CmoCh18G005790 (gene) Cucurbita moschata (Rifu) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CmoCh18G005790
Type	gene
Organism	Cucurbita moschata (Cucurbita moschata (Rifu))
Description	Pentatricopeptide repeat-containing protein, chloroplastic
Location	Cmo_Chr18 : 5468147 .. 5469549 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDSexon

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

ATGAAGGCTATAGGCATCAACCCAAACTTGGTTATATATGCTATTGGTAGGGCTAAAAGGCCATGGAAGATCAAGACCCTCTACAAAGAGATGATTAAAAATGGACTTTTGCCAAGTTGGACATCTTATGCTTCTCTTTTACAAGCCTATGGGGGAGCCAGATACGGTGAGGAGGCTCTCCTTGTGTACAAGGAGATAACGGAAAAGGAACTGCAGCCGAATGTTATTCTCTACAATATACTTTTAGCTATGTGTGCTGTGAGTCACACTCGCATTCTTACCGTAGCGGAACAAGCCCAGCAAATAAGTCAACTGTGAGAAATTCGTCCTTGGTGGACAACGTCGGCCTATGCTTGAGGCTCAGGTCACGTTTGTGAGAAATGTTTTAGAAAACGTGAGTGAGGAATACATTTGATTGAAGAATTGAAGAAAGCAACGTTATATGGCTATAAGAAAAGAAAGGAACACTACGGCTTAAATAGCATATAACTCAAGGTAAGAAGAATGATGTCACTTGTCATACCCCCCTCTAATACATTTTGGGGTATTTTAGCCGTGGCGAGTATAGACATGATTTTGGTGAACTGTCATATATTGACACAACATGAAATAGTAAAAACCTATCTAAGATGAAAGCATGTAAAAGGGATTTGGAACAAACATGCGACCATGGACAACACGTCTTGGACAAGTATGACCGGGACATCCGACATGCGCCATAGACAACACTCCTTGGACAAGCATGATCGTGACACTATATTGGCTACATCAATGAAGCCATTGACAATTCAGGGCTTGATCATGAGTTTATAATTAAAATTTTGTTAGCTACTATTGGGTATAAGTAGCGGGTGGAATTGGGAGAGAAGAAAGAGTATTTTTCACCATTGGCATGAGACCTTCTAGAGAAACCAAAATCAAAGTTACGAGAATTTTGCTCAAAATAGACAAATATCTTACCATTATGGAGAGTTGTGATTCGTATCTTACCATTATGGAGAGTTGTGATTCCTAACAAGATATTCTTCCGAGTTAGTAGAGTTAAAAGGCTTCTTTCACTAGGAGAGTTATTAAGGCTTCTTTCAGAGTTGATATTATTAAAAGCATTGAGTTTGATCTTTTAAAATTTTTATAATTTCTTGGTCAGAACTCTGTGGTGTGCAGTTAACATGGTACTGTCTTCTTATTTCTTATCTTTAATTCCCCATTGAAGTCGTTGGGTGTGTCTATTATATATTCATACAGGTCCTGAAGCAGTGTTATGCTTGGCACGTTGTCATCTCATGCCCTTCCAATGGACAAACATCTCAAACCCACATGCTATACATATTCACGAGACTTCCATTCCTTCTCCATTCATTGACAAAATGGGAAACTGCATCATCTTGCCTTGCGTTCACTGA

mRNA sequence

ATGAAGGCTATAGGCATCAACCCAAACTTGGTTATATATGCTATTGGTAGGGCTAAAAGGCCATGGAAGATCAAGACCCTCTACAAAGAGATGATTAAAAATGGACTTTTGCCAAGTTGGACATCTTATGCTTCTCTTTTACAAGCCTATGGGGGAGCCAGATACGGTCCTGAAGCAGTGTTATGCTTGGCACGTTGTCATCTCATGCCCTTCCAATGGACAAACATCTCAAACCCACATGCTATACATATTCACGAGACTTCCATTCCTTCTCCATTCATTGACAAAATGGGAAACTGCATCATCTTGCCTTGCGTTCACTGA

Coding sequence (CDS)

ATGAAGGCTATAGGCATCAACCCAAACTTGGTTATATATGCTATTGGTAGGGCTAAAAGGCCATGGAAGATCAAGACCCTCTACAAAGAGATGATTAAAAATGGACTTTTGCCAAGTTGGACATCTTATGCTTCTCTTTTACAAGCCTATGGGGGAGCCAGATACGGTCCTGAAGCAGTGTTATGCTTGGCACGTTGTCATCTCATGCCCTTCCAATGGACAAACATCTCAAACCCACATGCTATACATATTCACGAGACTTCCATTCCTTCTCCATTCATTGACAAAATGGGAAACTGCATCATCTTGCCTTGCGTTCACTGA

Homology

[Close]

BLAST of CmoCh18G005790 vs. Swiss-Prot
Match: PP314_ARATH (Pentatricopeptide repeat-containing protein At4g16390, chloroplastic OS=Arabidopsis thaliana GN=P67 PE=1 SV=3)

HSP 1 Score: 85.1 bits (209), Expect = 5.0e-16
Identity = 36/65 (55.38%), Postives = 52/65 (80.00%), Query Frame = 1


Query: 1   MKAIGINPNLVIY-----AIGRAKRPWKIKTLYKEMIKNGLLPSWTSYASLLQAYGGARY 60
           MKA+G+ PNLVIY     ++GRAKRPW+ K +YK++I NG  P+W++YA+L++AYG ARY
Sbjct: 306 MKALGVKPNLVIYNRLIDSMGRAKRPWQAKIIYKDLITNGFTPNWSTYAALVRAYGRARY 365

[Close]

BLAST of CmoCh18G005790 vs. TrEMBL
Match: A0A0A0LVP1_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_1G173140 PE=4 SV=1)

HSP 1 Score: 99.8 bits (247), Expect = 2.2e-18
Identity = 47/66 (71.21%), Postives = 55/66 (83.33%), Query Frame = 1


Query: 1   MKAIGINPNLVIY-----AIGRAKRPWKIKTLYKEMIKNGLLPSWTSYASLLQAYGGARY 60
           MKAIGI PNLVIY     A+GRAKRPW+IKT+YKEMIKNG  PSW +YASLL+AYG ARY
Sbjct: 310 MKAIGIKPNLVIYNCLLDAMGRAKRPWQIKTIYKEMIKNGFSPSWATYASLLRAYGRARY 369

Query: 61  GPEAVL 62
           G +A++
Sbjct: 370 GEDALI 375

[Close]

BLAST of CmoCh18G005790 vs. TrEMBL
Match: V4WA55_9ROSI (Uncharacterized protein OS=Citrus clementina GN=CICLE_v10014469mg PE=4 SV=1)

HSP 1 Score: 89.7 bits (221), Expect = 2.3e-15
Identity = 39/65 (60.00%), Postives = 51/65 (78.46%), Query Frame = 1


Query: 1   MKAIGINPNLVIY-----AIGRAKRPWKIKTLYKEMIKNGLLPSWTSYASLLQAYGGARY 60
           MKAIG+ PN++ Y      +GRAKRPW++KT+YKEM  NGL P+W +YASLL+AYG ARY
Sbjct: 296 MKAIGVKPNMITYNNLLDTMGRAKRPWQVKTIYKEMTDNGLSPNWNTYASLLRAYGRARY 355

[Close]

BLAST of CmoCh18G005790 vs. TrEMBL
Match: A0A0D2UIS0_GOSRA (Uncharacterized protein OS=Gossypium raimondii GN=B456_010G249100 PE=4 SV=1)

HSP 1 Score: 88.2 bits (217), Expect = 6.6e-15
Identity = 38/65 (58.46%), Postives = 52/65 (80.00%), Query Frame = 1


Query: 1   MKAIGINPNLVIY-----AIGRAKRPWKIKTLYKEMIKNGLLPSWTSYASLLQAYGGARY 60
           MKA+G+ PN+VIY     A+GRAKRPW+ K++YKEM+ NG  P+W +YA+LL+AYG ARY
Sbjct: 305 MKALGVKPNVVIYNTLLDAMGRAKRPWQAKSIYKEMLSNGFSPNWATYAALLRAYGRARY 364

[Close]

BLAST of CmoCh18G005790 vs. TrEMBL
Match: A0A067GFX3_CITSI (Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g005474mg PE=4 SV=1)

HSP 1 Score: 88.2 bits (217), Expect = 6.6e-15
Identity = 38/65 (58.46%), Postives = 50/65 (76.92%), Query Frame = 1


Query: 1  MKAIGINPNLVIY-----AIGRAKRPWKIKTLYKEMIKNGLLPSWTSYASLLQAYGGARY 60
          MKAIG+ PN++ Y      +GRAKRPW++KT+YKEM  NGL P+W +YASLL+AYG ARY
Sbjct: 1  MKAIGVKPNMITYNNLLDTMGRAKRPWQVKTIYKEMTDNGLSPNWNTYASLLRAYGRARY 60

[Close]

BLAST of CmoCh18G005790 vs. TrEMBL
Match: A0A067GT81_CITSI (Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g005474mg PE=4 SV=1)

HSP 1 Score: 88.2 bits (217), Expect = 6.6e-15
Identity = 38/65 (58.46%), Postives = 50/65 (76.92%), Query Frame = 1


Query: 1   MKAIGINPNLVIY-----AIGRAKRPWKIKTLYKEMIKNGLLPSWTSYASLLQAYGGARY 60
           MKAIG+ PN++ Y      +GRAKRPW++KT+YKEM  NGL P+W +YASLL+AYG ARY
Sbjct: 147 MKAIGVKPNMITYNNLLDTMGRAKRPWQVKTIYKEMTDNGLSPNWNTYASLLRAYGRARY 206

[Close]

BLAST of CmoCh18G005790 vs. TAIR10
Match: AT4G16390.1 (AT4G16390.1 pentatricopeptide (PPR) repeat-containing protein)

HSP 1 Score: 85.1 bits (209), Expect = 2.8e-17
Identity = 36/65 (55.38%), Postives = 52/65 (80.00%), Query Frame = 1


Query: 1   MKAIGINPNLVIY-----AIGRAKRPWKIKTLYKEMIKNGLLPSWTSYASLLQAYGGARY 60
           MKA+G+ PNLVIY     ++GRAKRPW+ K +YK++I NG  P+W++YA+L++AYG ARY
Sbjct: 306 MKALGVKPNLVIYNRLIDSMGRAKRPWQAKIIYKDLITNGFTPNWSTYAALVRAYGRARY 365

[Close]

BLAST of CmoCh18G005790 vs. TAIR10
Match: AT5G46580.1 (AT5G46580.1 pentatricopeptide (PPR) repeat-containing protein)

HSP 1 Score: 50.8 bits (120), Expect = 5.9e-07
Identity = 23/65 (35.38%), Postives = 43/65 (66.15%), Query Frame = 1


Query: 1   MKAIGINPNLVIY-----AIGRAKRPWKIKTLYKEMIKNGLLPSWTSYASLLQAYGGARY 60
           MK++ + PN+V+Y     A+GRA +P   ++L+ EM++ GL P+  +  +L++ YG AR+
Sbjct: 317 MKSMDVKPNVVVYNTLLEAMGRAGKPGLARSLFNEMLEAGLTPNEKTLTALVKIYGKARW 376

[Close]

BLAST of CmoCh18G005790 vs. NCBI nr
Match: gi|449443502|ref|XP_004139516.1| (PREDICTED: pentatricopeptide repeat-containing protein At4g16390, chloroplastic [Cucumis sativus])

HSP 1 Score: 99.8 bits (247), Expect = 3.2e-18
Identity = 47/66 (71.21%), Postives = 55/66 (83.33%), Query Frame = 1


Query: 1   MKAIGINPNLVIY-----AIGRAKRPWKIKTLYKEMIKNGLLPSWTSYASLLQAYGGARY 60
           MKAIGI PNLVIY     A+GRAKRPW+IKT+YKEMIKNG  PSW +YASLL+AYG ARY
Sbjct: 310 MKAIGIKPNLVIYNCLLDAMGRAKRPWQIKTIYKEMIKNGFSPSWATYASLLRAYGRARY 369

Query: 61  GPEAVL 62
           G +A++
Sbjct: 370 GEDALI 375

[Close]

BLAST of CmoCh18G005790 vs. NCBI nr
Match: gi|659128601|ref|XP_008464281.1| (PREDICTED: pentatricopeptide repeat-containing protein At4g16390, chloroplastic [Cucumis melo])

HSP 1 Score: 97.8 bits (242), Expect = 1.2e-17
Identity = 46/66 (69.70%), Postives = 55/66 (83.33%), Query Frame = 1


Query: 1   MKAIGINPNLVIY-----AIGRAKRPWKIKTLYKEMIKNGLLPSWTSYASLLQAYGGARY 60
           MKAIGI PNLVIY     A+GRAKRPW+IKT+YKEMIK+G  PSW +YASLL+AYG ARY
Sbjct: 310 MKAIGIKPNLVIYNSLLDAMGRAKRPWQIKTIYKEMIKSGFSPSWATYASLLRAYGRARY 369

Query: 61  GPEAVL 62
           G +A++
Sbjct: 370 GEDALI 375

[Close]

BLAST of CmoCh18G005790 vs. NCBI nr
Match: gi|297736717|emb|CBI25753.3| (unnamed protein product [Vitis vinifera])

HSP 1 Score: 90.1 bits (222), Expect = 2.5e-15
Identity = 44/85 (51.76%), Postives = 56/85 (65.88%), Query Frame = 1


Query: 1   MKAIGINPNLVIY-----AIGRAKRPWKIKTLYKEMIKNGLLPSWTSYASLLQAYGGARY 60
           MKA+G+ PNLVIY     A+GRAKRPW+ K +YKEM  NGL PSW +YA+LL+AYG ARY
Sbjct: 307 MKALGVKPNLVIYNTLLDAMGRAKRPWQAKNIYKEMTNNGLQPSWGTYAALLRAYGRARY 366

Query: 61  GPEAVLCLARC------HLMPFQWT 75
             +A++           + MP  WT
Sbjct: 367 AEDALIVYKEMKEKGSGNCMPDSWT 391

[Close]

BLAST of CmoCh18G005790 vs. NCBI nr
Match: gi|1021026512|gb|KZM84299.1| (hypothetical protein DCAR_028407 [Daucus carota subsp. sativus])

HSP 1 Score: 90.1 bits (222), Expect = 2.5e-15
Identity = 40/65 (61.54%), Postives = 51/65 (78.46%), Query Frame = 1


Query: 1   MKAIGINPNLVIY-----AIGRAKRPWKIKTLYKEMIKNGLLPSWTSYASLLQAYGGARY 60
           MKA+G+ PNL +Y     A+GR KRPW+ KT+YKEMI NGL PSW +YA+L++AYG ARY
Sbjct: 501 MKALGVKPNLFLYNNLIDAMGRGKRPWQAKTIYKEMIGNGLTPSWATYAALIRAYGRARY 560

[Close]

BLAST of CmoCh18G005790 vs. NCBI nr
Match: gi|567915211|ref|XP_006449919.1| (hypothetical protein CICLE_v10014469mg [Citrus clementina])

HSP 1 Score: 89.7 bits (221), Expect = 3.3e-15
Identity = 39/65 (60.00%), Postives = 51/65 (78.46%), Query Frame = 1


Query: 1   MKAIGINPNLVIY-----AIGRAKRPWKIKTLYKEMIKNGLLPSWTSYASLLQAYGGARY 60
           MKAIG+ PN++ Y      +GRAKRPW++KT+YKEM  NGL P+W +YASLL+AYG ARY
Sbjct: 296 MKAIGVKPNMITYNNLLDTMGRAKRPWQVKTIYKEMTDNGLSPNWNTYASLLRAYGRARY 355

The following BLAST results are available for this feature:

BLAST of CmoCh18G005790 vs. Swiss-Prot


Match Name	E-value	Identity	Description
PP314_ARATH	5.0e-16	55.38	Pentatricopeptide repeat-containing protein At4g16390, chloroplastic OS=Arabidop...	[more]

BLAST of CmoCh18G005790 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0LVP1_CUCSA	2.2e-18	71.21	Uncharacterized protein OS=Cucumis sativus GN=Csa_1G173140 PE=4 SV=1	[more]
V4WA55_9ROSI	2.3e-15	60.00	Uncharacterized protein OS=Citrus clementina GN=CICLE_v10014469mg PE=4 SV=1	[more]
A0A0D2UIS0_GOSRA	6.6e-15	58.46	Uncharacterized protein OS=Gossypium raimondii GN=B456_010G249100 PE=4 SV=1	[more]
A0A067GFX3_CITSI	6.6e-15	58.46	Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g005474mg PE=4 SV=1	[more]
A0A067GT81_CITSI	6.6e-15	58.46	Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g005474mg PE=4 SV=1	[more]

BLAST of CmoCh18G005790 vs. TAIR10


Match Name	E-value	Identity	Description
AT4G16390.1	2.8e-17	55.38	pentatricopeptide (PPR) repeat-containing protein	[more]
AT5G46580.1	5.9e-07	35.38	pentatricopeptide (PPR) repeat-containing protein	[more]

BLAST of CmoCh18G005790 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|449443502\|ref\|XP_004139516.1\|	3.2e-18	71.21	PREDICTED: pentatricopeptide repeat-containing protein At4g16390, chloroplastic ...	[more]
gi\|659128601\|ref\|XP_008464281.1\|	1.2e-17	69.70	PREDICTED: pentatricopeptide repeat-containing protein At4g16390, chloroplastic ...	[more]
gi\|297736717\|emb\|CBI25753.3\|	2.5e-15	51.76	unnamed protein product [Vitis vinifera]	[more]
gi\|1021026512\|gb\|KZM84299.1\|	2.5e-15	61.54	hypothetical protein DCAR_028407 [Daucus carota subsp. sativus]	[more]
gi\|567915211\|ref\|XP_006449919.1\|	3.3e-15	60.00	hypothetical protein CICLE_v10014469mg [Citrus clementina]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0008150	biological_process
biological_process	GO:0009658	chloroplast organization
biological_process	GO:0031425	chloroplast RNA processing
biological_process	GO:0045727	positive regulation of translation
cellular_component	GO:0005575	cellular_component
cellular_component	GO:0009570	chloroplast stroma
molecular_function	GO:0003674	molecular_function
molecular_function	GO:0005515	protein binding

Relationships

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


Feature Name	Unique Name	Type
CmoCh18G005790.1	CmoCh18G005790.1	mRNA

InterPro

Analysis Name: InterPro Annotations of Cucurbita moschata
Date Performed: 2017-05-19


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PANTHER	PTHR24015	FAMILY NOT NAMED	coord: 1..59 score: 5.6
None	No IPR available	PANTHER	PTHR24015:SF437	SUBFAMILY NOT NAMED	coord: 1..59 score: 5.6

Synteny

The following gene(s) are orthologous to this gene:


Gene	Orthologue	Organism	Block
CmoCh18G005790	Lsi02G011550	Bottle gourd (USVL1VR-Ls)	cmolsiB359
CmoCh18G005790	Cla97C01G010710	Watermelon (97103) v2	cmowmbB380

The following gene(s) are paralogous to this gene:


Gene	Paralogue	Organism	Block
CmoCh18G005790	CmoCh13G003960	Cucurbita moschata (Rifu)	cmocmoB168

The following block(s) are covering this gene:


Gene	Organism	Block
CmoCh18G005790	Cucumber (Gy14) v2	cgybcmoB084
CmoCh18G005790	Silver-seed gourd	carcmoB0063
CmoCh18G005790	Silver-seed gourd	carcmoB1391
CmoCh18G005790	Cucumber (Chinese Long) v3	cmocucB0459
CmoCh18G005790	Wax gourd	cmowgoB0521
CmoCh18G005790	Cucurbita moschata (Rifu)	cmocmoB170
CmoCh18G005790	Cucumber (Gy14) v1	cgycmoB0882
CmoCh18G005790	Cucurbita maxima (Rimu)	cmacmoB222
CmoCh18G005790	Cucurbita maxima (Rimu)	cmacmoB223
CmoCh18G005790	Cucurbita maxima (Rimu)	cmacmoB407
CmoCh18G005790	Cucurbita maxima (Rimu)	cmacmoB411
CmoCh18G005790	Wild cucumber (PI 183967)	cmocpiB385
CmoCh18G005790	Cucumber (Chinese Long) v2	cmocuB382
CmoCh18G005790	Melon (DHL92) v3.5.1	cmomeB358
CmoCh18G005790	Watermelon (Charleston Gray)	cmowcgB342
CmoCh18G005790	Watermelon (Charleston Gray)	cmowcgB345
CmoCh18G005790	Watermelon (97103) v1	cmowmB378
CmoCh18G005790	Cucurbita pepo (Zucchini)	cmocpeB375
CmoCh18G005790	Cucurbita pepo (Zucchini)	cmocpeB403