CsaV3_2G033010 (gene) Cucumber (Chinese Long) v3 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CsaV3_2G033010
Type	gene
Organism	Cucumis sativus (Cucumber (Chinese Long) v3)
Description	60S ribosomal protein L38
Location	chr2 : 21847772 .. 21847948 (-)

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.

TTTGACTTTCAACGAATATCCTCATGTCCCAACTCCGTTCTTATCACACTTCTTCTCTCACCACCACTAAAAATGCCAAAGCAAATCCATGAGATCAAAGATTTTCTTCTCACTGCAAGAAGAAAGGATGCCCGCTCGGTCAAAATCAAGAGGAGGAAAGATGTAGTGAAGTTTAAG

mRNA sequence

TTTGACTTTCAACGAATATCCTCATGTCCCAACTCCGTTCTTATCACACTTCTTCTCTCACCACCACTAAAAATGCCAAAGCAAATCCATGAGATCAAAGATTTTCTTCTCACTGCAAGAAGAAAGGATGCCCGCTCGGTCAAAATCAAGAGGAGGAAAGATGTAGTGAAGTTTAAG

Coding sequence (CDS)

TTTGACTTTCAACGAATATCCTCATGTCCCAACTCCGTTCTTATCACACTTCTTCTCTCACCACCACTAAAAATGCCAAAGCAAATCCATGAGATCAAAGATTTTCTTCTCACTGCAAGAAGAAAGGATGCCCGCTCGGTCAAAATCAAGAGGAGGAAAGATGTAGTGAAGTTTAAG

Protein sequence

FDFQRISSCPNSVLITLLLSPPLKMPKQIHEIKDFLLTARRKDARSVKIKRRKDVVKFK

Homology

[Close]

BLAST of CsaV3_2G033010 vs. NCBI nr
Match: XP_023745785.1 (60S ribosomal protein L38-like [Lactuca sativa])

HSP 1 Score: 74.3 bits (181), Expect = 1.5e-10
Identity = 38/40 (95.00%), Postives = 38/40 (95.00%), Query Frame = 0


Query: 20 SPPLKMPKQIHEIKDFLLTARRKDARSVKIKRRKDVVKFK 60
          SPP KMPKQIHEIKDFLLTARRKDARSVKIKR KDVVKFK
Sbjct: 25 SPPAKMPKQIHEIKDFLLTARRKDARSVKIKRSKDVVKFK 64

[Close]

BLAST of CsaV3_2G033010 vs. NCBI nr
Match: XP_004957362.2 (60S ribosomal protein L38 [Setaria italica] >RCV12511.1 hypothetical protein SETIT_2G274700v2 [Setaria italica])

HSP 1 Score: 69.7 bits (169), Expect = 3.7e-09
Identity = 37/40 (92.50%), Postives = 37/40 (92.50%), Query Frame = 0


Query: 20  SPPLKMPKQIHEIKDFLLTARRKDARSVKIKRRKDVVKFK 60
           SP  KMPKQIHEIKDFLLTARRKDARSVKIKR KDVVKFK
Sbjct: 62  SPRGKMPKQIHEIKDFLLTARRKDARSVKIKRSKDVVKFK 101

[Close]

BLAST of CsaV3_2G033010 vs. NCBI nr
Match: PVH64677.1 (hypothetical protein PAHAL_2G331900, partial [Panicum hallii])

HSP 1 Score: 69.7 bits (169), Expect = 3.7e-09
Identity = 37/40 (92.50%), Postives = 37/40 (92.50%), Query Frame = 0


Query: 20 SPPLKMPKQIHEIKDFLLTARRKDARSVKIKRRKDVVKFK 60
          SP  KMPKQIHEIKDFLLTARRKDARSVKIKR KDVVKFK
Sbjct: 43 SPRGKMPKQIHEIKDFLLTARRKDARSVKIKRSKDVVKFK 82

[Close]

BLAST of CsaV3_2G033010 vs. NCBI nr
Match: PNS94822.1 (hypothetical protein POPTR_017G020000v3 [Populus trichocarpa])

HSP 1 Score: 68.9 bits (167), Expect = 6.4e-09
Identity = 36/40 (90.00%), Postives = 37/40 (92.50%), Query Frame = 0


Query: 20  SPPLKMPKQIHEIKDFLLTARRKDARSVKIKRRKDVVKFK 60
           S  LKMPKQIHEIKDFLLTARRKDARSVKIKR +DVVKFK
Sbjct: 62  SEKLKMPKQIHEIKDFLLTARRKDARSVKIKRSRDVVKFK 101

[Close]

BLAST of CsaV3_2G033010 vs. NCBI nr
Match: KGN63051.1 (hypothetical protein Csa_2G393180 [Cucumis sativus])

HSP 1 Score: 68.2 bits (165), Expect = 1.1e-08
Identity = 35/35 (100.00%), Postives = 35/35 (100.00%), Query Frame = 0


Query: 25 MPKQIHEIKDFLLTARRKDARSVKIKRRKDVVKFK 60
          MPKQIHEIKDFLLTARRKDARSVKIKRRKDVVKFK
Sbjct: 1  MPKQIHEIKDFLLTARRKDARSVKIKRRKDVVKFK 35

[Close]

BLAST of CsaV3_2G033010 vs. TAIR10
Match: AT2G43460.1 (Ribosomal L38e protein family)

HSP 1 Score: 65.5 bits (158), Expect = 1.3e-11
Identity = 33/35 (94.29%), Postives = 34/35 (97.14%), Query Frame = 0


Query: 25 MPKQIHEIKDFLLTARRKDARSVKIKRRKDVVKFK 60
          MPKQIHEIKDFLLTARRKDARSVKIKR KD+VKFK
Sbjct: 1  MPKQIHEIKDFLLTARRKDARSVKIKRSKDIVKFK 35

[Close]

BLAST of CsaV3_2G033010 vs. TAIR10
Match: AT3G59540.1 (Ribosomal L38e protein family)

HSP 1 Score: 65.5 bits (158), Expect = 1.3e-11
Identity = 33/35 (94.29%), Postives = 34/35 (97.14%), Query Frame = 0


Query: 25 MPKQIHEIKDFLLTARRKDARSVKIKRRKDVVKFK 60
          MPKQIHEIKDFLLTARRKDARSVKIKR KD+VKFK
Sbjct: 1  MPKQIHEIKDFLLTARRKDARSVKIKRSKDIVKFK 35

[Close]

BLAST of CsaV3_2G033010 vs. Swiss-Prot
Match: sp|O22860|RL38_ARATH (60S ribosomal protein L38 OS=Arabidopsis thaliana OX=3702 GN=RPL38A PE=3 SV=1)

HSP 1 Score: 65.5 bits (158), Expect = 2.3e-10
Identity = 33/35 (94.29%), Postives = 34/35 (97.14%), Query Frame = 0


Query: 25 MPKQIHEIKDFLLTARRKDARSVKIKRRKDVVKFK 60
          MPKQIHEIKDFLLTARRKDARSVKIKR KD+VKFK
Sbjct: 1  MPKQIHEIKDFLLTARRKDARSVKIKRSKDIVKFK 35

[Close]

BLAST of CsaV3_2G033010 vs. Swiss-Prot
Match: sp|P46291|RL38_SOLLC (60S ribosomal protein L38 OS=Solanum lycopersicum OX=4081 GN=RPL38 PE=3 SV=1)

HSP 1 Score: 62.8 bits (151), Expect = 1.5e-09
Identity = 31/35 (88.57%), Postives = 34/35 (97.14%), Query Frame = 0


Query: 25 MPKQIHEIKDFLLTARRKDARSVKIKRRKDVVKFK 60
          MPKQIHEIKDFLLTARRKDAR+VKIK+ KD+VKFK
Sbjct: 1  MPKQIHEIKDFLLTARRKDARTVKIKKNKDMVKFK 35

[Close]

BLAST of CsaV3_2G033010 vs. Swiss-Prot
Match: sp|Q95V84|RL38_BRABE (60S ribosomal protein L38 OS=Branchiostoma belcheri OX=7741 GN=RPL38 PE=3 SV=1)

HSP 1 Score: 61.2 bits (147), Expect = 4.4e-09
Identity = 31/35 (88.57%), Postives = 33/35 (94.29%), Query Frame = 0


Query: 25 MPKQIHEIKDFLLTARRKDARSVKIKRRKDVVKFK 60
          MPKQIHEIKDFLLTARRKDA+SVKIK+ KD VKFK
Sbjct: 1  MPKQIHEIKDFLLTARRKDAKSVKIKKNKDNVKFK 35

[Close]

BLAST of CsaV3_2G033010 vs. Swiss-Prot
Match: sp|Q32PB9|RL38_BOVIN (60S ribosomal protein L38 OS=Bos taurus OX=9913 GN=RPL38 PE=3 SV=4)

HSP 1 Score: 55.5 bits (132), Expect = 2.4e-07
Identity = 28/35 (80.00%), Postives = 32/35 (91.43%), Query Frame = 0


Query: 25 MPKQIHEIKDFLLTARRKDARSVKIKRRKDVVKFK 60
          MP++I EIKDFLLTARRKDA+SVKIK+ KD VKFK
Sbjct: 1  MPRKIEEIKDFLLTARRKDAKSVKIKKNKDNVKFK 35

[Close]

BLAST of CsaV3_2G033010 vs. Swiss-Prot
Match: sp|P63173|RL38_HUMAN (60S ribosomal protein L38 OS=Homo sapiens OX=9606 GN=RPL38 PE=1 SV=2)

HSP 1 Score: 55.5 bits (132), Expect = 2.4e-07
Identity = 28/35 (80.00%), Postives = 32/35 (91.43%), Query Frame = 0


Query: 25 MPKQIHEIKDFLLTARRKDARSVKIKRRKDVVKFK 60
          MP++I EIKDFLLTARRKDA+SVKIK+ KD VKFK
Sbjct: 1  MPRKIEEIKDFLLTARRKDAKSVKIKKNKDNVKFK 35

[Close]

BLAST of CsaV3_2G033010 vs. TrEMBL
Match: tr|M0RVN2|M0RVN2_MUSAM (Uncharacterized protein OS=Musa acuminata subsp. malaccensis OX=214687 PE=3 SV=1)

HSP 1 Score: 73.2 bits (178), Expect = 2.2e-10
Identity = 38/44 (86.36%), Postives = 40/44 (90.91%), Query Frame = 0


Query: 16 TLLLSPPLKMPKQIHEIKDFLLTARRKDARSVKIKRRKDVVKFK 60
          +L L  P+KMPKQIHEIKDFLLTARRKDARSVKIKR KDVVKFK
Sbjct: 39 SLFLRKPIKMPKQIHEIKDFLLTARRKDARSVKIKRSKDVVKFK 82

[Close]

BLAST of CsaV3_2G033010 vs. TrEMBL
Match: tr|K3ZYF6|K3ZYF6_SETIT (Uncharacterized protein OS=Setaria italica OX=4555 GN=LOC101764670 PE=3 SV=1)

HSP 1 Score: 69.7 bits (169), Expect = 2.5e-09
Identity = 37/40 (92.50%), Postives = 37/40 (92.50%), Query Frame = 0


Query: 20 SPPLKMPKQIHEIKDFLLTARRKDARSVKIKRRKDVVKFK 60
          SP  KMPKQIHEIKDFLLTARRKDARSVKIKR KDVVKFK
Sbjct: 22 SPRGKMPKQIHEIKDFLLTARRKDARSVKIKRSKDVVKFK 61

[Close]

BLAST of CsaV3_2G033010 vs. TrEMBL
Match: tr|A0A2T8KR51|A0A2T8KR51_9POAL (Uncharacterized protein (Fragment) OS=Panicum hallii OX=206008 GN=PAHAL_2G331900 PE=4 SV=1)

HSP 1 Score: 69.7 bits (169), Expect = 2.5e-09
Identity = 37/40 (92.50%), Postives = 37/40 (92.50%), Query Frame = 0


Query: 20 SPPLKMPKQIHEIKDFLLTARRKDARSVKIKRRKDVVKFK 60
          SP  KMPKQIHEIKDFLLTARRKDARSVKIKR KDVVKFK
Sbjct: 43 SPRGKMPKQIHEIKDFLLTARRKDARSVKIKRSKDVVKFK 82

[Close]

BLAST of CsaV3_2G033010 vs. TrEMBL
Match: tr|A0A2K1X213|A0A2K1X213_POPTR (Uncharacterized protein OS=Populus trichocarpa OX=3694 GN=POPTR_017G020000v3 PE=3 SV=1)

HSP 1 Score: 68.9 bits (167), Expect = 4.2e-09
Identity = 36/40 (90.00%), Postives = 37/40 (92.50%), Query Frame = 0


Query: 20  SPPLKMPKQIHEIKDFLLTARRKDARSVKIKRRKDVVKFK 60
           S  LKMPKQIHEIKDFLLTARRKDARSVKIKR +DVVKFK
Sbjct: 62  SEKLKMPKQIHEIKDFLLTARRKDARSVKIKRSRDVVKFK 101

[Close]

BLAST of CsaV3_2G033010 vs. TrEMBL
Match: tr|M0RFA2|M0RFA2_MUSAM (Uncharacterized protein OS=Musa acuminata subsp. malaccensis OX=214687 PE=3 SV=1)

HSP 1 Score: 68.9 bits (167), Expect = 4.2e-09
Identity = 35/36 (97.22%), Postives = 36/36 (100.00%), Query Frame = 0


Query: 24  KMPKQIHEIKDFLLTARRKDARSVKIKRRKDVVKFK 60
           KMPKQIHEIKDFLLTARRKDARSV+IKRRKDVVKFK
Sbjct: 114 KMPKQIHEIKDFLLTARRKDARSVRIKRRKDVVKFK 149

The following BLAST results are available for this feature:

BLAST of CsaV3_2G033010 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_023745785.1	1.5e-10	95.00	60S ribosomal protein L38-like [Lactuca sativa]	[more]
XP_004957362.2	3.7e-09	92.50	60S ribosomal protein L38 [Setaria italica] >RCV12511.1 hypothetical protein SET...	[more]
PVH64677.1	3.7e-09	92.50	hypothetical protein PAHAL_2G331900, partial [Panicum hallii]	[more]
PNS94822.1	6.4e-09	90.00	hypothetical protein POPTR_017G020000v3 [Populus trichocarpa]	[more]
KGN63051.1	1.1e-08	100.00	hypothetical protein Csa_2G393180 [Cucumis sativus]	[more]

BLAST of CsaV3_2G033010 vs. TAIR10


Match Name	E-value	Identity	Description
AT2G43460.1	1.3e-11	94.29	Ribosomal L38e protein family	[more]
AT3G59540.1	1.3e-11	94.29	Ribosomal L38e protein family	[more]

BLAST of CsaV3_2G033010 vs. Swiss-Prot


Match Name	E-value	Identity	Description
sp\|O22860\|RL38_ARATH	2.3e-10	94.29	60S ribosomal protein L38 OS=Arabidopsis thaliana OX=3702 GN=RPL38A PE=3 SV=1	[more]
sp\|P46291\|RL38_SOLLC	1.5e-09	88.57	60S ribosomal protein L38 OS=Solanum lycopersicum OX=4081 GN=RPL38 PE=3 SV=1	[more]
sp\|Q95V84\|RL38_BRABE	4.4e-09	88.57	60S ribosomal protein L38 OS=Branchiostoma belcheri OX=7741 GN=RPL38 PE=3 SV=1	[more]
sp\|Q32PB9\|RL38_BOVIN	2.4e-07	80.00	60S ribosomal protein L38 OS=Bos taurus OX=9913 GN=RPL38 PE=3 SV=4	[more]
sp\|P63173\|RL38_HUMAN	2.4e-07	80.00	60S ribosomal protein L38 OS=Homo sapiens OX=9606 GN=RPL38 PE=1 SV=2	[more]

BLAST of CsaV3_2G033010 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|M0RVN2\|M0RVN2_MUSAM	2.2e-10	86.36	Uncharacterized protein OS=Musa acuminata subsp. malaccensis OX=214687 PE=3 SV=1	[more]
tr\|K3ZYF6\|K3ZYF6_SETIT	2.5e-09	92.50	Uncharacterized protein OS=Setaria italica OX=4555 GN=LOC101764670 PE=3 SV=1	[more]
tr\|A0A2T8KR51\|A0A2T8KR51_9POAL	2.5e-09	92.50	Uncharacterized protein (Fragment) OS=Panicum hallii OX=206008 GN=PAHAL_2G331900...	[more]
tr\|A0A2K1X213\|A0A2K1X213_POPTR	4.2e-09	90.00	Uncharacterized protein OS=Populus trichocarpa OX=3694 GN=POPTR_017G020000v3 PE=...	[more]
tr\|M0RFA2\|M0RFA2_MUSAM	4.2e-09	97.22	Uncharacterized protein OS=Musa acuminata subsp. malaccensis OX=214687 PE=3 SV=1	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **Molecular Function**
Term	Definition
GO:0003735	structural constituent of ribosome

Vocabulary: **Cellular Component**
Term	Definition
GO:0005840	ribosome
GO:0005622	intracellular

Vocabulary: **Biological Process**
Term	Definition
GO:0006412	translation

Vocabulary: **INTERPRO**
Term	Definition
IPR038464	Ribosomal_L38e_sf
IPR002675	Ribosomal_L38e

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0042254	ribosome biogenesis
biological_process	GO:0006412	translation
cellular_component	GO:0005840	ribosome
cellular_component	GO:0022626	cytosolic ribosome
cellular_component	GO:0005622	intracellular
molecular_function	GO:0003735	structural constituent of ribosome

Relationships

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


Feature Name	Unique Name	Type
CsaV3_2G033010.1	CsaV3_2G033010.1	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
IPR002675	Ribosomal protein L38e	PFAM	PF01781	Ribosomal_L38e	coord: 26..59 e-value: 3.1E-12 score: 46.2
IPR002675	Ribosomal protein L38e	PANTHER	PTHR10965	60S RIBOSOMAL PROTEIN L38	coord: 25..59
IPR002675	Ribosomal protein L38e	PRODOM	PD010361		coord: 25..59 e-value: 1.0E-11 score: 162.0
IPR038464	Ribosomal protein L38e superfamily	GENE3D	G3DSA:3.30.720.90		coord: 25..59 e-value: 2.2E-13 score: 52.1
None	No IPR available	PANTHER	PTHR10965:SF5	SUBFAMILY NOT NAMED	coord: 25..59

Synteny

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


Gene	Orthologue	Organism	Block
CsaV3_2G033010	CSPI02G24440	Wild cucumber (PI 183967)	cpicucB081

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CsaV3_2G033010	Silver-seed gourd	carcucB0018
CsaV3_2G033010	Cucumber (Gy14) v2	cgybcucB065
CsaV3_2G033010	Cucurbita maxima (Rimu)	cmacucB0326
CsaV3_2G033010	Cucurbita maxima (Rimu)	cmacucB0827
CsaV3_2G033010	Cucurbita moschata (Rifu)	cmocucB0321
CsaV3_2G033010	Cucurbita moschata (Rifu)	cmocucB0812
CsaV3_2G033010	Cucurbita pepo (Zucchini)	cpecucB0195
CsaV3_2G033010	Cucurbita pepo (Zucchini)	cpecucB0482
CsaV3_2G033010	Cucurbita pepo (Zucchini)	cpecucB0963
CsaV3_2G033010	Bottle gourd (USVL1VR-Ls)	cuclsiB111
CsaV3_2G033010	Melon (DHL92) v3.5.1	cucmeB121
CsaV3_2G033010	Melon (DHL92) v3.6.1	cucmedB115
CsaV3_2G033010	Watermelon (Charleston Gray)	cucwcgB113
CsaV3_2G033010	Watermelon (97103) v1	cucwmB168
CsaV3_2G033010	Watermelon (97103) v2	cucwmbB116
CsaV3_2G033010	Wax gourd	cucwgoB167
CsaV3_2G033010	Wax gourd	cucwgoB171