Csa5G453720 (gene) Cucumber (Chinese Long) v2 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Csa5G453720
Type	gene
Organism	Cucumis. sativus (Cucumber (Chinese Long) v2)
Description	mRNA turnover protein 4; contains IPR001790 (Ribosomal protein L10/acidic P0)
Location	Chr5 : 16082011 .. 16082605 (-)

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.

ATGGTAGGGAACAACGATTCTAGTGCAAGAATCTTTTTCTAACTTTCATTCTCAATTTCTGCATCAGTCTGTCCAAGTTTTTCCTTCCATGAGAGTTACTGATTTCAGAAACCAATCAGATGGGGCTCGGATTTGAAATTTGGATAGCTTTATTATAGGTTAATTTGTATGACGCGGTTTCTTGTGAAAAGTATGAGGCAGTTGAAGAAGTTAAATGACTTGTGGTGGTAGTAATCATTGTCAAACTCATGTGGTTTTTAACTTAAAAAGAAAGAGGGAAAATGTGAACTTAGTCCTATGCAGATTAGTGTTTTAAAGAGGAAAAATATGAGCTTAGTCCGATGCAAATGAGTGTTTTAAGTCTTCTATCTAATTGTTCGTGGGATAAATGCAGTTACTTTATCAAAAACAAAGAAGAAAAGGAAGGGACCACAAGAAATCAATGGTGGAATCGATCAGGCAGGGTGTGGAAAATTACAACTCAGTTTTTGTTTTCACTGTTGAGAACATGAGAAACCTCAAGTTCAAGGAACTCAGGGAGCAGCTGAAGTCAGCTAGCAGGCAAGTTCTACTTTCTGAATTCTGTATTATTTAA

mRNA sequence

ATGGTAGGGAACAACGATTCTAGTTTACTTTATCAAAAACAAAGAAGAAAAGGAAGGGACCACAAGAAATCAATGGTGGAATCGATCAGGCAGGGTGTGGAAAATTACAACTCAGTTTTTGTTTTCACTGTTGAGAACATGAGAAACCTCAAGTTCAAGGAACTCAGGGAGCAGCTGAAGTCAGCTAGCAGGCAAGTTCTACTTTCTGAATTCTGTATTATTTAA

Coding sequence (CDS)

ATGGTAGGGAACAACGATTCTAGTTTACTTTATCAAAAACAAAGAAGAAAAGGAAGGGACCACAAGAAATCAATGGTGGAATCGATCAGGCAGGGTGTGGAAAATTACAACTCAGTTTTTGTTTTCACTGTTGAGAACATGAGAAACCTCAAGTTCAAGGAACTCAGGGAGCAGCTGAAGTCAGCTAGCAGGCAAGTTCTACTTTCTGAATTCTGTATTATTTAA

Protein sequence

MVGNNDSSLLYQKQRRKGRDHKKSMVESIRQGVENYNSVFVFTVENMRNLKFKELREQLKSASRQVLLSEFCII*

Homology

[Close]

BLAST of Csa5G453720 vs. TrEMBL
Match: A0A0A0KNA7_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_5G453720 PE=3 SV=1)

HSP 1 Score: 147.1 bits (370), Expect = 8.4e-33
Identity = 74/74 (100.00%), Postives = 74/74 (100.00%), Query Frame = 1


Query: 1  MVGNNDSSLLYQKQRRKGRDHKKSMVESIRQGVENYNSVFVFTVENMRNLKFKELREQLK 60
          MVGNNDSSLLYQKQRRKGRDHKKSMVESIRQGVENYNSVFVFTVENMRNLKFKELREQLK
Sbjct: 1  MVGNNDSSLLYQKQRRKGRDHKKSMVESIRQGVENYNSVFVFTVENMRNLKFKELREQLK 60

Query: 61 SASRQVLLSEFCII 75
          SASRQVLLSEFCII
Sbjct: 61 SASRQVLLSEFCII 74

[Close]

BLAST of Csa5G453720 vs. TrEMBL
Match: A0A0A0LM77_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_2G302060 PE=3 SV=1)

HSP 1 Score: 83.2 bits (204), Expect = 1.5e-13
Identity = 42/47 (89.36%), Postives = 43/47 (91.49%), Query Frame = 1


Query: 25 MVESIRQGVENYNSVFVFTVENMRNLKFKELREQLKSASRQVLLSEF 72
          MVE IRQ VENYNSVFVFTVENMRNLKFKELREQLKS SRQVLL +F
Sbjct: 1  MVELIRQAVENYNSVFVFTVENMRNLKFKELREQLKSTSRQVLLPDF 47

[Close]

BLAST of Csa5G453720 vs. TrEMBL
Match: A0A118K137_CYNCS (Ribosomal protein L10/acidic P0 OS=Cynara cardunculus var. scolymus GN=Ccrd_019959 PE=3 SV=1)

HSP 1 Score: 82.0 bits (201), Expect = 3.3e-13
Identity = 37/59 (62.71%), Postives = 48/59 (81.36%), Query Frame = 1


Query: 6  DSSLLYQKQRRKGRDHKKSMVESIRQGVENYNSVFVFTVENMRNLKFKELREQLKSASR 65
          D ++   K ++KGR+HK+S+V SIR  VENYNS++VF+ ENMRNLKFK+ REQLKS SR
Sbjct: 7  DRAVTLSKTKKKGREHKESIVNSIRDAVENYNSIYVFSFENMRNLKFKQFREQLKSTSR 65

[Close]

BLAST of Csa5G453720 vs. TrEMBL
Match: D7T050_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VIT_12s0034g01000 PE=3 SV=1)

HSP 1 Score: 79.7 bits (195), Expect = 1.7e-12
Identity = 37/59 (62.71%), Postives = 47/59 (79.66%), Query Frame = 1


Query: 6  DSSLLYQKQRRKGRDHKKSMVESIRQGVENYNSVFVFTVENMRNLKFKELREQLKSASR 65
          D  +   K ++KGR HK+S+V SIRQ VENY+S++VF+ ENMRNLKFKE RE+LKS SR
Sbjct: 7  DRPVTLSKTKKKGRGHKESIVNSIRQAVENYSSIYVFSFENMRNLKFKEFREKLKSTSR 65

[Close]

BLAST of Csa5G453720 vs. TrEMBL
Match: A0A067LGD2_JATCU (Uncharacterized protein OS=Jatropha curcas GN=JCGZ_16917 PE=3 SV=1)

HSP 1 Score: 77.8 bits (190), Expect = 6.3e-12
Identity = 35/52 (67.31%), Postives = 45/52 (86.54%), Query Frame = 1


Query: 13 KQRRKGRDHKKSMVESIRQGVENYNSVFVFTVENMRNLKFKELREQLKSASR 65
          K ++KGR+HK+S+V SIR+  E +NS++VFT ENMRNLKFKE REQLKS+SR
Sbjct: 14 KTKKKGREHKESIVNSIREEAEKFNSIYVFTFENMRNLKFKEFREQLKSSSR 65

[Close]

BLAST of Csa5G453720 vs. TAIR10
Match: AT1G25260.1 (AT1G25260.1 Ribosomal protein L10 family protein)

HSP 1 Score: 66.2 bits (160), Expect = 9.6e-12
Identity = 28/55 (50.91%), Postives = 39/55 (70.91%), Query Frame = 1


Query: 6  DSSLLYQKQRRKGRDHKKSMVESIRQGVENYNSVFVFTVENMRNLKFKELREQLK 61
          D  +   K ++KGR+HK+ +V  IR+ VE Y+SV+VF+ ENMRN+KFKE R+Q +
Sbjct: 7  DRPVTLSKTKKKGREHKECIVNGIREAVEKYSSVYVFSFENMRNIKFKEFRQQFR 61

[Close]

BLAST of Csa5G453720 vs. NCBI nr
Match: gi|700195938|gb|KGN51115.1| (hypothetical protein Csa_5G453720 [Cucumis sativus])

HSP 1 Score: 147.1 bits (370), Expect = 1.2e-32
Identity = 74/74 (100.00%), Postives = 74/74 (100.00%), Query Frame = 1


Query: 1  MVGNNDSSLLYQKQRRKGRDHKKSMVESIRQGVENYNSVFVFTVENMRNLKFKELREQLK 60
          MVGNNDSSLLYQKQRRKGRDHKKSMVESIRQGVENYNSVFVFTVENMRNLKFKELREQLK
Sbjct: 1  MVGNNDSSLLYQKQRRKGRDHKKSMVESIRQGVENYNSVFVFTVENMRNLKFKELREQLK 60

Query: 61 SASRQVLLSEFCII 75
          SASRQVLLSEFCII
Sbjct: 61 SASRQVLLSEFCII 74

[Close]

BLAST of Csa5G453720 vs. NCBI nr
Match: gi|778670193|ref|XP_011649395.1| (PREDICTED: mRNA turnover protein 4 homolog [Cucumis sativus])

HSP 1 Score: 95.1 bits (235), Expect = 5.4e-17
Identity = 47/59 (79.66%), Postives = 50/59 (84.75%), Query Frame = 1


Query: 6  DSSLLYQKQRRKGRDHKKSMVESIRQGVENYNSVFVFTVENMRNLKFKELREQLKSASR 65
          D  +   K ++KGRDHKKSMVE IRQ VENYNSVFVFTVENMRNLKFKELREQLKS SR
Sbjct: 7  DRPVTLSKTKKKGRDHKKSMVELIRQAVENYNSVFVFTVENMRNLKFKELREQLKSTSR 65

[Close]

BLAST of Csa5G453720 vs. NCBI nr
Match: gi|700207020|gb|KGN62139.1| (hypothetical protein Csa_2G302060 [Cucumis sativus])

HSP 1 Score: 83.2 bits (204), Expect = 2.1e-13
Identity = 42/47 (89.36%), Postives = 43/47 (91.49%), Query Frame = 1


Query: 25 MVESIRQGVENYNSVFVFTVENMRNLKFKELREQLKSASRQVLLSEF 72
          MVE IRQ VENYNSVFVFTVENMRNLKFKELREQLKS SRQVLL +F
Sbjct: 1  MVELIRQAVENYNSVFVFTVENMRNLKFKELREQLKSTSRQVLLPDF 47

[Close]

BLAST of Csa5G453720 vs. NCBI nr
Match: gi|976916231|gb|KVI01756.1| (Ribosomal protein L10/acidic P0 [Cynara cardunculus var. scolymus])

HSP 1 Score: 82.0 bits (201), Expect = 4.8e-13
Identity = 37/59 (62.71%), Postives = 48/59 (81.36%), Query Frame = 1


Query: 6  DSSLLYQKQRRKGRDHKKSMVESIRQGVENYNSVFVFTVENMRNLKFKELREQLKSASR 65
          D ++   K ++KGR+HK+S+V SIR  VENYNS++VF+ ENMRNLKFK+ REQLKS SR
Sbjct: 7  DRAVTLSKTKKKGREHKESIVNSIRDAVENYNSIYVFSFENMRNLKFKQFREQLKSTSR 65

[Close]

BLAST of Csa5G453720 vs. NCBI nr
Match: gi|225448095|ref|XP_002276595.1| (PREDICTED: mRNA turnover protein 4 homolog [Vitis vinifera])

HSP 1 Score: 79.7 bits (195), Expect = 2.4e-12
Identity = 37/59 (62.71%), Postives = 47/59 (79.66%), Query Frame = 1


Query: 6  DSSLLYQKQRRKGRDHKKSMVESIRQGVENYNSVFVFTVENMRNLKFKELREQLKSASR 65
          D  +   K ++KGR HK+S+V SIRQ VENY+S++VF+ ENMRNLKFKE RE+LKS SR
Sbjct: 7  DRPVTLSKTKKKGRGHKESIVNSIRQAVENYSSIYVFSFENMRNLKFKEFREKLKSTSR 65

The following BLAST results are available for this feature:

BLAST of Csa5G453720 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0KNA7_CUCSA	8.4e-33	100.00	Uncharacterized protein OS=Cucumis sativus GN=Csa_5G453720 PE=3 SV=1	[more]
A0A0A0LM77_CUCSA	1.5e-13	89.36	Uncharacterized protein OS=Cucumis sativus GN=Csa_2G302060 PE=3 SV=1	[more]
A0A118K137_CYNCS	3.3e-13	62.71	Ribosomal protein L10/acidic P0 OS=Cynara cardunculus var. scolymus GN=Ccrd_0199...	[more]
D7T050_VITVI	1.7e-12	62.71	Putative uncharacterized protein OS=Vitis vinifera GN=VIT_12s0034g01000 PE=3 SV=...	[more]
A0A067LGD2_JATCU	6.3e-12	67.31	Uncharacterized protein OS=Jatropha curcas GN=JCGZ_16917 PE=3 SV=1	[more]

BLAST of Csa5G453720 vs. TAIR10


Match Name	E-value	Identity	Description
AT1G25260.1	9.6e-12	50.91	Ribosomal protein L10 family protein	[more]

BLAST of Csa5G453720 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|700195938\|gb\|KGN51115.1\|	1.2e-32	100.00	hypothetical protein Csa_5G453720 [Cucumis sativus]	[more]
gi\|778670193\|ref\|XP_011649395.1\|	5.4e-17	79.66	PREDICTED: mRNA turnover protein 4 homolog [Cucumis sativus]	[more]
gi\|700207020\|gb\|KGN62139.1\|	2.1e-13	89.36	hypothetical protein Csa_2G302060 [Cucumis sativus]	[more]
gi\|976916231\|gb\|KVI01756.1\|	4.8e-13	62.71	Ribosomal protein L10/acidic P0 [Cynara cardunculus var. scolymus]	[more]
gi\|225448095\|ref\|XP_002276595.1\|	2.4e-12	62.71	PREDICTED: mRNA turnover protein 4 homolog [Vitis vinifera]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR001790	Ribosomal_L10P

Vocabulary: **Cellular Component**
Term	Definition
GO:0005622	intracellular

Vocabulary: **Biological Process**
Term	Definition
GO:0042254	ribosome biogenesis

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0042254	ribosome biogenesis
cellular_component	GO:0022626	cytosolic ribosome
cellular_component	GO:0005622	intracellular
molecular_function	GO:0003674	molecular_function

Unigene

This gene is associated with the following unigenes:


Unigene Name	Analysis Name	Sequence type in Unigene
CU155997	cucumber EST collection version 3.0	transcribed_cluster
CU171267	cucumber EST collection version 3.0	transcribed_cluster

Relationships

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


Feature Name	Unique Name	Type
Csa5G453720.1	Csa5G453720.1	mRNA

The following transcribed_cluster feature(s) are associated with this gene:


Feature Name	Unique Name	Type
CU155997	CU155997	transcribed_cluster
CU171267	CU171267	transcribed_cluster

InterPro

Analysis Name: InterPro Annotations of cucumber (Chinese Long)
Date Performed: 2016-09-28


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR001790	Ribosomal protein L10P	PFAM	PF00466	Ribosomal_L10	coord: 18..63 score: 4.
None	No IPR available	PANTHER	PTHR21141	60S ACIDIC RIBOSOMAL PROTEIN FAMILY MEMBER	coord: 20..64 score: 8.7
None	No IPR available	unknown	SSF160369	Ribosomal protein L10-like	coord: 19..62 score: 8.1

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
Csa5G453720	Melon (DHL92) v3.5.1	cumeB363
Csa5G453720	Watermelon (Charleston Gray)	cuwcgB366
Csa5G453720	Watermelon (97103) v1	cuwmB410
Csa5G453720	Cucurbita pepo (Zucchini)	cpecuB179
Csa5G453720	Cucurbita pepo (Zucchini)	cpecuB421
Csa5G453720	Bottle gourd (USVL1VR-Ls)	culsiB324
Csa5G453720	Cucumber (Gy14) v2	cgybcuB223
Csa5G453720	Melon (DHL92) v3.6.1	cumedB341
Csa5G453720	Silver-seed gourd	carcuB0510
Csa5G453720	Silver-seed gourd	carcuB0843
Csa5G453720	Watermelon (97103) v2	cuwmbB338
Csa5G453720	Wax gourd	cuwgoB454
Csa5G453720	Cucurbita maxima (Rimu)	cmacuB303
Csa5G453720	Cucurbita maxima (Rimu)	cmacuB728
Csa5G453720	Cucurbita moschata (Rifu)	cmocuB291
Csa5G453720	Cucurbita moschata (Rifu)	cmocuB720