MC11g1100.1 (mRNA) Bitter gourd (Dali-11) v1

Overview


Name	MC11g1100.1
Type	mRNA
Organism	Momordica charantia cv. Dali-11 (Bitter gourd (Dali-11) v1)
Description	DNA-directed RNA polymerase subunit beta
Location	MC11: 9413152 .. 9413310 (-)
Sequence length	159
RNA-Seq Expression	MC11g1100.1
Synteny	MC11g1100.1

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDSpolypeptide

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

CCTGTTATAATAGGAAAGCCTTATATCTTGAAATTAATTCATCAAGTTGATGATAAAATACACGGACGTTCCAGTGGACATTATGCACTTGTTACACAACAACCCCTTAGAGGAAGGGCCAAGCAAGGTGGACAACGGGTGGGAGAAATGGAGACGTTT

mRNA sequence

CCTGTTATAATAGGAAAGCCTTATATCTTGAAATTAATTCATCAAGTTGATGATAAAATACACGGACGTTCCAGTGGACATTATGCACTTGTTACACAACAACCCCTTAGAGGAAGGGCCAAGCAAGGTGGACAACGGGTGGGAGAAATGGAGACGTTT

Coding sequence (CDS)

CCTGTTATAATAGGAAAGCCTTATATCTTGAAATTAATTCATCAAGTTGATGATAAAATACACGGACGTTCCAGTGGACATTATGCACTTGTTACACAACAACCCCTTAGAGGAAGGGCCAAGCAAGGTGGACAACGGGTGGGAGAAATGGAGACGTTT

Protein sequence

PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMETF

Homology

[Close]

BLAST of MC11g1100.1 vs. ExPASy Swiss-Prot
Match: Q8S8X9 (DNA-directed RNA polymerase subunit beta OS=Atropa belladonna OX=33113 GN=rpoB PE=3 SV=1)

HSP 1 Score: 107.5 bits (267), Expect = 4.9e-23
Identity = 51/53 (96.23%), Postives = 52/53 (98.11%), Query Frame = 0


Query: 1   PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMETF 54
           PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEME +
Sbjct: 939 PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMEVW 991

[Close]

BLAST of MC11g1100.1 vs. ExPASy Swiss-Prot
Match: Q4VZP1 (DNA-directed RNA polymerase subunit beta OS=Cucumis sativus OX=3659 GN=rpoB PE=3 SV=2)

HSP 1 Score: 107.5 bits (267), Expect = 4.9e-23
Identity = 51/53 (96.23%), Postives = 52/53 (98.11%), Query Frame = 0


Query: 1   PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMETF 54
           PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEME +
Sbjct: 939 PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMEVW 991

[Close]

BLAST of MC11g1100.1 vs. ExPASy Swiss-Prot
Match: Q0G9X0 (DNA-directed RNA polymerase subunit beta OS=Daucus carota OX=4039 GN=rpoB PE=3 SV=1)

HSP 1 Score: 107.5 bits (267), Expect = 4.9e-23
Identity = 51/53 (96.23%), Postives = 52/53 (98.11%), Query Frame = 0


Query: 1   PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMETF 54
           PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEME +
Sbjct: 939 PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMEVW 991

[Close]

BLAST of MC11g1100.1 vs. ExPASy Swiss-Prot
Match: Q49L06 (DNA-directed RNA polymerase subunit beta OS=Eucalyptus globulus subsp. globulus OX=71271 GN=rpoB PE=3 SV=1)

HSP 1 Score: 107.5 bits (267), Expect = 4.9e-23
Identity = 51/53 (96.23%), Postives = 52/53 (98.11%), Query Frame = 0


Query: 1   PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMETF 54
           PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEME +
Sbjct: 941 PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMEVW 993

[Close]

BLAST of MC11g1100.1 vs. ExPASy Swiss-Prot
Match: Q3C1G7 (DNA-directed RNA polymerase subunit beta OS=Nicotiana sylvestris OX=4096 GN=rpoB PE=3 SV=1)

HSP 1 Score: 107.5 bits (267), Expect = 4.9e-23
Identity = 51/53 (96.23%), Postives = 52/53 (98.11%), Query Frame = 0


Query: 1   PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMETF 54
           PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEME +
Sbjct: 939 PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMEVW 991

[Close]

BLAST of MC11g1100.1 vs. NCBI nr
Match: TLX69649.1 (DNA-directed RNA polymerase subunit beta, partial [Labilibacter sediminis])

HSP 1 Score: 107 bits (267), Expect = 9.83e-28
Identity = 51/53 (96.23%), Postives = 52/53 (98.11%), Query Frame = 0


Query: 1  PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMETF 53
          PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEME +
Sbjct: 46 PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMEVW 98

[Close]

BLAST of MC11g1100.1 vs. NCBI nr
Match: PHT94084.1 (hypothetical protein T459_01966 [Capsicum annuum])

HSP 1 Score: 106 bits (264), Expect = 9.96e-28
Identity = 50/53 (94.34%), Postives = 52/53 (98.11%), Query Frame = 0


Query: 1  PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMETF 53
          PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVG+ME +
Sbjct: 8  PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGQMEVW 60

[Close]

BLAST of MC11g1100.1 vs. NCBI nr
Match: WP_199287517.1 (hypothetical protein, partial [Photobacterium chitinilyticum] >RWX52626.1 DNA-directed RNA polymerase subunit beta, partial [Photobacterium chitinilyticum])

HSP 1 Score: 106 bits (264), Expect = 1.55e-27
Identity = 50/53 (94.34%), Postives = 52/53 (98.11%), Query Frame = 0


Query: 1   PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMETF 53
           PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGR+KQGGQRVGEME +
Sbjct: 59  PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRSKQGGQRVGEMEVW 111

[Close]

BLAST of MC11g1100.1 vs. NCBI nr
Match: KZN01535.1 (hypothetical protein DCAR_010289 [Daucus carota subsp. sativus])

HSP 1 Score: 107 bits (267), Expect = 2.26e-27
Identity = 51/53 (96.23%), Postives = 52/53 (98.11%), Query Frame = 0


Query: 1   PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMETF 53
           PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEME +
Sbjct: 79  PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMEVW 131

[Close]

BLAST of MC11g1100.1 vs. NCBI nr
Match: OMP13067.1 (hypothetical protein COLO4_02335, partial [Corchorus olitorius])

HSP 1 Score: 106 bits (264), Expect = 3.18e-27
Identity = 50/53 (94.34%), Postives = 52/53 (98.11%), Query Frame = 0


Query: 1   PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMETF 53
           PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGR+KQGGQRVGEME +
Sbjct: 101 PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRSKQGGQRVGEMEVW 153

[Close]

BLAST of MC11g1100.1 vs. ExPASy TrEMBL
Match: A0A5R9QKW6 (DNA-directed RNA polymerase (Fragment) OS=Labilibacter sediminis OX=2570926 GN=E9993_22820 PE=4 SV=1)

HSP 1 Score: 107 bits (267), Expect = 4.76e-28
Identity = 51/53 (96.23%), Postives = 52/53 (98.11%), Query Frame = 0


Query: 1  PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMETF 53
          PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEME +
Sbjct: 46 PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMEVW 98

[Close]

BLAST of MC11g1100.1 vs. ExPASy TrEMBL
Match: A0A2G3AIN2 (DNA-directed RNA polymerase OS=Capsicum annuum OX=4072 GN=T459_01966 PE=3 SV=1)

HSP 1 Score: 106 bits (264), Expect = 4.82e-28
Identity = 50/53 (94.34%), Postives = 52/53 (98.11%), Query Frame = 0


Query: 1  PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMETF 53
          PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVG+ME +
Sbjct: 8  PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGQMEVW 60

[Close]

BLAST of MC11g1100.1 vs. ExPASy TrEMBL
Match: A0A444JHR1 (DNA-directed RNA polymerase (Fragment) OS=Photobacterium chitinilyticum OX=2485123 GN=EDI28_26660 PE=4 SV=1)

HSP 1 Score: 106 bits (264), Expect = 7.51e-28
Identity = 50/53 (94.34%), Postives = 52/53 (98.11%), Query Frame = 0


Query: 1   PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMETF 53
           PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGR+KQGGQRVGEME +
Sbjct: 59  PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRSKQGGQRVGEMEVW 111

[Close]

BLAST of MC11g1100.1 vs. ExPASy TrEMBL
Match: A0A161WS87 (DNA-directed RNA polymerase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_010289 PE=3 SV=1)

HSP 1 Score: 107 bits (267), Expect = 1.10e-27
Identity = 51/53 (96.23%), Postives = 52/53 (98.11%), Query Frame = 0


Query: 1   PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMETF 53
           PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEME +
Sbjct: 79  PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMEVW 131

[Close]

BLAST of MC11g1100.1 vs. ExPASy TrEMBL
Match: A0A1R3L182 (DNA-directed RNA polymerase (Fragment) OS=Corchorus olitorius OX=93759 GN=COLO4_02335 PE=3 SV=1)

HSP 1 Score: 106 bits (264), Expect = 1.54e-27
Identity = 50/53 (94.34%), Postives = 52/53 (98.11%), Query Frame = 0


Query: 1   PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMETF 53
           PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGR+KQGGQRVGEME +
Sbjct: 101 PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRSKQGGQRVGEMEVW 153

[Close]

BLAST of MC11g1100.1 vs. TAIR 10
Match: ATCG00190.1 (RNA polymerase subunit beta )

HSP 1 Score: 106.3 bits (264), Expect = 7.7e-24
Identity = 50/53 (94.34%), Postives = 52/53 (98.11%), Query Frame = 0


Query: 1   PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEMETF 54
           PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGR+KQGGQRVGEME +
Sbjct: 941 PVIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRSKQGGQRVGEMEVW 993

[Close]

BLAST of MC11g1100.1 vs. TAIR 10
Match: AT4G21710.1 (DNA-directed RNA polymerase family protein )

HSP 1 Score: 55.1 bits (131), Expect = 2.0e-08
Identity = 24/50 (48.00%), Postives = 32/50 (64.00%), Query Frame = 0


Query: 2    VIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEME 52
            + +G  Y  +L H VDDKIH R  G   ++T+QP  GR++ GG R GEME
Sbjct: 1046 IFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEME 1095

[Close]

BLAST of MC11g1100.1 vs. TAIR 10
Match: AT5G45140.1 (nuclear RNA polymerase C2 )

HSP 1 Score: 53.9 bits (128), Expect = 4.5e-08
Identity = 25/50 (50.00%), Postives = 33/50 (66.00%), Query Frame = 0


Query: 2    VIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEME 52
            + +G  Y  KL H V DK+H R SG   ++T+QP  G++K GG RVGEME
Sbjct: 1026 IFMGPIYYQKLKHMVLDKMHARGSGPRVMMTRQPTEGKSKNGGLRVGEME 1075

[Close]

BLAST of MC11g1100.1 vs. TAIR 10
Match: AT1G29940.1 (nuclear RNA polymerase A2 )

HSP 1 Score: 47.0 bits (110), Expect = 5.5e-06
Identity = 22/50 (44.00%), Postives = 30/50 (60.00%), Query Frame = 0


Query: 2    VIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEME 52
            + +G  Y  +L H V DK   RS+G    +T QP++GR + GG R GEME
Sbjct: 1019 IFMGPVYYQRLRHMVSDKFQVRSTGQVDQLTHQPIKGRKRGGGIRFGEME 1068

[Close]

BLAST of MC11g1100.1 vs. TAIR 10
Match: AT3G23780.1 (nuclear RNA polymerase D2A )

HSP 1 Score: 39.7 bits (91), Expect = 8.8e-04
Identity = 17/50 (34.00%), Postives = 31/50 (62.00%), Query Frame = 0


Query: 2    VIIGKPYILKLIHQVDDKIHGRSSGHYALVTQQPLRGRAKQGGQRVGEME 52
            + +G  +  +L+H  +DK+  R++G    +T+QP+  R + GG + GEME
Sbjct: 1030 IFMGPTFYQRLVHMSEDKVKFRNTGPVHPLTRQPVADRKRFGGIKFGEME 1079

The following BLAST results are available for this feature:

BLAST of MC11g1100.1 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q8S8X9	4.9e-23	96.23	DNA-directed RNA polymerase subunit beta OS=Atropa belladonna OX=33113 GN=rpoB P...	[more]
Q4VZP1	4.9e-23	96.23	DNA-directed RNA polymerase subunit beta OS=Cucumis sativus OX=3659 GN=rpoB PE=3...	[more]
Q0G9X0	4.9e-23	96.23	DNA-directed RNA polymerase subunit beta OS=Daucus carota OX=4039 GN=rpoB PE=3 S...	[more]
Q49L06	4.9e-23	96.23	DNA-directed RNA polymerase subunit beta OS=Eucalyptus globulus subsp. globulus ...	[more]
Q3C1G7	4.9e-23	96.23	DNA-directed RNA polymerase subunit beta OS=Nicotiana sylvestris OX=4096 GN=rpoB...	[more]

BLAST of MC11g1100.1 vs. NCBI nr


Match Name	E-value	Identity	Description
TLX69649.1	9.83e-28	96.23	DNA-directed RNA polymerase subunit beta, partial [Labilibacter sediminis]	[more]
PHT94084.1	9.96e-28	94.34	hypothetical protein T459_01966 [Capsicum annuum]	[more]
WP_199287517.1	1.55e-27	94.34	hypothetical protein, partial [Photobacterium chitinilyticum] >RWX52626.1 DNA-di...	[more]
KZN01535.1	2.26e-27	96.23	hypothetical protein DCAR_010289 [Daucus carota subsp. sativus]	[more]
OMP13067.1	3.18e-27	94.34	hypothetical protein COLO4_02335, partial [Corchorus olitorius]	[more]

BLAST of MC11g1100.1 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A5R9QKW6	4.76e-28	96.23	DNA-directed RNA polymerase (Fragment) OS=Labilibacter sediminis OX=2570926 GN=E...	[more]
A0A2G3AIN2	4.82e-28	94.34	DNA-directed RNA polymerase OS=Capsicum annuum OX=4072 GN=T459_01966 PE=3 SV=1	[more]
A0A444JHR1	7.51e-28	94.34	DNA-directed RNA polymerase (Fragment) OS=Photobacterium chitinilyticum OX=24851...	[more]
A0A161WS87	1.10e-27	96.23	DNA-directed RNA polymerase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_010...	[more]
A0A1R3L182	1.54e-27	94.34	DNA-directed RNA polymerase (Fragment) OS=Corchorus olitorius OX=93759 GN=COLO4_...	[more]

BLAST of MC11g1100.1 vs. TAIR 10


Match Name	E-value	Identity	Description
ATCG00190.1	7.7e-24	94.34	RNA polymerase subunit beta	[more]
AT4G21710.1	2.0e-08	48.00	DNA-directed RNA polymerase family protein	[more]
AT5G45140.1	4.5e-08	50.00	nuclear RNA polymerase C2	[more]
AT1G29940.1	5.5e-06	44.00	nuclear RNA polymerase A2	[more]
AT3G23780.1	8.8e-04	34.00	nuclear RNA polymerase D2A	[more]

InterPro

Analysis Name: InterPro Annotations of Bitter gourd (Dali-11) v1
Date Performed: 2021-10-25

Position :

Zoom :

x 1


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR007120	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain	PFAM	PF00562	RNA_pol_Rpb2_6	coord: 1..41 e-value: 1.9E-13 score: 50.3
IPR037033	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamily	GENE3D	2.40.270.10		coord: 1..49 e-value: 7.7E-21 score: 76.5
None	No IPR available	PANTHER	PTHR20856:SF30	DNA-DIRECTED RNA POLYMERASE SUBUNIT BETA	coord: 3..52
None	No IPR available	SUPERFAMILY	64484	beta and beta-prime subunits of DNA dependent RNA-polymerase	coord: 1..52
IPR015712	DNA-directed RNA polymerase, subunit 2	PANTHER	PTHR20856	DNA-DIRECTED RNA POLYMERASE I SUBUNIT 2	coord: 3..52

Relationships

This mRNA is a part of the following gene feature(s):


Feature Name	Unique Name	Type
MC11g1100	MC11g1100	gene

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


Feature Name	Unique Name	Type
MC11g1100.1-cds	MC11g1100.1-cds-MC11:9413152..9413310	CDS

The following polypeptide feature(s) derives from this mRNA:


Feature Name	Unique Name	Type
MC11g1100.1	MC11g1100.1-protein	polypeptide

GO Annotation

GO Assignments

This mRNA is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006351	transcription, DNA-templated
cellular_component	GO:0009536	plastid
molecular_function	GO:0003677	DNA binding
molecular_function	GO:0003899	DNA-directed 5'-3' RNA polymerase activity
molecular_function	GO:0032549	ribonucleoside binding