAATACGATGAAAAAGCTGTCATAAGAGAGAAGTTTAACTTTGGGCAATTTCCGATAATGCTGAAGTCAAAGCTTTGTCACTTGAGAGGTCTTGATCCCAAGAAGTTGGTCTCCTACAACGAAGAGGCATCAGAAATGGGTGGGTAA

Protein sequence

MADVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG*
Homology
[Close]
BLAST of MELO3C011381 vs. Swiss-Prot
Match: NRPA2_ARATH (DNA-directed RNA polymerase I subunit 2 OS=Arabidopsis thaliana GN=NRPA2 PE=2 SV=1)

HSP 1 Score: 76.6 bits (187), Expect = 9.2e-14
Identity = 34/54 (62.96%), Postives = 41/54 (75.93%), Query Frame = 1 

Query: 1   MADVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG 55
           MADVCF+Y++  V+R+KF+FGQFPIML SKLC L+G D +KL+   E  SEMGG
Sbjct: 102 MADVCFKYNDGVVVRDKFDFGQFPIMLMSKLCSLKGADCRKLLKCKESTSEMGG 155

[Close]
BLAST of MELO3C011381 vs. TrEMBL
Match: A0A0A0KIZ8_CUCSA (DNA-directed RNA polymerase subunit beta OS=Cucumis sativus GN=Csa_6G400300 PE=3 SV=1)

HSP 1 Score: 114.8 bits (286), Expect = 3.4e-23
Identity = 54/54 (100.00%), Postives = 54/54 (100.00%), Query Frame = 1 

Query: 1   MADVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG 55
           MADVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG
Sbjct: 176 MADVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG 229

[Close]
BLAST of MELO3C011381 vs. TrEMBL
Match: A0A068UJY6_COFCA (DNA-directed RNA polymerase subunit beta OS=Coffea canephora GN=GSCOC_T00025459001 PE=3 SV=1)

HSP 1 Score: 91.3 bits (225), Expect = 4.0e-16
Identity = 43/54 (79.63%), Postives = 46/54 (85.19%), Query Frame = 1 

Query: 1   MADVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG 55
           M D+CFQY + AVIREKFNFGQFPIMLKSKLC+LR L PKKLVS  EE SEMGG
Sbjct: 133 MMDICFQYGDGAVIREKFNFGQFPIMLKSKLCYLRNLPPKKLVSLKEEQSEMGG 186

[Close]
BLAST of MELO3C011381 vs. TrEMBL
Match: A5C2Y6_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_038847 PE=3 SV=1)

HSP 1 Score: 90.9 bits (224), Expect = 5.3e-16
Identity = 42/54 (77.78%), Postives = 46/54 (85.19%), Query Frame = 1 

Query: 1   MADVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG 55
           +ADVCFQY    VIREKFN GQFP+MLKSKLCHLRG DP+KLVS  EE+SEMGG
Sbjct: 98  LADVCFQYGNGVVIREKFNLGQFPMMLKSKLCHLRGADPQKLVSCKEESSEMGG 151

[Close]
BLAST of MELO3C011381 vs. TrEMBL
Match: A0A0S3S909_PHAAN (DNA-directed RNA polymerase subunit beta OS=Vigna angularis var. angularis GN=Vigan.06G026200 PE=3 SV=1)

HSP 1 Score: 90.5 bits (223), Expect = 6.9e-16
Identity = 42/52 (80.77%), Postives = 46/52 (88.46%), Query Frame = 1 

Query: 3   DVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG 55
           DVCFQY++  VIRE  NFGQFPIML+SKLC+LRG DPKKLVSY EEASEMGG
Sbjct: 98  DVCFQYNDGPVIRETINFGQFPIMLQSKLCNLRGADPKKLVSYKEEASEMGG 149

[Close]
BLAST of MELO3C011381 vs. TrEMBL
Match: F6HVC4_VITVI (DNA-directed RNA polymerase subunit beta OS=Vitis vinifera GN=VIT_13s0084g00600 PE=3 SV=1)

HSP 1 Score: 90.5 bits (223), Expect = 6.9e-16
Identity = 42/54 (77.78%), Postives = 45/54 (83.33%), Query Frame = 1 

Query: 1   MADVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG 55
           +ADVCFQY     IREKFN GQFPIMLKSKLCHLRG DP+KLVS  EE+SEMGG
Sbjct: 59  LADVCFQYGNGVAIREKFNLGQFPIMLKSKLCHLRGADPQKLVSCKEESSEMGG 112

[Close]
BLAST of MELO3C011381 vs. TAIR10
Match: AT1G29940.1 (AT1G29940.1 nuclear RNA polymerase A2)

HSP 1 Score: 76.6 bits (187), Expect = 5.2e-15
Identity = 34/54 (62.96%), Postives = 41/54 (75.93%), Query Frame = 1 

Query: 1   MADVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG 55
           MADVCF+Y++  V+R+KF+FGQFPIML SKLC L+G D +KL+   E  SEMGG
Sbjct: 102 MADVCFKYNDGVVVRDKFDFGQFPIMLMSKLCSLKGADCRKLLKCKESTSEMGG 155

[Close]
BLAST of MELO3C011381 vs. NCBI nr
Match: gi|449458081|ref|XP_004146776.1| (PREDICTED: DNA-directed RNA polymerase I subunit RPA2 [Cucumis sativus])

HSP 1 Score: 114.8 bits (286), Expect = 4.9e-23
Identity = 54/54 (100.00%), Postives = 54/54 (100.00%), Query Frame = 1 

Query: 1   MADVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG 55
           MADVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG
Sbjct: 96  MADVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG 149

[Close]
BLAST of MELO3C011381 vs. NCBI nr
Match: gi|700192552|gb|KGN47756.1| (hypothetical protein Csa_6G400300 [Cucumis sativus])

HSP 1 Score: 114.8 bits (286), Expect = 4.9e-23
Identity = 54/54 (100.00%), Postives = 54/54 (100.00%), Query Frame = 1 

Query: 1   MADVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG 55
           MADVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG
Sbjct: 176 MADVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG 229

[Close]
BLAST of MELO3C011381 vs. NCBI nr
Match: gi|659089195|ref|XP_008445376.1| (PREDICTED: DNA-directed RNA polymerase I subunit RPA2 [Cucumis melo])

HSP 1 Score: 114.8 bits (286), Expect = 4.9e-23
Identity = 54/54 (100.00%), Postives = 54/54 (100.00%), Query Frame = 1 

Query: 1   MADVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG 55
           MADVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG
Sbjct: 96  MADVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG 149

[Close]
BLAST of MELO3C011381 vs. NCBI nr
Match: gi|720071825|ref|XP_010278175.1| (PREDICTED: DNA-directed RNA polymerase I subunit RPA2 [Nelumbo nucifera])

HSP 1 Score: 92.0 bits (227), Expect = 3.4e-16
Identity = 41/54 (75.93%), Postives = 46/54 (85.19%), Query Frame = 1 

Query: 1   MADVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG 55
           M DVCFQY+   V+REKF FGQ PIMLKSK+CHLRG DP+KLVSY EEA+EMGG
Sbjct: 96  MVDVCFQYNNGVVVREKFGFGQLPIMLKSKVCHLRGADPQKLVSYKEEATEMGG 149

[Close]
BLAST of MELO3C011381 vs. NCBI nr
Match: gi|661888437|emb|CDP07938.1| (unnamed protein product [Coffea canephora])

HSP 1 Score: 91.3 bits (225), Expect = 5.8e-16
Identity = 43/54 (79.63%), Postives = 46/54 (85.19%), Query Frame = 1 

Query: 1   MADVCFQYDEKAVIREKFNFGQFPIMLKSKLCHLRGLDPKKLVSYNEEASEMGG 55
           M D+CFQY + AVIREKFNFGQFPIMLKSKLC+LR L PKKLVS  EE SEMGG
Sbjct: 133 MMDICFQYGDGAVIREKFNFGQFPIMLKSKLCYLRNLPPKKLVSLKEEQSEMGG 186

The following BLAST results are available for this feature:
BLAST of MELO3C011381 vs. Swiss-Prot
Match NameE-valueIdentityDescription
NRPA2_ARATH9.2e-1462.96DNA-directed RNA polymerase I subunit 2 OS=Arabidopsis thaliana GN=NRPA2 PE=2 SV... [more]
BLAST of MELO3C011381 vs. TrEMBL
Match NameE-valueIdentityDescription
A0A0A0KIZ8_CUCSA3.4e-23100.00DNA-directed RNA polymerase subunit beta OS=Cucumis sativus GN=Csa_6G400300 PE=3... [more]
A0A068UJY6_COFCA4.0e-1679.63DNA-directed RNA polymerase subunit beta OS=Coffea canephora GN=GSCOC_T000254590... [more]
A5C2Y6_VITVI5.3e-1677.78Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_038847 PE=3 SV=1[more]
A0A0S3S909_PHAAN6.9e-1680.77DNA-directed RNA polymerase subunit beta OS=Vigna angularis var. angularis GN=Vi... [more]
F6HVC4_VITVI6.9e-1677.78DNA-directed RNA polymerase subunit beta OS=Vitis vinifera GN=VIT_13s0084g00600 ... [more]
BLAST of MELO3C011381 vs. TAIR10
Match NameE-valueIdentityDescription
AT1G29940.15.2e-1562.96 nuclear RNA polymerase A2[more]
BLAST of MELO3C011381 vs. NCBI nr
Match NameE-valueIdentityDescription
gi|449458081|ref|XP_004146776.1|4.9e-23100.00PREDICTED: DNA-directed RNA polymerase I subunit RPA2 [Cucumis sativus][more]
gi|700192552|gb|KGN47756.1|4.9e-23100.00hypothetical protein Csa_6G400300 [Cucumis sativus][more]
gi|659089195|ref|XP_008445376.1|4.9e-23100.00PREDICTED: DNA-directed RNA polymerase I subunit RPA2 [Cucumis melo][more]
gi|720071825|ref|XP_010278175.1|3.4e-1675.93PREDICTED: DNA-directed RNA polymerase I subunit RPA2 [Nelumbo nucifera][more]
gi|661888437|emb|CDP07938.1|5.8e-1679.63unnamed protein product [Coffea canephora][more]
Annotated Terms
The following terms have been associated with this gene:
Vocabulary: INTERPRO
TermDefinition
IPR007644RNA_pol_bsu_protrusion
IPR015712DNA-dir_RNA_pol_su2
Vocabulary: Biological Process
TermDefinition
GO:0006351transcription, DNA-templated
Vocabulary: Molecular Function
TermDefinition
GO:0003677DNA binding
GO:0003899DNA-directed RNA polymerase activity
GO:0032549ribonucleoside binding
GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006144 purine nucleobase metabolic process
biological_process GO:0006206 pyrimidine nucleobase metabolic process
biological_process GO:0006351 transcription, DNA-templated
cellular_component GO:0005730 nucleolus
molecular_function GO:0003677 DNA binding
molecular_function GO:0003899 DNA-directed RNA polymerase activity
molecular_function GO:0032549 ribonucleoside binding
Unigene
This gene is associated with the following unigenes:
Unigene NameAnalysis NameSequence type in Unigene
MU53084melon EST collection version 4.0transcribed_cluster
Relationships

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

Feature NameUnique NameType
MELO3C011381T1MELO3C011381T1mRNA


The following transcribed_cluster feature(s) are associated with this gene:

Feature NameUnique NameType
MU53084MU53084transcribed_cluster


InterPro
Analysis Name: InterPro Annotations of melon
Date Performed: 2016-09-28
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR007644RNA polymerase, beta subunit, protrusionPFAMPF04563RNA_pol_Rpb2_1coord: 9..54
score: 1.
IPR015712DNA-directed RNA polymerase, subunit 2PANTHERPTHR20856DNA-DIRECTED RNA POLYMERASE I SUBUNIT 2coord: 1..54
score: 2.1
NoneNo IPR availablePANTHERPTHR20856:SF5DNA-DIRECTED RNA POLYMERASE I SUBUNIT RPA2coord: 1..54
score: 2.1
NoneNo IPR availableunknownSSF64484beta and beta-prime subunits of DNA dependent RNA-polymerasecoord: 8..54
score: 1.1

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:
GeneOrganismBlock
MELO3C011381Cucurbita pepo (Zucchini)cpemeB088
MELO3C011381Cucurbita pepo (Zucchini)cpemeB755
MELO3C011381Bottle gourd (USVL1VR-Ls)lsimeB470
MELO3C011381Cucumber (Gy14) v2cgybmeB419
MELO3C011381Silver-seed gourdcarmeB0142
MELO3C011381Silver-seed gourdcarmeB0649
MELO3C011381Wax gourdmewgoB352
MELO3C011381Cucumber (Chinese Long) v3cucmeB488
MELO3C011381Watermelon (97103) v2mewmbB303
MELO3C011381Cucumber (Gy14) v1cgymeB055
MELO3C011381Cucurbita maxima (Rimu)cmameB157
MELO3C011381Cucurbita maxima (Rimu)cmameB724
MELO3C011381Cucurbita moschata (Rifu)cmomeB147
MELO3C011381Cucurbita moschata (Rifu)cmomeB715
MELO3C011381Wild cucumber (PI 183967)cpimeB477
MELO3C011381Cucumber (Chinese Long) v2cumeB479
MELO3C011381Watermelon (Charleston Gray)mewcgB296
MELO3C011381Watermelon (97103) v1mewmB301