CsaV3_6G005880 (gene) Cucumber (Chinese Long) v3 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CsaV3_6G005880
Type	gene
Organism	Cucumis sativus (Cucumber (Chinese Long) v3)
Description	peptidoglycan-binding LysM domain-containing protein
Location	chr6 : 5018472 .. 5018723 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideexonCDS

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

ATGGCTTCCTACTTCTCTGTTTTCGTAACTGTGATGGCGCTGATCATAGTGGTGGCCTCTGCAGAATCCAGGCCCTGCGACGACATCTATGTTGTCAAAGAAGGCGAGACGCTGCATACAATCAGTGCCAAGTGCGGCGATCCCTTCATCGTTGACAACAATCCCCACATTCAAGACTCCGATGATGTTTTCCCAGGACTCCTCATCCAAATTACCCCTACCCTCATCAACTCCAGAAAGTTGCTTCTGTAA

mRNA sequence

ATGGCTTCCTACTTCTCTGTTTTCGTAACTGTGATGGCGCTGATCATAGTGGTGGCCTCTGCAGAATCCAGGCCCTGCGACGACATCTATGTTGTCAAAGAAGGCGAGACGCTGCATACAATCAGTGCCAAGTGCGGCGATCCCTTCATCGTTGACAACAATCCCCACATTCAAGACTCCGATGATGTTTTCCCAGGACTCCTCATCCAAATTACCCCTACCCTCATCAACTCCAGAAAGTTGCTTCTGTAA

Coding sequence (CDS)

ATGGCTTCCTACTTCTCTGTTTTCGTAACTGTGATGGCGCTGATCATAGTGGTGGCCTCTGCAGAATCCAGGCCCTGCGACGACATCTATGTTGTCAAAGAAGGCGAGACGCTGCATACAATCAGTGCCAAGTGCGGCGATCCCTTCATCGTTGACAACAATCCCCACATTCAAGACTCCGATGATGTTTTCCCAGGACTCCTCATCCAAATTACCCCTACCCTCATCAACTCCAGAAAGTTGCTTCTGTAA

Protein sequence

MASYFSVFVTVMALIIVVASAESRPCDDIYVVKEGETLHTISAKCGDPFIVDNNPHIQDSDDVFPGLLIQITPTLINSRKLLL

Homology

[Close]

BLAST of CsaV3_6G005880 vs. NCBI nr
Match: KGN46208.1 (hypothetical protein Csa_6G074605 [Cucumis sativus])

HSP 1 Score: 164.5 bits (415), Expect = 1.6e-37
Identity = 83/83 (100.00%), Postives = 83/83 (100.00%), Query Frame = 0


Query: 1  MASYFSVFVTVMALIIVVASAESRPCDDIYVVKEGETLHTISAKCGDPFIVDNNPHIQDS 60
          MASYFSVFVTVMALIIVVASAESRPCDDIYVVKEGETLHTISAKCGDPFIVDNNPHIQDS
Sbjct: 1  MASYFSVFVTVMALIIVVASAESRPCDDIYVVKEGETLHTISAKCGDPFIVDNNPHIQDS 60

Query: 61 DDVFPGLLIQITPTLINSRKLLL 84
          DDVFPGLLIQITPTLINSRKLLL
Sbjct: 61 DDVFPGLLIQITPTLINSRKLLL 83

[Close]

BLAST of CsaV3_6G005880 vs. NCBI nr
Match: XP_023006696.1 (uncharacterized protein LOC111499354 [Cucurbita maxima])

HSP 1 Score: 109.8 bits (273), Expect = 4.7e-21
Identity = 58/79 (73.42%), Postives = 70/79 (88.61%), Query Frame = 0


Query: 3   SYFSVFVTVMALIIVVASAESRPCDDIYVVKEGETLHTISAKCGDPFIVDNNPHIQDSDD 62
           S +SVF+  MAL++ +ASA+S PCDDIY+V+EGE+LH+ISAKC DPFIVD NP IQDSDD
Sbjct: 46  SCYSVFI-FMALML-LASAQSGPCDDIYLVREGESLHSISAKCDDPFIVDYNPQIQDSDD 105

Query: 63  VFPGLLIQITPTLINSRKL 82
           VFPGLLI+ITP+L NSRKL
Sbjct: 106 VFPGLLIKITPSL-NSRKL 121

[Close]

BLAST of CsaV3_6G005880 vs. NCBI nr
Match: XP_022959284.1 (uncharacterized protein LOC111460313 [Cucurbita moschata])

HSP 1 Score: 109.4 bits (272), Expect = 6.1e-21
Identity = 58/77 (75.32%), Postives = 69/77 (89.61%), Query Frame = 0


Query: 6   SVFVTVMALIIVVASAESRPCDDIYVVKEGETLHTISAKCGDPFIVDNNPHIQDSDDVFP 65
           SVF+  MAL++ +ASA+S PCDDIY+V+EGE+LH+ISAKC DPFIVD NP IQDSDDVFP
Sbjct: 49  SVFI-FMALML-LASAQSGPCDDIYLVREGESLHSISAKCDDPFIVDYNPQIQDSDDVFP 108

Query: 66  GLLIQITPTLINSRKLL 83
           GLLI+ITP+L NSRKLL
Sbjct: 109 GLLIKITPSL-NSRKLL 122

[Close]

BLAST of CsaV3_6G005880 vs. NCBI nr
Match: XP_011042588.1 (PREDICTED: uncharacterized protein LOC105138239 [Populus euphratica])

HSP 1 Score: 102.1 bits (253), Expect = 9.7e-19
Identity = 47/60 (78.33%), Postives = 53/60 (88.33%), Query Frame = 0


Query: 24  RPCDDIYVVKEGETLHTISAKCGDPFIVDNNPHIQDSDDVFPGLLIQITPTLINSRKLLL 83
           RPCD+IY+VKEGETLHTIS KCGDPFIV+ NPHI D DDVFPGL+I+ITP+   SRKLLL
Sbjct: 63  RPCDEIYIVKEGETLHTISDKCGDPFIVEENPHIHDPDDVFPGLVIKITPS--RSRKLLL 120

[Close]

BLAST of CsaV3_6G005880 vs. NCBI nr
Match: XP_002320100.1 (uncharacterized protein LOC7496935 [Populus trichocarpa] >PNT03585.1 hypothetical protein POPTR_014G077900v3 [Populus trichocarpa])

HSP 1 Score: 101.3 bits (251), Expect = 1.7e-18
Identity = 47/60 (78.33%), Postives = 53/60 (88.33%), Query Frame = 0


Query: 24  RPCDDIYVVKEGETLHTISAKCGDPFIVDNNPHIQDSDDVFPGLLIQITPTLINSRKLLL 83
           RPCD+IYVVKEGETLHTIS KCGDPFIV+ NPHI D DDV+PGL+I+ITP+   SRKLLL
Sbjct: 63  RPCDEIYVVKEGETLHTISDKCGDPFIVEENPHIHDPDDVYPGLVIKITPS--RSRKLLL 120

[Close]

BLAST of CsaV3_6G005880 vs. TAIR10
Match: AT5G62150.1 (peptidoglycan-binding LysM domain-containing protein)

HSP 1 Score: 89.4 bits (220), Expect = 1.2e-18
Identity = 39/59 (66.10%), Postives = 48/59 (81.36%), Query Frame = 0


Query: 23  SRPCDDIYVVKEGETLHTISAKCGDPFIVDNNPHIQDSDDVFPGLLIQITPTLINSRKL 82
           ++PC++IY+V EGETLHTI  KCGDPFIV+ NPHI D DDVFPGL+++I P   N RKL
Sbjct: 45  TKPCEEIYIVGEGETLHTIGDKCGDPFIVERNPHIHDPDDVFPGLVLKIAPFYFN-RKL 102

[Close]

BLAST of CsaV3_6G005880 vs. TAIR10
Match: AT3G52790.1 (peptidoglycan-binding LysM domain-containing protein)

HSP 1 Score: 88.2 bits (217), Expect = 2.6e-18
Identity = 40/62 (64.52%), Postives = 50/62 (80.65%), Query Frame = 0


Query: 15  IIVVASAESRP-CDDIYVVKEGETLHTISAKCGDPFIVDNNPHIQDSDDVFPGLLIQITP 74
           +++   +  RP CD+IY VKEGETL TIS KCGDP+IV+ NPHI D DD+FPGLLI+ITP
Sbjct: 48  MMITGYSHRRPACDEIYEVKEGETLQTISEKCGDPYIVEGNPHIHDHDDLFPGLLIRITP 107

Query: 75  TL 76
           +L
Sbjct: 108 SL 109

[Close]

BLAST of CsaV3_6G005880 vs. TAIR10
Match: AT4G25433.1 (peptidoglycan-binding LysM domain-containing protein)

HSP 1 Score: 85.1 bits (209), Expect = 2.2e-17
Identity = 35/48 (72.92%), Postives = 43/48 (89.58%), Query Frame = 0


Query: 24  RPCDDIYVVKEGETLHTISAKCGDPFIVDNNPHIQDSDDVFPGLLIQI 72
           RPC+++YVV EG+TLH+IS KCGDPFIV+ NPHI D DDVFPGLLI++
Sbjct: 57  RPCEELYVVGEGDTLHSISEKCGDPFIVERNPHIHDPDDVFPGLLIKL 104

[Close]

BLAST of CsaV3_6G005880 vs. TrEMBL
Match: tr|A0A0A0K9P3|A0A0A0K9P3_CUCSA (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_6G074605 PE=4 SV=1)

HSP 1 Score: 164.5 bits (415), Expect = 1.1e-37
Identity = 83/83 (100.00%), Postives = 83/83 (100.00%), Query Frame = 0


Query: 1  MASYFSVFVTVMALIIVVASAESRPCDDIYVVKEGETLHTISAKCGDPFIVDNNPHIQDS 60
          MASYFSVFVTVMALIIVVASAESRPCDDIYVVKEGETLHTISAKCGDPFIVDNNPHIQDS
Sbjct: 1  MASYFSVFVTVMALIIVVASAESRPCDDIYVVKEGETLHTISAKCGDPFIVDNNPHIQDS 60

Query: 61 DDVFPGLLIQITPTLINSRKLLL 84
          DDVFPGLLIQITPTLINSRKLLL
Sbjct: 61 DDVFPGLLIQITPTLINSRKLLL 83

[Close]

BLAST of CsaV3_6G005880 vs. TrEMBL
Match: tr|B9IC84|B9IC84_POPTR (Uncharacterized protein OS=Populus trichocarpa OX=3694 GN=POPTR_014G077900v3 PE=4 SV=1)

HSP 1 Score: 101.3 bits (251), Expect = 1.1e-18
Identity = 47/60 (78.33%), Postives = 53/60 (88.33%), Query Frame = 0


Query: 24  RPCDDIYVVKEGETLHTISAKCGDPFIVDNNPHIQDSDDVFPGLLIQITPTLINSRKLLL 83
           RPCD+IYVVKEGETLHTIS KCGDPFIV+ NPHI D DDV+PGL+I+ITP+   SRKLLL
Sbjct: 63  RPCDEIYVVKEGETLHTISDKCGDPFIVEENPHIHDPDDVYPGLVIKITPS--RSRKLLL 120

[Close]

BLAST of CsaV3_6G005880 vs. TrEMBL
Match: tr|A0A151QVN2|A0A151QVN2_CAJCA (Uncharacterized protein OS=Cajanus cajan OX=3821 GN=KK1_044754 PE=4 SV=1)

HSP 1 Score: 100.1 bits (248), Expect = 2.4e-18
Identity = 47/71 (66.20%), Postives = 56/71 (78.87%), Query Frame = 0


Query: 10  TVMALIIVVASAESRPCDDIYVVKEGETLHTISAKCGDPFIVDNNPHIQDSDDVFPGLLI 69
           TV+A     ++   RPCD+IYVV EGETLHTIS KCGDPFIV+ NPHI D DDVFPGL+I
Sbjct: 42  TVVAATRGQSNLFERPCDEIYVVGEGETLHTISDKCGDPFIVERNPHIYDPDDVFPGLVI 101

Query: 70  QITPTLINSRK 81
           +ITPT  N++K
Sbjct: 102 KITPTYTNTKK 112

[Close]

BLAST of CsaV3_6G005880 vs. TrEMBL
Match: tr|A0A218WT23|A0A218WT23_PUNGR (Uncharacterized protein OS=Punica granatum OX=22663 GN=CDL15_Pgr021814 PE=4 SV=1)

HSP 1 Score: 99.8 bits (247), Expect = 3.2e-18
Identity = 46/59 (77.97%), Postives = 51/59 (86.44%), Query Frame = 0


Query: 24  RPCDDIYVVKEGETLHTISAKCGDPFIVDNNPHIQDSDDVFPGLLIQITPTLINSRKLL 83
           RPCD+IYVV+EGETLHTIS KCGDPFIV+ NPHI D DDVFPGL+I+ITPT   SRK L
Sbjct: 73  RPCDEIYVVREGETLHTISDKCGDPFIVERNPHIHDPDDVFPGLVIKITPT--KSRKAL 129

[Close]

BLAST of CsaV3_6G005880 vs. TrEMBL
Match: tr|A0A2N9JAZ8|A0A2N9JAZ8_FAGSY (Uncharacterized protein OS=Fagus sylvatica OX=28930 GN=FSB_LOCUS61622 PE=4 SV=1)

HSP 1 Score: 99.8 bits (247), Expect = 3.2e-18
Identity = 45/59 (76.27%), Postives = 52/59 (88.14%), Query Frame = 0


Query: 24  RPCDDIYVVKEGETLHTISAKCGDPFIVDNNPHIQDSDDVFPGLLIQITPTLINSRKLL 83
           RPCD+IYVV+EGETLHTIS KCGDPFIV+ NPHI D DDVFPGL+I+ITP+  N RK+L
Sbjct: 61  RPCDEIYVVREGETLHTISDKCGDPFIVERNPHIHDPDDVFPGLVIKITPS--NPRKML 117

The following BLAST results are available for this feature:

BLAST of CsaV3_6G005880 vs. NCBI nr


Match Name	E-value	Identity	Description
KGN46208.1	1.6e-37	100.00	hypothetical protein Csa_6G074605 [Cucumis sativus]	[more]
XP_023006696.1	4.7e-21	73.42	uncharacterized protein LOC111499354 [Cucurbita maxima]	[more]
XP_022959284.1	6.1e-21	75.32	uncharacterized protein LOC111460313 [Cucurbita moschata]	[more]
XP_011042588.1	9.7e-19	78.33	PREDICTED: uncharacterized protein LOC105138239 [Populus euphratica]	[more]
XP_002320100.1	1.7e-18	78.33	uncharacterized protein LOC7496935 [Populus trichocarpa] >PNT03585.1 hypothetica...	[more]

BLAST of CsaV3_6G005880 vs. TAIR10


Match Name	E-value	Identity	Description
AT5G62150.1	1.2e-18	66.10	peptidoglycan-binding LysM domain-containing protein	[more]
AT3G52790.1	2.6e-18	64.52	peptidoglycan-binding LysM domain-containing protein	[more]
AT4G25433.1	2.2e-17	72.92	peptidoglycan-binding LysM domain-containing protein	[more]

BLAST of CsaV3_6G005880 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CsaV3_6G005880 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|A0A0A0K9P3\|A0A0A0K9P3_CUCSA	1.1e-37	100.00	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_6G074605 PE=4 SV=1	[more]
tr\|B9IC84\|B9IC84_POPTR	1.1e-18	78.33	Uncharacterized protein OS=Populus trichocarpa OX=3694 GN=POPTR_014G077900v3 PE=...	[more]
tr\|A0A151QVN2\|A0A151QVN2_CAJCA	2.4e-18	66.20	Uncharacterized protein OS=Cajanus cajan OX=3821 GN=KK1_044754 PE=4 SV=1	[more]
tr\|A0A218WT23\|A0A218WT23_PUNGR	3.2e-18	77.97	Uncharacterized protein OS=Punica granatum OX=22663 GN=CDL15_Pgr021814 PE=4 SV=1	[more]
tr\|A0A2N9JAZ8\|A0A2N9JAZ8_FAGSY	3.2e-18	76.27	Uncharacterized protein OS=Fagus sylvatica OX=28930 GN=FSB_LOCUS61622 PE=4 SV=1	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
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
cellular_component	GO:0005575	cellular_component
cellular_component	GO:0016021	integral component of membrane
molecular_function	GO:0003674	molecular_function

Relationships

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


Feature Name	Unique Name	Type
CsaV3_6G005880.1	CsaV3_6G005880.1	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: 30..71 e-value: 1.5E-4 score: 21.6
IPR018392	LysM domain	CDD	cd00118	LysM	coord: 29..71 e-value: 5.73756E-5 score: 35.1537
None	No IPR available	PANTHER	PTHR33648	FAMILY NOT NAMED	coord: 15..74

Synteny

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


Gene	Orthologue	Organism	Block
CsaV3_6G005880	CSPI03G16490	Wild cucumber (PI 183967)	cpicucB190
CsaV3_6G005880	Cucsa.363100	Cucumber (Gy14) v1	cgycucB556
CsaV3_6G005880	CmaCh17G000110	Cucurbita maxima (Rimu)	cmacucB0441
CsaV3_6G005880	CmaCh16G001560	Cucurbita maxima (Rimu)	cmacucB0411
CsaV3_6G005880	CmoCh17G000130	Cucurbita moschata (Rifu)	cmocucB0434
CsaV3_6G005880	Cp4.1LG12g00110	Cucurbita pepo (Zucchini)	cpecucB0167
CsaV3_6G005880	Cp4.1LG14g05920	Cucurbita pepo (Zucchini)	cpecucB0281
CsaV3_6G005880	CsGy6G005500	Cucumber (Gy14) v2	cgybcucB298
CsaV3_6G005880	Carg10220	Silver-seed gourd	carcucB0263
CsaV3_6G005880	Cla006216	Watermelon (97103) v1	cucwmB524
CsaV3_6G005880	MELO3C022526	Melon (DHL92) v3.5.1	cucmeB444
CsaV3_6G005880	MELO3C006864	Melon (DHL92) v3.5.1	cucmeB512
CsaV3_6G005880	ClCG06G000130	Watermelon (Charleston Gray)	cucwcgB497
CsaV3_6G005880	Lsi05G012710	Bottle gourd (USVL1VR-Ls)	cuclsiB490
CsaV3_6G005880	MELO3C006864.2	Melon (DHL92) v3.6.1	cucmedB500
CsaV3_6G005880	MELO3C022526.2	Melon (DHL92) v3.6.1	cucmedB435
CsaV3_6G005880	Cla97C05G089680	Watermelon (97103) v2	cucwmbB484
CsaV3_6G005880	Bhi01G001004	Wax gourd	cucwgoB574

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


Gene	Paralogue	Organism	Block
CsaV3_6G005880	CsaV3_3G016690	Cucumber (Chinese Long) v3	cuccucB152

The following block(s) are covering this gene:


Gene	Organism	Block
CsaV3_6G005880	Cucumber (Chinese Long) v3	cuccucB137
CsaV3_6G005880	Silver-seed gourd	carcucB0262
CsaV3_6G005880	Silver-seed gourd	carcucB0654
CsaV3_6G005880	Silver-seed gourd	carcucB1129
CsaV3_6G005880	Cucumber (Gy14) v2	cgybcucB142
CsaV3_6G005880	Cucumber (Gy14) v1	cgycucB398
CsaV3_6G005880	Cucurbita maxima (Rimu)	cmacucB0313
CsaV3_6G005880	Cucurbita maxima (Rimu)	cmacucB0454
CsaV3_6G005880	Cucurbita maxima (Rimu)	cmacucB0996
CsaV3_6G005880	Cucurbita maxima (Rimu)	cmacucB1065
CsaV3_6G005880	Cucurbita moschata (Rifu)	cmocucB0308
CsaV3_6G005880	Cucurbita moschata (Rifu)	cmocucB0407
CsaV3_6G005880	Cucurbita moschata (Rifu)	cmocucB0447
CsaV3_6G005880	Cucurbita moschata (Rifu)	cmocucB0980
CsaV3_6G005880	Cucurbita moschata (Rifu)	cmocucB1047
CsaV3_6G005880	Cucurbita pepo (Zucchini)	cpecucB0179
CsaV3_6G005880	Cucurbita pepo (Zucchini)	cpecucB0405
CsaV3_6G005880	Cucurbita pepo (Zucchini)	cpecucB0785
CsaV3_6G005880	Cucurbita pepo (Zucchini)	cpecucB1077
CsaV3_6G005880	Wild cucumber (PI 183967)	cpicucB178
CsaV3_6G005880	Wild cucumber (PI 183967)	cpicucB364
CsaV3_6G005880	Bottle gourd (USVL1VR-Ls)	cuclsiB424
CsaV3_6G005880	Bottle gourd (USVL1VR-Ls)	cuclsiB491
CsaV3_6G005880	Melon (DHL92) v3.5.1	cucmeB506
CsaV3_6G005880	Melon (DHL92) v3.6.1	cucmedB493
CsaV3_6G005880	Watermelon (Charleston Gray)	cucwcgB490
CsaV3_6G005880	Watermelon (97103) v1	cucwmB517
CsaV3_6G005880	Watermelon (97103) v1	cucwmB562
CsaV3_6G005880	Watermelon (97103) v2	cucwmbB478
CsaV3_6G005880	Watermelon (97103) v2	cucwmbB487
CsaV3_6G005880	Wax gourd	cucwgoB670