Lsi05G007670 (gene) Bottle gourd (USVL1VR-Ls) v1

Overview


Name	Lsi05G007670
Type	gene
Organism	Lagenaria siceraria (Bottle gourd (USVL1VR-Ls) v1)
Description	4-diphosphocytidyl-2C-methyl-D-erythritol synthase
Location	chr05: 10787602 .. 10789073 (+)
RNA-Seq Expression	Lsi05G007670
Synteny	Lsi05G007670

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDSpolypeptidethree_prime_UTR

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

ATGGATGGTGCTGGGAGCATGGGACTTGCTTGTACTTTTTAGCTTCTTTTTCTTTTGAGGAGTTGGGGCAGGCTTTCTTGATGCAGTAGGAGACTCGATTGGGGCAGCAGAGGGAAAAGGGGTAACAGAGGCAGAGAGGGGACGCGATGCAGTTAAATTTGGTGCTTTGGAGCCCTTTTCACATTTTTGCTTTCTTAGATTGGGGAGGCTTGGAGGTAGAGGGACCTGGAGCTGATTTGTTTTCCTTAGATGCGGCTGCTCTTTCAAACTTTTGCAACCGGTCTATGAGCAATGATGAGTGGTGTGGTCATGACTTCAGCTGAACCATCAGGATGAATTCCTGCCGCAAAACATAAGTCACATACAAGGCGTGGGAAAAATATTCGACCATGCCCTTTTGCTGTCATGGCTCTCATCTCTTTTAAAATCAATGCTCTAAGGTCAACCTCAATACCTCTCATTGTGAAGTGACACAGAAGCATCCGCTGGCTATTAATTGAATGATCATGCGATGTAGGCATGATGTTGTGCTTAATGAAGTACATCCAAACGACTGCTTCTGCGGGTGCAACAAATGAAGCCCCATGTGCTTGACCTCCCATTGGAACCCTTTCTTCCTATGGCGACCAATGCATTGGCTATCAGGAGGGCTGTCGATCATTTTGTTGCCCAATGTGTCTGGAGTGTTGGGAAGCTCCAATATCTAGTTGATCACTGATGACCGAAAGGGTCAAATCTCACTGAATAGACTTGGGGATTCGTTATCGATATTTACAGAATAGACGTGTCAAAATTTCATAAATAGAAGACTAAATAGAAGTATGATTCGAGGTTTTGGTACTTAACAAAGTTTTTTCCAATTCCTTGTTGCTATCTAATGATATATATGTTTTATGAACAAACACACTCTCCATTTTCCATCAGGGAAGGCTTGGAAGTAACGGATGACGTTTCCATTGTGGAGTACTTGAAACATCCCGTGCTCATCACTGAAGGATCTTATACCAATATCAAGGTATTATAATTTTCAATTACAATTTTAGCATACATTTACGGCCCATCCATTTATATTTTAATTTTTTTATATAGAGAAAGTAAAGTTTGTTTTCCAAAAAGTGTCCAGTAATAAAAGAGTTCTCTCTTTGCAGGTAACAACACCTGATGATTTATTACTTGCAGAGAGAATATTGAATTTGAACTCGTGAGAGTCCTCTTGAGGACTAAACGACCATTGTCCTAACCTCTTAAATAATCAAAATACCTTGTAAGTTTCCCCCCATTTTTAAAGTGATGTAATTCAAAATTCAATTACAACATAATGTCAATGAGCATGATGTCGGCTTCTCAAATAAAAGTTTAAAGCATGAATGGTCCTGTTGAACAAATGGAGGTACAAAAACAGATAGGATGAAAATATGGAAGATATTGAAATTTTTTCCTCATTATATAACAAGTTTAGTCCTTAAACTTTT

mRNA sequence

ATGGATGGCTTTCTTGATGCAGTAGGAGACTCGATTGGGGCAGCAGAGGGAAAAGGGGTAACAGAGGCAGAGAGGGGACGCGATGCAGTTAAATTTGATTGGGGAGGCTTGGAGGTAGAGGGACCTGGAGCTGATTTGTTTTCCTTAGATGCGGCTGCTCTTTCAAACTTTTGCAACCGGGAAGGCTTGGAAGTAACGGATGACGTTTCCATTGTGGAGTACTTGAAACATCCCGTGCTCATCACTGAAGGATCTTATACCAATATCAAGGTAACAACACCTGATGATTTATTACTTGCAGAGAGAATATTGAATTTGAACTCGTGAGAGTCCTCTTGAGGACTAAACGACCATTGTCCTAACCTCTTAAATAATCAAAATACCTTGTAAGTTTCCCCCCATTTTTAAAGTGATGTAATTCAAAATTCAATTACAACATAATGTCAATGAGCATGATGTCGGCTTCTCAAATAAAAGTTTAAAGCATGAATGGTCCTGTTGAACAAATGGAGGTACAAAAACAGATAGGATGAAAATATGGAAGATATTGAAATTTTTTCCTCATTATATAACAAGTTTAGTCCTTAAACTTTT

Coding sequence (CDS)

ATGGATGGCTTTCTTGATGCAGTAGGAGACTCGATTGGGGCAGCAGAGGGAAAAGGGGTAACAGAGGCAGAGAGGGGACGCGATGCAGTTAAATTTGATTGGGGAGGCTTGGAGGTAGAGGGACCTGGAGCTGATTTGTTTTCCTTAGATGCGGCTGCTCTTTCAAACTTTTGCAACCGGGAAGGCTTGGAAGTAACGGATGACGTTTCCATTGTGGAGTACTTGAAACATCCCGTGCTCATCACTGAAGGATCTTATACCAATATCAAGGTAACAACACCTGATGATTTATTACTTGCAGAGAGAATATTGAATTTGAACTCGTGA

Protein sequence

MDGFLDAVGDSIGAAEGKGVTEAERGRDAVKFDWGGLEVEGPGADLFSLDAAALSNFCNREGLEVTDDVSIVEYLKHPVLITEGSYTNIKVTTPDDLLLAERILNLNS

Homology

[Close]

BLAST of Lsi05G007670 vs. ExPASy Swiss-Prot
Match: Q5N8G1 (2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase, chloroplastic OS=Oryza sativa subsp. japonica OX=39947 GN=ISPD PE=2 SV=1)

HSP 1 Score: 85.5 bits (210), Expect = 4.0e-16
Identity = 41/46 (89.13%), Postives = 44/46 (95.65%), Query Frame = 0


Query: 60  REGLEVTDDVSIVEYLKHPVLITEGSYTNIKVTTPDDLLLAERILN 106
           R+GLEVTDDVSIVEYLKH V ITEGSYTNIKVTTPDDLLLAER++N
Sbjct: 250 RDGLEVTDDVSIVEYLKHSVYITEGSYTNIKVTTPDDLLLAERLMN 295

[Close]

BLAST of Lsi05G007670 vs. ExPASy Swiss-Prot
Match: P69834 (2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=ISPD PE=1 SV=1)

HSP 1 Score: 85.1 bits (209), Expect = 5.3e-16
Identity = 41/48 (85.42%), Postives = 46/48 (95.83%), Query Frame = 0


Query: 61  EGLEVTDDVSIVEYLKHPVLITEGSYTNIKVTTPDDLLLAERILNLNS 109
           EGLEVTDDVSIVEYLKHPV +++GSYTNIKVTTPDDLLLAERIL+ +S
Sbjct: 255 EGLEVTDDVSIVEYLKHPVYVSQGSYTNIKVTTPDDLLLAERILSEDS 302

[Close]

BLAST of Lsi05G007670 vs. ExPASy Swiss-Prot
Match: A9KSU6 (2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase OS=Lachnoclostridium phytofermentans (strain ATCC 700394 / DSM 18823 / ISDg) OX=357809 GN=ispD PE=3 SV=1)

HSP 1 Score: 60.5 bits (145), Expect = 1.4e-08
Identity = 33/96 (34.38%), Postives = 55/96 (57.29%), Query Frame = 0


Query: 10  DSIGAAEGKGVTEAERGRDAVKFDWGGLEVEGPGADLFSLDAAALSNFCNREGLEVTDDV 69
           D++  +   G+ ++   R+ V        ++ P A  +S+   A  N  + +G  +TDD 
Sbjct: 137 DTVKISTHDGIIDSTPDRNQV------YTIQTPQAFEYSILREAYDNLASYQGAMITDDA 196

Query: 70  SIVEYL-KHPVLITEGSYTNIKVTTPDDLLLAERIL 105
            IVE L ++P+ + +G YTNIK+TTP+DL+ AE IL
Sbjct: 197 MIVECLNRYPIYLVQGEYTNIKITTPEDLIFAEAIL 226

[Close]

BLAST of Lsi05G007670 vs. ExPASy Swiss-Prot
Match: Q6MEE8 (2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase OS=Protochlamydia amoebophila (strain UWE25) OX=264201 GN=ispD PE=3 SV=1)

HSP 1 Score: 57.4 bits (137), Expect = 1.2e-07
Identity = 26/42 (61.90%), Postives = 34/42 (80.95%), Query Frame = 0


Query: 63  LEVTDDVSIVEYLKHPVLITEGSYTNIKVTTPDDLLLAERIL 105
           L V+DDVS+VE +  PV + EGSY NIK+TTP+DLL+A+ IL
Sbjct: 183 LTVSDDVSLVELIDKPVKVVEGSYLNIKITTPEDLLIAQSIL 224

[Close]

BLAST of Lsi05G007670 vs. ExPASy Swiss-Prot
Match: A7Z0L2 (2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase OS=Bacillus velezensis (strain DSM 23117 / BGSC 10A6 / FZB42) OX=326423 GN=ispD PE=3 SV=1)

HSP 1 Score: 56.6 bits (135), Expect = 2.0e-07
Identity = 46/103 (44.66%), Postives = 54/103 (52.43%), Query Frame = 0


Query: 8   VGDSIGAAEGKGVTEAERGRDAVKFDWGGL-EVEGPGADLFSLDAAALSNFCNREGLEVT 67
           V D+I  AEG  V E         FD   L  V+ P A   SL   A     N+ G   T
Sbjct: 134 VKDTIKRAEGSRVAET--------FDRSSLWAVQTPQAFRLSLLKTAHMEAENK-GFLGT 193

Query: 68  DDVSIVEYLK-HPVLITEGSYTNIKVTTPDDLLLAERILNLNS 109
           DD S+VE L  + V I EGSYTNIK+TTPDDL+ AE I+   S
Sbjct: 194 DDASLVERLDGYQVSIVEGSYTNIKLTTPDDLIFAEAIMKAES 227

[Close]

BLAST of Lsi05G007670 vs. ExPASy TrEMBL
Match: A0A140CWN8 (4-diphosphocytidyl-2C-methyl-D-erythritol synthase OS=Bixa orellana OX=66672 GN=MCT PE=2 SV=1)

HSP 1 Score: 96.3 bits (238), Expect = 8.4e-17
Identity = 47/50 (94.00%), Postives = 49/50 (98.00%), Query Frame = 0


Query: 59  NREGLEVTDDVSIVEYLKHPVLITEGSYTNIKVTTPDDLLLAERILNLNS 109
           NREGLEVTDDVSIVEYLKHPV ITEGSYTNIKVTTPDDLLLAERIL++NS
Sbjct: 219 NREGLEVTDDVSIVEYLKHPVYITEGSYTNIKVTTPDDLLLAERILSMNS 268

[Close]

BLAST of Lsi05G007670 vs. ExPASy TrEMBL
Match: A0A224XH13 (4-diphosphocytidyl-2C-methyl-D-erythritol synthase OS=Hypericum kalmianum OX=473045 PE=3 SV=1)

HSP 1 Score: 96.3 bits (238), Expect = 8.4e-17
Identity = 47/50 (94.00%), Postives = 49/50 (98.00%), Query Frame = 0


Query: 59  NREGLEVTDDVSIVEYLKHPVLITEGSYTNIKVTTPDDLLLAERILNLNS 109
           NREGLEVTDDVSIVE+LKHPV ITEGSYTNIKVTTPDDLLLAERILN+NS
Sbjct: 257 NREGLEVTDDVSIVEHLKHPVYITEGSYTNIKVTTPDDLLLAERILNMNS 306

[Close]

BLAST of Lsi05G007670 vs. ExPASy TrEMBL
Match: A0A2K3PQ94 (4-diphosphocytidyl-2C-methyl-D-erythritol synthase OS=Trifolium pratense OX=57577 GN=L195_g014209 PE=3 SV=1)

HSP 1 Score: 96.3 bits (238), Expect = 8.4e-17
Identity = 47/50 (94.00%), Postives = 49/50 (98.00%), Query Frame = 0


Query: 59  NREGLEVTDDVSIVEYLKHPVLITEGSYTNIKVTTPDDLLLAERILNLNS 109
           NREGLEVTDDVSIVE+LKHPV ITEGSYTNIKVTTPDDLLLAERILN+NS
Sbjct: 236 NREGLEVTDDVSIVEHLKHPVYITEGSYTNIKVTTPDDLLLAERILNINS 285

[Close]

BLAST of Lsi05G007670 vs. ExPASy TrEMBL
Match: A0A5A7V408 (4-diphosphocytidyl-2C-methyl-D-erythritol synthase OS=Cucumis melo var. makuwa OX=1194695 GN=E6C27_scaffold22G003110 PE=3 SV=1)

HSP 1 Score: 96.3 bits (238), Expect = 8.4e-17
Identity = 47/50 (94.00%), Postives = 49/50 (98.00%), Query Frame = 0


Query: 59  NREGLEVTDDVSIVEYLKHPVLITEGSYTNIKVTTPDDLLLAERILNLNS 109
           NREGLEVTDDVSIVE+L+HPV ITEGSYTNIKVTTPDDLLLAERILNLNS
Sbjct: 256 NREGLEVTDDVSIVEHLRHPVFITEGSYTNIKVTTPDDLLLAERILNLNS 305

[Close]

BLAST of Lsi05G007670 vs. ExPASy TrEMBL
Match: A0A5D3D4T8 (4-diphosphocytidyl-2C-methyl-D-erythritol synthase OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold119G00700 PE=3 SV=1)

HSP 1 Score: 96.3 bits (238), Expect = 8.4e-17
Identity = 47/50 (94.00%), Postives = 49/50 (98.00%), Query Frame = 0


Query: 59  NREGLEVTDDVSIVEYLKHPVLITEGSYTNIKVTTPDDLLLAERILNLNS 109
           NREGLEVTDDVSIVE+L+HPV ITEGSYTNIKVTTPDDLLLAERILNLNS
Sbjct: 255 NREGLEVTDDVSIVEHLRHPVFITEGSYTNIKVTTPDDLLLAERILNLNS 304

[Close]

BLAST of Lsi05G007670 vs. NCBI nr
Match: XP_038904555.1 (2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase, chloroplastic [Benincasa hispida])

HSP 1 Score: 100.9 bits (250), Expect = 7.1e-18
Identity = 50/50 (100.00%), Postives = 50/50 (100.00%), Query Frame = 0


Query: 59  NREGLEVTDDVSIVEYLKHPVLITEGSYTNIKVTTPDDLLLAERILNLNS 109
           NREGLEVTDDVSIVEYLKHPVLITEGSYTNIKVTTPDDLLLAERILNLNS
Sbjct: 255 NREGLEVTDDVSIVEYLKHPVLITEGSYTNIKVTTPDDLLLAERILNLNS 304

[Close]

BLAST of Lsi05G007670 vs. NCBI nr
Match: KAF3440659.1 (hypothetical protein FNV43_RR18943 [Rhamnella rubrinervis])

HSP 1 Score: 98.2 bits (243), Expect = 4.6e-17
Identity = 48/52 (92.31%), Postives = 50/52 (96.15%), Query Frame = 0


Query: 57  FCNREGLEVTDDVSIVEYLKHPVLITEGSYTNIKVTTPDDLLLAERILNLNS 109
           F NREGLEVTDDVSIVE+LKHPV ITEGSYTNIKVTTPDDLLLAERILN+NS
Sbjct: 238 FVNREGLEVTDDVSIVEHLKHPVYITEGSYTNIKVTTPDDLLLAERILNMNS 289

[Close]

BLAST of Lsi05G007670 vs. NCBI nr
Match: XP_027190818.1 (2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase, chloroplastic isoform X2 [Cicer arietinum])

HSP 1 Score: 96.3 bits (238), Expect = 1.7e-16
Identity = 47/50 (94.00%), Postives = 49/50 (98.00%), Query Frame = 0


Query: 59  NREGLEVTDDVSIVEYLKHPVLITEGSYTNIKVTTPDDLLLAERILNLNS 109
           NREGLEVTDDVSIVE+LKHPV ITEGSYTNIKVTTPDDLLLAERILN+NS
Sbjct: 147 NREGLEVTDDVSIVEHLKHPVYITEGSYTNIKVTTPDDLLLAERILNINS 196

[Close]

BLAST of Lsi05G007670 vs. NCBI nr
Match: RHN65147.1 (putative 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase [Medicago truncatula])

HSP 1 Score: 96.3 bits (238), Expect = 1.7e-16
Identity = 47/50 (94.00%), Postives = 49/50 (98.00%), Query Frame = 0


Query: 59  NREGLEVTDDVSIVEYLKHPVLITEGSYTNIKVTTPDDLLLAERILNLNS 109
           NREGLEVTDDVSIVE+LKHPV ITEGSYTNIKVTTPDDLLLAERILN+NS
Sbjct: 256 NREGLEVTDDVSIVEHLKHPVYITEGSYTNIKVTTPDDLLLAERILNINS 305

[Close]

BLAST of Lsi05G007670 vs. NCBI nr
Match: XP_011650586.1 (2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase, chloroplastic isoform X2 [Cucumis sativus])

HSP 1 Score: 96.3 bits (238), Expect = 1.7e-16
Identity = 47/50 (94.00%), Postives = 49/50 (98.00%), Query Frame = 0


Query: 59  NREGLEVTDDVSIVEYLKHPVLITEGSYTNIKVTTPDDLLLAERILNLNS 109
           NREGLEVTDDVSIVE+L+HPV ITEGSYTNIKVTTPDDLLLAERILNLNS
Sbjct: 205 NREGLEVTDDVSIVEHLRHPVFITEGSYTNIKVTTPDDLLLAERILNLNS 254

[Close]

BLAST of Lsi05G007670 vs. TAIR 10
Match: AT2G02500.1 (Nucleotide-diphospho-sugar transferases superfamily protein )

HSP 1 Score: 85.1 bits (209), Expect = 3.7e-17
Identity = 41/48 (85.42%), Postives = 46/48 (95.83%), Query Frame = 0


Query: 61  EGLEVTDDVSIVEYLKHPVLITEGSYTNIKVTTPDDLLLAERILNLNS 109
           EGLEVTDDVSIVEYLKHPV +++GSYTNIKVTTPDDLLLAERIL+ +S
Sbjct: 255 EGLEVTDDVSIVEYLKHPVYVSQGSYTNIKVTTPDDLLLAERILSEDS 302

The following BLAST results are available for this feature:

BLAST of Lsi05G007670 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q5N8G1	4.0e-16	89.13	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase, chloroplastic OS=Oryza...	[more]
P69834	5.3e-16	85.42	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase, chloroplastic OS=Arabi...	[more]
A9KSU6	1.4e-08	34.38	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase OS=Lachnoclostridium ph...	[more]
Q6MEE8	1.2e-07	61.90	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase OS=Protochlamydia amoeb...	[more]
A7Z0L2	2.0e-07	44.66	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase OS=Bacillus velezensis ...	[more]

BLAST of Lsi05G007670 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A140CWN8	8.4e-17	94.00	4-diphosphocytidyl-2C-methyl-D-erythritol synthase OS=Bixa orellana OX=66672 GN=...	[more]
A0A224XH13	8.4e-17	94.00	4-diphosphocytidyl-2C-methyl-D-erythritol synthase OS=Hypericum kalmianum OX=473...	[more]
A0A2K3PQ94	8.4e-17	94.00	4-diphosphocytidyl-2C-methyl-D-erythritol synthase OS=Trifolium pratense OX=5757...	[more]
A0A5A7V408	8.4e-17	94.00	4-diphosphocytidyl-2C-methyl-D-erythritol synthase OS=Cucumis melo var. makuwa O...	[more]
A0A5D3D4T8	8.4e-17	94.00	4-diphosphocytidyl-2C-methyl-D-erythritol synthase OS=Cucumis melo var. makuwa O...	[more]

BLAST of Lsi05G007670 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_038904555.1	7.1e-18	100.00	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase, chloroplastic [Beninca...	[more]
KAF3440659.1	4.6e-17	92.31	hypothetical protein FNV43_RR18943 [Rhamnella rubrinervis]	[more]
XP_027190818.1	1.7e-16	94.00	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase, chloroplastic isoform ...	[more]
RHN65147.1	1.7e-16	94.00	putative 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase [Medicago trun...	[more]
XP_011650586.1	1.7e-16	94.00	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase, chloroplastic isoform ...	[more]

BLAST of Lsi05G007670 vs. TAIR 10


Match Name	E-value	Identity	Description
AT2G02500.1	3.7e-17	85.42	Nucleotide-diphospho-sugar transferases superfamily protein	[more]

InterPro

Analysis Name: InterPro Annotations of Bottle gourd (USVL1VR-Ls) v1
Date Performed: 2021-10-18


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR034683	Cytidylyltransferase IspD/TarI	PFAM	PF01128	IspD	coord: 52..105 e-value: 5.0E-12 score: 46.0
IPR029044	Nucleotide-diphospho-sugar transferases	GENE3D	3.90.550.10	Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A	coord: 36..108 e-value: 1.5E-14 score: 56.1
IPR029044	Nucleotide-diphospho-sugar transferases	SUPERFAMILY	53448	Nucleotide-diphospho-sugar transferases	coord: 52..104
None	No IPR available	PANTHER	PTHR32125	2-C-METHYL-D-ERYTHRITOL 4-PHOSPHATE CYTIDYLYLTRANSFERASE, CHLOROPLASTIC	coord: 58..107
None	No IPR available	PANTHER	PTHR32125:SF4	2-C-METHYL-D-ERYTHRITOL 4-PHOSPHATE CYTIDYLYLTRANSFERASE, CHLOROPLASTIC	coord: 58..107

Relationships

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


Feature Name	Unique Name	Type
Lsi05G007670.1	Lsi05G007670.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0019288	isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway
molecular_function	GO:0050518	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity
molecular_function	GO:0070567	cytidylyltransferase activity