CaUC09G172180 (gene) Watermelon (USVL246-FR2) v1

Overview


Name	CaUC09G172180
Type	gene
Organism	Citrullus amarus (Watermelon (USVL246-FR2) v1)
Description	RNA polymerase sigma factor
Location	Ciama_Chr09: 26552973 .. 26553937 (+)
RNA-Seq Expression	CaUC09G172180
Synteny	CaUC09G172180

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.

ATGATACTGGACAATGTGAAAGCTAGACTTCAGTTTCAGTTTGGCCGTGAACCTACTTTGGTTGAATGGGCTGAAGCTCTAGGGCTTACTTGTCAACGCTTATCGTCACAGTTTCACTCCTTTTGGATCGGTCGTGAAAAGCTGATTAATGCAAATTTGCAAATCGTAGTTCACATCGCTAAATAATATCAGGGTCGTGATTTCAGCCTTCCAAAACTAATTGCAGGACAGAAGCTTGGGACTTATGAACGGTGTAGTAAAATTCAAACCGCAAGCTGGTTGCCGCTTTGCCACTTATGCTTATTGATGGATTAGGCAATCAATTAGGAAGGTGATATTCGAACACTCTAGAACAATTCGTTTACCAGAAAATGCATATGGCCTCCTTGGAAAGGTGACGGAGGCCAAGAATTAATGCGTCGCTATAATTTTTTACTTCTTCGAAGTTTTTCCCTAGTTGGTTCTCCTCATGGAAGTGAACTGCTGTATTGGTAATACATTTTTCTGTATTAGAAGAGACAAGGATGCAATTCTGGTAGAAGATACAAAATTTAGACAAGTAATCTCCCTTTCTTTCTCGAATCTAAGCTGGTTTCAGAGTTACATCAACTGCCAGTAATTTTGAAATTCCTTAAGGACAGGGACTCTTCTGGAACACTTTGTTTAACCAAGCTACGGTCTCAAAATTGATGGGGTTTTGAATGTACAATTTGGCCGCCAATGAGGGAAGAAAGCAGTTTCATTTTCCGGCTAGCCCCAAGAAGAGAGGTTGGCTTGTTTTTTGGGAAATGTTAAGAGATTTTTCATTACTTCAAGCGAAAAAAGAATCTGCAATGATGGACCCTTCCAAACAGCCAGTCAGCAGAGATAGCCTGATTTTGGAAGTTGATCGGAAGAATTCCAGAAGTTATGTTGAAGTAGTGAAGAAGAAGTTGTCAACCGGTCAGAGTACTGAACACCTTTAA

mRNA sequence

ATGATACTGGACAATGTGAAAGCTAGACTTCAGTTTCAGTTTGGCCGTGAACCTACTTTGGTTGAATGGGCTGAAGCTCTAGGGCTTACTTGTCAACGCTTATCGTCACAGTTTCACTCCTTTTGGATCGGTCGTGAAAAGCTGATTAATGCAAATTTGCAAATCCTGGTTTCAGAGTTACATCAACTGCCAGTAATTTTGAAATTCCTTAAGGACAGGGACTCTTCTGGAACACTTTGTTTAACCAAGCTACGAAAGCAGTTTCATTTTCCGGCTAGCCCCAAGAAGAGAGGTTGGCTTGTTTTTTGGGAAATGTTAAGAGATTTTTCATTACTTCAAGCGAAAAAAGAATCTGCAATGATGGACCCTTCCAAACAGCCAGTCAGCAGAGATAGCCTGATTTTGGAAGTTGATCGGAAGAATTCCAGAAGTTATGTTGAAGTAGTGAAGAAGAAGTTGTCAACCGGTCAGAGTACTGAACACCTTTAA

Coding sequence (CDS)

ATGATACTGGACAATGTGAAAGCTAGACTTCAGTTTCAGTTTGGCCGTGAACCTACTTTGGTTGAATGGGCTGAAGCTCTAGGGCTTACTTGTCAACGCTTATCGTCACAGTTTCACTCCTTTTGGATCGGTCGTGAAAAGCTGATTAATGCAAATTTGCAAATCCTGGTTTCAGAGTTACATCAACTGCCAGTAATTTTGAAATTCCTTAAGGACAGGGACTCTTCTGGAACACTTTGTTTAACCAAGCTACGAAAGCAGTTTCATTTTCCGGCTAGCCCCAAGAAGAGAGGTTGGCTTGTTTTTTGGGAAATGTTAAGAGATTTTTCATTACTTCAAGCGAAAAAAGAATCTGCAATGATGGACCCTTCCAAACAGCCAGTCAGCAGAGATAGCCTGATTTTGGAAGTTGATCGGAAGAATTCCAGAAGTTATGTTGAAGTAGTGAAGAAGAAGTTGTCAACCGGTCAGAGTACTGAACACCTTTAA

Protein sequence

MILDNVKARLQFQFGREPTLVEWAEALGLTCQRLSSQFHSFWIGREKLINANLQILVSELHQLPVILKFLKDRDSSGTLCLTKLRKQFHFPASPKKRGWLVFWEMLRDFSLLQAKKESAMMDPSKQPVSRDSLILEVDRKNSRSYVEVVKKKLSTGQSTEHL

Homology

[Close]

BLAST of CaUC09G172180 vs. NCBI nr
Match: XP_038882876.1 (RNA polymerase sigma factor sigF, chloroplastic [Benincasa hispida])

HSP 1 Score: 103.2 bits (256), Expect = 2.1e-18
Identity = 58/103 (56.31%), Postives = 68/103 (66.02%), Query Frame = 0


Query: 1   MILDNVKARLQFQFGREPTLVEWAEALGLTCQRLSSQFHSFWIGREKLINANLQILVSEL 60
           MILDNVKARLQ QFGREPTLVEWAEALGLTCQRL SQ  SF I REKLINANL+++V   
Sbjct: 273 MILDNVKARLQSQFGREPTLVEWAEALGLTCQRLQSQLQSFRISREKLINANLRMVVHIA 332

Query: 61  HQLPVILKFLKDRDSSGTLCLTKLRKQFHFPASPKKRGWLVFW 104
            Q       L+D    G+L L K  ++F   A  +   +  +W
Sbjct: 333 KQYQGRGLSLQDLLQEGSLGLMKSVEKFKPQAGCRFATYAYWW 375

[Close]

BLAST of CaUC09G172180 vs. NCBI nr
Match: XP_023543698.1 (RNA polymerase sigma factor sigF, chloroplastic [Cucurbita pepo subsp. pepo])

HSP 1 Score: 101.7 bits (252), Expect = 6.2e-18
Identity = 56/103 (54.37%), Postives = 67/103 (65.05%), Query Frame = 0


Query: 1   MILDNVKARLQFQFGREPTLVEWAEALGLTCQRLSSQFHSFWIGREKLINANLQILVSEL 60
           MILDNVK RLQ QFGREPTLVEWAEALGLTCQRL SQ HSF + REKLINANL+++V   
Sbjct: 545 MILDNVKVRLQSQFGREPTLVEWAEALGLTCQRLQSQLHSFRVSREKLINANLRMVVHIA 604

Query: 61  HQLPVILKFLKDRDSSGTLCLTKLRKQFHFPASPKKRGWLVFW 104
            +       L D    G+L L K  ++F   A  +   +  +W
Sbjct: 605 KRYQGRGLSLHDLLQVGSLGLMKSVEKFKQQAGCRFATYAYWW 647

[Close]

BLAST of CaUC09G172180 vs. NCBI nr
Match: KAG7034557.1 (RNA polymerase sigma factor sigF, chloroplastic [Cucurbita argyrosperma subsp. argyrosperma])

HSP 1 Score: 101.7 bits (252), Expect = 6.2e-18
Identity = 56/103 (54.37%), Postives = 67/103 (65.05%), Query Frame = 0


Query: 1   MILDNVKARLQFQFGREPTLVEWAEALGLTCQRLSSQFHSFWIGREKLINANLQILVSEL 60
           MILDNVK RLQ QFGREPTLVEWAEALGLTCQRL SQ HSF + REKLINANL+++V   
Sbjct: 233 MILDNVKVRLQSQFGREPTLVEWAEALGLTCQRLQSQLHSFRVSREKLINANLRMVVHIA 292

Query: 61  HQLPVILKFLKDRDSSGTLCLTKLRKQFHFPASPKKRGWLVFW 104
            +       L D    G+L L K  ++F   A  +   +  +W
Sbjct: 293 KRYQGRGLSLHDLLQVGSLGLMKSVEKFKQQAGCRFATYAYWW 335

[Close]

BLAST of CaUC09G172180 vs. NCBI nr
Match: XP_022978801.1 (RNA polymerase sigma factor sigF, chloroplastic [Cucurbita maxima])

HSP 1 Score: 101.7 bits (252), Expect = 6.2e-18
Identity = 56/103 (54.37%), Postives = 67/103 (65.05%), Query Frame = 0


Query: 1   MILDNVKARLQFQFGREPTLVEWAEALGLTCQRLSSQFHSFWIGREKLINANLQILVSEL 60
           MILDNVK RLQ QFGREPTLVEWAEALGLTCQRL SQ HSF + REKLINANL+++V   
Sbjct: 544 MILDNVKVRLQSQFGREPTLVEWAEALGLTCQRLQSQLHSFRVSREKLINANLRMVVHIA 603

Query: 61  HQLPVILKFLKDRDSSGTLCLTKLRKQFHFPASPKKRGWLVFW 104
            +       L D    G+L L K  ++F   A  +   +  +W
Sbjct: 604 KRYQGRGLSLHDLLQVGSLGLMKSVEKFKQQAGCRFATYAYWW 646

[Close]

BLAST of CaUC09G172180 vs. NCBI nr
Match: XP_022926086.1 (RNA polymerase sigma factor sigF, chloroplastic-like [Cucurbita moschata])

HSP 1 Score: 101.7 bits (252), Expect = 6.2e-18
Identity = 56/103 (54.37%), Postives = 67/103 (65.05%), Query Frame = 0


Query: 1   MILDNVKARLQFQFGREPTLVEWAEALGLTCQRLSSQFHSFWIGREKLINANLQILVSEL 60
           MILDNVK RLQ QFGREPTLVEWAEALGLTCQRL SQ HSF + REKLINANL+++V   
Sbjct: 544 MILDNVKVRLQSQFGREPTLVEWAEALGLTCQRLQSQLHSFRVSREKLINANLRMVVHIA 603

Query: 61  HQLPVILKFLKDRDSSGTLCLTKLRKQFHFPASPKKRGWLVFW 104
            +       L D    G+L L K  ++F   A  +   +  +W
Sbjct: 604 KRYQGRGLSLHDLLQVGSLGLMKSVEKFKQQAGCRFATYAYWW 646

[Close]

BLAST of CaUC09G172180 vs. ExPASy Swiss-Prot
Match: Q9LD95 (RNA polymerase sigma factor sigF, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=SIGF PE=1 SV=1)

HSP 1 Score: 58.5 bits (140), Expect = 7.9e-08
Identity = 36/101 (35.64%), Postives = 53/101 (52.48%), Query Frame = 0


Query: 3   LDNVKARLQFQFGREPTLVEWAEALGLTCQRLSSQFHSFWIGREKLINANLQILVSELHQ 62
           L+ VK +L+ Q G EPT+ EWAEA+G++   L S  H     REKLI ANL+++V    Q
Sbjct: 266 LEKVKTKLESQNGCEPTIGEWAEAMGISSPVLKSDIHRGRSSREKLITANLRLVVHIAKQ 325

Query: 63  LPVILKFLKDRDSSGTLCLTKLRKQFHFPASPKKRGWLVFW 104
                   +D    G++ L K  ++F  P S  +     +W
Sbjct: 326 YQNRGLNFQDLLQEGSMGLMKSVEKFK-PQSGCRFATYAYW 365

[Close]

BLAST of CaUC09G172180 vs. ExPASy TrEMBL
Match: A0A6J1IP18 (RNA polymerase sigma factor sigF, chloroplastic OS=Cucurbita maxima OX=3661 GN=LOC111478657 PE=3 SV=1)

HSP 1 Score: 101.7 bits (252), Expect = 3.0e-18
Identity = 56/103 (54.37%), Postives = 67/103 (65.05%), Query Frame = 0


Query: 1   MILDNVKARLQFQFGREPTLVEWAEALGLTCQRLSSQFHSFWIGREKLINANLQILVSEL 60
           MILDNVK RLQ QFGREPTLVEWAEALGLTCQRL SQ HSF + REKLINANL+++V   
Sbjct: 544 MILDNVKVRLQSQFGREPTLVEWAEALGLTCQRLQSQLHSFRVSREKLINANLRMVVHIA 603

Query: 61  HQLPVILKFLKDRDSSGTLCLTKLRKQFHFPASPKKRGWLVFW 104
            +       L D    G+L L K  ++F   A  +   +  +W
Sbjct: 604 KRYQGRGLSLHDLLQVGSLGLMKSVEKFKQQAGCRFATYAYWW 646

[Close]

BLAST of CaUC09G172180 vs. ExPASy TrEMBL
Match: A0A6J1EDW3 (RNA polymerase sigma factor sigF, chloroplastic-like OS=Cucurbita moschata OX=3662 GN=LOC111433307 PE=3 SV=1)

HSP 1 Score: 101.7 bits (252), Expect = 3.0e-18
Identity = 56/103 (54.37%), Postives = 67/103 (65.05%), Query Frame = 0


Query: 1   MILDNVKARLQFQFGREPTLVEWAEALGLTCQRLSSQFHSFWIGREKLINANLQILVSEL 60
           MILDNVK RLQ QFGREPTLVEWAEALGLTCQRL SQ HSF + REKLINANL+++V   
Sbjct: 544 MILDNVKVRLQSQFGREPTLVEWAEALGLTCQRLQSQLHSFRVSREKLINANLRMVVHIA 603

Query: 61  HQLPVILKFLKDRDSSGTLCLTKLRKQFHFPASPKKRGWLVFW 104
            +       L D    G+L L K  ++F   A  +   +  +W
Sbjct: 604 KRYQGRGLSLHDLLQVGSLGLMKSVEKFKQQAGCRFATYAYWW 646

[Close]

BLAST of CaUC09G172180 vs. ExPASy TrEMBL
Match: A0A1S4E3S8 (RNA polymerase sigma factor sigF, chloroplastic isoform X1 OS=Cucumis melo OX=3656 GN=LOC103500810 PE=3 SV=1)

HSP 1 Score: 100.1 bits (248), Expect = 8.7e-18
Identity = 55/103 (53.40%), Postives = 67/103 (65.05%), Query Frame = 0


Query: 1   MILDNVKARLQFQFGREPTLVEWAEALGLTCQRLSSQFHSFWIGREKLINANLQILVSEL 60
           MILDNVKA+LQ QFGREPTLVEWAEALG+TCQ+L SQ HSF   REKLINANL+++V   
Sbjct: 550 MILDNVKAKLQSQFGREPTLVEWAEALGITCQQLQSQLHSFRTSREKLINANLRMVVHIA 609

Query: 61  HQLPVILKFLKDRDSSGTLCLTKLRKQFHFPASPKKRGWLVFW 104
            Q       L D    G+L L K  ++F   A  +   +  +W
Sbjct: 610 KQYLGRGLSLHDLLQEGSLGLMKSVEKFKPQAGCRFASYAYWW 652

[Close]

BLAST of CaUC09G172180 vs. ExPASy TrEMBL
Match: A0A5A7V893 (RNA polymerase sigma factor sigF OS=Cucumis melo var. makuwa OX=1194695 GN=E6C27_scaffold827G00350 PE=3 SV=1)

HSP 1 Score: 100.1 bits (248), Expect = 8.7e-18
Identity = 55/103 (53.40%), Postives = 67/103 (65.05%), Query Frame = 0


Query: 1   MILDNVKARLQFQFGREPTLVEWAEALGLTCQRLSSQFHSFWIGREKLINANLQILVSEL 60
           MILDNVKA+LQ QFGREPTLVEWAEALG+TCQ+L SQ HSF   REKLINANL+++V   
Sbjct: 550 MILDNVKAKLQSQFGREPTLVEWAEALGITCQQLQSQLHSFRTSREKLINANLRMVVHIA 609

Query: 61  HQLPVILKFLKDRDSSGTLCLTKLRKQFHFPASPKKRGWLVFW 104
            Q       L D    G+L L K  ++F   A  +   +  +W
Sbjct: 610 KQYLGRGLSLHDLLQEGSLGLMKSVEKFKPQAGCRFASYAYWW 652

[Close]

BLAST of CaUC09G172180 vs. ExPASy TrEMBL
Match: A0A5D3CAF4 (RNA polymerase sigma factor OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold202G00200 PE=3 SV=1)

HSP 1 Score: 100.1 bits (248), Expect = 8.7e-18
Identity = 55/103 (53.40%), Postives = 67/103 (65.05%), Query Frame = 0


Query: 1   MILDNVKARLQFQFGREPTLVEWAEALGLTCQRLSSQFHSFWIGREKLINANLQILVSEL 60
           MILDNVKA+LQ QFGREPTLVEWAEALG+TCQ+L SQ HSF   REKLINANL+++V   
Sbjct: 235 MILDNVKAKLQSQFGREPTLVEWAEALGITCQQLQSQLHSFRTSREKLINANLRMVVHIA 294

Query: 61  HQLPVILKFLKDRDSSGTLCLTKLRKQFHFPASPKKRGWLVFW 104
            Q       L D    G+L L K  ++F   A  +   +  +W
Sbjct: 295 KQYLGRGLSLHDLLQEGSLGLMKSVEKFKPQAGCRFASYAYWW 337

[Close]

BLAST of CaUC09G172180 vs. TAIR 10
Match: AT2G36990.1 (RNApolymerase sigma-subunit F )

HSP 1 Score: 58.5 bits (140), Expect = 5.6e-09
Identity = 36/101 (35.64%), Postives = 53/101 (52.48%), Query Frame = 0


Query: 3   LDNVKARLQFQFGREPTLVEWAEALGLTCQRLSSQFHSFWIGREKLINANLQILVSELHQ 62
           L+ VK +L+ Q G EPT+ EWAEA+G++   L S  H     REKLI ANL+++V    Q
Sbjct: 266 LEKVKTKLESQNGCEPTIGEWAEAMGISSPVLKSDIHRGRSSREKLITANLRLVVHIAKQ 325

Query: 63  LPVILKFLKDRDSSGTLCLTKLRKQFHFPASPKKRGWLVFW 104
                   +D    G++ L K  ++F  P S  +     +W
Sbjct: 326 YQNRGLNFQDLLQEGSMGLMKSVEKFK-PQSGCRFATYAYW 365

The following BLAST results are available for this feature:

BLAST of CaUC09G172180 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_038882876.1	2.1e-18	56.31	RNA polymerase sigma factor sigF, chloroplastic [Benincasa hispida]	[more]
XP_023543698.1	6.2e-18	54.37	RNA polymerase sigma factor sigF, chloroplastic [Cucurbita pepo subsp. pepo]	[more]
KAG7034557.1	6.2e-18	54.37	RNA polymerase sigma factor sigF, chloroplastic [Cucurbita argyrosperma subsp. a...	[more]
XP_022978801.1	6.2e-18	54.37	RNA polymerase sigma factor sigF, chloroplastic [Cucurbita maxima]	[more]
XP_022926086.1	6.2e-18	54.37	RNA polymerase sigma factor sigF, chloroplastic-like [Cucurbita moschata]	[more]

BLAST of CaUC09G172180 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q9LD95	7.9e-08	35.64	RNA polymerase sigma factor sigF, chloroplastic OS=Arabidopsis thaliana OX=3702 ...	[more]

BLAST of CaUC09G172180 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A6J1IP18	3.0e-18	54.37	RNA polymerase sigma factor sigF, chloroplastic OS=Cucurbita maxima OX=3661 GN=L...	[more]
A0A6J1EDW3	3.0e-18	54.37	RNA polymerase sigma factor sigF, chloroplastic-like OS=Cucurbita moschata OX=36...	[more]
A0A1S4E3S8	8.7e-18	53.40	RNA polymerase sigma factor sigF, chloroplastic isoform X1 OS=Cucumis melo OX=36...	[more]
A0A5A7V893	8.7e-18	53.40	RNA polymerase sigma factor sigF OS=Cucumis melo var. makuwa OX=1194695 GN=E6C27...	[more]
A0A5D3CAF4	8.7e-18	53.40	RNA polymerase sigma factor OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaf...	[more]

BLAST of CaUC09G172180 vs. TAIR 10


Match Name	E-value	Identity	Description
AT2G36990.1	5.6e-09	35.64	RNApolymerase sigma-subunit F	[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	PANTHER	PTHR30603:SF50	RNA POLYMERASE SIGMA-70 LIKE DOMAIN, RNA POLYMERASE SIGMA-B/F/G TYPE-RELATED	coord: 3..58
None	No IPR available	PANTHER	PTHR30603	RNA POLYMERASE SIGMA FACTOR RPO	coord: 3..58

Relationships

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


Feature Name	Unique Name	Type
CaUC09G172180.1	CaUC09G172180.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006355	regulation of transcription, DNA-templated