Cucsa.291740 (gene) Cucumber (Gy14) v1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Cucsa.291740
Type	gene
Organism	Cucumis sativus (Cucumber (Gy14) v1)
Description	Pseudouridine synthase family protein
Location	scaffold02766 : 299457 .. 300152 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDS

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

ATGGAAAATGCACGTGCAAAACATTTGCTGCCTGGGAAGGCAATGCAGATACAATCTGTTATCTTCCATTTCACTCTACTGGCATGTCTCAAGGAGACTTCAATTATTTTAATTCATTTCAGTTTTACTAGCATCCAAAGTGCAAAGTCAATTATTTTTCAGTTGAATAATGATATGACATCATGTTACTAGTTCTATGTTGTTGCAAGTCATCTAGATCTTTTTGGAGATTGATGGTTGGTTATCATTTAGATCATAGATGATTATGGATAAAGGATGATGTCTTTGGAGAGCATGAACCGTTAAAGCATCCCTTACTTTTCAGGTACGTGCATAGTTACCAAAGCTATTTATGGAATCATGCAGCAAGTATGAGAGTGCAAAAATACGGTGCGCTTCCTTAATTATCTACTTATGGTATATGATTTTCACAATCAAGATCATTATAAAAGTTGTGTTTCGCAGTAATCATTTGTGTCATAATTTCTGTGGTTTCACCATCATGTAACAGGGATTGACAAAGTGGTTGTTGGAGACTTGGTATACTGTAAAGAAAACCACACTGAAACAGCTGCAGTGCAAAATTCTGAAGAATATGAAGACGAGGACTGTGGCGATGCTAATTCATACGACTCTTGTCATTTAGAAGAAGTGTGCAAGCTTGGTCTTCCAACTGAAAGACATAAGCTAGTGAAG

mRNA sequence

ATGGAAAATGCACGTGCAAAACATTTGCTGCCTGGGAAGGCAATGCAGATACAATCTGTTATCTTCCATTTCACTCTACTGGCATGTCTCAAGGAGACTTCAATTATTTTAATTCATTTCAAGCATGAACCGTTAAAGCATCCCTTACTTTTCAGGTACGTGCATAGTTACCAAAGCTATTTATGGAATCATGCAGCAAGTATGAGAGTGCAAAAATACGGGATTGACAAAGTGGTTGTTGGAGACTTGGTATACTGTAAAGAAAACCACACTGAAACAGCTGCAGTGCAAAATTCTGAAGAATATGAAGACGAGGACTGTGGCGATGCTAATTCATACGACTCTTGTCATTTAGAAGAAGTGTGCAAGCTTGGTCTTCCAACTGAAAGACATAAGCTAGTGAAG

Coding sequence (CDS)

ATGGAAAATGCACGTGCAAAACATTTGCTGCCTGGGAAGGCAATGCAGATACAATCTGTTATCTTCCATTTCACTCTACTGGCATGTCTCAAGGAGACTTCAATTATTTTAATTCATTTCAAGCATGAACCGTTAAAGCATCCCTTACTTTTCAGGTACGTGCATAGTTACCAAAGCTATTTATGGAATCATGCAGCAAGTATGAGAGTGCAAAAATACGGGATTGACAAAGTGGTTGTTGGAGACTTGGTATACTGTAAAGAAAACCACACTGAAACAGCTGCAGTGCAAAATTCTGAAGAATATGAAGACGAGGACTGTGGCGATGCTAATTCATACGACTCTTGTCATTTAGAAGAAGTGTGCAAGCTTGGTCTTCCAACTGAAAGACATAAGCTAGTGAAG

Protein sequence

MENARAKHLLPGKAMQIQSVIFHFTLLACLKETSIILIHFKHEPLKHPLLFRYVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVYCKENHTETAAVQNSEEYEDEDCGDANSYDSCHLEEVCKLGLPTERHKLVK

Homology

[Close]

BLAST of Cucsa.291740 vs. TrEMBL
Match: A0A0A0LY46_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_1G690320 PE=4 SV=1)

HSP 1 Score: 180.3 bits (456), Expect = 1.6e-42
Identity = 84/87 (96.55%), Postives = 84/87 (96.55%), Query Frame = 1


Query: 49  LLFRYVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVYCKENHTETAAVQNSEEYEDEDCG 108
           L   YVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVYCKENHTETAAVQNSEEYEDEDCG
Sbjct: 288 LRMMYVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVYCKENHTETAAVQNSEEYEDEDCG 347

Query: 109 DANSYDSCHLEEVCKLGLPTERHKLVK 136
           DANSYDSCHLEEVCKLGLPTERHKLVK
Sbjct: 348 DANSYDSCHLEEVCKLGLPTERHKLVK 374

[Close]

BLAST of Cucsa.291740 vs. TrEMBL
Match: A0A067JUI6_JATCU (Uncharacterized protein OS=Jatropha curcas GN=JCGZ_23478 PE=4 SV=1)

HSP 1 Score: 104.8 bits (260), Expect = 8.6e-20
Identity = 53/87 (60.92%), Postives = 59/87 (67.82%), Query Frame = 1


Query: 49  LLFRYVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVYCKENHTETAAVQNSEEYEDEDCG 108
           L   YVHSYQSYLWNHAASMRVQKYG D+VVVGDLVYCKEN TE  A   + E ED  CG
Sbjct: 451 LRMMYVHSYQSYLWNHAASMRVQKYGTDQVVVGDLVYCKENDTEKDAADFNSECEDGSCG 510

Query: 109 DANSYDSCHLEEVCKLGLPTERHKLVK 136
           D   YD  +L+E      P  ++ LVK
Sbjct: 511 DI--YDCSNLDETTGTDCPERKNALVK 535

[Close]

BLAST of Cucsa.291740 vs. TrEMBL
Match: F6HTS9_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VIT_14s0030g01850 PE=4 SV=1)

HSP 1 Score: 98.2 bits (243), Expect = 8.1e-18
Identity = 47/87 (54.02%), Postives = 60/87 (68.97%), Query Frame = 1


Query: 49  LLFRYVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVYCKENHTETAAVQNSEEYEDEDCG 108
           L   YVHSYQSYLWNHAASMRVQ YG  +VV+GDLVYCK ++ E      + E++D+ C 
Sbjct: 229 LRMMYVHSYQSYLWNHAASMRVQNYGTKQVVLGDLVYCKGDNAEKVTRVVNSEFDDDGCS 288

Query: 109 DANSYDSCHLEEVCKLGLPTERHKLVK 136
           DA  +DS H +E+ +  LP ER+  VK
Sbjct: 289 DA--FDSSHFDEISETDLPEERNDPVK 313

[Close]

BLAST of Cucsa.291740 vs. TrEMBL
Match: A0A068ULN8_COFCA (Uncharacterized protein OS=Coffea canephora GN=GSCOC_T00027484001 PE=4 SV=1)

HSP 1 Score: 96.3 bits (238), Expect = 3.1e-17
Identity = 51/110 (46.36%), Postives = 67/110 (60.91%), Query Frame = 1


Query: 26  LLACLKETSIILIHFKHEPLKHPLLFRYVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVY 85
           +L CLK +    +    + +   L   Y+HSYQSYLWNHAASMRVQKYGID VV+GDLVY
Sbjct: 386 ILQCLKRSPGNYLQAL-KSIPRTLRMMYIHSYQSYLWNHAASMRVQKYGIDHVVLGDLVY 445

Query: 86  CKENHTETAAVQNSEEYEDEDCGDANSYDSCHLEEVCKLGLPTERHKLVK 136
           CKE+  E     N  E+ED    D ++    H++E+ +  LP E+   VK
Sbjct: 446 CKEHCREAERGANYSEFEDGSSNDTSN----HIDEISEADLPEEKDVTVK 490

[Close]

BLAST of Cucsa.291740 vs. TrEMBL
Match: M5WRD4_PRUPE (Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa020985mg PE=3 SV=1)

HSP 1 Score: 94.0 bits (232), Expect = 1.5e-16
Identity = 49/87 (56.32%), Postives = 58/87 (66.67%), Query Frame = 1


Query: 49  LLFRYVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVYCKENHTETAAVQNSEEYEDEDCG 108
           L   YVHSYQSYLWNHAASMRVQKYG D+VV+GDLVYCK N TE  +   S +  DE+  
Sbjct: 405 LRMMYVHSYQSYLWNHAASMRVQKYGTDRVVLGDLVYCKGNETEKVSEVVSSKCVDENGN 464

Query: 109 DANSYDSCHLEEVCKLGLPTERHKLVK 136
           D  + D   L+++    LP ER  LVK
Sbjct: 465 D--TLDPIDLDDISGTNLPEERLNLVK 489

[Close]

BLAST of Cucsa.291740 vs. TAIR10
Match: AT3G04820.1 (AT3G04820.1 Pseudouridine synthase family protein)

HSP 1 Score: 65.9 bits (159), Expect = 2.2e-11
Identity = 35/87 (40.23%), Postives = 50/87 (57.47%), Query Frame = 1


Query: 49  LLFRYVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVYCKENHTETAAVQNSEEYEDEDCG 108
           L   YVHSYQSYLWN+AAS+RV+ YG  +VV+GDLV  K +  +      + E+ +    
Sbjct: 441 LRMMYVHSYQSYLWNNAASLRVKNYGTSQVVLGDLVSTKVDAAKRMVDSLTSEHNE---S 500

Query: 109 DANSYDSCHLEEVCKLGLPTERHKLVK 136
              + D   +++   + LP ER  LVK
Sbjct: 501 SEEALDCDQVDDTAVVDLPAERSDLVK 524

[Close]

BLAST of Cucsa.291740 vs. NCBI nr
Match: gi|778664378|ref|XP_011660284.1| (PREDICTED: pseudouridylate synthase 7 homolog [Cucumis sativus])

HSP 1 Score: 180.3 bits (456), Expect = 2.3e-42
Identity = 84/87 (96.55%), Postives = 84/87 (96.55%), Query Frame = 1


Query: 49  LLFRYVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVYCKENHTETAAVQNSEEYEDEDCG 108
           L   YVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVYCKENHTETAAVQNSEEYEDEDCG
Sbjct: 441 LRMMYVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVYCKENHTETAAVQNSEEYEDEDCG 500

Query: 109 DANSYDSCHLEEVCKLGLPTERHKLVK 136
           DANSYDSCHLEEVCKLGLPTERHKLVK
Sbjct: 501 DANSYDSCHLEEVCKLGLPTERHKLVK 527

[Close]

BLAST of Cucsa.291740 vs. NCBI nr
Match: gi|700211699|gb|KGN66795.1| (hypothetical protein Csa_1G690320 [Cucumis sativus])

HSP 1 Score: 180.3 bits (456), Expect = 2.3e-42
Identity = 84/87 (96.55%), Postives = 84/87 (96.55%), Query Frame = 1


Query: 49  LLFRYVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVYCKENHTETAAVQNSEEYEDEDCG 108
           L   YVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVYCKENHTETAAVQNSEEYEDEDCG
Sbjct: 288 LRMMYVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVYCKENHTETAAVQNSEEYEDEDCG 347

Query: 109 DANSYDSCHLEEVCKLGLPTERHKLVK 136
           DANSYDSCHLEEVCKLGLPTERHKLVK
Sbjct: 348 DANSYDSCHLEEVCKLGLPTERHKLVK 374

[Close]

BLAST of Cucsa.291740 vs. NCBI nr
Match: gi|659125508|ref|XP_008462718.1| (PREDICTED: pseudouridylate synthase 7 homolog isoform X2 [Cucumis melo])

HSP 1 Score: 176.4 bits (446), Expect = 3.3e-41
Identity = 82/87 (94.25%), Postives = 84/87 (96.55%), Query Frame = 1


Query: 49  LLFRYVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVYCKENHTETAAVQNSEEYEDEDCG 108
           L   YVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVYCKENHTETAAVQNSEEYEDEDCG
Sbjct: 411 LRMMYVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVYCKENHTETAAVQNSEEYEDEDCG 470

Query: 109 DANSYDSCHLEEVCKLGLPTERHKLVK 136
           DANSYDSCHLEE+CKLGLPTER+KLVK
Sbjct: 471 DANSYDSCHLEEMCKLGLPTERNKLVK 497

[Close]

BLAST of Cucsa.291740 vs. NCBI nr
Match: gi|659125504|ref|XP_008462716.1| (PREDICTED: pseudouridylate synthase 7 homolog isoform X1 [Cucumis melo])

HSP 1 Score: 176.4 bits (446), Expect = 3.3e-41
Identity = 82/87 (94.25%), Postives = 84/87 (96.55%), Query Frame = 1


Query: 49  LLFRYVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVYCKENHTETAAVQNSEEYEDEDCG 108
           L   YVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVYCKENHTETAAVQNSEEYEDEDCG
Sbjct: 441 LRMMYVHSYQSYLWNHAASMRVQKYGIDKVVVGDLVYCKENHTETAAVQNSEEYEDEDCG 500

Query: 109 DANSYDSCHLEEVCKLGLPTERHKLVK 136
           DANSYDSCHLEE+CKLGLPTER+KLVK
Sbjct: 501 DANSYDSCHLEEMCKLGLPTERNKLVK 527

[Close]

BLAST of Cucsa.291740 vs. NCBI nr
Match: gi|1009117675|ref|XP_015875444.1| (PREDICTED: multisubstrate pseudouridine synthase 7 isoform X1 [Ziziphus jujuba])

HSP 1 Score: 114.8 bits (286), Expect = 1.2e-22
Identity = 61/111 (54.95%), Postives = 73/111 (65.77%), Query Frame = 1


Query: 25  TLLACLKETSIILIHFKHEPLKHPLLFRYVHSYQSYLWNHAASMRVQKYGIDKVVVGDLV 84
           ++L CLK+     +    + +   L   YVHSYQSYLWNHAASMRVQKYG DKVV+GDLV
Sbjct: 416 SILQCLKKCPGNYLQAL-KTIPRTLRMMYVHSYQSYLWNHAASMRVQKYGTDKVVLGDLV 475

Query: 85  YCKENHTETAAVQNSEEYEDEDCGDANSYDSCHLEEVCKLGLPTERHKLVK 136
           YCKEN TE      + EYEDEDC DA  +DS  L+E+    +P ER  LVK
Sbjct: 476 YCKENDTEKVREVVNAEYEDEDCNDA--FDSHDLDEISTTDIPNERTNLVK 523

The following BLAST results are available for this feature:

BLAST of Cucsa.291740 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0LY46_CUCSA	1.6e-42	96.55	Uncharacterized protein OS=Cucumis sativus GN=Csa_1G690320 PE=4 SV=1	[more]
A0A067JUI6_JATCU	8.6e-20	60.92	Uncharacterized protein OS=Jatropha curcas GN=JCGZ_23478 PE=4 SV=1	[more]
F6HTS9_VITVI	8.1e-18	54.02	Putative uncharacterized protein OS=Vitis vinifera GN=VIT_14s0030g01850 PE=4 SV=...	[more]
A0A068ULN8_COFCA	3.1e-17	46.36	Uncharacterized protein OS=Coffea canephora GN=GSCOC_T00027484001 PE=4 SV=1	[more]
M5WRD4_PRUPE	1.5e-16	56.32	Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa020985mg PE=3 SV=1	[more]

BLAST of Cucsa.291740 vs. TAIR10


Match Name	E-value	Identity	Description
AT3G04820.1	2.2e-11	40.23	Pseudouridine synthase family protein	[more]

BLAST of Cucsa.291740 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|778664378\|ref\|XP_011660284.1\|	2.3e-42	96.55	PREDICTED: pseudouridylate synthase 7 homolog [Cucumis sativus]	[more]
gi\|700211699\|gb\|KGN66795.1\|	2.3e-42	96.55	hypothetical protein Csa_1G690320 [Cucumis sativus]	[more]
gi\|659125508\|ref\|XP_008462718.1\|	3.3e-41	94.25	PREDICTED: pseudouridylate synthase 7 homolog isoform X2 [Cucumis melo]	[more]
gi\|659125504\|ref\|XP_008462716.1\|	3.3e-41	94.25	PREDICTED: pseudouridylate synthase 7 homolog isoform X1 [Cucumis melo]	[more]
gi\|1009117675\|ref\|XP_015875444.1\|	1.2e-22	54.95	PREDICTED: multisubstrate pseudouridine synthase 7 isoform X1 [Ziziphus jujuba]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR001656	PsdUridine_synth_TruD
IPR011760	PsdUridine_synth_TruD_insert
IPR020103	PsdUridine_synth_cat_dom_sf

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

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

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
cellular_component	GO:0005575	cellular_component
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
Cucsa.291740.1	Cucsa.291740.1	mRNA

InterPro

Analysis Name: InterPro Annotations of cucumber (Gy14)
Date Performed: 2017-01-17


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR001656	Pseudouridine synthase, TruD	PANTHER	PTHR13326	TRNA PSEUDOURIDINE SYNTHASE D	coord: 53..101 score: 4.2
IPR001656	Pseudouridine synthase, TruD	PFAM	PF01142	TruD	coord: 45..103 score: 2.
IPR011760	Pseudouridine synthase, TruD, insertion domain	PROFILE	PS50984	TRUD	coord: 1..135 score: 9
IPR020103	Pseudouridine synthase, catalytic domain	unknown	SSF55120	Pseudouridine synthase	coord: 39..97 score: 8.06
None	No IPR available	PANTHER	PTHR13326:SF8	SUBFAMILY NOT NAMED	coord: 53..101 score: 4.2
None	No IPR available	PROFILE	PS51257	PROKAR_LIPOPROTEIN	coord: 1..29 score:

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
Cucsa.291740	Cucurbita maxima (Rimu)	cgycmaB0815
Cucsa.291740	Cucurbita maxima (Rimu)	cgycmaB0816
Cucsa.291740	Cucurbita moschata (Rifu)	cgycmoB0809
Cucsa.291740	Cucurbita moschata (Rifu)	cgycmoB0810
Cucsa.291740	Wild cucumber (PI 183967)	cgycpiB440
Cucsa.291740	Wild cucumber (PI 183967)	cgycpiB441
Cucsa.291740	Cucumber (Chinese Long) v2	cgycuB417
Cucsa.291740	Cucumber (Chinese Long) v2	cgycuB418
Cucsa.291740	Melon (DHL92) v3.5.1	cgymeB484
Cucsa.291740	Watermelon (Charleston Gray)	cgywcgB507
Cucsa.291740	Watermelon (97103) v1	cgywmB535
Cucsa.291740	Cucurbita pepo (Zucchini)	cgycpeB0771
Cucsa.291740	Cucurbita pepo (Zucchini)	cgycpeB0772
Cucsa.291740	Bottle gourd (USVL1VR-Ls)	cgylsiB473
Cucsa.291740	Bottle gourd (USVL1VR-Ls)	cgylsiB474
Cucsa.291740	Melon (DHL92) v3.6.1	cgymedB483
Cucsa.291740	Silver-seed gourd	carcgyB0025
Cucsa.291740	Silver-seed gourd	carcgyB1031
Cucsa.291740	Cucumber (Chinese Long) v3	cgycucB450
Cucsa.291740	Cucumber (Chinese Long) v3	cgycucB451
Cucsa.291740	Watermelon (97103) v2	cgywmbB508
Cucsa.291740	Wax gourd	cgywgoB591