Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0014986

Physical Location & Seq

Genomic Coordinates Reverse (-)

32577478 .. 32581923

Gene Structure 4446 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000002347

Sequence Viewer

CDS Protein Promoter (2k)

Length: 915 bp

ATGGGGCTCTTGGTTCATGCACTTGGCTTCACCCTCTCTGCTTCTTCTTCTTCTTCTTCTTCACTGCTCTTCTCAAATGACAACCTCCGAATTCCGCCAATCTCACACTCCAACCTACGATTTGCAGGTCATCAATTCAATTTCAGGGGAAAGCATCATAAGGCTAGAATTGCAACCTCCAGCTTCACTTGTTTCTCTGCCCAGGAAGATAAACCGGAGGAGTCTGTAGTGAAAGAGAAAAGCGTGTCAGTGATTCTTTTGGCTGGAGGCAAGGGTAAAAGGATGGGTGCCAGTATGCCGAAACAGTATCTCCCGCTTTTAAGCCAGCCTATTGCATTGTACAGCTTCTATACTTTCTCACGCATGCCTCAAGTGAAGGAAATCATTGTAGTTTGTGATCCCTCCTACAGGGATGTTTTTGAAGACTCCAAGCATAAGATCCACACAGAACTTAAATTCACGTTGCCTGGGAAGGAAAGACAAGATTCTGTTTACAGTGGACTCCAGGCTATTGATTTGACCTCTGAGCTTGTTTGCATCCATGATTCTGCAAGACCTCTGGTATCATCAGGAGATGTTGAGAAGGTTCTTAAAGATGGTTGGTTAAATGGAGCAGCTGTACTTGGGGTTCCAGTAAAAGCGACCATCAAAGAGGCAAACTATGAGTCTTTTGTAGTCCGAACTCTGGACAGGAGAACACTTTGGGAAATGCAGACACCACAGGTCATCAAACCTGACTTGCTCAAAAAGGGCTTTGAACTTGTTAACAGAGAAGGCCTTGAAGTTACTGATGACGTGTCTATTGTTGAGCACCTTCCACATCCTGTGTACATCACTGAAGGATCTTACACCAACATCAAGGTCACAACGCCAGATGATTTATTACTCGCAGAAAGAATATTGAGTATGGACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006081 GO:0006082 GO:0006090 GO:0006629 GO:0006644 GO:0006720 GO:0006793 GO:0006796 GO:0008150 GO:0008152 GO:0008299 GO:0008610 GO:0008654 GO:0009058 GO:0009240 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009987 GO:0016740 GO:0016772 GO:0016779 GO:0019288 GO:0019637 GO:0019682 GO:0019752 GO:0032787 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044281 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046490 GO:0050518 GO:0070567 GO:0071704 GO:0090407 GO:1901135 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00900 ko01100 ko01110 ko01130 map00900 map01100 map01110 map01130

Pfam Domains

Protein Families

IspD

Protein Analysis

305

Amino Acids

33.82

Weight (kDa)

6.8

Isoelectric Point (pI)

39.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
IspD	PF01128	82 - 302	1.3e-55	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase
NTP_transf_3	PF12804	84 - 197	1.9e-08	MobA-like NTP transferase domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0014986)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G02500 AT2G02500
fragaria_vesca	FvH4_5g27480
malus_domestica	MD08G1249400.v1.1 MD15G1444200.v1.1
prunus_persica	Prupe.1G586600_v2.0.a1
rosa_chinensis	RchiOBHm_Chr7g0218881
rosa_laevigata	RLG00000002347
rosa_multiflora	Rmu_sc0003823.1_g000002
rosa_roxburghii	Rroxscaffold_3G00240430
rosa_rugosa	Rorug07G0179400
rosa_samantha	Rh7AG322700 Rh7BG313800 Rh7CG339500 Rh7DG319900
rosa_wichuraiana	Rw7G027320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	116
AccB1I	GGYRCC	1 cut(s)	287
AciI	CCGC	2 cut(s)	95, 314
AclWI	GGATC	3 cut(s)	392, 433, 850
AcsI	RAATTY	2 cut(s)	90, 455
AcuI	CTGAAG	1 cut(s)	858
AfaI	GTAC	3 cut(s)	341, 621, 830
AfiI	CCNNNNNNNGG	2 cut(s)	408, 685
AflIII	ACRYGT	1 cut(s)	795
AgsI	TTSAA	4 cut(s)	139, 422, 758, 782
AjiI	CACGTC	1 cut(s)	796
AjnI	CCWGG	3 cut(s)	201, 466, 504
AluBI	AGCT	4 cut(s)	183, 345, 529, 617
AluI	AGCT	4 cut(s)	183, 345, 529, 617
Alw21I	GWGCWC	1 cut(s)	813
AlwI	GGATC	3 cut(s)	392, 433, 850
AoxI	GGCC	1 cut(s)	775
ApeKI	GCWGC	1 cut(s)	614
ApoI	RAATTY	2 cut(s)	90, 455
ArsI	GACNNNNNNTTYG	2 cut(s)	650, 682
AsuHPI	GGTGA	1 cut(s)	22
BanI	GGYRCC	1 cut(s)	287
BanII	GRGCYC	1 cut(s)	9
BbsI	GAAGAC	1 cut(s)	429
Bbv12I	GWGCWC	1 cut(s)	813
BbvI	GCAGC	1 cut(s)	626
BccI	CCATC	3 cut(s)	277, 590, 653
BciT130I	CCWGG	3 cut(s)	203, 468, 506
BfaI	CTAG	1 cut(s)	165
BfmI	CTRYAG	2 cut(s)	225, 406
BfuAI	ACCTGC	1 cut(s)	116
BisI	GCNGC	1 cut(s)	615
BlsI	GCNGC	1 cut(s)	616
Bme1390I	CCNGG	3 cut(s)	203, 468, 506
BmgBI	CACGTC	1 cut(s)	796
BmiI	GGNNCC	2 cut(s)	289, 630
BmrFI	CCNGG	3 cut(s)	203, 468, 506
BmsI	GCATC	2 cut(s)	163, 546
BpiI	GAAGAC	1 cut(s)	429
BpmI	CTGGAG	3 cut(s)	163, 285, 488
BpuEI	CTTGAG	1 cut(s)	354
BsaJI	CCNNGG	2 cut(s)	201, 467
BsaWI	WCCGGW	1 cut(s)	214
BsaXI	ACNNNNNCTCC	4 cut(s)	294, 324, 603, 633
Bsc4I	CCNNNNNNNGG	2 cut(s)	408, 685
Bse1I	ACTGG	2 cut(s)	291, 632
BseBI	CCWGG	3 cut(s)	203, 468, 506
BseDI	CCNNGG	2 cut(s)	201, 467
BseGI	GGATG	4 cut(s)	288, 418, 537, 820
BseLI	CCNNNNNNNGG	2 cut(s)	408, 685
BseMII	CTCAG	1 cut(s)	516
BseNI	ACTGG	2 cut(s)	291, 632
BseRI	GAGGAG	1 cut(s)	233
BseXI	GCAGC	1 cut(s)	626
BshFI	GGCC	1 cut(s)	777
BshNI	GGYRCC	1 cut(s)	287
BsiHKAI	GWGCWC	1 cut(s)	813
BsiSI	CCGG	1 cut(s)	215
BslI	CCNNNNNNNGG	2 cut(s)	408, 685
BsnI	GGCC	1 cut(s)	777
Bsp1286I	GDGCHC	2 cut(s)	9, 813
Bsp1407I	TGTACA	2 cut(s)	339, 828
Bsp143I	GATC	3 cut(s)	397, 438, 842
BspACI	CCGC	2 cut(s)	95, 314
BspANI	GGCC	1 cut(s)	777
BspCNI	CTCAG	1 cut(s)	517
BspLI	GGNNCC	2 cut(s)	289, 630
BspMI	ACCTGC	1 cut(s)	116
BspPI	GGATC	3 cut(s)	392, 433, 850
BspQI	GCTCTTC	1 cut(s)	74
BspT107I	GGYRCC	1 cut(s)	287
BsrGI	TGTACA	2 cut(s)	339, 828
BsrI	ACTGG	2 cut(s)	291, 632
BssECI	CCNNGG	2 cut(s)	201, 467
BssMI	GATC	3 cut(s)	397, 438, 842
Bst2UI	CCWGG	3 cut(s)	203, 468, 506
Bst4CI	ACNGT	2 cut(s)	306, 497
Bst6I	CTCTTC	1 cut(s)	74
BstAUI	TGTACA	2 cut(s)	339, 828
BstC8I	GCNNGC	2 cut(s)	326, 365
BstDEI	CTNAG	1 cut(s)	525
BstENI	CCTNNNNNAGG	1 cut(s)	406
BstF5I	GGATG	4 cut(s)	288, 418, 537, 820
BstKTI	GATC	3 cut(s)	400, 441, 845
BstMBI	GATC	3 cut(s)	397, 438, 842
BstMWI	GCNNNNNNNGC	1 cut(s)	170
BstNI	CCWGG	3 cut(s)	203, 468, 506
BstNSI	RCATGY	1 cut(s)	367
BstSCI	CCNGG	3 cut(s)	201, 466, 504
BstSFI	CTRYAG	2 cut(s)	225, 406
BstV1I	GCAGC	1 cut(s)	626
BstV2I	GAAGAC	1 cut(s)	429
BstX2I	RGATCY	2 cut(s)	438, 842
BstYI	RGATCY	2 cut(s)	438, 842
BsuRI	GGCC	1 cut(s)	777
BtrI	CACGTC	1 cut(s)	796
BtsCI	GGATG	4 cut(s)	288, 418, 537, 820
BtsI	GCAGTG	1 cut(s)	62
BtsIMutI	CAGTG	4 cut(s)	62, 255, 502, 834
BveI	ACCTGC	1 cut(s)	116
Cac8I	GCNNGC	2 cut(s)	326, 365
Csp6I	GTAC	3 cut(s)	340, 620, 829
CviAII	CATG	3 cut(s)	17, 364, 542
CviQI	GTAC	3 cut(s)	340, 620, 829
DdeI	CTNAG	1 cut(s)	525
DpnI	GATC	3 cut(s)	399, 440, 844
DpnII	GATC	3 cut(s)	397, 438, 842
Eam1104I	CTCTTC	1 cut(s)	74
EarI	CTCTTC	1 cut(s)	74
EciI	GGCGGA	1 cut(s)	84
Eco147I	AGGCCT	1 cut(s)	777
Eco24I	GRGCYC	1 cut(s)	9
Eco57I	CTGAAG	1 cut(s)	858
EcoNI	CCTNNNNNAGG	1 cut(s)	406
EcoRI	GAATTC	1 cut(s)	90
EcoRII	CCWGG	3 cut(s)	201, 466, 504
EcoT38I	GRGCYC	1 cut(s)	9
FaeI	CATG	3 cut(s)	20, 367, 545
FaiI	YATR	9 cut(s)	18, 159, 296, 351, 365, 435, 543, 663, 908
FatI	CATG	3 cut(s)	16, 363, 541
FauI	CCCGC	1 cut(s)	321
Fnu4HI	GCNGC	1 cut(s)	615
FokI	GGATG	4 cut(s)	295, 425, 524, 807
FriOI	GRGCYC	1 cut(s)	9
Fsp4HI	GCNGC	1 cut(s)	615
FspBI	CTAG	1 cut(s)	165
GluI	GCNGC	1 cut(s)	615
GsuI	CTGGAG	3 cut(s)	163, 285, 488
HaeIII	GGCC	1 cut(s)	777
HapII	CCGG	1 cut(s)	215
Hin1II	CATG	3 cut(s)	20, 367, 545
HincII	GTYRAC	1 cut(s)	766
HindII	GTYRAC	1 cut(s)	766
HinfI	GANTC	7 cut(s)	221, 253, 425, 485, 501, 545, 665
HpaI	GTTAAC	1 cut(s)	766
HpaII	CCGG	1 cut(s)	215
HphI	GGTGA	1 cut(s)	22
Hpy166II	GTNNAC	4 cut(s)	493, 500, 766, 829
Hpy188I	TCNGA	3 cut(s)	89, 526, 680
Hpy188III	TCNNGA	2 cut(s)	570, 686
Hpy8I	GTNNAC	4 cut(s)	493, 500, 766, 829
HpyAV	CCTTC	6 cut(s)	370, 466, 577, 767, 824, 833
HpyCH4III	ACNGT	2 cut(s)	306, 497
HpyCH4IV	ACGT	2 cut(s)	461, 795
HpyCH4V	TGCA	7 cut(s)	20, 125, 173, 335, 537, 551, 712
HpyF10VI	GCNNNNNNNGC	1 cut(s)	170
HpyF3I	CTNAG	1 cut(s)	525
HpySE526I	ACGT	2 cut(s)	461, 795
Hsp92II	CATG	3 cut(s)	20, 367, 545
KspAI	GTTAAC	1 cut(s)	766
Kzo9I	GATC	3 cut(s)	397, 438, 842
LguI	GCTCTTC	1 cut(s)	74
LmnI	GCTCC	1 cut(s)	611
Lsp1109I	GCAGC	1 cut(s)	626
LweI	GCATC	2 cut(s)	163, 546
MaeI	CTAG	1 cut(s)	165
MaeII	ACGT	2 cut(s)	461, 795
MaeIII	GTNAC	2 cut(s)	784, 862
MalI	GATC	3 cut(s)	399, 440, 844
MboI	GATC	3 cut(s)	397, 438, 842
MboII	GAAGA	9 cut(s)	36, 39, 42, 45, 48, 51, 61, 218, 434
MflI	RGATCY	2 cut(s)	438, 842
MhlI	GDGCHC	2 cut(s)	9, 813
MluCI	AATT	5 cut(s)	90, 134, 139, 168, 455
MlyI	GAGTC	4 cut(s)	230, 419, 495, 674
MmeI	TCCRAC	1 cut(s)	135
MseI	TTAA	5 cut(s)	320, 453, 591, 605, 765
MspA1I	CMGCKG	1 cut(s)	617
MspI	CCGG	1 cut(s)	215
MspR9I	CCNGG	3 cut(s)	203, 468, 506
MvaI	CCWGG	3 cut(s)	203, 468, 506
MwoI	GCNNNNNNNGC	1 cut(s)	170
NdeII	GATC	3 cut(s)	397, 438, 842
NlaIII	CATG	3 cut(s)	20, 367, 545
NlaIV	GGNNCC	2 cut(s)	289, 630
NmuCI	GTSAC	1 cut(s)	862
NspI	RCATGY	1 cut(s)	367
PaeI	GCATGC	1 cut(s)	367
PceI	AGGCCT	1 cut(s)	777
PciSI	GCTCTTC	1 cut(s)	74
PfeI	GAWTC	3 cut(s)	253, 485, 545
PkrI	GCNGC	1 cut(s)	616
PleI	GAGTC	4 cut(s)	229, 419, 495, 673
PpsI	GAGTC	4 cut(s)	229, 419, 495, 673
Psp6I	CCWGG	3 cut(s)	201, 466, 504
PspGI	CCWGG	3 cut(s)	201, 466, 504
PspN4I	GGNNCC	2 cut(s)	289, 630
PsrI	GAACNNNNNNTAC	2 cut(s)	612, 644
PsuI	RGATCY	2 cut(s)	438, 842
PvuII	CAGCTG	1 cut(s)	617
RsaI	GTAC	3 cut(s)	341, 621, 830
RsaNI	GTAC	3 cut(s)	340, 620, 829
SapI	GCTCTTC	1 cut(s)	74
SaqAI	TTAA	5 cut(s)	320, 453, 591, 605, 765
SatI	GCNGC	1 cut(s)	615
Sau3AI	GATC	3 cut(s)	397, 438, 842
SchI	GAGTC	4 cut(s)	230, 419, 495, 674
ScrFI	CCNGG	3 cut(s)	203, 468, 506
SduI	GDGCHC	2 cut(s)	9, 813
SfaNI	GCATC	2 cut(s)	163, 546
SfcI	CTRYAG	2 cut(s)	225, 406
SmlI	CTYRAG	1 cut(s)	369
SmoI	CTYRAG	1 cut(s)	369
SphI	GCATGC	1 cut(s)	367
Sse9I	AATT	5 cut(s)	90, 134, 139, 168, 455
SseBI	AGGCCT	1 cut(s)	777
SsiI	CCGC	2 cut(s)	95, 314
SspI	AATATT	1 cut(s)	900
SspMI	CTAG	1 cut(s)	165
StuI	AGGCCT	1 cut(s)	777
StyD4I	CCNGG	3 cut(s)	201, 466, 504
TaaI	ACNGT	2 cut(s)	306, 497
TaiI	ACGT	2 cut(s)	464, 798
TasI	AATT	5 cut(s)	90, 134, 139, 168, 455
TatI	WGTACW	3 cut(s)	339, 619, 828
TfiI	GAWTC	3 cut(s)	253, 485, 545
Tru1I	TTAA	5 cut(s)	320, 453, 591, 605, 765
Tru9I	TTAA	5 cut(s)	320, 453, 591, 605, 765
TscAI	CASTG	4 cut(s)	69, 255, 502, 841
TseFI	GTSAC	1 cut(s)	862
TseI	GCWGC	1 cut(s)	614
Tsp45I	GTSAC	1 cut(s)	862
TspDTI	ATGAA	1 cut(s)	5
TspRI	CASTG	4 cut(s)	69, 255, 502, 841
XagI	CCTNNNNNAGG	1 cut(s)	406
XapI	RAATTY	2 cut(s)	90, 455
XceI	RCATGY	1 cut(s)	367
XspI	CTAG	1 cut(s)	165

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.