CaUC10G197650.1 (mRNA) Watermelon (USVL246-FR2) v1

Overview


Name	CaUC10G197650.1
Type	mRNA
Organism	Citrullus amarus (Watermelon (USVL246-FR2) v1)
Description	DNA-directed RNA polymerase subunit beta'
Location	Ciama_Chr10: 33219264 .. 33221033 (+)
Sequence length	429
RNA-Seq Expression	CaUC10G197650.1
Synteny	CaUC10G197650.1

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.

ATGGAATTGTTAATGTTTGCTCTTCCCCGGTGACTGCTCCAGTGATACATCGTCGTATTTGAGTGATTCTGGAGAGAAAAATAACTCCTCTGGGCTTGGGCCTGGCCCGGGCCTTCTTTGGCATCACAAGCCCATGGGCTATGGTTTTGTTTCTAAGCCCACGTTGTTTAATTGGGAAGGATGTATCCATTAGCCAAATTGGATAGGTATTAAATTAGAGAATAGCTACCAATAATGTAATTTCAAAAAAAAAGAAATTAAAAATTGCTATAAGAAATGTCATAAAAGTTCGGGAATTTGGCATAGGTAGTTAAATTCCAAGAATGCTTTTGAGATGTGTTATAGTGTATTTTTGTTTGTTTTAAAATATGTGTTTTAAAATTTTGGTATTAAACTAACTAGAGTACTTTGGCCCATAATTATAGTTTTTTTTTAATTAAAAAAAAACCCTCTAATTTCGTAATTTAGATTTAAGTTTAGATTTTTTTTTTTTTTTTCTCTCTTTGCTCCTGGATGTTTTAGTATTCAAAATTTATAGGAGAGTAAAATTTGTACTTTTTTGTTTATAACTCCGGCATATGCCTATTCACATTCTAATATATTTAACCCAAATTGATTAGAACTTCGAACATCACATGAAAATTCATCTCCCCTCCTGGATTTATTTATCGATTTCTTTTTAATCATAATTTCGTAATTTTTAAACCTCATATGCATTATTTATTTTCCATAATAACATTTATTTATGCATCATTGAATGAACTGGTTGTCGGGTCATATGAACACTCTTAATCGTTAGAGTTGACCACCAAAATTGATTGCTAGAGGTGGTCGTTGTAGGTGGTTATCAGAGTTGATCTTCGGAGGTGGTAGACTAGTAGTGGTAGTTGTCAAAGGCGGCCATCAAAGTTGGTCATTAGAAGTGACGTTAAGGAGTGGTGAGAATATTTTGGTATTTTCAGGCATTATACAAATTAAACCAAACCCATTAAAAATATGATTTTTAACTGGAAAAGAATTTAGAAGGTGAGAGTCAAAGACGGGAAACACCCGGCACTGAAGGTGGCTTTGATAACGTAAACCAACGTGGGATTGAAACTATTGTGAACATCAAAAATCACGTTGAAAATGAAATTGCATTTAATATTACATAAATATAAAACCTCCAAGCTCTACCCTTTAACTAATAAAGGGAATTGGTCTGAGATTGCGGGCACTTTATTCCACTCTCTATTTGTCCAAATACATTACAATAAATCAAACCATCCATTTCAATTCAATTCTTACATTTATTTCTCTCTAAATATCTTTCTACTCTCCAATTCATTTTAATTTTAGCCTCCCATCCCATCTACTAATTACTCTTGCAAATTTAAAAAATAATAATAAAAAAATAAAATTATCCTCAAATGCTGCACCGCTAATAACCAGGAGTCTTATTCTTTCGGGTTGATTAAGTTTTTGTGTAGGAAGGAAACGTCTGTTTGATGCAAAAAAATACGCCGTCTGGGGGTTTTACCGGGACTAACTAGTAAAAGGCAAGTAGATGAGGAAGCGGGCAATTTGCGTAAGTAAGAAAACAAGAAAAAAGCGGCTCGCTTTCTTTTTTTATCTTGAGAAATTATTATTTTCATTTAATAGGGGAGGATTTGTGCTTGTGGAAATTATCGAGTAATCGGAAATAAAAAAGAAGATTCGAAATTTTGTGAACAATGCCGTCTTACGCAGGAGGGAAGCCGAGAGGAAGGAGCAAAGCAACTCAACCGATAG

mRNA sequence

ATGGAATTTGATACATCGTCGTATTTGAGTGATTCTGGAGAGAAAAATAACTCCTCTGGGCTTGGGCCTGGCCCGGGCCTTCTTTGGCATCACAAGCCCATGGGCTATGGTTTTGTTTCTAAGCCCACGTGGTTATCAGAGTTGATCTTCGGAGGTGGTAGACTAGTAGTGGTAGTTGTCAAAGGCGGCCATCAAAGTTGGTCATTAGAAGTGACGTTAAGGAGTGGTGAGAATATTTTGAATTTAGAAGGTGAGAGTCAAAGACGGGAAACACCCGGCACTGAAGGTGGCTTTGATAACGGGAGGATTTGTGCTTGTGGAAATTATCGAGTAATCGGAAATAAAAAAGAAGATTCGAAATTTTGTGAACAATGCCGTCTTACGCAGGAGGGAAGCCGAGAGGAAGGAGCAAAGCAACTCAACCGATAG

Coding sequence (CDS)

ATGGAATTTGATACATCGTCGTATTTGAGTGATTCTGGAGAGAAAAATAACTCCTCTGGGCTTGGGCCTGGCCCGGGCCTTCTTTGGCATCACAAGCCCATGGGCTATGGTTTTGTTTCTAAGCCCACGTGGTTATCAGAGTTGATCTTCGGAGGTGGTAGACTAGTAGTGGTAGTTGTCAAAGGCGGCCATCAAAGTTGGTCATTAGAAGTGACGTTAAGGAGTGGTGAGAATATTTTGAATTTAGAAGGTGAGAGTCAAAGACGGGAAACACCCGGCACTGAAGGTGGCTTTGATAACGGGAGGATTTGTGCTTGTGGAAATTATCGAGTAATCGGAAATAAAAAAGAAGATTCGAAATTTTGTGAACAATGCCGTCTTACGCAGGAGGGAAGCCGAGAGGAAGGAGCAAAGCAACTCAACCGATAG

Protein sequence

MEFDTSSYLSDSGEKNNSSGLGPGPGLLWHHKPMGYGFVSKPTWLSELIFGGGRLVVVVVKGGHQSWSLEVTLRSGENILNLEGESQRRETPGTEGGFDNGRICACGNYRVIGNKKEDSKFCEQCRLTQEGSREEGAKQLNR

Homology

[Close]

BLAST of CaUC10G197650.1 vs. NCBI nr
Match: YP_009447526.1 (RNA polymerase beta' subunit [Cucurbita moschata] >ATY69968.1 RNA polymerase beta' subunit [Cucurbita moschata])

HSP 1 Score: 56.6 bits (135), Expect = 2.0e-04
Identity = 25/31 (80.65%), Postives = 26/31 (83.87%), Query Frame = 0


Query: 103 ICACGNYRVIGNKKEDSKFCEQCRLTQEGSR 134
           ICACGNYRVIGNKKEDSKFCEQC +    SR
Sbjct: 68  ICACGNYRVIGNKKEDSKFCEQCGVEFVDSR 98

[Close]

BLAST of CaUC10G197650.1 vs. NCBI nr
Match: QGA85001.1 (RNA polymerase beta subunit, partial [Entada rheedei])

HSP 1 Score: 55.8 bits (133), Expect = 3.4e-04
Identity = 24/31 (77.42%), Postives = 26/31 (83.87%), Query Frame = 0


Query: 103 ICACGNYRVIGNKKEDSKFCEQCRLTQEGSR 134
           ICACGNYRVIG+KKED KFCEQC +   GSR
Sbjct: 68  ICACGNYRVIGDKKEDKKFCEQCGVEFVGSR 98

[Close]

BLAST of CaUC10G197650.1 vs. NCBI nr
Match: YP_009707875.1 (RNA polymerase beta subunit [Begonia pulchrifolia] >QEU52800.1 RNA polymerase beta subunit [Begonia pulchrifolia])

HSP 1 Score: 55.5 bits (132), Expect = 4.5e-04
Identity = 24/31 (77.42%), Postives = 26/31 (83.87%), Query Frame = 0


Query: 103 ICACGNYRVIGNKKEDSKFCEQCRLTQEGSR 134
           ICACGNYRVIG+KKEDSKFCEQC +    SR
Sbjct: 68  ICACGNYRVIGDKKEDSKFCEQCGVEFSDSR 98

[Close]

BLAST of CaUC10G197650.1 vs. NCBI nr
Match: YP_009108750.1 (RNA polymerase beta' subunit [Oncinotis tenuiloba] >AIW05596.1 RNA polymerase beta' subunit [Oncinotis tenuiloba])

HSP 1 Score: 55.1 bits (131), Expect = 5.8e-04
Identity = 24/31 (77.42%), Postives = 26/31 (83.87%), Query Frame = 0


Query: 103 ICACGNYRVIGNKKEDSKFCEQCRLTQEGSR 134
           ICACGNYRVIGN+KEDSKFCEQC +    SR
Sbjct: 75  ICACGNYRVIGNEKEDSKFCEQCGVEFVDSR 105

[Close]

BLAST of CaUC10G197650.1 vs. NCBI nr
Match: YP_009489820.1 (RNA polymerase beta [Paeonia brownii] >AWH11090.1 RNA polymerase beta [Paeonia brownii])

HSP 1 Score: 55.1 bits (131), Expect = 5.8e-04
Identity = 24/31 (77.42%), Postives = 26/31 (83.87%), Query Frame = 0


Query: 103 ICACGNYRVIGNKKEDSKFCEQCRLTQEGSR 134
           ICACGNYRVIGN+KEDSKFCEQC +    SR
Sbjct: 68  ICACGNYRVIGNEKEDSKFCEQCGVEFVDSR 98

[Close]

BLAST of CaUC10G197650.1 vs. ExPASy Swiss-Prot
Match: Q4VZP2 (DNA-directed RNA polymerase subunit beta' OS=Cucumis sativus OX=3659 GN=rpoC1 PE=3 SV=3)

HSP 1 Score: 54.7 bits (130), Expect = 1.0e-06
Identity = 24/31 (77.42%), Postives = 26/31 (83.87%), Query Frame = 0


Query: 103 ICACGNYRVIGNKKEDSKFCEQCRLTQEGSR 134
           ICACGNYRVIG+KKEDSKFCEQC +    SR
Sbjct: 68  ICACGNYRVIGDKKEDSKFCEQCGVEFVDSR 98

[Close]

BLAST of CaUC10G197650.1 vs. ExPASy Swiss-Prot
Match: A4QJA6 (DNA-directed RNA polymerase subunit beta' OS=Aethionema cordifolium OX=434059 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 53.9 bits (128), Expect = 1.7e-06
Identity = 23/31 (74.19%), Postives = 26/31 (83.87%), Query Frame = 0


Query: 103 ICACGNYRVIGNKKEDSKFCEQCRLTQEGSR 134
           ICACGNYRVIG++KED KFCEQC +   GSR
Sbjct: 68  ICACGNYRVIGDEKEDPKFCEQCGVEFVGSR 98

[Close]

BLAST of CaUC10G197650.1 vs. ExPASy Swiss-Prot
Match: A4QJJ0 (DNA-directed RNA polymerase subunit beta' OS=Aethionema grandiflorum OX=72657 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 53.9 bits (128), Expect = 1.7e-06
Identity = 23/31 (74.19%), Postives = 26/31 (83.87%), Query Frame = 0


Query: 103 ICACGNYRVIGNKKEDSKFCEQCRLTQEGSR 134
           ICACGNYRVIG++KED KFCEQC +   GSR
Sbjct: 68  ICACGNYRVIGDEKEDPKFCEQCGVEFVGSR 98

[Close]

BLAST of CaUC10G197650.1 vs. ExPASy Swiss-Prot
Match: Q0G9M8 (DNA-directed RNA polymerase subunit beta' OS=Liriodendron tulipifera OX=3415 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 53.1 bits (126), Expect = 2.9e-06
Identity = 23/31 (74.19%), Postives = 25/31 (80.65%), Query Frame = 0


Query: 103 ICACGNYRVIGNKKEDSKFCEQCRLTQEGSR 134
           ICACGNYRVIGN+KED KFCEQC +    SR
Sbjct: 68  ICACGNYRVIGNEKEDPKFCEQCGVEFVDSR 98

[Close]

BLAST of CaUC10G197650.1 vs. ExPASy Swiss-Prot
Match: Q68S15 (DNA-directed RNA polymerase subunit beta' OS=Panax ginseng OX=4054 GN=rpoC1 PE=3 SV=2)

HSP 1 Score: 53.1 bits (126), Expect = 2.9e-06
Identity = 23/31 (74.19%), Postives = 25/31 (80.65%), Query Frame = 0


Query: 103 ICACGNYRVIGNKKEDSKFCEQCRLTQEGSR 134
           ICACGNYRVIGN+KED KFCEQC +    SR
Sbjct: 68  ICACGNYRVIGNEKEDPKFCEQCGVEFVDSR 98

[Close]

BLAST of CaUC10G197650.1 vs. ExPASy TrEMBL
Match: A0A2H4T262 (DNA-directed RNA polymerase subunit beta' OS=Cucurbita moschata OX=3662 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 56.6 bits (135), Expect = 9.7e-05
Identity = 25/31 (80.65%), Postives = 26/31 (83.87%), Query Frame = 0


Query: 103 ICACGNYRVIGNKKEDSKFCEQCRLTQEGSR 134
           ICACGNYRVIGNKKEDSKFCEQC +    SR
Sbjct: 68  ICACGNYRVIGNKKEDSKFCEQCGVEFVDSR 98

[Close]

BLAST of CaUC10G197650.1 vs. ExPASy TrEMBL
Match: K4CCX8 (RuBisCO_large domain-containing protein OS=Solanum lycopersicum OX=4081 PE=4 SV=1)

HSP 1 Score: 55.8 bits (133), Expect = 1.7e-04
Identity = 36/94 (38.30%), Postives = 48/94 (51.06%), Query Frame = 0


Query: 46  SELIFGGGRLVVVVVKGGHQ------SWSLEVTLRSGENILNLEGESQRRETPGTEGGFD 105
           S L+FGGG +    V  G++       WSL++      + L L+     +          
Sbjct: 98  SALMFGGGSIGYPRVMQGNEIIREACKWSLKLAASCEVSYLILQIFIPLK---------- 157

Query: 106 NGRICACGNYRVIGNKKEDSKFCEQCRLTQEGSR 134
             RIC CGNYRVIG++KED KFCEQCR+    SR
Sbjct: 158 -ARICDCGNYRVIGDEKEDPKFCEQCRVKFVDSR 180

[Close]

BLAST of CaUC10G197650.1 vs. ExPASy TrEMBL
Match: A0A5Q0UU94 (DNA-directed RNA polymerase subunit (Fragment) OS=Entada rheedei OX=204974 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 55.8 bits (133), Expect = 1.7e-04
Identity = 24/31 (77.42%), Postives = 26/31 (83.87%), Query Frame = 0


Query: 103 ICACGNYRVIGNKKEDSKFCEQCRLTQEGSR 134
           ICACGNYRVIG+KKED KFCEQC +   GSR
Sbjct: 68  ICACGNYRVIGDKKEDKKFCEQCGVEFVGSR 98

[Close]

BLAST of CaUC10G197650.1 vs. ExPASy TrEMBL
Match: A0A5J6E406 (DNA-directed RNA polymerase subunit beta' OS=Begonia pulchrifolia OX=1691898 GN=rpoC1 PE=3 SV=1)

HSP 1 Score: 55.5 bits (132), Expect = 2.2e-04
Identity = 24/31 (77.42%), Postives = 26/31 (83.87%), Query Frame = 0


Query: 103 ICACGNYRVIGNKKEDSKFCEQCRLTQEGSR 134
           ICACGNYRVIG+KKEDSKFCEQC +    SR
Sbjct: 68  ICACGNYRVIGDKKEDSKFCEQCGVEFSDSR 98

[Close]

BLAST of CaUC10G197650.1 vs. ExPASy TrEMBL
Match: K4DG82 (Uncharacterized protein OS=Solanum lycopersicum OX=4081 PE=4 SV=1)

HSP 1 Score: 55.5 bits (132), Expect = 2.2e-04
Identity = 24/32 (75.00%), Postives = 27/32 (84.38%), Query Frame = 0


Query: 102 RICACGNYRVIGNKKEDSKFCEQCRLTQEGSR 134
           RICACGNYRVIG++KED KFCEQCR+    SR
Sbjct: 80  RICACGNYRVIGDEKEDPKFCEQCRVKFVDSR 111

[Close]

BLAST of CaUC10G197650.1 vs. TAIR 10
Match: ATCG00180.1 (DNA-directed RNA polymerase family protein )

HSP 1 Score: 51.2 bits (121), Expect = 7.9e-07
Identity = 22/31 (70.97%), Postives = 25/31 (80.65%), Query Frame = 0


Query: 103 ICACGNYRVIGNKKEDSKFCEQCRLTQEGSR 134
           ICACGNYRVIG++KED KFCEQC +    SR
Sbjct: 68  ICACGNYRVIGDEKEDPKFCEQCGVEFVDSR 98

The following BLAST results are available for this feature:

BLAST of CaUC10G197650.1 vs. NCBI nr


Match Name	E-value	Identity	Description
YP_009447526.1	2.0e-04	80.65	RNA polymerase beta' subunit [Cucurbita moschata] >ATY69968.1 RNA polymerase bet...	[more]
QGA85001.1	3.4e-04	77.42	RNA polymerase beta subunit, partial [Entada rheedei]	[more]
YP_009707875.1	4.5e-04	77.42	RNA polymerase beta subunit [Begonia pulchrifolia] >QEU52800.1 RNA polymerase be...	[more]
YP_009108750.1	5.8e-04	77.42	RNA polymerase beta' subunit [Oncinotis tenuiloba] >AIW05596.1 RNA polymerase be...	[more]
YP_009489820.1	5.8e-04	77.42	RNA polymerase beta [Paeonia brownii] >AWH11090.1 RNA polymerase beta [Paeonia b...	[more]

BLAST of CaUC10G197650.1 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q4VZP2	1.0e-06	77.42	DNA-directed RNA polymerase subunit beta' OS=Cucumis sativus OX=3659 GN=rpoC1 PE...	[more]
A4QJA6	1.7e-06	74.19	DNA-directed RNA polymerase subunit beta' OS=Aethionema cordifolium OX=434059 GN...	[more]
A4QJJ0	1.7e-06	74.19	DNA-directed RNA polymerase subunit beta' OS=Aethionema grandiflorum OX=72657 GN...	[more]
Q0G9M8	2.9e-06	74.19	DNA-directed RNA polymerase subunit beta' OS=Liriodendron tulipifera OX=3415 GN=...	[more]
Q68S15	2.9e-06	74.19	DNA-directed RNA polymerase subunit beta' OS=Panax ginseng OX=4054 GN=rpoC1 PE=3...	[more]

BLAST of CaUC10G197650.1 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A2H4T262	9.7e-05	80.65	DNA-directed RNA polymerase subunit beta' OS=Cucurbita moschata OX=3662 GN=rpoC1...	[more]
K4CCX8	1.7e-04	38.30	RuBisCO_large domain-containing protein OS=Solanum lycopersicum OX=4081 PE=4 SV=...	[more]
A0A5Q0UU94	1.7e-04	77.42	DNA-directed RNA polymerase subunit (Fragment) OS=Entada rheedei OX=204974 GN=rp...	[more]
A0A5J6E406	2.2e-04	77.42	DNA-directed RNA polymerase subunit beta' OS=Begonia pulchrifolia OX=1691898 GN=...	[more]
K4DG82	2.2e-04	75.00	Uncharacterized protein OS=Solanum lycopersicum OX=4081 PE=4 SV=1	[more]

BLAST of CaUC10G197650.1 vs. TAIR 10


Match Name	E-value	Identity	Description
ATCG00180.1	7.9e-07	70.97	DNA-directed RNA polymerase family protein	[more]

InterPro

Analysis Name: InterPro Annotations of Watermelon (USVL246-FR2) v1
Date Performed: 2022-01-31


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 1..21
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 1..19

Relationships

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


Feature Name	Unique Name	Type
CaUC10G197650	CaUC10G197650	gene

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


Feature Name	Unique Name	Type
CaUC10G197650.1-exon	CaUC10G197650.1-exon-Ciama_Chr10:33219264..33219271	exon
CaUC10G197650.1-exon	CaUC10G197650.1-exon-Ciama_Chr10:33219306..33219425	exon
CaUC10G197650.1-exon	CaUC10G197650.1-exon-Ciama_Chr10:33220104..33220215	exon
CaUC10G197650.1-exon	CaUC10G197650.1-exon-Ciama_Chr10:33220280..33220339	exon
CaUC10G197650.1-exon	CaUC10G197650.1-exon-Ciama_Chr10:33220905..33221033	exon

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


Feature Name	Unique Name	Type
CaUC10G197650.1-cds	CaUC10G197650.1-cds-Ciama_Chr10:33219264..33219271	CDS
CaUC10G197650.1-cds	CaUC10G197650.1-cds-Ciama_Chr10:33219306..33219425	CDS
CaUC10G197650.1-cds	CaUC10G197650.1-cds-Ciama_Chr10:33220104..33220215	CDS
CaUC10G197650.1-cds	CaUC10G197650.1-cds-Ciama_Chr10:33220280..33220339	CDS
CaUC10G197650.1-cds	CaUC10G197650.1-cds-Ciama_Chr10:33220905..33221033	CDS

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


Feature Name	Unique Name	Type
CaUC10G197650.1	CaUC10G197650.1-protein	polypeptide