Lsi07G010020 (gene) Bottle gourd (USVL1VR-Ls) v1

Overview


Name	Lsi07G010020
Type	gene
Organism	Lagenaria siceraria (Bottle gourd (USVL1VR-Ls) v1)
Description	DNA-directed RNA polymerase subunit beta'
Location	chr07: 14237282 .. 14238004 (+)
RNA-Seq Expression	Lsi07G010020
Synteny	Lsi07G010020

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDSpolypeptide

Hold the cursor over a type above to highlight its positions in the sequence below.

ATGTGTCCGGAGAAATTGGTACAAGAAACTGTGGATACACTTCTTGATAATGGAATCCACAGACAACCAGTGAGGGGTGACCATAATAAGGTTTACAAGTTGTTTTCTGATGTAATTGAAGGCAAAGAGGGAAGATTTCGGGAGACTCTGCTTGGCAAACGGGTCGATTATTCAGGACGTTTTGTGATTATTGTAGGTCCCTCACTTTCATTACATCGATGTGGATTGCCTCGCGAAATCGCAATAGAACTTTTCCATATATTTTTAATTTGTGGTCTAATTCGACAACATTTTGCTTCGAACAAATATCTAAATTTTATATTTTTAGATACTTTTTTAGACCTATTGCCGATACTAAGTAGCAGCCAAAAATTTGTATCCATTTTTTATGATATTATGCATGGATCAGATATATCGTGGCGAATTCTTCAGAAAAAATTGTTTAGTAGTGATTAGAAGAAACGTCTAAAAAATAAAAAATAAAGTTAAAAATAGAATATTGCAAGCGTGCCTTCTAAATTTCAAATTATGTAAATATGGAAAATCATATTTTATTTATTCATTATTTCTAAATTGTGGCCAATGTGAGCGAAGAACGGCTAACGATGTATGTTATTGTGCAAAACTTAGGTAAGAGAGAGAGAGCTCCCAACGTGGCCGGCGGCGGCAATGACGAGTAGCATCCGTCAGCTTGAGAGATCCGACGATGTAGTCTGCACATGA

mRNA sequence

ATGTGTCCGGAGAAATTGGTACAAGAAACTGTGGATACACTTCTTGATAATGGAATCCACAGACAACCAGTGAGGGGTGACCATAATAAGGTTTACAAGTTGTTTTCTGATGTAATTGAAGGCAAAGAGGGAAGATTTCGGGAGACTCTGCTTGGCAAACGGGTCGATTATTCAGGACGTTTTGTGATTATTGTAAGAGAGAGAGAGCTCCCAACGTGGCCGGCGGCGGCAATGACGAGTAGCATCCGTCAGCTTGAGAGATCCGACGATGTAGTCTGCACATGA

Coding sequence (CDS)

ATGTGTCCGGAGAAATTGGTACAAGAAACTGTGGATACACTTCTTGATAATGGAATCCACAGACAACCAGTGAGGGGTGACCATAATAAGGTTTACAAGTTGTTTTCTGATGTAATTGAAGGCAAAGAGGGAAGATTTCGGGAGACTCTGCTTGGCAAACGGGTCGATTATTCAGGACGTTTTGTGATTATTGTAAGAGAGAGAGAGCTCCCAACGTGGCCGGCGGCGGCAATGACGAGTAGCATCCGTCAGCTTGAGAGATCCGACGATGTAGTCTGCACATGA

Protein sequence

MCPEKLVQETVDTLLDNGIHRQPVRGDHNKVYKLFSDVIEGKEGRFRETLLGKRVDYSGRFVIIVRERELPTWPAAAMTSSIRQLERSDDVVCT

Homology

[Close]

BLAST of Lsi07G010020 vs. ExPASy Swiss-Prot
Match: Q06H06 (DNA-directed RNA polymerase subunit beta' OS=Drimys granadensis OX=224735 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 114.4 bits (285), Expect = 7.0e-25
Identity = 55/65 (84.62%), Postives = 57/65 (87.69%), Query Frame = 0


Query: 1   MCPEKLVQETVDTLLDNGIHRQPVRGDHNKVYKLFSDVIEGKEGRFRETLLGKRVDYSGR 60
           MC EKLVQE VDTLLDNGI  QP+R  HNKVYK FSDVIEGKEGRFRETLLGKRVDYSGR
Sbjct: 322 MCQEKLVQEAVDTLLDNGIRGQPMRNGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 381

Query: 61  FVIIV 66
            VI+V
Sbjct: 382 SVIVV 386

[Close]

BLAST of Lsi07G010020 vs. ExPASy Swiss-Prot
Match: Q09FX0 (DNA-directed RNA polymerase subunit beta' OS=Nandina domestica OX=41776 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 114.4 bits (285), Expect = 7.0e-25
Identity = 55/65 (84.62%), Postives = 57/65 (87.69%), Query Frame = 0


Query: 1   MCPEKLVQETVDTLLDNGIHRQPVRGDHNKVYKLFSDVIEGKEGRFRETLLGKRVDYSGR 60
           MC EKLVQE VDTLLDNGI  QP+R  HNKVYK FSDVIEGKEGRFRETLLGKRVDYSGR
Sbjct: 322 MCQEKLVQEAVDTLLDNGIRGQPMRDSHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 381

Query: 61  FVIIV 66
            VI+V
Sbjct: 382 SVIVV 386

[Close]

BLAST of Lsi07G010020 vs. ExPASy Swiss-Prot
Match: A9LYH6 (DNA-directed RNA polymerase subunit beta' OS=Acorus americanus OX=263995 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 114.0 bits (284), Expect = 9.2e-25
Identity = 55/65 (84.62%), Postives = 57/65 (87.69%), Query Frame = 0


Query: 1   MCPEKLVQETVDTLLDNGIHRQPVRGDHNKVYKLFSDVIEGKEGRFRETLLGKRVDYSGR 60
           MC EKLVQE VDTLLDNGI  QP+R  HNKVYK FSDVIEGKEGRFRETLLGKRVDYSGR
Sbjct: 322 MCQEKLVQEAVDTLLDNGIRGQPMRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 381

Query: 61  FVIIV 66
            VI+V
Sbjct: 382 SVIVV 386

[Close]

BLAST of Lsi07G010020 vs. ExPASy Swiss-Prot
Match: Q3V543 (DNA-directed RNA polymerase subunit beta' OS=Acorus calamus OX=4465 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 114.0 bits (284), Expect = 9.2e-25
Identity = 55/65 (84.62%), Postives = 57/65 (87.69%), Query Frame = 0


Query: 1   MCPEKLVQETVDTLLDNGIHRQPVRGDHNKVYKLFSDVIEGKEGRFRETLLGKRVDYSGR 60
           MC EKLVQE VDTLLDNGI  QP+R  HNKVYK FSDVIEGKEGRFRETLLGKRVDYSGR
Sbjct: 322 MCQEKLVQEAVDTLLDNGIRGQPMRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 381

Query: 61  FVIIV 66
            VI+V
Sbjct: 382 SVIVV 386

[Close]

BLAST of Lsi07G010020 vs. ExPASy Swiss-Prot
Match: Q5QA71 (DNA-directed RNA polymerase subunit beta' OS=Acorus gramineus OX=55184 GN=rpoC1 PE=3 SV=2)

HSP 1 Score: 114.0 bits (284), Expect = 9.2e-25
Identity = 55/65 (84.62%), Postives = 57/65 (87.69%), Query Frame = 0


Query: 1   MCPEKLVQETVDTLLDNGIHRQPVRGDHNKVYKLFSDVIEGKEGRFRETLLGKRVDYSGR 60
           MC EKLVQE VDTLLDNGI  QP+R  HNKVYK FSDVIEGKEGRFRETLLGKRVDYSGR
Sbjct: 322 MCQEKLVQEAVDTLLDNGIRGQPMRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 381

Query: 61  FVIIV 66
            VI+V
Sbjct: 382 SVIVV 386

[Close]

BLAST of Lsi07G010020 vs. ExPASy TrEMBL
Match: G7IXX0 (DNA-directed RNA polymerase subunit OS=Medicago truncatula OX=3880 GN=MTR_3g047940 PE=3 SV=1)

HSP 1 Score: 117.9 bits (294), Expect = 2.4e-23
Identity = 55/65 (84.62%), Postives = 58/65 (89.23%), Query Frame = 0


Query: 1   MCPEKLVQETVDTLLDNGIHRQPVRGDHNKVYKLFSDVIEGKEGRFRETLLGKRVDYSGR 60
           MC EKLVQE VDTLLDNGIH QP+R  HN VYK FSD+IEGKEGRFRETLLGKRVDYSGR
Sbjct: 56  MCQEKLVQEAVDTLLDNGIHGQPMRDGHNNVYKSFSDIIEGKEGRFRETLLGKRVDYSGR 115

Query: 61  FVIIV 66
           FVI+V
Sbjct: 116 FVIVV 120

[Close]

BLAST of Lsi07G010020 vs. ExPASy TrEMBL
Match: A0A396IMS2 (DNA-directed RNA polymerase subunit OS=Medicago truncatula OX=3880 GN=MtrunA17_Chr3g0096371 PE=3 SV=1)

HSP 1 Score: 117.9 bits (294), Expect = 2.4e-23
Identity = 55/65 (84.62%), Postives = 58/65 (89.23%), Query Frame = 0


Query: 1  MCPEKLVQETVDTLLDNGIHRQPVRGDHNKVYKLFSDVIEGKEGRFRETLLGKRVDYSGR 60
          MC EKLVQE VDTLLDNGIH QP+R  HN VYK FSD+IEGKEGRFRETLLGKRVDYSGR
Sbjct: 35 MCQEKLVQEAVDTLLDNGIHGQPMRDGHNNVYKSFSDIIEGKEGRFRETLLGKRVDYSGR 94

Query: 61 FVIIV 66
          FVI+V
Sbjct: 95 FVIVV 99

[Close]

BLAST of Lsi07G010020 vs. ExPASy TrEMBL
Match: A0A5P8SZE0 (DNA-directed RNA polymerase subunit beta' OS=Cyanotis ciliata OX=939150 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 117.5 bits (293), Expect = 3.1e-23
Identity = 56/65 (86.15%), Postives = 58/65 (89.23%), Query Frame = 0


Query: 1   MCPEKLVQETVDTLLDNGIHRQPVRGDHNKVYKLFSDVIEGKEGRFRETLLGKRVDYSGR 60
           MC EKLVQE VDTLLDNGI RQP+R  HNKVYK FSDVIEGKEGRFRETLLGKRVDYSGR
Sbjct: 326 MCQEKLVQEAVDTLLDNGIRRQPIRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 385

Query: 61  FVIIV 66
            VI+V
Sbjct: 386 SVIVV 390

[Close]

BLAST of Lsi07G010020 vs. ExPASy TrEMBL
Match: A0A6M6D7A3 (DNA-directed RNA polymerase subunit beta' OS=Commelina communis OX=4744 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 117.5 bits (293), Expect = 3.1e-23
Identity = 56/65 (86.15%), Postives = 58/65 (89.23%), Query Frame = 0


Query: 1   MCPEKLVQETVDTLLDNGIHRQPVRGDHNKVYKLFSDVIEGKEGRFRETLLGKRVDYSGR 60
           MC EKLVQE VDTLLDNGI RQP+R  HNKVYK FSDVIEGKEGRFRETLLGKRVDYSGR
Sbjct: 326 MCQEKLVQEAVDTLLDNGIRRQPIRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 385

Query: 61  FVIIV 66
            VI+V
Sbjct: 386 SVIVV 390

[Close]

BLAST of Lsi07G010020 vs. ExPASy TrEMBL
Match: A0A7D4X974 (DNA-directed RNA polymerase subunit beta' OS=Tradescantia pallida OX=59015 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 117.5 bits (293), Expect = 3.1e-23
Identity = 56/65 (86.15%), Postives = 58/65 (89.23%), Query Frame = 0


Query: 1   MCPEKLVQETVDTLLDNGIHRQPVRGDHNKVYKLFSDVIEGKEGRFRETLLGKRVDYSGR 60
           MC EKLVQE VDTLLDNGI RQP+R  HNKVYK FSDVIEGKEGRFRETLLGKRVDYSGR
Sbjct: 326 MCQEKLVQEAVDTLLDNGIRRQPIRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 385

Query: 61  FVIIV 66
            VI+V
Sbjct: 386 SVIVV 390

[Close]

BLAST of Lsi07G010020 vs. NCBI nr
Match: RHN66862.1 (DNA-directed RNA polymerase subunit beta' [Medicago truncatula])

HSP 1 Score: 117.9 bits (294), Expect = 4.9e-23
Identity = 55/65 (84.62%), Postives = 58/65 (89.23%), Query Frame = 0


Query: 1  MCPEKLVQETVDTLLDNGIHRQPVRGDHNKVYKLFSDVIEGKEGRFRETLLGKRVDYSGR 60
          MC EKLVQE VDTLLDNGIH QP+R  HN VYK FSD+IEGKEGRFRETLLGKRVDYSGR
Sbjct: 35 MCQEKLVQEAVDTLLDNGIHGQPMRDGHNNVYKSFSDIIEGKEGRFRETLLGKRVDYSGR 94

Query: 61 FVIIV 66
          FVI+V
Sbjct: 95 FVIVV 99

[Close]

BLAST of Lsi07G010020 vs. NCBI nr
Match: AES70098.1 (DNA-directed RNA polymerase subunit beta [Medicago truncatula])

HSP 1 Score: 117.9 bits (294), Expect = 4.9e-23
Identity = 55/65 (84.62%), Postives = 58/65 (89.23%), Query Frame = 0


Query: 1   MCPEKLVQETVDTLLDNGIHRQPVRGDHNKVYKLFSDVIEGKEGRFRETLLGKRVDYSGR 60
           MC EKLVQE VDTLLDNGIH QP+R  HN VYK FSD+IEGKEGRFRETLLGKRVDYSGR
Sbjct: 56  MCQEKLVQEAVDTLLDNGIHGQPMRDGHNNVYKSFSDIIEGKEGRFRETLLGKRVDYSGR 115

Query: 61  FVIIV 66
           FVI+V
Sbjct: 116 FVIVV 120

[Close]

BLAST of Lsi07G010020 vs. NCBI nr
Match: QFR99555.1 (RNA polymerase beta [Cyanotis ciliata])

HSP 1 Score: 117.5 bits (293), Expect = 6.3e-23
Identity = 56/65 (86.15%), Postives = 58/65 (89.23%), Query Frame = 0


Query: 1   MCPEKLVQETVDTLLDNGIHRQPVRGDHNKVYKLFSDVIEGKEGRFRETLLGKRVDYSGR 60
           MC EKLVQE VDTLLDNGI RQP+R  HNKVYK FSDVIEGKEGRFRETLLGKRVDYSGR
Sbjct: 326 MCQEKLVQEAVDTLLDNGIRRQPIRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 385

Query: 61  FVIIV 66
            VI+V
Sbjct: 386 SVIVV 390

[Close]

BLAST of Lsi07G010020 vs. NCBI nr
Match: QUB02164.1 (RNA polymerase beta [Gibasis geniculata])

HSP 1 Score: 117.5 bits (293), Expect = 6.3e-23
Identity = 56/65 (86.15%), Postives = 58/65 (89.23%), Query Frame = 0


Query: 1   MCPEKLVQETVDTLLDNGIHRQPVRGDHNKVYKLFSDVIEGKEGRFRETLLGKRVDYSGR 60
           MC EKLVQE VDTLLDNGI RQP+R  HNKVYK FSDVIEGKEGRFRETLLGKRVDYSGR
Sbjct: 324 MCQEKLVQEAVDTLLDNGIRRQPIRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 383

Query: 61  FVIIV 66
            VI+V
Sbjct: 384 SVIVV 388

[Close]

BLAST of Lsi07G010020 vs. NCBI nr
Match: QUB02835.1 (RNA polymerase beta [Weldenia candida])

HSP 1 Score: 117.5 bits (293), Expect = 6.3e-23
Identity = 56/65 (86.15%), Postives = 58/65 (89.23%), Query Frame = 0


Query: 1   MCPEKLVQETVDTLLDNGIHRQPVRGDHNKVYKLFSDVIEGKEGRFRETLLGKRVDYSGR 60
           MC EKLVQE VDTLLDNGI RQP+R  HNKVYK FSDVIEGKEGRFRETLLGKRVDYSGR
Sbjct: 324 MCQEKLVQEAVDTLLDNGIRRQPIRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 383

Query: 61  FVIIV 66
            VI+V
Sbjct: 384 SVIVV 388

[Close]

BLAST of Lsi07G010020 vs. TAIR 10
Match: ATCG00180.1 (DNA-directed RNA polymerase family protein )

HSP 1 Score: 114.0 bits (284), Expect = 6.5e-26
Identity = 55/65 (84.62%), Postives = 57/65 (87.69%), Query Frame = 0


Query: 1   MCPEKLVQETVDTLLDNGIHRQPVRGDHNKVYKLFSDVIEGKEGRFRETLLGKRVDYSGR 60
           MC EKLVQE VDTLLDNGI  QP+R  HNKVYK FSDVIEGKEGRFRETLLGKRVDYSGR
Sbjct: 322 MCQEKLVQEAVDTLLDNGIRGQPMRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 381

Query: 61  FVIIV 66
            VI+V
Sbjct: 382 SVIVV 386

[Close]

BLAST of Lsi07G010020 vs. TAIR 10
Match: AT4G35800.1 (RNA polymerase II large subunit )

HSP 1 Score: 40.8 bits (94), Expect = 7.0e-04
Identity = 23/60 (38.33%), Postives = 32/60 (53.33%), Query Frame = 0


Query: 5   KLVQETVDTLLDNGIHRQP-VRGDHNKVYKLFSDVIEGKEGRFRETLLGKRVDYSGRFVI 64
           +L+Q  + T  DN +  QP       +  K     ++ KEGR R  L+GKRVD+S R VI
Sbjct: 305 QLLQFHIATYFDNELPGQPRATQKSGRPIKSICSRLKAKEGRIRGNLMGKRVDFSARTVI 364

The following BLAST results are available for this feature:

BLAST of Lsi07G010020 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q06H06	7.0e-25	84.62	DNA-directed RNA polymerase subunit beta' OS=Drimys granadensis OX=224735 GN=rpo...	[more]
Q09FX0	7.0e-25	84.62	DNA-directed RNA polymerase subunit beta' OS=Nandina domestica OX=41776 GN=rpoC1...	[more]
A9LYH6	9.2e-25	84.62	DNA-directed RNA polymerase subunit beta' OS=Acorus americanus OX=263995 GN=rpoC...	[more]
Q3V543	9.2e-25	84.62	DNA-directed RNA polymerase subunit beta' OS=Acorus calamus OX=4465 GN=rpoC1 PE=...	[more]
Q5QA71	9.2e-25	84.62	DNA-directed RNA polymerase subunit beta' OS=Acorus gramineus OX=55184 GN=rpoC1 ...	[more]

BLAST of Lsi07G010020 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
G7IXX0	2.4e-23	84.62	DNA-directed RNA polymerase subunit OS=Medicago truncatula OX=3880 GN=MTR_3g0479...	[more]
A0A396IMS2	2.4e-23	84.62	DNA-directed RNA polymerase subunit OS=Medicago truncatula OX=3880 GN=MtrunA17_C...	[more]
A0A5P8SZE0	3.1e-23	86.15	DNA-directed RNA polymerase subunit beta' OS=Cyanotis ciliata OX=939150 GN=rpoC1...	[more]
A0A6M6D7A3	3.1e-23	86.15	DNA-directed RNA polymerase subunit beta' OS=Commelina communis OX=4744 GN=rpoC1...	[more]
A0A7D4X974	3.1e-23	86.15	DNA-directed RNA polymerase subunit beta' OS=Tradescantia pallida OX=59015 GN=rp...	[more]

BLAST of Lsi07G010020 vs. NCBI nr


Match Name	E-value	Identity	Description
RHN66862.1	4.9e-23	84.62	DNA-directed RNA polymerase subunit beta' [Medicago truncatula]	[more]
AES70098.1	4.9e-23	84.62	DNA-directed RNA polymerase subunit beta [Medicago truncatula]	[more]
QFR99555.1	6.3e-23	86.15	RNA polymerase beta [Cyanotis ciliata]	[more]
QUB02164.1	6.3e-23	86.15	RNA polymerase beta [Gibasis geniculata]	[more]
QUB02835.1	6.3e-23	86.15	RNA polymerase beta [Weldenia candida]	[more]

BLAST of Lsi07G010020 vs. TAIR 10


Match Name	E-value	Identity	Description
ATCG00180.1	6.5e-26	84.62	DNA-directed RNA polymerase family protein	[more]
AT4G35800.1	7.0e-04	38.33	RNA polymerase II large subunit	[more]

InterPro

Analysis Name: InterPro Annotations of Bottle gourd (USVL1VR-Ls) v1
Date Performed: 2021-10-18


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	GENE3D	2.40.40.20		coord: 40..91 e-value: 1.7E-6 score: 30.4
None	No IPR available	PANTHER	PTHR19376:SF54	DNA-DIRECTED RNA POLYMERASE SUBUNIT BETA'	coord: 1..66
None	No IPR available	PANTHER	PTHR19376	DNA-DIRECTED RNA POLYMERASE	coord: 1..66
None	No IPR available	SUPERFAMILY	64484	beta and beta-prime subunits of DNA dependent RNA-polymerase	coord: 5..65

Relationships

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


Feature Name	Unique Name	Type
Lsi07G010020.1	Lsi07G010020.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006351	transcription, DNA-templated
cellular_component	GO:0009507	chloroplast
molecular_function	GO:0003677	DNA binding
molecular_function	GO:0003899	DNA-directed 5'-3' RNA polymerase activity
molecular_function	GO:0000287	magnesium ion binding
molecular_function	GO:0008270	zinc ion binding