MS003749 (gene) Bitter gourd (TR) v1

Overview


Name	MS003749
Type	gene
Organism	Momordica charantia cv. TR (Bitter gourd (TR) v1)
Description	DNA-directed RNA polymerase subunit beta'
Location	scaffold127: 172208 .. 172445 (-)
RNA-Seq Expression	MS003749
Synteny	MS003749

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideCDS

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

ATGTGTTCGGAAAAATTGGTCCAAGGAACGGTGAATACACTTCTTGATAATGGAATTCGTGGACAACCAACGAGGGATGACCATAATAAGGTTTACAAGTCGTTTTCCAATGTAATTGAAGGAAAAGATGGAAAATTTCGTGAGACTCTTTGCTTGGCAAACAGGTCAATTATTCAGGCATTTTGTGATTGTTGTAGGACCCGCACTTTCATTACATCGATATGGATTGCCTCGCGAA

mRNA sequence

ATGTGTTCGGAAAAATTGGTCCAAGGAACGGTGAATACACTTCTTGATAATGGAATTCGTGGACAACCAACGAGGGATGACCATAATAAGGTTTACAAGTCGTTTTCCAATGTAATTGAAGGAAAAGATGGAAAATTTCGTGAGACTCTTGGCAAACAGGTCAATTATTCAGGCTTTGTGATTGTTGTAGGACCCGCACTTTCATTACATCGATATGGATTGCCTCGCGAA

Coding sequence (CDS)

ATGTGTTCGGAAAAATTGGTCCAAGGAACGGTGAATACACTTCTTGATAATGGAATTCGTGGACAACCAACGAGGGATGACCATAATAAGGTTTACAAGTCGTTTTCCAATGTAATTGAAGGAAAAGATGGAAAATTTCGTGAGACTCTTGGCAAACAGGTCAATTATTCAGGCTTTGTGATTGTTGTAGGACCCGCACTTTCATTACATCGATATGGATTGCCTCGCGAA

Protein sequence

MCSEKLVQGTVNTLLDNGIRGQPTRDDHNKVYKSFSNVIEGKDGKFRETLGKQVNYSGFVIVVGPALSLHRYGLPRE

Homology

[Close]

BLAST of MS003749 vs. NCBI nr
Match: YP_009972398.1 (RNA polymerase beta' subunit [Distemonanthus benthamianus] >QNH82527.1 RNA polymerase beta' subunit [Distemonanthus benthamianus])

HSP 1 Score: 129.0 bits (323), Expect = 1.7e-26
Identity = 65/79 (82.28%), Postives = 71/79 (89.87%), Query Frame = 0


Query: 1   MCSEKLVQGTVNTLLDNGIRGQPTRDDHNKVYKSFSNVIEGKDGKFRET-LGKQVNYSG- 60
           MC EKLVQ  V+TLLDNGIRGQPTRD HNKVYKSFSNVIEGK+G+FRET LGK+V+YSG 
Sbjct: 324 MCQEKLVQEAVDTLLDNGIRGQPTRDGHNKVYKSFSNVIEGKEGRFRETLLGKRVDYSGR 383

Query: 61  FVIVVGPALSLHRYGLPRE 78
            VIVVGP+LSLHR GLPRE
Sbjct: 384 SVIVVGPSLSLHRCGLPRE 402

[Close]

BLAST of MS003749 vs. NCBI nr
Match: YP_009435494.1 (RNA polymerase beta' subunit [Lobelia sonderiana] >ATG25496.1 RNA polymerase beta' subunit [Lobelia sonderiana])

HSP 1 Score: 127.9 bits (320), Expect = 3.8e-26
Identity = 64/79 (81.01%), Postives = 71/79 (89.87%), Query Frame = 0


Query: 1   MCSEKLVQGTVNTLLDNGIRGQPTRDDHNKVYKSFSNVIEGKDGKFRET-LGKQVNYSG- 60
           MC EKLVQ  V+TLLDNG+RGQPTRD HNKVYKSFS+VIEGK+G+FRET LGK+V+YSG 
Sbjct: 322 MCQEKLVQEAVDTLLDNGVRGQPTRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 381

Query: 61  FVIVVGPALSLHRYGLPRE 78
            VIVVGPALSLHR GLPRE
Sbjct: 382 SVIVVGPALSLHRCGLPRE 400

[Close]

BLAST of MS003749 vs. NCBI nr
Match: YP_009568275.1 (RNA polymerase beta [Plumbago auriculata] >ADD31182.1 RNA polymerase beta' subunit protein [Plumbago auriculata] >QBE86557.1 RNA polymerase beta [Plumbago auriculata])

HSP 1 Score: 127.5 bits (319), Expect = 5.0e-26
Identity = 64/79 (81.01%), Postives = 71/79 (89.87%), Query Frame = 0


Query: 1   MCSEKLVQGTVNTLLDNGIRGQPTRDDHNKVYKSFSNVIEGKDGKFRET-LGKQVNYSG- 60
           MC EKLVQ  V+TLLDNGIRGQP RDDHNKVYKSFS+VIEGK+G+FRET LGK+V+YSG 
Sbjct: 329 MCQEKLVQEAVDTLLDNGIRGQPLRDDHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 388

Query: 61  FVIVVGPALSLHRYGLPRE 78
            VIVVGP+LSLHR GLPRE
Sbjct: 389 SVIVVGPSLSLHRCGLPRE 407

[Close]

BLAST of MS003749 vs. NCBI nr
Match: QBC69183.1 (RNA polymerase beta subunit [Plumbago auriculata])

HSP 1 Score: 127.5 bits (319), Expect = 5.0e-26
Identity = 64/79 (81.01%), Postives = 71/79 (89.87%), Query Frame = 0


Query: 1   MCSEKLVQGTVNTLLDNGIRGQPTRDDHNKVYKSFSNVIEGKDGKFRET-LGKQVNYSG- 60
           MC EKLVQ  V+TLLDNGIRGQP RDDHNKVYKSFS+VIEGK+G+FRET LGK+V+YSG 
Sbjct: 322 MCQEKLVQEAVDTLLDNGIRGQPLRDDHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 381

Query: 61  FVIVVGPALSLHRYGLPRE 78
            VIVVGP+LSLHR GLPRE
Sbjct: 382 SVIVVGPSLSLHRCGLPRE 400

[Close]

BLAST of MS003749 vs. NCBI nr
Match: YP_010024322.1 (RNA polymerase beta' subunit [Agastache rugosa] >QOP63930.1 RNA polymerase beta' subunit [Agastache rugosa] >QUB07757.1 RNA polymerase beta' subunit [Agastache rugosa])

HSP 1 Score: 127.1 bits (318), Expect = 6.6e-26
Identity = 64/79 (81.01%), Postives = 71/79 (89.87%), Query Frame = 0


Query: 1   MCSEKLVQGTVNTLLDNGIRGQPTRDDHNKVYKSFSNVIEGKDGKFRET-LGKQVNYSG- 60
           MC EKLVQ  V+TLLDNGIRGQPTRD HNKVYKSFS+VIEGK+G+FRET LGK+V+YSG 
Sbjct: 326 MCQEKLVQEAVDTLLDNGIRGQPTRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 385

Query: 61  FVIVVGPALSLHRYGLPRE 78
            VIVVGP+LSLHR GLPRE
Sbjct: 386 SVIVVGPSLSLHRCGLPRE 404

[Close]

BLAST of MS003749 vs. ExPASy Swiss-Prot
Match: A1XGM9 (DNA-directed RNA polymerase subunit beta' OS=Ranunculus macranthus OX=334596 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 126.7 bits (317), Expect = 1.1e-28
Identity = 63/79 (79.75%), Postives = 71/79 (89.87%), Query Frame = 0


Query: 1   MCSEKLVQGTVNTLLDNGIRGQPTRDDHNKVYKSFSNVIEGKDGKFRET-LGKQVNYSG- 60
           MC EKLVQ  V+TLLDNGIRGQPTRD HNK+YKSFS+VIEGK+G+FRET LGK+V+YSG 
Sbjct: 322 MCQEKLVQEAVDTLLDNGIRGQPTRDGHNKIYKSFSDVIEGKEGRFRETLLGKRVDYSGR 381

Query: 61  FVIVVGPALSLHRYGLPRE 78
            VIVVGP+LSLHR GLPRE
Sbjct: 382 SVIVVGPSLSLHRCGLPRE 400

[Close]

BLAST of MS003749 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: 125.2 bits (313), Expect = 3.3e-28
Identity = 63/79 (79.75%), Postives = 70/79 (88.61%), Query Frame = 0


Query: 1   MCSEKLVQGTVNTLLDNGIRGQPTRDDHNKVYKSFSNVIEGKDGKFRET-LGKQVNYSG- 60
           MC EKLVQ  V+TLLDNGIRGQP RD HNKVYKSFS+VIEGK+G+FRET LGK+V+YSG 
Sbjct: 322 MCQEKLVQEAVDTLLDNGIRGQPMRDSHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 381

Query: 61  FVIVVGPALSLHRYGLPRE 78
            VIVVGP+LSLHR GLPRE
Sbjct: 382 SVIVVGPSLSLHRCGLPRE 400

[Close]

BLAST of MS003749 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: 124.8 bits (312), Expect = 4.3e-28
Identity = 63/79 (79.75%), Postives = 70/79 (88.61%), Query Frame = 0


Query: 1   MCSEKLVQGTVNTLLDNGIRGQPTRDDHNKVYKSFSNVIEGKDGKFRET-LGKQVNYSG- 60
           MC EKLVQ  V+TLLDNGIRGQP RD HNKVYKSFS+VIEGK+G+FRET LGK+V+YSG 
Sbjct: 322 MCQEKLVQEAVDTLLDNGIRGQPMRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 381

Query: 61  FVIVVGPALSLHRYGLPRE 78
            VIVVGP+LSLHR GLPRE
Sbjct: 382 SVIVVGPSLSLHRCGLPRE 400

[Close]

BLAST of MS003749 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: 124.8 bits (312), Expect = 4.3e-28
Identity = 63/79 (79.75%), Postives = 70/79 (88.61%), Query Frame = 0


Query: 1   MCSEKLVQGTVNTLLDNGIRGQPTRDDHNKVYKSFSNVIEGKDGKFRET-LGKQVNYSG- 60
           MC EKLVQ  V+TLLDNGIRGQP RD HNKVYKSFS+VIEGK+G+FRET LGK+V+YSG 
Sbjct: 322 MCQEKLVQEAVDTLLDNGIRGQPMRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 381

Query: 61  FVIVVGPALSLHRYGLPRE 78
            VIVVGP+LSLHR GLPRE
Sbjct: 382 SVIVVGPSLSLHRCGLPRE 400

[Close]

BLAST of MS003749 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: 124.8 bits (312), Expect = 4.3e-28
Identity = 63/79 (79.75%), Postives = 70/79 (88.61%), Query Frame = 0


Query: 1   MCSEKLVQGTVNTLLDNGIRGQPTRDDHNKVYKSFSNVIEGKDGKFRET-LGKQVNYSG- 60
           MC EKLVQ  V+TLLDNGIRGQP RD HNKVYKSFS+VIEGK+G+FRET LGK+V+YSG 
Sbjct: 322 MCQEKLVQEAVDTLLDNGIRGQPMRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 381

Query: 61  FVIVVGPALSLHRYGLPRE 78
            VIVVGP+LSLHR GLPRE
Sbjct: 382 SVIVVGPSLSLHRCGLPRE 400

[Close]

BLAST of MS003749 vs. ExPASy TrEMBL
Match: A0A7G7XQ36 (DNA-directed RNA polymerase subunit beta' OS=Distemonanthus benthamianus OX=162759 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 129.0 bits (323), Expect = 8.4e-27
Identity = 65/79 (82.28%), Postives = 71/79 (89.87%), Query Frame = 0


Query: 1   MCSEKLVQGTVNTLLDNGIRGQPTRDDHNKVYKSFSNVIEGKDGKFRET-LGKQVNYSG- 60
           MC EKLVQ  V+TLLDNGIRGQPTRD HNKVYKSFSNVIEGK+G+FRET LGK+V+YSG 
Sbjct: 324 MCQEKLVQEAVDTLLDNGIRGQPTRDGHNKVYKSFSNVIEGKEGRFRETLLGKRVDYSGR 383

Query: 61  FVIVVGPALSLHRYGLPRE 78
            VIVVGP+LSLHR GLPRE
Sbjct: 384 SVIVVGPSLSLHRCGLPRE 402

[Close]

BLAST of MS003749 vs. ExPASy TrEMBL
Match: A0A291F033 (DNA-directed RNA polymerase subunit gamma OS=Lobelia sonderiana OX=673919 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 127.9 bits (320), Expect = 1.9e-26
Identity = 64/79 (81.01%), Postives = 71/79 (89.87%), Query Frame = 0


Query: 1   MCSEKLVQGTVNTLLDNGIRGQPTRDDHNKVYKSFSNVIEGKDGKFRET-LGKQVNYSG- 60
           MC EKLVQ  V+TLLDNG+RGQPTRD HNKVYKSFS+VIEGK+G+FRET LGK+V+YSG 
Sbjct: 322 MCQEKLVQEAVDTLLDNGVRGQPTRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 381

Query: 61  FVIVVGPALSLHRYGLPRE 78
            VIVVGPALSLHR GLPRE
Sbjct: 382 SVIVVGPALSLHRCGLPRE 400

[Close]

BLAST of MS003749 vs. ExPASy TrEMBL
Match: D3WF13 (DNA-directed RNA polymerase subunit beta' OS=Plumbago auriculata OX=45172 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 127.5 bits (319), Expect = 2.4e-26
Identity = 64/79 (81.01%), Postives = 71/79 (89.87%), Query Frame = 0


Query: 1   MCSEKLVQGTVNTLLDNGIRGQPTRDDHNKVYKSFSNVIEGKDGKFRET-LGKQVNYSG- 60
           MC EKLVQ  V+TLLDNGIRGQP RDDHNKVYKSFS+VIEGK+G+FRET LGK+V+YSG 
Sbjct: 329 MCQEKLVQEAVDTLLDNGIRGQPLRDDHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 388

Query: 61  FVIVVGPALSLHRYGLPRE 78
            VIVVGP+LSLHR GLPRE
Sbjct: 389 SVIVVGPSLSLHRCGLPRE 407

[Close]

BLAST of MS003749 vs. ExPASy TrEMBL
Match: A0A411JVR6 (DNA-directed RNA polymerase subunit gamma OS=Plumbago auriculata OX=45172 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 127.5 bits (319), Expect = 2.4e-26
Identity = 64/79 (81.01%), Postives = 71/79 (89.87%), Query Frame = 0


Query: 1   MCSEKLVQGTVNTLLDNGIRGQPTRDDHNKVYKSFSNVIEGKDGKFRET-LGKQVNYSG- 60
           MC EKLVQ  V+TLLDNGIRGQP RDDHNKVYKSFS+VIEGK+G+FRET LGK+V+YSG 
Sbjct: 322 MCQEKLVQEAVDTLLDNGIRGQPLRDDHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 381

Query: 61  FVIVVGPALSLHRYGLPRE 78
            VIVVGP+LSLHR GLPRE
Sbjct: 382 SVIVVGPSLSLHRCGLPRE 400

[Close]

BLAST of MS003749 vs. ExPASy TrEMBL
Match: A0A4D6UXW4 (DNA-directed RNA polymerase subunit beta' OS=Pogostemon cablin OX=28511 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 127.1 bits (318), Expect = 3.2e-26
Identity = 64/79 (81.01%), Postives = 71/79 (89.87%), Query Frame = 0


Query: 1   MCSEKLVQGTVNTLLDNGIRGQPTRDDHNKVYKSFSNVIEGKDGKFRET-LGKQVNYSG- 60
           MC EKLVQ  V+TLLDNGIRGQPTRD HNKVYKSFS+VIEGK+G+FRET LGK+V+YSG 
Sbjct: 326 MCQEKLVQEAVDTLLDNGIRGQPTRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 385

Query: 61  FVIVVGPALSLHRYGLPRE 78
            VIVVGP+LSLHR GLPRE
Sbjct: 386 SVIVVGPSLSLHRCGLPRE 404

[Close]

BLAST of MS003749 vs. TAIR 10
Match: ATCG00180.1 (DNA-directed RNA polymerase family protein )

HSP 1 Score: 124.8 bits (312), Expect = 3.0e-29
Identity = 63/79 (79.75%), Postives = 70/79 (88.61%), Query Frame = 0


Query: 1   MCSEKLVQGTVNTLLDNGIRGQPTRDDHNKVYKSFSNVIEGKDGKFRET-LGKQVNYSG- 60
           MC EKLVQ  V+TLLDNGIRGQP RD HNKVYKSFS+VIEGK+G+FRET LGK+V+YSG 
Sbjct: 322 MCQEKLVQEAVDTLLDNGIRGQPMRDGHNKVYKSFSDVIEGKEGRFRETLLGKRVDYSGR 381

Query: 61  FVIVVGPALSLHRYGLPRE 78
            VIVVGP+LSLHR GLPRE
Sbjct: 382 SVIVVGPSLSLHRCGLPRE 400

The following BLAST results are available for this feature:

BLAST of MS003749 vs. NCBI nr


Match Name	E-value	Identity	Description
YP_009972398.1	1.7e-26	82.28	RNA polymerase beta' subunit [Distemonanthus benthamianus] >QNH82527.1 RNA polym...	[more]
YP_009435494.1	3.8e-26	81.01	RNA polymerase beta' subunit [Lobelia sonderiana] >ATG25496.1 RNA polymerase bet...	[more]
YP_009568275.1	5.0e-26	81.01	RNA polymerase beta [Plumbago auriculata] >ADD31182.1 RNA polymerase beta' subun...	[more]
QBC69183.1	5.0e-26	81.01	RNA polymerase beta subunit [Plumbago auriculata]	[more]
YP_010024322.1	6.6e-26	81.01	RNA polymerase beta' subunit [Agastache rugosa] >QOP63930.1 RNA polymerase beta'...	[more]

BLAST of MS003749 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
A1XGM9	1.1e-28	79.75	DNA-directed RNA polymerase subunit beta' OS=Ranunculus macranthus OX=334596 GN=...	[more]
Q09FX0	3.3e-28	79.75	DNA-directed RNA polymerase subunit beta' OS=Nandina domestica OX=41776 GN=rpoC1...	[more]
A9LYH6	4.3e-28	79.75	DNA-directed RNA polymerase subunit beta' OS=Acorus americanus OX=263995 GN=rpoC...	[more]
Q3V543	4.3e-28	79.75	DNA-directed RNA polymerase subunit beta' OS=Acorus calamus OX=4465 GN=rpoC1 PE=...	[more]
Q5QA71	4.3e-28	79.75	DNA-directed RNA polymerase subunit beta' OS=Acorus gramineus OX=55184 GN=rpoC1 ...	[more]

BLAST of MS003749 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A7G7XQ36	8.4e-27	82.28	DNA-directed RNA polymerase subunit beta' OS=Distemonanthus benthamianus OX=1627...	[more]
A0A291F033	1.9e-26	81.01	DNA-directed RNA polymerase subunit gamma OS=Lobelia sonderiana OX=673919 GN=rpo...	[more]
D3WF13	2.4e-26	81.01	DNA-directed RNA polymerase subunit beta' OS=Plumbago auriculata OX=45172 GN=rpo...	[more]
A0A411JVR6	2.4e-26	81.01	DNA-directed RNA polymerase subunit gamma OS=Plumbago auriculata OX=45172 GN=rpo...	[more]
A0A4D6UXW4	3.2e-26	81.01	DNA-directed RNA polymerase subunit beta' OS=Pogostemon cablin OX=28511 GN=rpoC1...	[more]

BLAST of MS003749 vs. TAIR 10


Match Name	E-value	Identity	Description
ATCG00180.1	3.0e-29	79.75	DNA-directed RNA polymerase family protein	[more]

InterPro

Analysis Name: InterPro Annotations of Bitter gourd (TR) v1
Date Performed: 2021-10-25


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PANTHER	PTHR19376	DNA-DIRECTED RNA POLYMERASE	coord: 1..77
None	No IPR available	PANTHER	PTHR19376:SF54	DNA-DIRECTED RNA POLYMERASE SUBUNIT BETA'	coord: 1..77
None	No IPR available	SUPERFAMILY	64484	beta and beta-prime subunits of DNA dependent RNA-polymerase	coord: 4..77

Relationships

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


Feature Name	Unique Name	Type
MS003749.1	MS003749.1	mRNA