Lsi05G002870 (gene) Bottle gourd (USVL1VR-Ls) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Lsi05G002870
Type	gene
Organism	Lagenaria siceraria (Bottle gourd (USVL1VR-Ls))
Description	ATP-dependent Clp protease proteolytic subunit
Location	chr05 : 3700624 .. 3701160 (-)

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.

ATGACGATGTTATAAAGATTACCTTAGTGAACTGAAGTTGTGATAATGGAAAAGAATAAACAGAAGTGCAGTAGATTGTAAACTATTCGAGGATCTAGAGGATCTAGACGAACAAGAGTTCTGAGCCAAGAGAGACAACGAGATAGGTAACGAGATATTTAAAACTGTGCAAGACATCAACAAAAAGTTAATTTCTATTGATTTAAAAAAGTGAGTCATTTTTCATTTTTGACCAGCCATATAACTTTCCCTTCTCACTTTACAATTTCTACTCCTTTGAAGCACCCCATGGCGGCAATTCCACTTCTAATACTTTTAGAATCTGAAATTCGGTTCCGGTAGTAAAGCCCTCGCTTAATTCCTCCTCTCAGACGGACTTTATACAGTAATTGGGACGTTTTGGACAATTATTCTGCATCTTCCGCTCCATCGCTGCCTCAATTCGGAGAGCTTGACACTACCAACATGCTTCTCCGCCAGCGAATCATCTTCTTGGGTTCTCAGGCAATCTCTCGAACTATTTCCTCATATTTCTGA

mRNA sequence

ATGACGATCCATATAACTTTCCCTTCTCACTTTACAATTTCTACTCCTTTGAAGCACCCCATGGCGGCAATTCCACTTCTAATACTTTTAGAATCTGAAATTCGGTTCCGACGGACTTTATACAGTAATTGGGACGTTTTGGACAATTATTCTGCATCTTCCGCTCCATCGCTGCCTCAATTCGGAGAGCTTGACACTACCAACATGCTTCTCCGCCAGCGAATCATCTTCTTGGGTTCTCAGGCAATCTCTCGAACTATTTCCTCATATTTCTGA

Coding sequence (CDS)

ATGACGATCCATATAACTTTCCCTTCTCACTTTACAATTTCTACTCCTTTGAAGCACCCCATGGCGGCAATTCCACTTCTAATACTTTTAGAATCTGAAATTCGGTTCCGACGGACTTTATACAGTAATTGGGACGTTTTGGACAATTATTCTGCATCTTCCGCTCCATCGCTGCCTCAATTCGGAGAGCTTGACACTACCAACATGCTTCTCCGCCAGCGAATCATCTTCTTGGGTTCTCAGGCAATCTCTCGAACTATTTCCTCATATTTCTGA

Protein sequence

MTIHITFPSHFTISTPLKHPMAAIPLLILLESEIRFRRTLYSNWDVLDNYSASSAPSLPQFGELDTTNMLLRQRIIFLGSQAISRTISSYF

Homology

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BLAST of Lsi05G002870 vs. Swiss-Prot
Match: CLPP3_ARATH (ATP-dependent Clp protease proteolytic subunit 3, chloroplastic OS=Arabidopsis thaliana GN=CLPP3 PE=1 SV=1)

HSP 1 Score: 57.8 bits (138), Expect = 7.3e-08
Identity = 32/53 (60.38%), Postives = 35/53 (66.04%), Query Frame = 1


Query: 37  RRTLYSNWDVLD---NYSASSAPSLPQFGELDTTNMLLRQRIIFLGSQAISRT 87
           R+TL SNWDV     +  A S   LP F ELDTTNMLLRQRI+FLGSQ    T
Sbjct: 54  RQTLSSNWDVSSFSIDSVAQSPSRLPSFEELDTTNMLLRQRIVFLGSQVDDMT 106

[Close]

BLAST of Lsi05G002870 vs. TrEMBL
Match: A0A0A0LA84_CUCSA (ATP-dependent Clp protease proteolytic subunit OS=Cucumis sativus GN=Csa_3G363170 PE=3 SV=1)

HSP 1 Score: 82.8 bits (203), Expect = 2.4e-13
Identity = 50/92 (54.35%), Postives = 55/92 (59.78%), Query Frame = 1


Query: 9   SHFTISTPLKHPMA-------------AIPLLIL-LESEIRFRRTLYSNWDVLDNYSASS 68
           SHF ISTP KH                ++P++     S    RRTL SNWDV  NYS SS
Sbjct: 26  SHFPISTPSKHSHGGNFTSNAFRIRNCSVPVVNHPSHSSSSLRRTLSSNWDVFSNYSVSS 85

Query: 69  APSLPQFGELDTTNMLLRQRIIFLGSQAISRT 87
           A SLP+F ELDTTNMLLRQRIIFLGSQ    T
Sbjct: 86  ARSLPRFEELDTTNMLLRQRIIFLGSQVDDMT 117

[Close]

BLAST of Lsi05G002870 vs. TrEMBL
Match: A0A067JRQ3_JATCU (ATP-dependent Clp protease proteolytic subunit OS=Jatropha curcas GN=JCGZ_02507 PE=3 SV=1)

HSP 1 Score: 68.2 bits (165), Expect = 6.0e-09
Identity = 40/58 (68.97%), Postives = 44/58 (75.86%), Query Frame = 1


Query: 30  LESEIRFRRTLYSNWDVLDNYS-ASSAPSLPQFGELDTTNMLLRQRIIFLGSQAISRT 87
           L + IR R TL SNWDV +  S ASSAP+LP+F ELDTTNMLLRQRIIFLGSQ    T
Sbjct: 56  LNTSIR-RATLSSNWDVTNLSSFASSAPTLPRFEELDTTNMLLRQRIIFLGSQVDDMT 112

[Close]

BLAST of Lsi05G002870 vs. TrEMBL
Match: B9H362_POPTR (ATP-dependent Clp protease proteolytic subunit OS=Populus trichocarpa GN=POPTR_0004s09110g PE=3 SV=1)

HSP 1 Score: 65.5 bits (158), Expect = 3.9e-08
Identity = 35/47 (74.47%), Postives = 41/47 (87.23%), Query Frame = 1


Query: 37  RRTLYSNWDVLDNYS--ASSAPSLPQFGELDTTNMLLRQRIIFLGSQ 82
           R+TL SNWDV + +S  A+SAP+LP+F ELDTTNMLLRQRIIFLGSQ
Sbjct: 69  RQTLASNWDV-EKFSSFANSAPTLPKFEELDTTNMLLRQRIIFLGSQ 114

[Close]

BLAST of Lsi05G002870 vs. TrEMBL
Match: A0A087HG17_ARAAL (ATP-dependent Clp protease proteolytic subunit OS=Arabis alpina GN=AALP_AA2G081700 PE=3 SV=1)

HSP 1 Score: 65.1 bits (157), Expect = 5.1e-08
Identity = 35/58 (60.34%), Postives = 43/58 (74.14%), Query Frame = 1


Query: 30 LESEIRFRRTLYSNWDVLDNYSASSAPS-LPQFGELDTTNMLLRQRIIFLGSQAISRT 87
          + S +R R+TL SNWDV  ++S + +PS LP F ELDTTNMLLRQRI+FLGSQ    T
Sbjct: 36 VRSSMRPRQTLSSNWDV-SSFSVAQSPSRLPSFEELDTTNMLLRQRIVFLGSQVDDMT 92

[Close]

BLAST of Lsi05G002870 vs. TrEMBL
Match: B9T322_RICCO (ATP-dependent Clp protease proteolytic subunit OS=Ricinus communis GN=RCOM_0326970 PE=3 SV=1)

HSP 1 Score: 63.9 bits (154), Expect = 1.1e-07
Identity = 34/52 (65.38%), Postives = 40/52 (76.92%), Query Frame = 1


Query: 37  RRTLYSNWDVLDNYS--ASSAPSLPQFGELDTTNMLLRQRIIFLGSQAISRT 87
           + TL SNWDV +  S  A+S+P+LP+F ELDTTNMLLRQRIIFLGSQ    T
Sbjct: 62  KETLSSNWDVANFSSSFATSSPALPRFEELDTTNMLLRQRIIFLGSQVDDMT 113

[Close]

BLAST of Lsi05G002870 vs. TAIR10
Match: AT1G66670.1 (AT1G66670.1 CLP protease proteolytic subunit 3)

HSP 1 Score: 57.8 bits (138), Expect = 4.1e-09
Identity = 32/53 (60.38%), Postives = 35/53 (66.04%), Query Frame = 1


Query: 37  RRTLYSNWDVLD---NYSASSAPSLPQFGELDTTNMLLRQRIIFLGSQAISRT 87
           R+TL SNWDV     +  A S   LP F ELDTTNMLLRQRI+FLGSQ    T
Sbjct: 54  RQTLSSNWDVSSFSIDSVAQSPSRLPSFEELDTTNMLLRQRIVFLGSQVDDMT 106

[Close]

BLAST of Lsi05G002870 vs. NCBI nr
Match: gi|659114541|ref|XP_008457103.1| (PREDICTED: ATP-dependent Clp protease proteolytic subunit 3, chloroplastic [Cucumis melo])

HSP 1 Score: 85.1 bits (209), Expect = 6.8e-14
Identity = 51/87 (58.62%), Postives = 55/87 (63.22%), Query Frame = 1


Query: 9   SHFTISTPLKHPMA-------------AIPLLILLE-SEIRFRRTLYSNWDVLDNYSASS 68
           SH  ISTP  H                ++P+L     S    RRTL SNWDVL NYSASS
Sbjct: 27  SHVPISTPSNHSHGRNFTSNNFRIRNCSVPVLNHPSLSSSSLRRTLSSNWDVLSNYSASS 86

Query: 69  APSLPQFGELDTTNMLLRQRIIFLGSQ 82
           APSLP+F ELDTTNMLLRQRIIFLGSQ
Sbjct: 87  APSLPRFEELDTTNMLLRQRIIFLGSQ 113

[Close]

BLAST of Lsi05G002870 vs. NCBI nr
Match: gi|778680955|ref|XP_011651427.1| (PREDICTED: ATP-dependent Clp protease proteolytic subunit 3, chloroplastic [Cucumis sativus])

HSP 1 Score: 82.8 bits (203), Expect = 3.4e-13
Identity = 50/92 (54.35%), Postives = 55/92 (59.78%), Query Frame = 1


Query: 9   SHFTISTPLKHPMA-------------AIPLLIL-LESEIRFRRTLYSNWDVLDNYSASS 68
           SHF ISTP KH                ++P++     S    RRTL SNWDV  NYS SS
Sbjct: 26  SHFPISTPSKHSHGGNFTSNAFRIRNCSVPVVNHPSHSSSSLRRTLSSNWDVFSNYSVSS 85

Query: 69  APSLPQFGELDTTNMLLRQRIIFLGSQAISRT 87
           A SLP+F ELDTTNMLLRQRIIFLGSQ    T
Sbjct: 86  ARSLPRFEELDTTNMLLRQRIIFLGSQVDDMT 117

[Close]

BLAST of Lsi05G002870 vs. NCBI nr
Match: gi|1009118941|ref|XP_015876116.1| (PREDICTED: LOW QUALITY PROTEIN: ATP-dependent Clp protease proteolytic subunit 3, chloroplastic [Ziziphus jujuba])

HSP 1 Score: 73.9 bits (180), Expect = 1.6e-10
Identity = 44/79 (55.70%), Postives = 52/79 (65.82%), Query Frame = 1


Query: 9   SHFTISTPLKHPMAAIPLLILLESEIRFRRTLYSNWDVL-DNYSASSAPSLPQFGELDTT 68
           S F+ + PL+   AA  +  L  +    RRTL +NWDV  D YS +SAP LP+F ELDTT
Sbjct: 41  SSFSHTRPLRRRKAASLIKALKTTPSSPRRTLSNNWDVSQDLYSVTSAPWLPRFEELDTT 100

Query: 69  NMLLRQRIIFLGSQAISRT 87
           NMLLRQRIIFLGSQ    T
Sbjct: 101 NMLLRQRIIFLGSQVDDMT 119

[Close]

BLAST of Lsi05G002870 vs. NCBI nr
Match: gi|802761955|ref|XP_012089922.1| (PREDICTED: ATP-dependent Clp protease proteolytic subunit 3, chloroplastic [Jatropha curcas])

HSP 1 Score: 68.2 bits (165), Expect = 8.7e-09
Identity = 40/58 (68.97%), Postives = 44/58 (75.86%), Query Frame = 1


Query: 30  LESEIRFRRTLYSNWDVLDNYS-ASSAPSLPQFGELDTTNMLLRQRIIFLGSQAISRT 87
           L + IR R TL SNWDV +  S ASSAP+LP+F ELDTTNMLLRQRIIFLGSQ    T
Sbjct: 56  LNTSIR-RATLSSNWDVTNLSSFASSAPTLPRFEELDTTNMLLRQRIIFLGSQVDDMT 112

[Close]

BLAST of Lsi05G002870 vs. NCBI nr
Match: gi|224079413|ref|XP_002305856.1| (hypothetical protein POPTR_0004s09110g [Populus trichocarpa])

HSP 1 Score: 65.5 bits (158), Expect = 5.6e-08
Identity = 35/47 (74.47%), Postives = 41/47 (87.23%), Query Frame = 1


Query: 37  RRTLYSNWDVLDNYS--ASSAPSLPQFGELDTTNMLLRQRIIFLGSQ 82
           R+TL SNWDV + +S  A+SAP+LP+F ELDTTNMLLRQRIIFLGSQ
Sbjct: 69  RQTLASNWDV-EKFSSFANSAPTLPKFEELDTTNMLLRQRIIFLGSQ 114

The following BLAST results are available for this feature:

BLAST of Lsi05G002870 vs. Swiss-Prot


Match Name	E-value	Identity	Description
CLPP3_ARATH	7.3e-08	60.38	ATP-dependent Clp protease proteolytic subunit 3, chloroplastic OS=Arabidopsis t...	[more]

BLAST of Lsi05G002870 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0LA84_CUCSA	2.4e-13	54.35	ATP-dependent Clp protease proteolytic subunit OS=Cucumis sativus GN=Csa_3G36317...	[more]
A0A067JRQ3_JATCU	6.0e-09	68.97	ATP-dependent Clp protease proteolytic subunit OS=Jatropha curcas GN=JCGZ_02507 ...	[more]
B9H362_POPTR	3.9e-08	74.47	ATP-dependent Clp protease proteolytic subunit OS=Populus trichocarpa GN=POPTR_0...	[more]
A0A087HG17_ARAAL	5.1e-08	60.34	ATP-dependent Clp protease proteolytic subunit OS=Arabis alpina GN=AALP_AA2G0817...	[more]
B9T322_RICCO	1.1e-07	65.38	ATP-dependent Clp protease proteolytic subunit OS=Ricinus communis GN=RCOM_03269...	[more]

BLAST of Lsi05G002870 vs. TAIR10


Match Name	E-value	Identity	Description
AT1G66670.1	4.1e-09	60.38	CLP protease proteolytic subunit 3	[more]

BLAST of Lsi05G002870 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|659114541\|ref\|XP_008457103.1\|	6.8e-14	58.62	PREDICTED: ATP-dependent Clp protease proteolytic subunit 3, chloroplastic [Cucu...	[more]
gi\|778680955\|ref\|XP_011651427.1\|	3.4e-13	54.35	PREDICTED: ATP-dependent Clp protease proteolytic subunit 3, chloroplastic [Cucu...	[more]
gi\|1009118941\|ref\|XP_015876116.1\|	1.6e-10	55.70	PREDICTED: LOW QUALITY PROTEIN: ATP-dependent Clp protease proteolytic subunit 3...	[more]
gi\|802761955\|ref\|XP_012089922.1\|	8.7e-09	68.97	PREDICTED: ATP-dependent Clp protease proteolytic subunit 3, chloroplastic [Jatr...	[more]
gi\|224079413\|ref\|XP_002305856.1\|	5.6e-08	74.47	hypothetical protein POPTR_0004s09110g [Populus trichocarpa]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR023562	ClpP/TepA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006508	proteolysis
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0004252	serine-type endopeptidase activity

Relationships

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


Feature Name	Unique Name	Type
Lsi05G002870.1	Lsi05G002870.1	mRNA

InterPro

Analysis Name: InterPro Annotations of Lagenaria siceraria
Date Performed: 2017-09-18


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR023562	Clp protease proteolytic subunit /Translocation-enhancing protein TepA	PANTHER	PTHR10381	ATP-DEPENDENT CLP PROTEASE PROTEOLYTIC SUBUNIT	coord: 1..81 score: 8.9
None	No IPR available	PANTHER	PTHR10381:SF20	ATP-DEPENDENT CLP PROTEASE PROTEOLYTIC SUBUNIT 3, CHLOROPLASTIC	coord: 1..81 score: 8.9

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
Lsi05G002870	Cucurbita pepo (Zucchini)	cpelsiB470
Lsi05G002870	Cucurbita pepo (Zucchini)	cpelsiB511
Lsi05G002870	Wild cucumber (PI 183967)	cpilsiB209
Lsi05G002870	Cucumber (Chinese Long) v2	culsiB211
Lsi05G002870	Melon (DHL92) v3.5.1	lsimeB368
Lsi05G002870	Watermelon (Charleston Gray)	lsiwcgB332
Lsi05G002870	Watermelon (97103) v1	lsiwmB361
Lsi05G002870	Cucumber (Gy14) v2	cgyblsiB198
Lsi05G002870	Cucumber (Gy14) v2	cgyblsiB199
Lsi05G002870	Melon (DHL92) v3.6.1	lsimedB384
Lsi05G002870	Silver-seed gourd	carlsiB158
Lsi05G002870	Silver-seed gourd	carlsiB700
Lsi05G002870	Cucumber (Chinese Long) v3	cuclsiB230
Lsi05G002870	Cucumber (Chinese Long) v3	cuclsiB231
Lsi05G002870	Watermelon (97103) v2	lsiwmbB329
Lsi05G002870	Wax gourd	lsiwgoB431
Lsi05G002870	Cucumber (Gy14) v1	cgylsiB144
Lsi05G002870	Cucumber (Gy14) v1	cgylsiB322
Lsi05G002870	Cucurbita maxima (Rimu)	cmalsiB249
Lsi05G002870	Cucurbita maxima (Rimu)	cmalsiB440
Lsi05G002870	Cucurbita moschata (Rifu)	cmolsiB237
Lsi05G002870	Cucurbita moschata (Rifu)	cmolsiB430