CmoCh12G001390 (gene) Cucurbita moschata (Rifu) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CmoCh12G001390
Type	gene
Organism	Cucurbita moschata (Cucurbita moschata (Rifu))
Description	Pentatricopeptide repeat-containing protein, putative
Location	Cmo_Chr12 : 875154 .. 875512 (-)

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.

ATGGAAACCCTCATTTTGATTACATGGAATGCGATGATTGCAGGGCATGCAAAACTGATGGATGTTGCTGCAGATGATCTTGCAGCTCATAAGAGTGGATCCATAGCACTTAATATGCTCCAGAAATTATATCGCTCGGGTATGAAACCTCTCTCTTCACTTTCTCCAGTGTTTGAAGTGTTTATTGTAGACTAGTAACCTTAGAACAAGGGGTACAAATTCATGCTCTGATCATTAAGAGTGGTGTTTCGGGAGATGTTCTTGTGGGAACTGCATTGGTTAGTATGTATAGCAAATGTGGAAGTATTGATGAGGCAAGTAAAACTTACTCGGAGATGCCTTCTAGAACTTTGATATAA

mRNA sequence

ATGGAAACCCTCATTTTGATTACATGGAATGCGATGATTGCAGGGCATGCAAAACTGATGGATGTTGCTGCAGATGATCTTGCAGCTCATAAGAGTGGATCCATAGCACTTAATATGCTCCAGAAATTATATCGCTCGGATGTTCTTGTGGGAACTGCATTGGTTAGTATGTATAGCAAATGTGGAAGTATTGATGAGGCAAGTAAAACTTACTCGGAGATGCCTTCTAGAACTTTGATATAA

Coding sequence (CDS)

ATGGAAACCCTCATTTTGATTACATGGAATGCGATGATTGCAGGGCATGCAAAACTGATGGATGTTGCTGCAGATGATCTTGCAGCTCATAAGAGTGGATCCATAGCACTTAATATGCTCCAGAAATTATATCGCTCGGATGTTCTTGTGGGAACTGCATTGGTTAGTATGTATAGCAAATGTGGAAGTATTGATGAGGCAAGTAAAACTTACTCGGAGATGCCTTCTAGAACTTTGATATAA

Homology

[Close]

BLAST of CmoCh12G001390 vs. Swiss-Prot
Match: PP252_ARATH (Pentatricopeptide repeat-containing protein At3g24000, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H87 PE=3 SV=1)

HSP 1 Score: 50.8 bits (120), Expect = 7.9e-06
Identity = 18/43 (41.86%), Postives = 33/43 (76.74%), Query Frame = 1


Query: 38  NMLQKLYRSDVLVGTALVSMYSKCGSIDEASKTYSEMPSRTLI 81
           ++LQ ++R D+++G  L++MY+KCGS++EA K + +MP R  +
Sbjct: 85  HILQSIFRHDIVMGNTLLNMYAKCGSLEEARKVFEKMPQRDFV 127

[Close]

BLAST of CmoCh12G001390 vs. TrEMBL
Match: A0A0A0LRW6_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_2G372180 PE=4 SV=1)

HSP 1 Score: 106.3 bits (264), Expect = 1.8e-20
Identity = 62/119 (52.10%), Postives = 71/119 (59.66%), Query Frame = 1


Query: 1   METLILITWNAMIAGHAKLMDVAADDLAAHKSGSIALNMLQKLYRSDVL----------- 60
           METL L+TWNAMIAGHAK+MD+A DD+AAHKSGS AL M QKLYRS +            
Sbjct: 327 METLNLVTWNAMIAGHAKMMDLAEDDVAAHKSGSTALAMFQKLYRSGMKPDLFTFSSVLS 386

Query: 61  ----------------------------VGTALVSMYSKCGSIDEASKTYSEMPSRTLI 81
                                       VGTALVSMY+KCGSID+ASK + EMPSRT+I
Sbjct: 387 VCSNLVALEQGEQIHGQIIKSGVLADVVVGTALVSMYNKCGSIDKASKAFLEMPSRTMI 445

[Close]

BLAST of CmoCh12G001390 vs. TrEMBL
Match: F6GZK5_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VIT_18s0001g07970 PE=4 SV=1)

HSP 1 Score: 85.5 bits (210), Expect = 3.2e-14
Identity = 52/119 (43.70%), Postives = 65/119 (54.62%), Query Frame = 1


Query: 1   METLILITWNAMIAGHAKLMDVAADDLAAHKSGSIALNMLQKLYRSDVL----------- 60
           MET+ L+TWNAMIAGHA++MD A DDLAAH+ G+ AL++  KL RS +            
Sbjct: 332 METISLVTWNAMIAGHARMMDFAKDDLAAHQCGTEALSIFLKLNRSGMKPDLFTFSSVLS 391

Query: 61  ----------------------------VGTALVSMYSKCGSIDEASKTYSEMPSRTLI 81
                                       VGTALV+MY+KCGSI+ ASK + EM  RTLI
Sbjct: 392 VCSSLVALEQGEQVHAQTIKTGFLSDVVVGTALVNMYNKCGSIERASKAFVEMSIRTLI 450

[Close]

BLAST of CmoCh12G001390 vs. TrEMBL
Match: M0SB70_MUSAM (Uncharacterized protein OS=Musa acuminata subsp. malaccensis PE=4 SV=1)

HSP 1 Score: 80.9 bits (198), Expect = 7.9e-13
Identity = 49/119 (41.18%), Postives = 65/119 (54.62%), Query Frame = 1


Query: 1   METLILITWNAMIAGHAKLMDVAADDLAAHKSGSIALNMLQKLYRSDVL----------- 60
           M+T+ LITWNAMIAGHA++M++A DD+AAH SG  AL + QKL RS +            
Sbjct: 192 MDTVSLITWNAMIAGHAQMMNLAKDDMAAHHSGFEALKVFQKLNRSGMKPDLYSFSSILT 251

Query: 61  ----------------------------VGTALVSMYSKCGSIDEASKTYSEMPSRTLI 81
                                       V +ALV+MY+KCG ID+A+K + EM +RTLI
Sbjct: 252 VCSGLLAIEQGEQIHAQTIKSGYLSDVVVSSALVNMYNKCGCIDDATKAFVEMSTRTLI 310

[Close]

BLAST of CmoCh12G001390 vs. TrEMBL
Match: M5XX50_PRUPE (Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa002728mg PE=4 SV=1)

HSP 1 Score: 80.1 bits (196), Expect = 1.3e-12
Identity = 49/119 (41.18%), Postives = 66/119 (55.46%), Query Frame = 1


Query: 1   METLILITWNAMIAGHAKLMDVAADDLAAHKSGSIALNMLQKLYRSDVL----------- 60
           M  + L+TWNAMIAG A++MD+A DDL+A++SG+ ALN+  KL RS +            
Sbjct: 213 MGAISLVTWNAMIAGQAQIMDLAEDDLSAYQSGTEALNIFLKLNRSGLKPDLFTFSSILT 272

Query: 61  ----------------------------VGTALVSMYSKCGSIDEASKTYSEMPSRTLI 81
                                       VGTALV+MY+KCGSI++ASK + EM +RTLI
Sbjct: 273 ICSGLVALQQGEQIHAQTIKSGFLSDRVVGTALVNMYNKCGSIEKASKAFVEMSTRTLI 331

[Close]

BLAST of CmoCh12G001390 vs. TrEMBL
Match: A0A103XZG3_CYNCS (Uncharacterized protein OS=Cynara cardunculus var. scolymus GN=Ccrd_022092 PE=4 SV=1)

HSP 1 Score: 78.6 bits (192), Expect = 3.9e-12
Identity = 48/119 (40.34%), Postives = 65/119 (54.62%), Query Frame = 1


Query: 1   METLILITWNAMIAGHAKLMDVAADDLAAHKSGSIALNMLQKLYRSDVL----------- 60
           +E + L+TWNAMI+G+A++MDVA + L A ++GS ALN+  +L RS +            
Sbjct: 319 LEKVSLVTWNAMISGYAQMMDVAENSLVASRNGSEALNIFLRLQRSGLKPDLFTISSVLT 378

Query: 61  ----------------------------VGTALVSMYSKCGSIDEASKTYSEMPSRTLI 81
                                       VGTALV+MY+KCGSI +ASK + EMPSRTLI
Sbjct: 379 VCSNLLALEQGEQIHAQTIKTGFLSEVVVGTALVNMYNKCGSIKKASKAFVEMPSRTLI 437

[Close]

BLAST of CmoCh12G001390 vs. TAIR10
Match: AT3G24000.1 (AT3G24000.1 Tetratricopeptide repeat (TPR)-like superfamily protein)

HSP 1 Score: 50.8 bits (120), Expect = 4.4e-07
Identity = 18/43 (41.86%), Postives = 33/43 (76.74%), Query Frame = 1


Query: 38  NMLQKLYRSDVLVGTALVSMYSKCGSIDEASKTYSEMPSRTLI 81
           ++LQ ++R D+++G  L++MY+KCGS++EA K + +MP R  +
Sbjct: 85  HILQSIFRHDIVMGNTLLNMYAKCGSLEEARKVFEKMPQRDFV 127

[Close]

BLAST of CmoCh12G001390 vs. NCBI nr
Match: gi|659088399|ref|XP_008444960.1| (PREDICTED: putative pentatricopeptide repeat-containing protein At5g52630 [Cucumis melo])

HSP 1 Score: 107.1 bits (266), Expect = 1.5e-20
Identity = 63/119 (52.94%), Postives = 71/119 (59.66%), Query Frame = 1


Query: 1   METLILITWNAMIAGHAKLMDVAADDLAAHKSGSIALNMLQKLYRSDVL----------- 60
           METL LITWNAMIAGHAK+MD+A DD+AAHKSGS AL M QKLYRS +            
Sbjct: 326 METLNLITWNAMIAGHAKMMDLAEDDIAAHKSGSTALAMFQKLYRSGMKPDLFTFSSVLS 385

Query: 61  ----------------------------VGTALVSMYSKCGSIDEASKTYSEMPSRTLI 81
                                       VGTALVSMY+KCGSID+ASK + EMPSRT+I
Sbjct: 386 VCSNLVALEQGEQIHGQIIKSGVLADVVVGTALVSMYNKCGSIDKASKAFLEMPSRTMI 444

[Close]

BLAST of CmoCh12G001390 vs. NCBI nr
Match: gi|700207652|gb|KGN62771.1| (hypothetical protein Csa_2G372180 [Cucumis sativus])

HSP 1 Score: 106.3 bits (264), Expect = 2.5e-20
Identity = 62/119 (52.10%), Postives = 71/119 (59.66%), Query Frame = 1


Query: 1   METLILITWNAMIAGHAKLMDVAADDLAAHKSGSIALNMLQKLYRSDVL----------- 60
           METL L+TWNAMIAGHAK+MD+A DD+AAHKSGS AL M QKLYRS +            
Sbjct: 327 METLNLVTWNAMIAGHAKMMDLAEDDVAAHKSGSTALAMFQKLYRSGMKPDLFTFSSVLS 386

Query: 61  ----------------------------VGTALVSMYSKCGSIDEASKTYSEMPSRTLI 81
                                       VGTALVSMY+KCGSID+ASK + EMPSRT+I
Sbjct: 387 VCSNLVALEQGEQIHGQIIKSGVLADVVVGTALVSMYNKCGSIDKASKAFLEMPSRTMI 445

[Close]

BLAST of CmoCh12G001390 vs. NCBI nr
Match: gi|778671898|ref|XP_011649704.1| (PREDICTED: putative pentatricopeptide repeat-containing protein At5g52630 [Cucumis sativus])

HSP 1 Score: 106.3 bits (264), Expect = 2.5e-20
Identity = 62/119 (52.10%), Postives = 71/119 (59.66%), Query Frame = 1


Query: 1   METLILITWNAMIAGHAKLMDVAADDLAAHKSGSIALNMLQKLYRSDVL----------- 60
           METL L+TWNAMIAGHAK+MD+A DD+AAHKSGS AL M QKLYRS +            
Sbjct: 355 METLNLVTWNAMIAGHAKMMDLAEDDVAAHKSGSTALAMFQKLYRSGMKPDLFTFSSVLS 414

Query: 61  ----------------------------VGTALVSMYSKCGSIDEASKTYSEMPSRTLI 81
                                       VGTALVSMY+KCGSID+ASK + EMPSRT+I
Sbjct: 415 VCSNLVALEQGEQIHGQIIKSGVLADVVVGTALVSMYNKCGSIDKASKAFLEMPSRTMI 473

[Close]

BLAST of CmoCh12G001390 vs. NCBI nr
Match: gi|645224643|ref|XP_008219209.1| (PREDICTED: putative pentatricopeptide repeat-containing protein At5g52630 [Prunus mume])

HSP 1 Score: 87.4 bits (215), Expect = 1.2e-14
Identity = 46/93 (49.46%), Postives = 66/93 (70.97%), Query Frame = 1


Query: 6   LITWNAMIAGHAKLMDVAADDLAAHKSGSIALNM------------------LQKLYRSD 65
           L+TWNAMIAGHA++MD+A D+L+A++SG+ ALN+                  ++  + SD
Sbjct: 340 LVTWNAMIAGHAQIMDLAEDNLSAYQSGTEALNLFLSSLVALQQGEQIHAQTIKSGFLSD 399

Query: 66  VLVGTALVSMYSKCGSIDEASKTYSEMPSRTLI 81
            +VGTALV+MY+KCGSI++ASK + EM +RTLI
Sbjct: 400 RVVGTALVNMYNKCGSIEKASKAFVEMSTRTLI 432

[Close]

BLAST of CmoCh12G001390 vs. NCBI nr
Match: gi|359492976|ref|XP_002283668.2| (PREDICTED: putative pentatricopeptide repeat-containing protein At5g52630 [Vitis vinifera])

HSP 1 Score: 85.5 bits (210), Expect = 4.6e-14
Identity = 52/119 (43.70%), Postives = 65/119 (54.62%), Query Frame = 1


Query: 1   METLILITWNAMIAGHAKLMDVAADDLAAHKSGSIALNMLQKLYRSDVL----------- 60
           MET+ L+TWNAMIAGHA++MD A DDLAAH+ G+ AL++  KL RS +            
Sbjct: 332 METISLVTWNAMIAGHARMMDFAKDDLAAHQCGTEALSIFLKLNRSGMKPDLFTFSSVLS 391

Query: 61  ----------------------------VGTALVSMYSKCGSIDEASKTYSEMPSRTLI 81
                                       VGTALV+MY+KCGSI+ ASK + EM  RTLI
Sbjct: 392 VCSSLVALEQGEQVHAQTIKTGFLSDVVVGTALVNMYNKCGSIERASKAFVEMSIRTLI 450

The following BLAST results are available for this feature:

BLAST of CmoCh12G001390 vs. Swiss-Prot


Match Name	E-value	Identity	Description
PP252_ARATH	7.9e-06	41.86	Pentatricopeptide repeat-containing protein At3g24000, mitochondrial OS=Arabidop...	[more]

BLAST of CmoCh12G001390 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0LRW6_CUCSA	1.8e-20	52.10	Uncharacterized protein OS=Cucumis sativus GN=Csa_2G372180 PE=4 SV=1	[more]
F6GZK5_VITVI	3.2e-14	43.70	Putative uncharacterized protein OS=Vitis vinifera GN=VIT_18s0001g07970 PE=4 SV=...	[more]
M0SB70_MUSAM	7.9e-13	41.18	Uncharacterized protein OS=Musa acuminata subsp. malaccensis PE=4 SV=1	[more]
M5XX50_PRUPE	1.3e-12	41.18	Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa002728mg PE=4 SV=1	[more]
A0A103XZG3_CYNCS	3.9e-12	40.34	Uncharacterized protein OS=Cynara cardunculus var. scolymus GN=Ccrd_022092 PE=4 ...	[more]

BLAST of CmoCh12G001390 vs. TAIR10


Match Name	E-value	Identity	Description
AT3G24000.1	4.4e-07	41.86	Tetratricopeptide repeat (TPR)-like superfamily protein	[more]

BLAST of CmoCh12G001390 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|659088399\|ref\|XP_008444960.1\|	1.5e-20	52.94	PREDICTED: putative pentatricopeptide repeat-containing protein At5g52630 [Cucum...	[more]
gi\|700207652\|gb\|KGN62771.1\|	2.5e-20	52.10	hypothetical protein Csa_2G372180 [Cucumis sativus]	[more]
gi\|778671898\|ref\|XP_011649704.1\|	2.5e-20	52.10	PREDICTED: putative pentatricopeptide repeat-containing protein At5g52630 [Cucum...	[more]
gi\|645224643\|ref\|XP_008219209.1\|	1.2e-14	49.46	PREDICTED: putative pentatricopeptide repeat-containing protein At5g52630 [Prunu...	[more]
gi\|359492976\|ref\|XP_002283668.2\|	4.6e-14	43.70	PREDICTED: putative pentatricopeptide repeat-containing protein At5g52630 [Vitis...	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR002885	Pentatricopeptide_repeat

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0008150	biological_process
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0003674	molecular_function

Relationships

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


Feature Name	Unique Name	Type
CmoCh12G001390.1	CmoCh12G001390.1	mRNA

InterPro

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


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR002885	Pentatricopeptide repeat	PFAM	PF01535	PPR	coord: 7..20 score: 0.19coord: 52..77 score: 4.
IPR002885	Pentatricopeptide repeat	TIGRFAMs	TIGR00756	TIGR00756	coord: 52..77 score: 0.
IPR002885	Pentatricopeptide repeat	PROFILE	PS51375	PPR	coord: 47..80 score: 8
None	No IPR available	PANTHER	PTHR24015	FAMILY NOT NAMED	coord: 4..80 score: 4.8
None	No IPR available	PANTHER	PTHR24015:SF779	SUBFAMILY NOT NAMED	coord: 4..80 score: 4.8

Synteny

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


Gene	Orthologue	Organism	Block
CmoCh12G001390	Lsi08G010420	Bottle gourd (USVL1VR-Ls)	cmolsiB179
CmoCh12G001390	Cp4.1LG07g01660	Cucurbita pepo (Zucchini)	cmocpeB174
CmoCh12G001390	CsaV3_2G030470	Cucumber (Chinese Long) v3	cmocucB0188
CmoCh12G001390	Cla97C08G154950	Watermelon (97103) v2	cmowmbB182
CmoCh12G001390	Bhi04G000745	Wax gourd	cmowgoB0196

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CmoCh12G001390	Wild cucumber (PI 183967)	cmocpiB162
CmoCh12G001390	Wild cucumber (PI 183967)	cmocpiB167
CmoCh12G001390	Wild cucumber (PI 183967)	cmocpiB180
CmoCh12G001390	Wild cucumber (PI 183967)	cmocpiB188
CmoCh12G001390	Cucumber (Chinese Long) v2	cmocuB164
CmoCh12G001390	Cucumber (Chinese Long) v2	cmocuB160
CmoCh12G001390	Cucumber (Chinese Long) v2	cmocuB177
CmoCh12G001390	Cucumber (Chinese Long) v2	cmocuB184
CmoCh12G001390	Melon (DHL92) v3.5.1	cmomeB175
CmoCh12G001390	Melon (DHL92) v3.5.1	cmomeB148
CmoCh12G001390	Melon (DHL92) v3.5.1	cmomeB159
CmoCh12G001390	Melon (DHL92) v3.5.1	cmomeB173
CmoCh12G001390	Watermelon (Charleston Gray)	cmowcgB143
CmoCh12G001390	Watermelon (Charleston Gray)	cmowcgB129
CmoCh12G001390	Watermelon (Charleston Gray)	cmowcgB140
CmoCh12G001390	Watermelon (Charleston Gray)	cmowcgB165
CmoCh12G001390	Watermelon (97103) v1	cmowmB137
CmoCh12G001390	Watermelon (97103) v1	cmowmB150
CmoCh12G001390	Watermelon (97103) v1	cmowmB155
CmoCh12G001390	Watermelon (97103) v1	cmowmB161
CmoCh12G001390	Cucurbita pepo (Zucchini)	cmocpeB145
CmoCh12G001390	Cucurbita pepo (Zucchini)	cmocpeB148
CmoCh12G001390	Cucurbita pepo (Zucchini)	cmocpeB156
CmoCh12G001390	Bottle gourd (USVL1VR-Ls)	cmolsiB153
CmoCh12G001390	Bottle gourd (USVL1VR-Ls)	cmolsiB155
CmoCh12G001390	Bottle gourd (USVL1VR-Ls)	cmolsiB159
CmoCh12G001390	Cucumber (Gy14) v2	cgybcmoB173
CmoCh12G001390	Cucumber (Gy14) v2	cgybcmoB274
CmoCh12G001390	Cucumber (Gy14) v2	cgybcmoB706
CmoCh12G001390	Cucumber (Gy14) v2	cgybcmoB700
CmoCh12G001390	Melon (DHL92) v3.6.1	cmomedB163
CmoCh12G001390	Melon (DHL92) v3.6.1	cmomedB175
CmoCh12G001390	Melon (DHL92) v3.6.1	cmomedB191
CmoCh12G001390	Melon (DHL92) v3.6.1	cmomedB194
CmoCh12G001390	Silver-seed gourd	carcmoB0082
CmoCh12G001390	Silver-seed gourd	carcmoB0544
CmoCh12G001390	Silver-seed gourd	carcmoB0868
CmoCh12G001390	Silver-seed gourd	carcmoB0893
CmoCh12G001390	Cucumber (Chinese Long) v3	cmocucB0195
CmoCh12G001390	Cucumber (Chinese Long) v3	cmocucB0209
CmoCh12G001390	Watermelon (97103) v2	cmowmbB146
CmoCh12G001390	Watermelon (97103) v2	cmowmbB150
CmoCh12G001390	Watermelon (97103) v2	cmowmbB151
CmoCh12G001390	Wax gourd	cmowgoB0197
CmoCh12G001390	Cucurbita moschata (Rifu)	cmocmoB005
CmoCh12G001390	Cucurbita moschata (Rifu)	cmocmoB140
CmoCh12G001390	Cucurbita moschata (Rifu)	cmocmoB145
CmoCh12G001390	Cucurbita moschata (Rifu)	cmocmoB158
CmoCh12G001390	Cucurbita moschata (Rifu)	cmocmoB163
CmoCh12G001390	Cucurbita moschata (Rifu)	cmocmoB165
CmoCh12G001390	Cucumber (Gy14) v1	cgycmoB0216
CmoCh12G001390	Cucumber (Gy14) v1	cgycmoB0218
CmoCh12G001390	Cucumber (Gy14) v1	cgycmoB0450
CmoCh12G001390	Cucumber (Gy14) v1	cgycmoB0854
CmoCh12G001390	Cucurbita maxima (Rimu)	cmacmoB034
CmoCh12G001390	Cucurbita maxima (Rimu)	cmacmoB176
CmoCh12G001390	Cucurbita maxima (Rimu)	cmacmoB635
CmoCh12G001390	Cucurbita maxima (Rimu)	cmacmoB772
CmoCh12G001390	Cucurbita maxima (Rimu)	cmacmoB844
CmoCh12G001390	Cucurbita maxima (Rimu)	cmacmoB846