CmaCh10G003430 (gene) Cucurbita maxima (Rimu) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CmaCh10G003430
Type	gene
Organism	Cucurbita maxima (Cucurbita maxima (Rimu))
Description	tRNA pseudouridine synthase
Location	Cma_Chr10 : 1594407 .. 1595359 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDS

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

ATGAAAGTTTAAAAGAATTTTAAAAAAAAGTAAAACATTTTCATGTTTTTTTTAGTTTTTAAGGGTAATTATTGAAAATTTTGAAGGCATAAAATTAAAAAATATATATATTTTTAATAATTTAGCTCAATTTTTATTTAATAAAAGTAATGTTTAATTTTATATAACCACAATAATAATAATAATAATAATATAAATAATTAAATAAATAAATTTAGCGTCTCCGCCCGTGAGATTTTTTTCACCCTCCTTTGCTCCCCCAACCACGAACGGGGAAAAGGCCAATTATTTTCTTTGTGGGCCGAGATAGGATTGGGCCTATATCTATGGGCCCAAAACTACTGACTTAAGTGAGTCGAGGTAGGCCCGTAATGGCGGACTTATTGGGCTTTTCCAGTTGGACCAACATCGGCTTGCCATCTTTCATCTGCTTGACTGTATCATCTACGTGGATTTACAGTCTCGTCCCTGCTGCGACGGCGGCTGCAACTTCAAATACAGTGTCCGCTCAGGCAGGGCGAACGATGGTTATGATACCACAGCCGAGGGCTGGACTTTCGGTTTGGATTTAAGGATTCTGATTGAGAATCGAGCTCAGCAAAAGGACTATCTTCACTATAACCACACTGATCGCTGCAGAAATGGGAGATGGACTGCCAGGTTTTTCTTTCGTACATTTTCATTATATATTGCTTTATTGATTCTAGGTTTTAATCTCTTGTATGAGCGTCGTACTTGTTTGTTTTTGTTTTTGTTTCTGTTTTTCAATCTGAATCTGACAAGGTAGTCAATCAAGCTGTTGTTATGCTATCACCTGGCGAAGCTACCAATTCATGCATGGAAGTCCGTGGCAAGAAGTGCTTGATTCTTACTTTCATGCTGTTAATGGAAGATTCTCACTGTCCTCGTTGTTTGGAACTGAGGCGAGTCTCCAATATCAATATTTTCTGTAA

mRNA sequence

ATGAAATTGGACCAACATCGGCTTGCCATCTTTCATCTGCTTGACTGTATCATCTACGTGGATTTACAGTCTCGTCCCTGCTGCGACGGCGGCTGCAACTTCAAATACAGTGTCCGCTCAGGCAGGGCGAACGATGGTTATGATACCACAGCCGAGGGCTGGACTTTCGGTTTGGATTTAAGGATTCTGATTGAGAATCGAGCTCAGCAAAAGGACTATCTTCACTATAACCACACTGATCGCTGCAGAAATGGGAGATGGACTGCCAGTCAATCAAGCTGTTGTTATGCTATCACCTGGCGAAGCTACCAATTCATGCATGGAAGTCCGTGGCAAGAAGTGCTTGATTCTTACTTTCATGCTGTTAATGGAAGATTCTCACTGTCCTCGTTGTTTGGAACTGAGGCGAGTCTCCAATATCAATATTTTCTGTAA

Coding sequence (CDS)

ATGAAATTGGACCAACATCGGCTTGCCATCTTTCATCTGCTTGACTGTATCATCTACGTGGATTTACAGTCTCGTCCCTGCTGCGACGGCGGCTGCAACTTCAAATACAGTGTCCGCTCAGGCAGGGCGAACGATGGTTATGATACCACAGCCGAGGGCTGGACTTTCGGTTTGGATTTAAGGATTCTGATTGAGAATCGAGCTCAGCAAAAGGACTATCTTCACTATAACCACACTGATCGCTGCAGAAATGGGAGATGGACTGCCAGTCAATCAAGCTGTTGTTATGCTATCACCTGGCGAAGCTACCAATTCATGCATGGAAGTCCGTGGCAAGAAGTGCTTGATTCTTACTTTCATGCTGTTAATGGAAGATTCTCACTGTCCTCGTTGTTTGGAACTGAGGCGAGTCTCCAATATCAATATTTTCTGTAA

Protein sequence

MKLDQHRLAIFHLLDCIIYVDLQSRPCCDGGCNFKYSVRSGRANDGYDTTAEGWTFGLDLRILIENRAQQKDYLHYNHTDRCRNGRWTASQSSCCYAITWRSYQFMHGSPWQEVLDSYFHAVNGRFSLSSLFGTEASLQYQYFL

Homology

[Close]

BLAST of CmaCh10G003430 vs. TrEMBL
Match: A0A0A0LV59_CUCSA (tRNA pseudouridine synthase OS=Cucumis sativus GN=Csa_1G025830 PE=3 SV=1)

HSP 1 Score: 115.5 bits (288), Expect = 5.2e-23
Identity = 55/79 (69.62%), Postives = 61/79 (77.22%), Query Frame = 1


Query: 57  GLDLRILIENRAQQKDYLHYNHTDRCRNGRWTASQSSCCYAITWRSYQFMHGSPWQEVLD 116
           G  L+IL+ENRAQ+KDYLHYNHTDRCR+ RWTA +          SYQFM+G PWQEVLD
Sbjct: 16  GFGLKILMENRAQRKDYLHYNHTDRCRSARWTARE----------SYQFMYGRPWQEVLD 75

Query: 117 SYFHAVNGRFSLSSLFGTE 136
            Y HAVNGRFSLSSL GTE
Sbjct: 76  FYSHAVNGRFSLSSLLGTE 84

[Close]

BLAST of CmaCh10G003430 vs. TrEMBL
Match: A0A061GSS8_THECC (tRNA pseudouridine synthase OS=Theobroma cacao GN=TCM_039779 PE=3 SV=1)

HSP 1 Score: 80.5 bits (197), Expect = 1.9e-12
Identity = 36/76 (47.37%), Postives = 51/76 (67.11%), Query Frame = 1


Query: 63  LIENRAQQKDYLHYNHTDRCRNGRWTASQSSCCYAITWRSYQFMHGSPWQEVLDSYFHAV 122
           ++EN A+ K Y+HYNH+D C + RWTA +S          Y+FM+   WQ+V+D Y + V
Sbjct: 32  VMENEAENKVYVHYNHSDSCSSARWTARES----------YRFMYDRAWQDVIDFYSNVV 91

Query: 123 NGRFSLSSLFGTEASL 139
           NGR +LS+LFGTE S+
Sbjct: 92  NGRLTLSTLFGTETSI 97

[Close]

BLAST of CmaCh10G003430 vs. TrEMBL
Match: A0A061GRT3_THECC (tRNA pseudouridine synthase OS=Theobroma cacao GN=TCM_039779 PE=3 SV=1)

HSP 1 Score: 80.5 bits (197), Expect = 1.9e-12
Identity = 36/76 (47.37%), Postives = 51/76 (67.11%), Query Frame = 1


Query: 63  LIENRAQQKDYLHYNHTDRCRNGRWTASQSSCCYAITWRSYQFMHGSPWQEVLDSYFHAV 122
           ++EN A+ K Y+HYNH+D C + RWTA +S          Y+FM+   WQ+V+D Y + V
Sbjct: 32  VMENEAENKVYVHYNHSDSCSSARWTARES----------YRFMYDRAWQDVIDFYSNVV 91

Query: 123 NGRFSLSSLFGTEASL 139
           NGR +LS+LFGTE S+
Sbjct: 92  NGRLTLSTLFGTETSI 97

[Close]

BLAST of CmaCh10G003430 vs. TrEMBL
Match: A0A061GYJ1_THECC (tRNA pseudouridine synthase (Fragment) OS=Theobroma cacao GN=TCM_039779 PE=3 SV=1)

HSP 1 Score: 80.5 bits (197), Expect = 1.9e-12
Identity = 36/76 (47.37%), Postives = 51/76 (67.11%), Query Frame = 1


Query: 63  LIENRAQQKDYLHYNHTDRCRNGRWTASQSSCCYAITWRSYQFMHGSPWQEVLDSYFHAV 122
           ++EN A+ K Y+HYNH+D C + RWTA +S          Y+FM+   WQ+V+D Y + V
Sbjct: 32  VMENEAENKVYVHYNHSDSCSSARWTARES----------YRFMYDRAWQDVIDFYSNVV 91

Query: 123 NGRFSLSSLFGTEASL 139
           NGR +LS+LFGTE S+
Sbjct: 92  NGRLTLSTLFGTETSI 97

[Close]

BLAST of CmaCh10G003430 vs. TrEMBL
Match: V4UJT6_9ROSI (tRNA pseudouridine synthase OS=Citrus clementina GN=CICLE_v10008288mg PE=3 SV=1)

HSP 1 Score: 77.4 bits (189), Expect = 1.6e-11
Identity = 35/71 (49.30%), Postives = 47/71 (66.20%), Query Frame = 1


Query: 65  ENRAQQKDYLHYNHTDRCRNGRWTASQSSCCYAITWRSYQFMHGSPWQEVLDSYFHAVNG 124
           ++RA++K Y+HYNHTD C+  RWTA +S          Y+FM   PWQ+V+D Y   V+G
Sbjct: 30  QSRAEKKVYVHYNHTDSCKFARWTAKES----------YEFMRARPWQDVVDFYSDIVSG 89

Query: 125 RFSLSSLFGTE 136
           R +LS LFGTE
Sbjct: 90  RLTLSDLFGTE 90

[Close]

BLAST of CmaCh10G003430 vs. TAIR10
Match: AT5G35400.2 (AT5G35400.2 Pseudouridine synthase family protein)

HSP 1 Score: 57.8 bits (138), Expect = 6.5e-09
Identity = 27/66 (40.91%), Postives = 37/66 (56.06%), Query Frame = 1


Query: 73  YLHYNHTDRCRNGRWTASQSSCCYAITWRSYQFMHGSPWQEVLDSYFHAVNGRFSLSSLF 132
           Y+HY+H D C   RW A ++          ++FM+  PWQ VLD Y +AV G  S+ SLF
Sbjct: 6   YVHYHHADACSKARWNARET----------FRFMYDRPWQHVLDFYSNAVEGNLSVLSLF 61

Query: 133 GTEASL 139
             + SL
Sbjct: 66  QPKKSL 61

[Close]

BLAST of CmaCh10G003430 vs. NCBI nr
Match: gi|449439176|ref|XP_004137363.1| (PREDICTED: uncharacterized protein LOC101205562 [Cucumis sativus])

HSP 1 Score: 115.5 bits (288), Expect = 7.5e-23
Identity = 55/79 (69.62%), Postives = 61/79 (77.22%), Query Frame = 1


Query: 57  GLDLRILIENRAQQKDYLHYNHTDRCRNGRWTASQSSCCYAITWRSYQFMHGSPWQEVLD 116
           G  L+IL+ENRAQ+KDYLHYNHTDRCR+ RWTA +          SYQFM+G PWQEVLD
Sbjct: 16  GFGLKILMENRAQRKDYLHYNHTDRCRSARWTARE----------SYQFMYGRPWQEVLD 75

Query: 117 SYFHAVNGRFSLSSLFGTE 136
            Y HAVNGRFSLSSL GTE
Sbjct: 76  FYSHAVNGRFSLSSLLGTE 84

[Close]

BLAST of CmaCh10G003430 vs. NCBI nr
Match: gi|659107096|ref|XP_008453520.1| (PREDICTED: uncharacterized protein LOC103494203 [Cucumis melo])

HSP 1 Score: 115.2 bits (287), Expect = 9.8e-23
Identity = 55/79 (69.62%), Postives = 60/79 (75.95%), Query Frame = 1


Query: 57  GLDLRILIENRAQQKDYLHYNHTDRCRNGRWTASQSSCCYAITWRSYQFMHGSPWQEVLD 116
           G  L+IL+ENRAQQKDYLHYNHTDRCRN RWTA +          S+QFM+G PWQEVLD
Sbjct: 16  GFGLKILMENRAQQKDYLHYNHTDRCRNARWTARE----------SFQFMYGRPWQEVLD 75

Query: 117 SYFHAVNGRFSLSSLFGTE 136
            Y HAVNGR SLSSL GTE
Sbjct: 76  FYSHAVNGRLSLSSLLGTE 84

[Close]

BLAST of CmaCh10G003430 vs. NCBI nr
Match: gi|590582235|ref|XP_007014567.1| (Pseudouridine synthase isoform 1 [Theobroma cacao])

HSP 1 Score: 80.5 bits (197), Expect = 2.7e-12
Identity = 36/76 (47.37%), Postives = 51/76 (67.11%), Query Frame = 1


Query: 63  LIENRAQQKDYLHYNHTDRCRNGRWTASQSSCCYAITWRSYQFMHGSPWQEVLDSYFHAV 122
           ++EN A+ K Y+HYNH+D C + RWTA +S          Y+FM+   WQ+V+D Y + V
Sbjct: 32  VMENEAENKVYVHYNHSDSCSSARWTARES----------YRFMYDRAWQDVIDFYSNVV 91

Query: 123 NGRFSLSSLFGTEASL 139
           NGR +LS+LFGTE S+
Sbjct: 92  NGRLTLSTLFGTETSI 97

[Close]

BLAST of CmaCh10G003430 vs. NCBI nr
Match: gi|590582238|ref|XP_007014568.1| (Pseudouridine synthase isoform 2 [Theobroma cacao])

HSP 1 Score: 80.5 bits (197), Expect = 2.7e-12
Identity = 36/76 (47.37%), Postives = 51/76 (67.11%), Query Frame = 1


Query: 63  LIENRAQQKDYLHYNHTDRCRNGRWTASQSSCCYAITWRSYQFMHGSPWQEVLDSYFHAV 122
           ++EN A+ K Y+HYNH+D C + RWTA +S          Y+FM+   WQ+V+D Y + V
Sbjct: 32  VMENEAENKVYVHYNHSDSCSSARWTARES----------YRFMYDRAWQDVIDFYSNVV 91

Query: 123 NGRFSLSSLFGTEASL 139
           NGR +LS+LFGTE S+
Sbjct: 92  NGRLTLSTLFGTETSI 97

[Close]

BLAST of CmaCh10G003430 vs. NCBI nr
Match: gi|590582245|ref|XP_007014570.1| (Pseudouridine synthase family protein isoform 4, partial [Theobroma cacao])

HSP 1 Score: 80.5 bits (197), Expect = 2.7e-12
Identity = 36/76 (47.37%), Postives = 51/76 (67.11%), Query Frame = 1


Query: 63  LIENRAQQKDYLHYNHTDRCRNGRWTASQSSCCYAITWRSYQFMHGSPWQEVLDSYFHAV 122
           ++EN A+ K Y+HYNH+D C + RWTA +S          Y+FM+   WQ+V+D Y + V
Sbjct: 32  VMENEAENKVYVHYNHSDSCSSARWTARES----------YRFMYDRAWQDVIDFYSNVV 91

Query: 123 NGRFSLSSLFGTEASL 139
           NGR +LS+LFGTE S+
Sbjct: 92  NGRLTLSTLFGTETSI 97

The following BLAST results are available for this feature:

BLAST of CmaCh10G003430 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CmaCh10G003430 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0LV59_CUCSA	5.2e-23	69.62	tRNA pseudouridine synthase OS=Cucumis sativus GN=Csa_1G025830 PE=3 SV=1	[more]
A0A061GSS8_THECC	1.9e-12	47.37	tRNA pseudouridine synthase OS=Theobroma cacao GN=TCM_039779 PE=3 SV=1	[more]
A0A061GRT3_THECC	1.9e-12	47.37	tRNA pseudouridine synthase OS=Theobroma cacao GN=TCM_039779 PE=3 SV=1	[more]
A0A061GYJ1_THECC	1.9e-12	47.37	tRNA pseudouridine synthase (Fragment) OS=Theobroma cacao GN=TCM_039779 PE=3 SV=...	[more]
V4UJT6_9ROSI	1.6e-11	49.30	tRNA pseudouridine synthase OS=Citrus clementina GN=CICLE_v10008288mg PE=3 SV=1	[more]

BLAST of CmaCh10G003430 vs. TAIR10


Match Name	E-value	Identity	Description
AT5G35400.2	6.5e-09	40.91	Pseudouridine synthase family protein	[more]

BLAST of CmaCh10G003430 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|449439176\|ref\|XP_004137363.1\|	7.5e-23	69.62	PREDICTED: uncharacterized protein LOC101205562 [Cucumis sativus]	[more]
gi\|659107096\|ref\|XP_008453520.1\|	9.8e-23	69.62	PREDICTED: uncharacterized protein LOC103494203 [Cucumis melo]	[more]
gi\|590582235\|ref\|XP_007014567.1\|	2.7e-12	47.37	Pseudouridine synthase isoform 1 [Theobroma cacao]	[more]
gi\|590582238\|ref\|XP_007014568.1\|	2.7e-12	47.37	Pseudouridine synthase isoform 2 [Theobroma cacao]	[more]
gi\|590582245\|ref\|XP_007014570.1\|	2.7e-12	47.37	Pseudouridine synthase family protein isoform 4, partial [Theobroma cacao]	[more]

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0009451	RNA modification
biological_process	GO:0001522	pseudouridine synthesis
biological_process	GO:0008033	tRNA processing
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0016853	isomerase activity
molecular_function	GO:0009982	pseudouridine synthase activity
molecular_function	GO:0003723	RNA binding

Relationships

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


Feature Name	Unique Name	Type
CmaCh10G003430.1	CmaCh10G003430.1	mRNA

Synteny

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


Gene	Orthologue	Organism	Block
CmaCh10G003430	Cucsa.111790	Cucumber (Gy14) v1	cgycmaB0256
CmaCh10G003430	Csa1G025830	Cucumber (Chinese Long) v2	cmacuB050
CmaCh10G003430	MELO3C017384	Melon (DHL92) v3.5.1	cmameB067
CmaCh10G003430	ClCG06G014090	Watermelon (Charleston Gray)	cmawcgB071
CmaCh10G003430	CSPI01G04590	Wild cucumber (PI 183967)	cmacpiB051
CmaCh10G003430	CmoCh10G003720	Cucurbita moschata (Rifu)	cmacmoB067
CmaCh10G003430	Lsi06G012560	Bottle gourd (USVL1VR-Ls)	cmalsiB075
CmaCh10G003430	MELO3C017384.2	Melon (DHL92) v3.6.1	cmamedB070
CmaCh10G003430	CsaV3_1G004580	Cucumber (Chinese Long) v3	cmacucB0060
CmaCh10G003430	Cla97C06G123540	Watermelon (97103) v2	cmawmbB081
CmaCh10G003430	Bhi02G000128	Wax gourd	cmawgoB0077
CmaCh10G003430	CsGy1G004490	Cucumber (Gy14) v2	cgybcmaB006

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CmaCh10G003430	Cucurbita maxima (Rimu)	cmacmaB072
CmaCh10G003430	Cucurbita moschata (Rifu)	cmacmoB068
CmaCh10G003430	Watermelon (97103) v1	cmawmB071
CmaCh10G003430	Cucurbita pepo (Zucchini)	cmacpeB080
CmaCh10G003430	Cucurbita pepo (Zucchini)	cmacpeB092
CmaCh10G003430	Silver-seed gourd	carcmaB0828
CmaCh10G003430	Silver-seed gourd	carcmaB1091