MELO3C009013.2 (gene) Melon (DHL92) v3.6.1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	MELO3C009013.2
Type	gene
Organism	Cucumis melo (Melon (DHL92) v3.6.1)
Description	tRNA pseudouridine synthase
Location	chr08 : 21122805 .. 21123023 (+)

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.

ATGGAAAACACTGATGTATATAGGAGGATTATGTCTACTTGCATCCTTTGGCAGCTTGTTAGAAATATCATAGGGAAGTTTGTAGATGAGACGAAAGCTCAAATGCTGAAAGATAAATGCTTACCATTAGAAGGATGTGTTGTGGTTGCTGGGCGCACTGACAAAGGGGTGACTGCTCTACAACAAGTTTGCACAATTTGTTGTATGTTAGCTTTCTAA

mRNA sequence

ATGGAAAACACTGATGTATATAGGAGGATTATGTCTACTTGCATCCTTTGGCAGCTTGTTAGAAATATCATAGGGAAGTTTGTAGATGAGACGAAAGCTCAAATGCTGAAAGATAAATGCTTACCATTAGAAGGATGTGTTGTGGTTGCTGGGCGCACTGACAAAGGGGTGACTGCTCTACAACAAGTTTGCACAATTTGTTGTATGTTAGCTTTCTAA

Coding sequence (CDS)

ATGGAAAACACTGATGTATATAGGAGGATTATGTCTACTTGCATCCTTTGGCAGCTTGTTAGAAATATCATAGGGAAGTTTGTAGATGAGACGAAAGCTCAAATGCTGAAAGATAAATGCTTACCATTAGAAGGATGTGTTGTGGTTGCTGGGCGCACTGACAAAGGGGTGACTGCTCTACAACAAGTTTGCACAATTTGTTGTATGTTAGCTTTCTAA

Protein sequence

MENTDVYRRIMSTCILWQLVRNIIGKFVDETKAQMLKDKCLPLEGCVVVAGRTDKGVTALQQVCTICCMLAF

Homology

[Close]

BLAST of MELO3C009013.2 vs. NCBI nr
Match: XP_008453520.1 (PREDICTED: tRNA pseudouridine synthase A [Cucumis melo])

HSP 1 Score: 83.6 bits (205), Expect = 3.1e-13
Identity = 39/47 (82.98%), Postives = 42/47 (89.36%), Query Frame = 0


Query: 19  LVRNIIGKFVDETKAQMLKDKCLPLEGCVVVAGRTDKGVTALQQVCT 66
           LV   +GKFVDE KAQMLKDKCLPLEGC VVAGRTDKGVTAL+QVC+
Sbjct: 146 LVERSLGKFVDEKKAQMLKDKCLPLEGCAVVAGRTDKGVTALRQVCS 192

[Close]

BLAST of MELO3C009013.2 vs. NCBI nr
Match: XP_015881667.1 (uncharacterized protein LOC107417573 [Ziziphus jujuba])

HSP 1 Score: 83.6 bits (205), Expect = 3.1e-13
Identity = 39/47 (82.98%), Postives = 42/47 (89.36%), Query Frame = 0


Query: 19 LVRNIIGKFVDETKAQMLKDKCLPLEGCVVVAGRTDKGVTALQQVCT 66
          LV   +GKFVDE KAQ+LKDKCLPLEGC VVAGRTDKGVTALQQVC+
Sbjct: 5  LVEKSLGKFVDEKKAQVLKDKCLPLEGCAVVAGRTDKGVTALQQVCS 51

[Close]

BLAST of MELO3C009013.2 vs. NCBI nr
Match: XP_015881730.1 (uncharacterized protein LOC107417627 [Ziziphus jujuba])

HSP 1 Score: 83.6 bits (205), Expect = 3.1e-13
Identity = 39/47 (82.98%), Postives = 42/47 (89.36%), Query Frame = 0


Query: 19  LVRNIIGKFVDETKAQMLKDKCLPLEGCVVVAGRTDKGVTALQQVCT 66
           LV   +GKFVDE KAQ+LKDKCLPLEGC VVAGRTDKGVTALQQVC+
Sbjct: 156 LVEKSLGKFVDEKKAQVLKDKCLPLEGCAVVAGRTDKGVTALQQVCS 202

[Close]

BLAST of MELO3C009013.2 vs. NCBI nr
Match: XP_004137363.1 (PREDICTED: uncharacterized protein LOC101205562 [Cucumis sativus] >KGN63901.1 hypothetical protein Csa_1G025830 [Cucumis sativus])

HSP 1 Score: 82.4 bits (202), Expect = 6.8e-13
Identity = 38/47 (80.85%), Postives = 42/47 (89.36%), Query Frame = 0


Query: 19  LVRNIIGKFVDETKAQMLKDKCLPLEGCVVVAGRTDKGVTALQQVCT 66
           LV   +GKFVDE KAQMLKDKCLPLEGC +VAGRTDKGVTAL+QVC+
Sbjct: 146 LVERSLGKFVDEKKAQMLKDKCLPLEGCALVAGRTDKGVTALRQVCS 192

[Close]

BLAST of MELO3C009013.2 vs. NCBI nr
Match: XP_022135240.1 (uncharacterized protein LOC111007251 isoform X2 [Momordica charantia])

HSP 1 Score: 81.3 bits (199), Expect = 1.5e-12
Identity = 37/47 (78.72%), Postives = 42/47 (89.36%), Query Frame = 0


Query: 19  LVRNIIGKFVDETKAQMLKDKCLPLEGCVVVAGRTDKGVTALQQVCT 66
           LV   +GKFVDE KAQ+LKD+CLPLEGC VVAGRTDKGVTAL+QVC+
Sbjct: 146 LVEKSLGKFVDEKKAQLLKDRCLPLEGCAVVAGRTDKGVTALRQVCS 192

[Close]

BLAST of MELO3C009013.2 vs. TAIR10
Match: AT5G35400.2 (Pseudouridine synthase family protein)

HSP 1 Score: 67.4 bits (163), Expect = 4.1e-12
Identity = 32/47 (68.09%), Postives = 38/47 (80.85%), Query Frame = 0


Query: 19  LVRNIIGKFVDETKAQMLKDKCLPLEGCVVVAGRTDKGVTALQQVCT 66
           +V   +G FVDE KAQ+LK KC PLEG V+VAGRTDKGV+AL QVC+
Sbjct: 121 VVEKSLGGFVDERKAQLLKKKCKPLEGRVLVAGRTDKGVSALNQVCS 167

[Close]

BLAST of MELO3C009013.2 vs. TrEMBL
Match: tr|A0A1S3BWI6|A0A1S3BWI6_CUCME (tRNA pseudouridine synthase OS=Cucumis melo OX=3656 GN=LOC103494203 PE=3 SV=1)

HSP 1 Score: 83.6 bits (205), Expect = 2.0e-13
Identity = 39/47 (82.98%), Postives = 42/47 (89.36%), Query Frame = 0


Query: 19  LVRNIIGKFVDETKAQMLKDKCLPLEGCVVVAGRTDKGVTALQQVCT 66
           LV   +GKFVDE KAQMLKDKCLPLEGC VVAGRTDKGVTAL+QVC+
Sbjct: 146 LVERSLGKFVDEKKAQMLKDKCLPLEGCAVVAGRTDKGVTALRQVCS 192

[Close]

BLAST of MELO3C009013.2 vs. TrEMBL
Match: tr|A0A0A0LV59|A0A0A0LV59_CUCSA (tRNA pseudouridine synthase OS=Cucumis sativus OX=3659 GN=Csa_1G025830 PE=3 SV=1)

HSP 1 Score: 82.4 bits (202), Expect = 4.5e-13
Identity = 38/47 (80.85%), Postives = 42/47 (89.36%), Query Frame = 0


Query: 19  LVRNIIGKFVDETKAQMLKDKCLPLEGCVVVAGRTDKGVTALQQVCT 66
           LV   +GKFVDE KAQMLKDKCLPLEGC +VAGRTDKGVTAL+QVC+
Sbjct: 146 LVERSLGKFVDEKKAQMLKDKCLPLEGCALVAGRTDKGVTALRQVCS 192

[Close]

BLAST of MELO3C009013.2 vs. TrEMBL
Match: tr|W9S3H9|W9S3H9_9ROSA (tRNA pseudouridine synthase OS=Morus notabilis OX=981085 GN=L484_008208 PE=3 SV=1)

HSP 1 Score: 80.5 bits (197), Expect = 1.7e-12
Identity = 37/47 (78.72%), Postives = 41/47 (87.23%), Query Frame = 0


Query: 19  LVRNIIGKFVDETKAQMLKDKCLPLEGCVVVAGRTDKGVTALQQVCT 66
           LV   +G+FVDE KAQ+LKDKCLPLE C VVAGRTDKGVTALQQVC+
Sbjct: 155 LVERSLGRFVDEKKAQLLKDKCLPLEACTVVAGRTDKGVTALQQVCS 201

[Close]

BLAST of MELO3C009013.2 vs. TrEMBL
Match: tr|A0A2G2Z1Z0|A0A2G2Z1Z0_CAPAN (Uncharacterized protein OS=Capsicum annuum OX=4072 GN=T459_19530 PE=4 SV=1)

HSP 1 Score: 76.6 bits (187), Expect = 2.5e-11
Identity = 35/49 (71.43%), Postives = 41/49 (83.67%), Query Frame = 0


Query: 19  LVRNIIGKFVDETKAQMLKDKCLPLEGCVVVAGRTDKGVTALQQVCTIC 68
           L+   +G+FVDE KAQ+LKDK LPLEGC VVAGRTDKGV+A QQVC+ C
Sbjct: 88  LIERSLGEFVDEKKAQLLKDKNLPLEGCAVVAGRTDKGVSASQQVCSFC 136

[Close]

BLAST of MELO3C009013.2 vs. TrEMBL
Match: tr|A0A2G2WCH7|A0A2G2WCH7_CAPBA (Uncharacterized protein OS=Capsicum baccatum OX=33114 GN=CQW23_16927 PE=4 SV=1)

HSP 1 Score: 76.6 bits (187), Expect = 2.5e-11
Identity = 35/49 (71.43%), Postives = 41/49 (83.67%), Query Frame = 0


Query: 19  LVRNIIGKFVDETKAQMLKDKCLPLEGCVVVAGRTDKGVTALQQVCTIC 68
           L+   +G+FVDE KAQ+LKDK LPLEGC VVAGRTDKGV+A QQVC+ C
Sbjct: 113 LIERSLGEFVDEKKAQLLKDKNLPLEGCAVVAGRTDKGVSASQQVCSFC 161

The following BLAST results are available for this feature:

BLAST of MELO3C009013.2 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_008453520.1	3.1e-13	82.98	PREDICTED: tRNA pseudouridine synthase A [Cucumis melo]	[more]
XP_015881667.1	3.1e-13	82.98	uncharacterized protein LOC107417573 [Ziziphus jujuba]	[more]
XP_015881730.1	3.1e-13	82.98	uncharacterized protein LOC107417627 [Ziziphus jujuba]	[more]
XP_004137363.1	6.8e-13	80.85	PREDICTED: uncharacterized protein LOC101205562 [Cucumis sativus] >KGN63901.1 hy...	[more]
XP_022135240.1	1.5e-12	78.72	uncharacterized protein LOC111007251 isoform X2 [Momordica charantia]	[more]

BLAST of MELO3C009013.2 vs. TAIR10


Match Name	E-value	Identity	Description
AT5G35400.2	4.1e-12	68.09	Pseudouridine synthase family protein	[more]

BLAST of MELO3C009013.2 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of MELO3C009013.2 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|A0A1S3BWI6\|A0A1S3BWI6_CUCME	2.0e-13	82.98	tRNA pseudouridine synthase OS=Cucumis melo OX=3656 GN=LOC103494203 PE=3 SV=1	[more]
tr\|A0A0A0LV59\|A0A0A0LV59_CUCSA	4.5e-13	80.85	tRNA pseudouridine synthase OS=Cucumis sativus OX=3659 GN=Csa_1G025830 PE=3 SV=1	[more]
tr\|W9S3H9\|W9S3H9_9ROSA	1.7e-12	78.72	tRNA pseudouridine synthase OS=Morus notabilis OX=981085 GN=L484_008208 PE=3 SV=...	[more]
tr\|A0A2G2Z1Z0\|A0A2G2Z1Z0_CAPAN	2.5e-11	71.43	Uncharacterized protein OS=Capsicum annuum OX=4072 GN=T459_19530 PE=4 SV=1	[more]
tr\|A0A2G2WCH7\|A0A2G2WCH7_CAPBA	2.5e-11	71.43	Uncharacterized protein OS=Capsicum baccatum OX=33114 GN=CQW23_16927 PE=4 SV=1	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **Molecular Function**
Term	Definition
GO:0003723	RNA binding
GO:0009982	pseudouridine synthase activity

Vocabulary: **Biological Process**
Term	Definition
GO:0001522	pseudouridine synthesis
GO:0009451	RNA modification

Vocabulary: **INTERPRO**
Term	Definition
IPR001406	PsdUridine_synth_TruA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0001522	pseudouridine synthesis
biological_process	GO:0009451	RNA modification
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
MELO3C009013.2.1	MELO3C009013.2.1	mRNA

InterPro

Analysis Name: InterPro Annotations of melon v3.6.1
Date Performed: 2018-09-25


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	GENE3D	G3DSA:3.30.70.580		coord: 17..70 e-value: 5.9E-5 score: 25.3
None	No IPR available	PANTHER	PTHR11142:SF10	TRNA PSEUDOURIDINE SYNTHASE	coord: 18..66
IPR001406	Pseudouridine synthase I, TruA	PANTHER	PTHR11142	PSEUDOURIDYLATE SYNTHASE	coord: 18..66

Synteny

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

None

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
MELO3C009013.2	Cucumber (Gy14) v2	cgybmedB285
MELO3C009013.2	Cucumber (Gy14) v1	cgymedB577
MELO3C009013.2	Cucurbita maxima (Rimu)	cmamedB698
MELO3C009013.2	Cucurbita maxima (Rimu)	cmamedB909
MELO3C009013.2	Cucurbita moschata (Rifu)	cmomedB689
MELO3C009013.2	Cucurbita moschata (Rifu)	cmomedB897
MELO3C009013.2	Cucurbita pepo (Zucchini)	cpemedB095
MELO3C009013.2	Cucurbita pepo (Zucchini)	cpemedB533
MELO3C009013.2	Wild cucumber (PI 183967)	cpimedB324
MELO3C009013.2	Cucumber (Chinese Long) v2	cumedB321
MELO3C009013.2	Bottle gourd (USVL1VR-Ls)	lsimedB159
MELO3C009013.2	Watermelon (Charleston Gray)	medwcgB522
MELO3C009013.2	Watermelon (97103) v1	medwmB574
MELO3C009013.2	Silver-seed gourd	carmedB0298
MELO3C009013.2	Silver-seed gourd	carmedB0858
MELO3C009013.2	Cucumber (Chinese Long) v3	cucmedB329
MELO3C009013.2	Watermelon (97103) v2	medwmbB526
MELO3C009013.2	Wax gourd	medwgoB667