CsaV3_3G040400 (gene) Cucumber (Chinese Long) v3 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CsaV3_3G040400
Type	gene
Organism	Cucumis sativus (Cucumber (Chinese Long) v3)
Description	pentatricopeptide repeat-containing protein At2g35030, mitochondrial
Location	chr3 : 33136453 .. 33136623 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideCDSexon

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

TTTTCCACCTATCGGGTTGTTTCCAAAATCCCATCACCAGTTAGAGATTTCAGTACCATTTCAAATCTTGCTCGTAGTAACTGGTTGATTAAAAAGCTTGGTAAAGAAGGAAAAATTGGAGAAGCACGTAAGGTTTTTGAGGAAATGCCTGATCGAGATGTGGTCTCATGA

mRNA sequence

TTTTCCACCTATCGGGTTGTTTCCAAAATCCCATCACCAGTTAGAGATTTCAGTACCATTTCAAATCTTGCTCGTAGTAACTGGTTGATTAAAAAGCTTGGTAAAGAAGGAAAAATTGGAGAAGCACGTAAGGTTTTTGAGGAAATGCCTGATCGAGATGTGGTCTCATGA

Coding sequence (CDS)

TTTTCCACCTATCGGGTTGTTTCCAAAATCCCATCACCAGTTAGAGATTTCAGTACCATTTCAAATCTTGCTCGTAGTAACTGGTTGATTAAAAAGCTTGGTAAAGAAGGAAAAATTGGAGAAGCACGTAAGGTTTTTGAGGAAATGCCTGATCGAGATGTGGTCTCATGA

Protein sequence

FSTYRVVSKIPSPVRDFSTISNLARSNWLIKKLGKEGKIGEARKVFEEMPDRDVVS

Homology

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BLAST of CsaV3_3G040400 vs. NCBI nr
Match: KGN59466.1 (hypothetical protein Csa_3G822180 [Cucumis sativus])

HSP 1 Score: 114.8 bits (286), Expect = 9.8e-23
Identity = 56/56 (100.00%), Postives = 56/56 (100.00%), Query Frame = 0


Query: 1  FSTYRVVSKIPSPVRDFSTISNLARSNWLIKKLGKEGKIGEARKVFEEMPDRDVVS 57
          FSTYRVVSKIPSPVRDFSTISNLARSNWLIKKLGKEGKIGEARKVFEEMPDRDVVS
Sbjct: 44 FSTYRVVSKIPSPVRDFSTISNLARSNWLIKKLGKEGKIGEARKVFEEMPDRDVVS 99

[Close]

BLAST of CsaV3_3G040400 vs. NCBI nr
Match: KGN59463.1 (hypothetical protein Csa_3G822150 [Cucumis sativus])

HSP 1 Score: 93.6 bits (231), Expect = 2.3e-16
Identity = 46/56 (82.14%), Postives = 50/56 (89.29%), Query Frame = 0


Query: 1  FSTYRVVSKIPSPVRDFSTISNLARSNWLIKKLGKEGKIGEARKVFEEMPDRDVVS 57
          FST +VV KI SPVRDFS  SN+ARSNWLI +LGKEGKIGEAR+VFEEMPDRDVVS
Sbjct: 44 FSTCQVVPKISSPVRDFSANSNVARSNWLITQLGKEGKIGEARQVFEEMPDRDVVS 99

[Close]

BLAST of CsaV3_3G040400 vs. NCBI nr
Match: XP_016899654.1 (PREDICTED: LOW QUALITY PROTEIN: pentatricopeptide repeat-containing protein At2g35030, mitochondrial-like, partial [Cucumis melo])

HSP 1 Score: 92.8 bits (229), Expect = 4.0e-16
Identity = 48/56 (85.71%), Postives = 50/56 (89.29%), Query Frame = 0


Query: 1   FSTYRVVSKIPSPVRDFSTISNLARSNWLIKKLGKEGKIGEARKVFEEMPDRDVVS 57
           FSTY+VV KIPSPVRDFST SN+ARSN LI KLGKEGKI EARKVFEEM DRDVVS
Sbjct: 59  FSTYQVVPKIPSPVRDFSTNSNVARSNRLITKLGKEGKIREARKVFEEMLDRDVVS 114

[Close]

BLAST of CsaV3_3G040400 vs. NCBI nr
Match: XP_022935077.1 (pentatricopeptide repeat-containing protein At2g35030, mitochondrial [Cucurbita moschata])

HSP 1 Score: 90.9 bits (224), Expect = 1.5e-15
Identity = 44/56 (78.57%), Postives = 49/56 (87.50%), Query Frame = 0


Query: 1  FSTYRVVSKIPSPVRDFSTISNLARSNWLIKKLGKEGKIGEARKVFEEMPDRDVVS 57
          FSTY+VV KI S  RD+S  SN+AR+NWLI KLGKEGKIGEAR+VFEEMPDRDVVS
Sbjct: 44 FSTYQVVPKISSTDRDYSANSNVARTNWLITKLGKEGKIGEARRVFEEMPDRDVVS 99

[Close]

BLAST of CsaV3_3G040400 vs. NCBI nr
Match: XP_022983729.1 (pentatricopeptide repeat-containing protein At2g35030, mitochondrial [Cucurbita maxima])

HSP 1 Score: 90.9 bits (224), Expect = 1.5e-15
Identity = 44/56 (78.57%), Postives = 49/56 (87.50%), Query Frame = 0


Query: 1  FSTYRVVSKIPSPVRDFSTISNLARSNWLIKKLGKEGKIGEARKVFEEMPDRDVVS 57
          FSTY+VV KI S  RD+S  SN+AR+NWLI KLGKEGKIGEAR+VFEEMPDRDVVS
Sbjct: 44 FSTYQVVPKISSKDRDYSANSNVARTNWLITKLGKEGKIGEARRVFEEMPDRDVVS 99

[Close]

BLAST of CsaV3_3G040400 vs. TAIR10
Match: AT2G35030.1 (Pentatricopeptide repeat (PPR) superfamily protein)

HSP 1 Score: 43.9 bits (102), Expect = 3.9e-05
Identity = 29/69 (42.03%), Postives = 37/69 (53.62%), Query Frame = 0


Query: 2  STYRVVSKIPSPVRDFST-ISNLARS-------------NWLIKKLGKEGKIGEARKVFE 57
          S Y+  S  PS   D S  + NL RS              WLI +L K GKI EARK+F+
Sbjct: 11 SYYKRSSVFPSSDNDRSVQLFNLVRSIYSSSSRPRVPQPEWLIGELCKVGKIAEARKLFD 70

[Close]

BLAST of CsaV3_3G040400 vs. Swiss-Prot
Match: sp|O64766|PP185_ARATH (Pentatricopeptide repeat-containing protein At2g35030, mitochondrial OS=Arabidopsis thaliana OX=3702 GN=PCMP-E15 PE=2 SV=1)

HSP 1 Score: 43.9 bits (102), Expect = 7.0e-04
Identity = 29/69 (42.03%), Postives = 37/69 (53.62%), Query Frame = 0


Query: 2  STYRVVSKIPSPVRDFST-ISNLARS-------------NWLIKKLGKEGKIGEARKVFE 57
          S Y+  S  PS   D S  + NL RS              WLI +L K GKI EARK+F+
Sbjct: 11 SYYKRSSVFPSSDNDRSVQLFNLVRSIYSSSSRPRVPQPEWLIGELCKVGKIAEARKLFD 70

[Close]

BLAST of CsaV3_3G040400 vs. TrEMBL
Match: tr|A0A0A0LHH2|A0A0A0LHH2_CUCSA (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G822180 PE=4 SV=1)

HSP 1 Score: 114.8 bits (286), Expect = 6.5e-23
Identity = 56/56 (100.00%), Postives = 56/56 (100.00%), Query Frame = 0


Query: 1  FSTYRVVSKIPSPVRDFSTISNLARSNWLIKKLGKEGKIGEARKVFEEMPDRDVVS 57
          FSTYRVVSKIPSPVRDFSTISNLARSNWLIKKLGKEGKIGEARKVFEEMPDRDVVS
Sbjct: 44 FSTYRVVSKIPSPVRDFSTISNLARSNWLIKKLGKEGKIGEARKVFEEMPDRDVVS 99

[Close]

BLAST of CsaV3_3G040400 vs. TrEMBL
Match: tr|A0A0A0LCG2|A0A0A0LCG2_CUCSA (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G822150 PE=4 SV=1)

HSP 1 Score: 93.6 bits (231), Expect = 1.5e-16
Identity = 46/56 (82.14%), Postives = 50/56 (89.29%), Query Frame = 0


Query: 1  FSTYRVVSKIPSPVRDFSTISNLARSNWLIKKLGKEGKIGEARKVFEEMPDRDVVS 57
          FST +VV KI SPVRDFS  SN+ARSNWLI +LGKEGKIGEAR+VFEEMPDRDVVS
Sbjct: 44 FSTCQVVPKISSPVRDFSANSNVARSNWLITQLGKEGKIGEARQVFEEMPDRDVVS 99

[Close]

BLAST of CsaV3_3G040400 vs. TrEMBL
Match: tr|A0A1S4DUJ7|A0A1S4DUJ7_CUCME (LOW QUALITY PROTEIN: pentatricopeptide repeat-containing protein At2g35030, mitochondrial-like OS=Cucumis melo OX=3656 GN=LOC103486900 PE=4 SV=1)

HSP 1 Score: 92.8 bits (229), Expect = 2.6e-16
Identity = 48/56 (85.71%), Postives = 50/56 (89.29%), Query Frame = 0


Query: 1   FSTYRVVSKIPSPVRDFSTISNLARSNWLIKKLGKEGKIGEARKVFEEMPDRDVVS 57
           FSTY+VV KIPSPVRDFST SN+ARSN LI KLGKEGKI EARKVFEEM DRDVVS
Sbjct: 59  FSTYQVVPKIPSPVRDFSTNSNVARSNRLITKLGKEGKIREARKVFEEMLDRDVVS 114

[Close]

BLAST of CsaV3_3G040400 vs. TrEMBL
Match: tr|A0A1S3B8F2|A0A1S3B8F2_CUCME (pentatricopeptide repeat-containing protein At2g35030, mitochondrial OS=Cucumis melo OX=3656 GN=LOC103486904 PE=4 SV=1)

HSP 1 Score: 89.7 bits (221), Expect = 2.2e-15
Identity = 46/56 (82.14%), Postives = 48/56 (85.71%), Query Frame = 0


Query: 1  FSTYRVVSKIPSPVRDFSTISNLARSNWLIKKLGKEGKIGEARKVFEEMPDRDVVS 57
          FST +VV KI SPVRDFS  SN+ARSNWLI KLGKEGKI EARKVFEEM DRDVVS
Sbjct: 44 FSTCQVVPKISSPVRDFSANSNVARSNWLITKLGKEGKIREARKVFEEMLDRDVVS 99

[Close]

BLAST of CsaV3_3G040400 vs. TrEMBL
Match: tr|A0A2P6SCQ9|A0A2P6SCQ9_ROSCH (Putative tetratricopeptide-like helical domain, DYW domain-containing protein OS=Rosa chinensis OX=74649 GN=RchiOBHm_Chr1g0336671 PE=4 SV=1)

HSP 1 Score: 69.7 bits (169), Expect = 2.4e-09
Identity = 30/54 (55.56%), Postives = 43/54 (79.63%), Query Frame = 0


Query: 3  TYRVVSKIPSPVRDFSTISNLARSNWLIKKLGKEGKIGEARKVFEEMPDRDVVS 57
          T +   +I  P RD+S  S++A+SNWLI KL ++GK+GEAR+VF+EMP+RDVV+
Sbjct: 30 TQKASPRITMPDRDYSASSDVAKSNWLITKLSRDGKVGEARQVFDEMPERDVVT 83

The following BLAST results are available for this feature:

BLAST of CsaV3_3G040400 vs. NCBI nr


Match Name	E-value	Identity	Description
KGN59466.1	9.8e-23	100.00	hypothetical protein Csa_3G822180 [Cucumis sativus]	[more]
KGN59463.1	2.3e-16	82.14	hypothetical protein Csa_3G822150 [Cucumis sativus]	[more]
XP_016899654.1	4.0e-16	85.71	PREDICTED: LOW QUALITY PROTEIN: pentatricopeptide repeat-containing protein At2g...	[more]
XP_022935077.1	1.5e-15	78.57	pentatricopeptide repeat-containing protein At2g35030, mitochondrial [Cucurbita ...	[more]
XP_022983729.1	1.5e-15	78.57	pentatricopeptide repeat-containing protein At2g35030, mitochondrial [Cucurbita ...	[more]

BLAST of CsaV3_3G040400 vs. TAIR10


Match Name	E-value	Identity	Description
AT2G35030.1	3.9e-05	42.03	Pentatricopeptide repeat (PPR) superfamily protein	[more]

BLAST of CsaV3_3G040400 vs. Swiss-Prot


Match Name	E-value	Identity	Description
sp\|O64766\|PP185_ARATH	7.0e-04	42.03	Pentatricopeptide repeat-containing protein At2g35030, mitochondrial OS=Arabidop...	[more]

BLAST of CsaV3_3G040400 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|A0A0A0LHH2\|A0A0A0LHH2_CUCSA	6.5e-23	100.00	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G822180 PE=4 SV=1	[more]
tr\|A0A0A0LCG2\|A0A0A0LCG2_CUCSA	1.5e-16	82.14	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G822150 PE=4 SV=1	[more]
tr\|A0A1S4DUJ7\|A0A1S4DUJ7_CUCME	2.6e-16	85.71	LOW QUALITY PROTEIN: pentatricopeptide repeat-containing protein At2g35030, mito...	[more]
tr\|A0A1S3B8F2\|A0A1S3B8F2_CUCME	2.2e-15	82.14	pentatricopeptide repeat-containing protein At2g35030, mitochondrial OS=Cucumis ...	[more]
tr\|A0A2P6SCQ9\|A0A2P6SCQ9_ROSCH	2.4e-09	55.56	Putative tetratricopeptide-like helical domain, DYW domain-containing protein OS...	[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
CsaV3_3G040400.1	CsaV3_3G040400.1	mRNA

InterPro

Analysis Name: InterPro Annotations of cucumber chineselong genome (v3)
Date Performed: 2019-03-04


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR002885	Pentatricopeptide repeat	TIGRFAM	TIGR00756	TIGR00756	coord: 29..55 e-value: 1.9E-5 score: 22.5
IPR002885	Pentatricopeptide repeat	PROSITE	PS51375	PPR	coord: 22..56 score: 8.999

Synteny

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


Gene	Orthologue	Organism	Block
CsaV3_3G040400	CsGy3G035490	Cucumber (Gy14) v2	cgybcucB117

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CsaV3_3G040400	Silver-seed gourd	carcucB0279
CsaV3_3G040400	Cucumber (Gy14) v1	cgycucB523
CsaV3_3G040400	Cucurbita maxima (Rimu)	cmacucB0279
CsaV3_3G040400	Cucurbita maxima (Rimu)	cmacucB0791
CsaV3_3G040400	Cucurbita maxima (Rimu)	cmacucB0976
CsaV3_3G040400	Cucurbita moschata (Rifu)	cmocucB0270
CsaV3_3G040400	Cucurbita moschata (Rifu)	cmocucB0962
CsaV3_3G040400	Cucurbita pepo (Zucchini)	cpecucB0072
CsaV3_3G040400	Cucurbita pepo (Zucchini)	cpecucB0747
CsaV3_3G040400	Cucurbita pepo (Zucchini)	cpecucB1060
CsaV3_3G040400	Wild cucumber (PI 183967)	cpicucB145
CsaV3_3G040400	Bottle gourd (USVL1VR-Ls)	cuclsiB182
CsaV3_3G040400	Bottle gourd (USVL1VR-Ls)	cuclsiB203
CsaV3_3G040400	Melon (DHL92) v3.5.1	cucmeB218
CsaV3_3G040400	Melon (DHL92) v3.6.1	cucmedB211
CsaV3_3G040400	Watermelon (Charleston Gray)	cucwcgB199
CsaV3_3G040400	Watermelon (97103) v1	cucwmB208
CsaV3_3G040400	Watermelon (97103) v2	cucwmbB187
CsaV3_3G040400	Wax gourd	cucwgoB225
CsaV3_3G040400	Wax gourd	cucwgoB338