CsaV3_6G040590 (gene) Cucumber (Chinese Long) v3 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CsaV3_6G040590
Type	gene
Organism	Cucumis sativus (Cucumber (Chinese Long) v3)
Description	peptidoglycan-binding LysM domain-containing protein
Location	chr6 : 23506154 .. 23506465 (-)

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.

ATGGGGAAGAGATCATCATCGTCGTCATCATCATCGTTGTCAAAGGCAAAGGTGGTTAGTTTGGTAATTTTGGTATTGAGTTGCTTAATATGGTGTTGCAAAAGCAGTGAATTATTACATTACAATTGTGAAGAGATATATGTTGTTCATGAAGGAGAAACTTTGCAAAGCATCAGTGAAAAATGTGGAGATCCATTCATTGTTGAAGAAAATCCTCATATTAATGATCCAGATGATGTTTTTCCTGGTTTGGTTATCAAGATCACTCCTTTTCACCATTTTTTCAAATATCCCACCTTTCTTACACCTTAG

mRNA sequence

ATGGGGAAGAGATCATCATCGTCGTCATCATCATCGTTGTCAAAGGCAAAGGTGGTTAGTTTGGTAATTTTGGTATTGAGTTGCTTAATATGGTGTTGCAAAAGCAGTGAATTATTACATTACAATTGTGAAGAGATATATGTTGTTCATGAAGGAGAAACTTTGCAAAGCATCAGTGAAAAATGTGGAGATCCATTCATTGTTGAAGAAAATCCTCATATTAATGATCCAGATGATGTTTTTCCTGGTTTGGTTATCAAGATCACTCCTTTTCACCATTTTTTCAAATATCCCACCTTTCTTACACCTTAG

Coding sequence (CDS)

ATGGGGAAGAGATCATCATCGTCGTCATCATCATCGTTGTCAAAGGCAAAGGTGGTTAGTTTGGTAATTTTGGTATTGAGTTGCTTAATATGGTGTTGCAAAAGCAGTGAATTATTACATTACAATTGTGAAGAGATATATGTTGTTCATGAAGGAGAAACTTTGCAAAGCATCAGTGAAAAATGTGGAGATCCATTCATTGTTGAAGAAAATCCTCATATTAATGATCCAGATGATGTTTTTCCTGGTTTGGTTATCAAGATCACTCCTTTTCACCATTTTTTCAAATATCCCACCTTTCTTACACCTTAG

Protein sequence

MGKRSSSSSSSSLSKAKVVSLVILVLSCLIWCCKSSELLHYNCEEIYVVHEGETLQSISEKCGDPFIVEENPHINDPDDVFPGLVIKITPFHHFFKYPTFLTP

Homology

[Close]

BLAST of CsaV3_6G040590 vs. NCBI nr
Match: XP_019179717.1 (PREDICTED: uncharacterized protein LOC109174930 [Ipomoea nil])

HSP 1 Score: 103.6 bits (257), Expect = 4.1e-19
Identity = 47/49 (95.92%), Postives = 48/49 (97.96%), Query Frame = 0


Query: 43 CEEIYVVHEGETLQSISEKCGDPFIVEENPHINDPDDVFPGLVIKITPF 92
          CEEIYVV EGETLQ+ISEKCGDPFIVEENPHINDPDDVFPGLVIKITPF
Sbjct: 51 CEEIYVVREGETLQTISEKCGDPFIVEENPHINDPDDVFPGLVIKITPF 99

[Close]

BLAST of CsaV3_6G040590 vs. NCBI nr
Match: ONH96215.1 (hypothetical protein PRUPE_7G113800 [Prunus persica])

HSP 1 Score: 103.2 bits (256), Expect = 5.4e-19
Identity = 46/53 (86.79%), Postives = 51/53 (96.23%), Query Frame = 0


Query: 39  LHYNCEEIYVVHEGETLQSISEKCGDPFIVEENPHINDPDDVFPGLVIKITPF 92
           L+  C+EIYVVHEGETLQ+ISEKCGDP+IVEENPHI+DPDDVFPGLVIKITPF
Sbjct: 53  LNMPCDEIYVVHEGETLQTISEKCGDPYIVEENPHIHDPDDVFPGLVIKITPF 105

[Close]

BLAST of CsaV3_6G040590 vs. NCBI nr
Match: XP_008241264.1 (PREDICTED: uncharacterized protein LOC103339705 [Prunus mume])

HSP 1 Score: 103.2 bits (256), Expect = 5.4e-19
Identity = 46/53 (86.79%), Postives = 51/53 (96.23%), Query Frame = 0


Query: 39  LHYNCEEIYVVHEGETLQSISEKCGDPFIVEENPHINDPDDVFPGLVIKITPF 92
           L+  C+EIYVVHEGETLQ+ISEKCGDP+IVEENPHI+DPDDVFPGLVIKITPF
Sbjct: 53  LNMPCDEIYVVHEGETLQTISEKCGDPYIVEENPHIHDPDDVFPGLVIKITPF 105

[Close]

BLAST of CsaV3_6G040590 vs. NCBI nr
Match: XP_016544851.1 (PREDICTED: uncharacterized protein LOC107845104 [Capsicum annuum] >PHT71077.1 hypothetical protein T459_26181 [Capsicum annuum] >PHU05605.1 hypothetical protein BC332_26427 [Capsicum chinense])

HSP 1 Score: 102.8 bits (255), Expect = 7.0e-19
Identity = 52/72 (72.22%), Postives = 56/72 (77.78%), Query Frame = 0


Query: 32  CCKSSELLH----------YN--CEEIYVVHEGETLQSISEKCGDPFIVEENPHINDPDD 91
           CC+SSE  H          YN  C+EIYVV EGETL +ISEKCGDPFIVEENPHI+DPDD
Sbjct: 30  CCESSENDHQFIVQMQGNNYNKACDEIYVVKEGETLHTISEKCGDPFIVEENPHIHDPDD 89

[Close]

BLAST of CsaV3_6G040590 vs. NCBI nr
Match: PHT36733.1 (hypothetical protein CQW23_24433 [Capsicum baccatum])

HSP 1 Score: 102.8 bits (255), Expect = 7.0e-19
Identity = 52/72 (72.22%), Postives = 56/72 (77.78%), Query Frame = 0


Query: 32  CCKSSELLH----------YN--CEEIYVVHEGETLQSISEKCGDPFIVEENPHINDPDD 91
           CC+SSE  H          YN  C+EIYVV EGETL +ISEKCGDPFIVEENPHI+DPDD
Sbjct: 30  CCESSENDHQFIVQMQGNNYNKACDEIYVVKEGETLHTISEKCGDPFIVEENPHIHDPDD 89

[Close]

BLAST of CsaV3_6G040590 vs. TAIR10
Match: AT4G25433.1 (peptidoglycan-binding LysM domain-containing protein)

HSP 1 Score: 92.0 bits (227), Expect = 2.3e-19
Identity = 40/62 (64.52%), Postives = 51/62 (82.26%), Query Frame = 0


Query: 27  SCLIWCCKSSELLHYNCEEIYVVHEGETLQSISEKCGDPFIVEENPHINDPDDVFPGLVI 86
           +C +W  +  +++   CEE+YVV EG+TL SISEKCGDPFIVE NPHI+DPDDVFPGL+I
Sbjct: 45  NCEVW--RGKQMMERPCEELYVVGEGDTLHSISEKCGDPFIVERNPHIHDPDDVFPGLLI 104

Query: 87  KI 89
           K+
Sbjct: 105 KL 104

[Close]

BLAST of CsaV3_6G040590 vs. TAIR10
Match: AT5G62150.1 (peptidoglycan-binding LysM domain-containing protein)

HSP 1 Score: 92.0 bits (227), Expect = 2.3e-19
Identity = 39/50 (78.00%), Postives = 45/50 (90.00%), Query Frame = 0


Query: 43 CEEIYVVHEGETLQSISEKCGDPFIVEENPHINDPDDVFPGLVIKITPFH 93
          CEEIY+V EGETL +I +KCGDPFIVE NPHI+DPDDVFPGLV+KI PF+
Sbjct: 48 CEEIYIVGEGETLHTIGDKCGDPFIVERNPHIHDPDDVFPGLVLKIAPFY 97

[Close]

BLAST of CsaV3_6G040590 vs. TAIR10
Match: AT3G52790.1 (peptidoglycan-binding LysM domain-containing protein)

HSP 1 Score: 84.7 bits (208), Expect = 3.6e-17
Identity = 37/48 (77.08%), Postives = 44/48 (91.67%), Query Frame = 0


Query: 43  CEEIYVVHEGETLQSISEKCGDPFIVEENPHINDPDDVFPGLVIKITP 91
           C+EIY V EGETLQ+ISEKCGDP+IVE NPHI+D DD+FPGL+I+ITP
Sbjct: 60  CDEIYEVKEGETLQTISEKCGDPYIVEGNPHIHDHDDLFPGLLIRITP 107

[Close]

BLAST of CsaV3_6G040590 vs. TrEMBL
Match: tr|M5WDM2|M5WDM2_PRUPE (Uncharacterized protein OS=Prunus persica OX=3760 GN=PRUPE_7G113800 PE=4 SV=1)

HSP 1 Score: 103.2 bits (256), Expect = 3.6e-19
Identity = 46/53 (86.79%), Postives = 51/53 (96.23%), Query Frame = 0


Query: 39  LHYNCEEIYVVHEGETLQSISEKCGDPFIVEENPHINDPDDVFPGLVIKITPF 92
           L+  C+EIYVVHEGETLQ+ISEKCGDP+IVEENPHI+DPDDVFPGLVIKITPF
Sbjct: 53  LNMPCDEIYVVHEGETLQTISEKCGDPYIVEENPHIHDPDDVFPGLVIKITPF 105

[Close]

BLAST of CsaV3_6G040590 vs. TrEMBL
Match: tr|A0A2G3BGH4|A0A2G3BGH4_CAPCH (Uncharacterized protein OS=Capsicum chinense OX=80379 GN=BC332_26427 PE=4 SV=1)

HSP 1 Score: 102.8 bits (255), Expect = 4.7e-19
Identity = 52/72 (72.22%), Postives = 56/72 (77.78%), Query Frame = 0


Query: 32  CCKSSELLH----------YN--CEEIYVVHEGETLQSISEKCGDPFIVEENPHINDPDD 91
           CC+SSE  H          YN  C+EIYVV EGETL +ISEKCGDPFIVEENPHI+DPDD
Sbjct: 30  CCESSENDHQFIVQMQGNNYNKACDEIYVVKEGETLHTISEKCGDPFIVEENPHIHDPDD 89

[Close]

BLAST of CsaV3_6G040590 vs. TrEMBL
Match: tr|A0A2G2YMV3|A0A2G2YMV3_CAPAN (uncharacterized protein LOC107845104 OS=Capsicum annuum OX=4072 GN=LOC107845104 PE=4 SV=1)

HSP 1 Score: 102.8 bits (255), Expect = 4.7e-19
Identity = 52/72 (72.22%), Postives = 56/72 (77.78%), Query Frame = 0


Query: 32  CCKSSELLH----------YN--CEEIYVVHEGETLQSISEKCGDPFIVEENPHINDPDD 91
           CC+SSE  H          YN  C+EIYVV EGETL +ISEKCGDPFIVEENPHI+DPDD
Sbjct: 30  CCESSENDHQFIVQMQGNNYNKACDEIYVVKEGETLHTISEKCGDPFIVEENPHIHDPDD 89

[Close]

BLAST of CsaV3_6G040590 vs. TrEMBL
Match: tr|A0A1U8EEM7|A0A1U8EEM7_CAPAN (Uncharacterized protein OS=Capsicum annuum OX=4072 GN=T459_26181 PE=4 SV=1)

HSP 1 Score: 102.8 bits (255), Expect = 4.7e-19
Identity = 52/72 (72.22%), Postives = 56/72 (77.78%), Query Frame = 0


Query: 32  CCKSSELLH----------YN--CEEIYVVHEGETLQSISEKCGDPFIVEENPHINDPDD 91
           CC+SSE  H          YN  C+EIYVV EGETL +ISEKCGDPFIVEENPHI+DPDD
Sbjct: 30  CCESSENDHQFIVQMQGNNYNKACDEIYVVKEGETLHTISEKCGDPFIVEENPHIHDPDD 89

[Close]

BLAST of CsaV3_6G040590 vs. TrEMBL
Match: tr|A0A2G2VUW0|A0A2G2VUW0_CAPBA (Uncharacterized protein OS=Capsicum baccatum OX=33114 GN=CQW23_24433 PE=4 SV=1)

HSP 1 Score: 102.8 bits (255), Expect = 4.7e-19
Identity = 52/72 (72.22%), Postives = 56/72 (77.78%), Query Frame = 0


Query: 32  CCKSSELLH----------YN--CEEIYVVHEGETLQSISEKCGDPFIVEENPHINDPDD 91
           CC+SSE  H          YN  C+EIYVV EGETL +ISEKCGDPFIVEENPHI+DPDD
Sbjct: 30  CCESSENDHQFIVQMQGNNYNKACDEIYVVKEGETLHTISEKCGDPFIVEENPHIHDPDD 89

The following BLAST results are available for this feature:

BLAST of CsaV3_6G040590 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_019179717.1	4.1e-19	95.92	PREDICTED: uncharacterized protein LOC109174930 [Ipomoea nil]	[more]
ONH96215.1	5.4e-19	86.79	hypothetical protein PRUPE_7G113800 [Prunus persica]	[more]
XP_008241264.1	5.4e-19	86.79	PREDICTED: uncharacterized protein LOC103339705 [Prunus mume]	[more]
XP_016544851.1	7.0e-19	72.22	PREDICTED: uncharacterized protein LOC107845104 [Capsicum annuum] >PHT71077.1 hy...	[more]
PHT36733.1	7.0e-19	72.22	hypothetical protein CQW23_24433 [Capsicum baccatum]	[more]

BLAST of CsaV3_6G040590 vs. TAIR10


Match Name	E-value	Identity	Description
AT4G25433.1	2.3e-19	64.52	peptidoglycan-binding LysM domain-containing protein	[more]
AT5G62150.1	2.3e-19	78.00	peptidoglycan-binding LysM domain-containing protein	[more]
AT3G52790.1	3.6e-17	77.08	peptidoglycan-binding LysM domain-containing protein	[more]

BLAST of CsaV3_6G040590 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CsaV3_6G040590 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|M5WDM2\|M5WDM2_PRUPE	3.6e-19	86.79	Uncharacterized protein OS=Prunus persica OX=3760 GN=PRUPE_7G113800 PE=4 SV=1	[more]
tr\|A0A2G3BGH4\|A0A2G3BGH4_CAPCH	4.7e-19	72.22	Uncharacterized protein OS=Capsicum chinense OX=80379 GN=BC332_26427 PE=4 SV=1	[more]
tr\|A0A2G2YMV3\|A0A2G2YMV3_CAPAN	4.7e-19	72.22	uncharacterized protein LOC107845104 OS=Capsicum annuum OX=4072 GN=LOC107845104 ...	[more]
tr\|A0A1U8EEM7\|A0A1U8EEM7_CAPAN	4.7e-19	72.22	Uncharacterized protein OS=Capsicum annuum OX=4072 GN=T459_26181 PE=4 SV=1	[more]
tr\|A0A2G2VUW0\|A0A2G2VUW0_CAPBA	4.7e-19	72.22	Uncharacterized protein OS=Capsicum baccatum OX=33114 GN=CQW23_24433 PE=4 SV=1	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR036779	LysM_dom_sf
IPR018392	LysM_dom

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0008150	biological_process
biological_process	GO:0006144	purine nucleobase metabolic process
biological_process	GO:0006152	purine nucleoside catabolic process
biological_process	GO:0006206	pyrimidine nucleobase metabolic process
biological_process	GO:0006218	uridine catabolic process
cellular_component	GO:0005575	cellular_component
cellular_component	GO:0005829	cytosol
molecular_function	GO:0003674	molecular_function
molecular_function	GO:0047622	adenosine nucleosidase activity
molecular_function	GO:0047724	inosine nucleosidase activity
molecular_function	GO:0045437	uridine nucleosidase activity
molecular_function	GO:0072585	xanthosine nucleotidase activity

Relationships

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


Feature Name	Unique Name	Type
CsaV3_6G040590.1	CsaV3_6G040590.1	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
IPR018392	LysM domain	PFAM	PF01476	LysM	coord: 47..89 e-value: 2.9E-5 score: 23.9
IPR018392	LysM domain	CDD	cd00118	LysM	coord: 46..88 e-value: 2.13572E-6 score: 39.7761
IPR036779	LysM domain superfamily	GENE3D	G3DSA:3.10.350.10		coord: 35..94 e-value: 3.3E-6 score: 28.5
None	No IPR available	PANTHER	PTHR33648	FAMILY NOT NAMED	coord: 32..92
None	No IPR available	PROSITE	PS51257	PROKAR_LIPOPROTEIN	coord: 1..28 score: 6.0

Synteny

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


Gene	Orthologue	Organism	Block
CsaV3_6G040590	Cucsa.083280	Cucumber (Gy14) v1	cgycucB085
CsaV3_6G040590	CmoCh07G008910	Cucurbita moschata (Rifu)	cmocucB1020
CsaV3_6G040590	Carg05372	Silver-seed gourd	carcucB0850
CsaV3_6G040590	MELO3C024535	Melon (DHL92) v3.5.1	cucmeB521
CsaV3_6G040590	ClCG04G009940	Watermelon (Charleston Gray)	cucwcgB485
CsaV3_6G040590	MELO3C024535.2	Melon (DHL92) v3.6.1	cucmedB509
CsaV3_6G040590	Bhi03G001432	Wax gourd	cucwgoB651

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CsaV3_6G040590	Cucumber (Chinese Long) v3	cuccucB046
CsaV3_6G040590	Cucumber (Chinese Long) v3	cuccucB136
CsaV3_6G040590	Cucumber (Chinese Long) v3	cuccucB210
CsaV3_6G040590	Silver-seed gourd	carcucB0173
CsaV3_6G040590	Silver-seed gourd	carcucB0270
CsaV3_6G040590	Silver-seed gourd	carcucB0280
CsaV3_6G040590	Silver-seed gourd	carcucB0967
CsaV3_6G040590	Cucumber (Gy14) v2	cgybcucB141
CsaV3_6G040590	Cucumber (Gy14) v2	cgybcucB298
CsaV3_6G040590	Cucumber (Gy14) v2	cgybcucB299
CsaV3_6G040590	Cucumber (Gy14) v1	cgycucB365
CsaV3_6G040590	Cucumber (Gy14) v1	cgycucB587
CsaV3_6G040590	Cucurbita maxima (Rimu)	cmacucB0308
CsaV3_6G040590	Cucurbita maxima (Rimu)	cmacucB0758
CsaV3_6G040590	Cucurbita maxima (Rimu)	cmacucB0810
CsaV3_6G040590	Cucurbita maxima (Rimu)	cmacucB0994
CsaV3_6G040590	Cucurbita maxima (Rimu)	cmacucB1036
CsaV3_6G040590	Cucurbita moschata (Rifu)	cmocucB0302
CsaV3_6G040590	Cucurbita moschata (Rifu)	cmocucB0748
CsaV3_6G040590	Cucurbita moschata (Rifu)	cmocucB0794
CsaV3_6G040590	Cucurbita moschata (Rifu)	cmocucB0979
CsaV3_6G040590	Cucurbita pepo (Zucchini)	cpecucB0093
CsaV3_6G040590	Cucurbita pepo (Zucchini)	cpecucB0618
CsaV3_6G040590	Cucurbita pepo (Zucchini)	cpecucB0778
CsaV3_6G040590	Cucurbita pepo (Zucchini)	cpecucB0942
CsaV3_6G040590	Cucurbita pepo (Zucchini)	cpecucB1076
CsaV3_6G040590	Wild cucumber (PI 183967)	cpicucB177
CsaV3_6G040590	Wild cucumber (PI 183967)	cpicucB363
CsaV3_6G040590	Wild cucumber (PI 183967)	cpicucB366
CsaV3_6G040590	Bottle gourd (USVL1VR-Ls)	cuclsiB444
CsaV3_6G040590	Bottle gourd (USVL1VR-Ls)	cuclsiB462
CsaV3_6G040590	Bottle gourd (USVL1VR-Ls)	cuclsiB474
CsaV3_6G040590	Melon (DHL92) v3.5.1	cucmeB437
CsaV3_6G040590	Melon (DHL92) v3.5.1	cucmeB495
CsaV3_6G040590	Melon (DHL92) v3.6.1	cucmedB427
CsaV3_6G040590	Melon (DHL92) v3.6.1	cucmedB483
CsaV3_6G040590	Watermelon (Charleston Gray)	cucwcgB446
CsaV3_6G040590	Watermelon (Charleston Gray)	cucwcgB462
CsaV3_6G040590	Watermelon (97103) v1	cucwmB477
CsaV3_6G040590	Watermelon (97103) v1	cucwmB530
CsaV3_6G040590	Watermelon (97103) v1	cucwmB540
CsaV3_6G040590	Watermelon (97103) v2	cucwmbB436
CsaV3_6G040590	Watermelon (97103) v2	cucwmbB451
CsaV3_6G040590	Watermelon (97103) v2	cucwmbB472
CsaV3_6G040590	Wax gourd	cucwgoB634