Bhi09G001261 (gene) Wax gourd (B227) v1

Overview


Name	Bhi09G001261
Type	gene
Organism	Benincasa hispida (Wax gourd (B227) v1)
Description	DNA-directed RNA polymerase subunit beta''
Location	chr9: 39879690 .. 39879876 (+)
RNA-Seq Expression	Bhi09G001261
Synteny	Bhi09G001261

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.

TCCTACTCACGGGGGACTACGAATCGATATTGGAGAGTTCGTAGGTATTATTGCGGGTCAATCTATTGGAGAACCGGGTACTCAACTAACATTAAGAACTTTTCATACCGGCGGAGTATTCACAGGGGGGACTGCAGAACATATACAAGCTCCTTCTAATGGCAAAATCAAATTCAATGAGGATTTG

mRNA sequence

TCCTACTCACGGGGGACTACGAATCGATATTGGAGAGTTCGTAGGTATTATTGCGGGTCAATCTATTGGAGAACCGGGTACTCAACTAACATTAAGAACTTTTCATACCGGCGGAGTATTCACAGGGGGGACTGCAGAACATATACAAGCTCCTTCTAATGGCAAAATCAAATTCAATGAGGATTTG

Coding sequence (CDS)

TCCTACTCACGGGGGACTACGAATCGATATTGGAGAGTTCGTAGGTATTATTGCGGGTCAATCTATTGGAGAACCGGGTACTCAACTAACATTAAGAACTTTTCATACCGGCGGAGTATTCACAGGGGGGACTGCAGAACATATACAAGCTCCTTCTAATGGCAAAATCAAATTCAATGAGGATTTG

Protein sequence

PTHGGLRIDIGEFVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHIQAPSNGKIKFNEDL

Homology

[Close]

BLAST of Bhi09G001261 vs. TAIR 10
Match: ATCG00170.1 (DNA-directed RNA polymerase family protein )

HSP 1 Score: 113.2 bits (282), Expect = 7.3e-26
Identity = 53/62 (85.48%), Postives = 58/62 (93.55%), Query Frame = 0


Query: 1   PTHGGLRIDIGEFVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHIQAPSNGKIKFNE 60
           PTHG L +++GE VGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEH++AP NGKIKFNE
Sbjct: 308 PTHGDL-VELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHVRAPYNGKIKFNE 367

Query: 61  DL 63
           DL
Sbjct: 368 DL 368

[Close]

BLAST of Bhi09G001261 vs. TAIR 10
Match: AT5G60040.1 (nuclear RNA polymerase C1 )

HSP 1 Score: 47.4 bits (111), Expect = 5.0e-06
Identity = 20/33 (60.61%), Postives = 25/33 (75.76%), Query Frame = 0


Query: 7    RIDIGEFVGIIAGQSIGEPGTQLTLRTFHTGGV 40
            +I+ G  +G I  QSIGEPGTQ+TL+TFH  GV
Sbjct: 1017 KIEAGTAIGTIGAQSIGEPGTQMTLKTFHFAGV 1049

[Close]

BLAST of Bhi09G001261 vs. TAIR 10
Match: AT5G60040.2 (nuclear RNA polymerase C1 )

HSP 1 Score: 47.4 bits (111), Expect = 5.0e-06
Identity = 20/33 (60.61%), Postives = 25/33 (75.76%), Query Frame = 0


Query: 7    RIDIGEFVGIIAGQSIGEPGTQLTLRTFHTGGV 40
            +I+ G  +G I  QSIGEPGTQ+TL+TFH  GV
Sbjct: 1034 KIEAGTAIGTIGAQSIGEPGTQMTLKTFHFAGV 1066

[Close]

BLAST of Bhi09G001261 vs. TAIR 10
Match: AT4G35800.1 (RNA polymerase II large subunit )

HSP 1 Score: 45.4 bits (106), Expect = 1.9e-05
Identity = 19/29 (65.52%), Postives = 22/29 (75.86%), Query Frame = 0


Query: 11   GEFVGIIAGQSIGEPGTQLTLRTFHTGGV 40
            GE +G +A QSIGEP TQ+TL TFH  GV
Sbjct: 1081 GEMIGCVAAQSIGEPATQMTLNTFHYAGV 1109

[Close]

BLAST of Bhi09G001261 vs. TAIR 10
Match: AT3G57660.1 (nuclear RNA polymerase A1 )

HSP 1 Score: 43.5 bits (101), Expect = 7.2e-05
Identity = 18/28 (64.29%), Postives = 22/28 (78.57%), Query Frame = 0


Query: 11   GEFVGIIAGQSIGEPGTQLTLRTFHTGG 39
            GE VG++A QS+GEP TQ+TL TFH  G
Sbjct: 1155 GEPVGVLAAQSVGEPSTQMTLNTFHLAG 1182

[Close]

BLAST of Bhi09G001261 vs. ExPASy Swiss-Prot
Match: P11704 (DNA-directed RNA polymerase subunit beta'' OS=Spinacia oleracea OX=3562 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 116.7 bits (291), Expect = 9.4e-26
Identity = 54/62 (87.10%), Postives = 60/62 (96.77%), Query Frame = 0


Query: 1   PTHGGLRIDIGEFVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHIQAPSNGKIKFNE 60
           PTHGGL +++GE VGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEH++APSNGKI+FNE
Sbjct: 310 PTHGGL-VELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHVRAPSNGKIQFNE 369

Query: 61  DL 63
           DL
Sbjct: 370 DL 370

[Close]

BLAST of Bhi09G001261 vs. ExPASy Swiss-Prot
Match: Q4VZP3 (DNA-directed RNA polymerase subunit beta'' OS=Cucumis sativus OX=3659 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 115.9 bits (289), Expect = 1.6e-25
Identity = 55/62 (88.71%), Postives = 59/62 (95.16%), Query Frame = 0


Query: 1   PTHGGLRIDIGEFVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHIQAPSNGKIKFNE 60
           PTHG L +++GE VGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHI+APSNGKIKFNE
Sbjct: 310 PTHGDL-VELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHIRAPSNGKIKFNE 369

Query: 61  DL 63
           DL
Sbjct: 370 DL 370

[Close]

BLAST of Bhi09G001261 vs. ExPASy Swiss-Prot
Match: Q8S8Y1 (DNA-directed RNA polymerase subunit beta'' OS=Atropa belladonna OX=33113 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 115.5 bits (288), Expect = 2.1e-25
Identity = 54/62 (87.10%), Postives = 59/62 (95.16%), Query Frame = 0


Query: 1   PTHGGLRIDIGEFVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHIQAPSNGKIKFNE 60
           PTHG L +++GE VGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEH++APSNGKIKFNE
Sbjct: 310 PTHGDL-VELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHVRAPSNGKIKFNE 369

Query: 61  DL 63
           DL
Sbjct: 370 DL 370

[Close]

BLAST of Bhi09G001261 vs. ExPASy Swiss-Prot
Match: A8SE78 (DNA-directed RNA polymerase subunit beta'' OS=Ceratophyllum demersum OX=4428 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 115.5 bits (288), Expect = 2.1e-25
Identity = 54/62 (87.10%), Postives = 59/62 (95.16%), Query Frame = 0


Query: 1   PTHGGLRIDIGEFVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHIQAPSNGKIKFNE 60
           PTHG L +++GE VGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEH++APSNGKIKFNE
Sbjct: 309 PTHGDL-VELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHVRAPSNGKIKFNE 368

Query: 61  DL 63
           DL
Sbjct: 369 DL 369

[Close]

BLAST of Bhi09G001261 vs. ExPASy Swiss-Prot
Match: A6MMB2 (DNA-directed RNA polymerase subunit beta'' OS=Chloranthus spicatus OX=13006 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 115.5 bits (288), Expect = 2.1e-25
Identity = 54/62 (87.10%), Postives = 59/62 (95.16%), Query Frame = 0


Query: 1   PTHGGLRIDIGEFVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHIQAPSNGKIKFNE 60
           PTHG L +++GE VGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEH++APSNGKIKFNE
Sbjct: 305 PTHGDL-VELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHVRAPSNGKIKFNE 364

Query: 61  DL 63
           DL
Sbjct: 365 DL 365

[Close]

BLAST of Bhi09G001261 vs. ExPASy TrEMBL
Match: A0A0G3F198 (DNA-directed RNA polymerase subunit beta'' OS=Scutellaria baicalensis OX=65409 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 118.2 bits (295), Expect = 1.2e-23
Identity = 55/62 (88.71%), Postives = 60/62 (96.77%), Query Frame = 0


Query: 1   PTHGGLRIDIGEFVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHIQAPSNGKIKFNE 60
           PTHGGL +++GE VGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEH++APSNGKIKFNE
Sbjct: 310 PTHGGL-VELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHVRAPSNGKIKFNE 369

Query: 61  DL 63
           DL
Sbjct: 370 DL 370

[Close]

BLAST of Bhi09G001261 vs. ExPASy TrEMBL
Match: A0A7D5FL53 (DNA-directed RNA polymerase subunit beta'' OS=Scutellaria tsinyunensis OX=1862659 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 118.2 bits (295), Expect = 1.2e-23
Identity = 55/62 (88.71%), Postives = 60/62 (96.77%), Query Frame = 0


Query: 1   PTHGGLRIDIGEFVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHIQAPSNGKIKFNE 60
           PTHGGL +++GE VGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEH++APSNGKIKFNE
Sbjct: 310 PTHGGL-VELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHVRAPSNGKIKFNE 369

Query: 61  DL 63
           DL
Sbjct: 370 DL 370

[Close]

BLAST of Bhi09G001261 vs. ExPASy TrEMBL
Match: A0A1C8V6V1 (DNA-directed RNA polymerase subunit beta'' OS=Quercus variabilis OX=103481 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 118.2 bits (295), Expect = 1.2e-23
Identity = 55/62 (88.71%), Postives = 60/62 (96.77%), Query Frame = 0


Query: 1   PTHGGLRIDIGEFVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHIQAPSNGKIKFNE 60
           PTHGGL +++GE VGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEH++APSNGKIKFNE
Sbjct: 310 PTHGGL-VELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHVRAPSNGKIKFNE 369

Query: 61  DL 63
           DL
Sbjct: 370 DL 370

[Close]

BLAST of Bhi09G001261 vs. ExPASy TrEMBL
Match: A0A346NFL9 (DNA-directed RNA polymerase subunit beta'' OS=Quercus acutissima OX=58330 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 118.2 bits (295), Expect = 1.2e-23
Identity = 55/62 (88.71%), Postives = 60/62 (96.77%), Query Frame = 0


Query: 1   PTHGGLRIDIGEFVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHIQAPSNGKIKFNE 60
           PTHGGL +++GE VGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEH++APSNGKIKFNE
Sbjct: 310 PTHGGL-VELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHVRAPSNGKIKFNE 369

Query: 61  DL 63
           DL
Sbjct: 370 DL 370

[Close]

BLAST of Bhi09G001261 vs. ExPASy TrEMBL
Match: L7TB89 (DNA-directed RNA polymerase OS=Quercus rubra OX=3512 GN=rpoC2 PE=3 SV=1)

HSP 1 Score: 118.2 bits (295), Expect = 1.2e-23
Identity = 55/62 (88.71%), Postives = 60/62 (96.77%), Query Frame = 0


Query: 1   PTHGGLRIDIGEFVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHIQAPSNGKIKFNE 60
           PTHGGL +++GE VGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEH++APSNGKIKFNE
Sbjct: 310 PTHGGL-VELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEHVRAPSNGKIKFNE 369

Query: 61  DL 63
           DL
Sbjct: 370 DL 370

The following BLAST results are available for this feature:

BLAST of Bhi09G001261 vs. TAIR 10


Match Name	E-value	Identity	Description
ATCG00170.1	7.3e-26	85.48	DNA-directed RNA polymerase family protein	[more]
AT5G60040.1	5.0e-06	60.61	nuclear RNA polymerase C1	[more]
AT5G60040.2	5.0e-06	60.61	nuclear RNA polymerase C1	[more]
AT4G35800.1	1.9e-05	65.52	RNA polymerase II large subunit	[more]
AT3G57660.1	7.2e-05	64.29	nuclear RNA polymerase A1	[more]

BLAST of Bhi09G001261 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
P11704	9.4e-26	87.10	DNA-directed RNA polymerase subunit beta'' OS=Spinacia oleracea OX=3562 GN=rpoC2...	[more]
Q4VZP3	1.6e-25	88.71	DNA-directed RNA polymerase subunit beta'' OS=Cucumis sativus OX=3659 GN=rpoC2 P...	[more]
Q8S8Y1	2.1e-25	87.10	DNA-directed RNA polymerase subunit beta'' OS=Atropa belladonna OX=33113 GN=rpoC...	[more]
A8SE78	2.1e-25	87.10	DNA-directed RNA polymerase subunit beta'' OS=Ceratophyllum demersum OX=4428 GN=...	[more]
A6MMB2	2.1e-25	87.10	DNA-directed RNA polymerase subunit beta'' OS=Chloranthus spicatus OX=13006 GN=r...	[more]

BLAST of Bhi09G001261 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A0G3F198	1.2e-23	88.71	DNA-directed RNA polymerase subunit beta'' OS=Scutellaria baicalensis OX=65409 G...	[more]
A0A7D5FL53	1.2e-23	88.71	DNA-directed RNA polymerase subunit beta'' OS=Scutellaria tsinyunensis OX=186265...	[more]
A0A1C8V6V1	1.2e-23	88.71	DNA-directed RNA polymerase subunit beta'' OS=Quercus variabilis OX=103481 GN=rp...	[more]
A0A346NFL9	1.2e-23	88.71	DNA-directed RNA polymerase subunit beta'' OS=Quercus acutissima OX=58330 GN=rpo...	[more]
L7TB89	1.2e-23	88.71	DNA-directed RNA polymerase OS=Quercus rubra OX=3512 GN=rpoC2 PE=3 SV=1	[more]

InterPro

Analysis Name: InterPro Annotations of Wax gourd (B227) v1
Date Performed: 2021-10-22


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR007081	RNA polymerase Rpb1, domain 5	PFAM	PF04998	RNA_pol_Rpb1_5	coord: 8..57 e-value: 8.8E-17 score: 61.4
None	No IPR available	SUPERFAMILY	64484	beta and beta-prime subunits of DNA dependent RNA-polymerase	coord: 7..53

Relationships

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


Feature Name	Unique Name	Type
Bhi09M001261	Bhi09M001261	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:0008270	zinc ion binding