Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7C

Orthogroup ID

OG0014986

Physical Location & Seq

Genomic Coordinates Reverse (-)

38013406 .. 38017907

Gene Structure 4502 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7CG339500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 927 bp

ATGGGGCTCTTGGTTCATGCACTTGGCTTCACTCTCTCTGCTTCTTCTTCACTGCTCTTCTCAAATGACAACCTCCGAATTCCGCCAATCTCACACTCCAACCTACGATTTGCAGGTCATCAATTCAATTTCAGGGGAAAGCATCATAAGGCTAGAATTGCAACCTCCAGCTTCACTTGTTTCTCTGCCCTGGAAGATAAACCGGAGGAGTCTGTAGTAGTAGTGAAAGAGAAAAGCGTGTCAGTGATTCTTTTGGCTGGGGGGAAGGGTAAAAGGATGGGTGCCAGTATGCCGAAACAGTATCTCCCGCTTTTAAGCCAGCCTATTGCATTGTACAGCTTCTATACTTTCTCACGCATGCCTCAAGTGAAGGAAATCATTGTAGTTTGTGATCCCTCCTACAGGGATGTTTTTGAAGACTCCAAGCATAAGATCCACACAGAACTTAAATTCACGTTGCCTGGGAAGGAAAGACAAGATTCTGTTTACAGTGGACTCCAGGCTATTGATTTGACCTCTGAGCTTGTTTGCATCCATGATTCTGCAAGACCTCTGGTATCATCAGGAGATGTTGAGAAGGTTCTTAAAGATGGTTGGTTAAATGGAGCAGCTGTACTTGGGGTTCCAGTAAAAGCGACCATCAAAGAGGCAAACTATGAGTCTTTTGTAGTCCGAACTCTGGACAGGAGAACACTTTGGGAAATGCAGACACCACAGGTCATCAAACCTGACTTGCTCAAAAAGGGCTTTGAACTTGTTAACAGAGAAGGCCTTGAAGTTACTGATGACGTGTCTATTGTTGAGCACCTTCCACATCCTGTGTACATCACTGAAGGATCTTACACCAACATCAAGGTCACAACGCCAGATGATTTATTACTCGCAGAAAGAATATTGAGTATGGACACTAAAAAGTCTTCAGGATGA

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

308

Amino Acids

34.24

Weight (kDa)

7.75

Isoelectric Point (pI)

35.99

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
IspD	PF01128	80 - 300	1.4e-55	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase
NTP_transf_3	PF12804	82 - 195	2e-08	MobA-like NTP transferase domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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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)	104
AccB1I	GGYRCC	1 cut(s)	281
AciI	CCGC	2 cut(s)	83, 308
AclWI	GGATC	3 cut(s)	386, 427, 844
AcsI	RAATTY	2 cut(s)	78, 449
AcuI	CTGAAG	2 cut(s)	852, 903
AfaI	GTAC	3 cut(s)	335, 615, 824
AfiI	CCNNNNNNNGG	2 cut(s)	402, 679
AflIII	ACRYGT	1 cut(s)	789
AgsI	TTSAA	4 cut(s)	127, 416, 752, 776
AjiI	CACGTC	1 cut(s)	790
AjnI	CCWGG	3 cut(s)	189, 460, 498
AluBI	AGCT	4 cut(s)	171, 339, 523, 611
AluI	AGCT	4 cut(s)	171, 339, 523, 611
Alw21I	GWGCWC	1 cut(s)	807
AlwI	GGATC	3 cut(s)	386, 427, 844
AoxI	GGCC	1 cut(s)	769
ApeKI	GCWGC	1 cut(s)	608
ApoI	RAATTY	2 cut(s)	78, 449
ArsI	GACNNNNNNTTYG	2 cut(s)	644, 676
BanI	GGYRCC	1 cut(s)	281
BanII	GRGCYC	1 cut(s)	9
BbsI	GAAGAC	2 cut(s)	423, 909
Bbv12I	GWGCWC	1 cut(s)	807
BbvI	GCAGC	1 cut(s)	620
BccI	CCATC	3 cut(s)	271, 584, 647
BciT130I	CCWGG	3 cut(s)	191, 462, 500
BfaI	CTAG	1 cut(s)	153
BfmI	CTRYAG	2 cut(s)	213, 400
BfuAI	ACCTGC	1 cut(s)	104
BisI	GCNGC	1 cut(s)	609
BlsI	GCNGC	1 cut(s)	610
Bme1390I	CCNGG	3 cut(s)	191, 462, 500
BmgBI	CACGTC	1 cut(s)	790
BmiI	GGNNCC	2 cut(s)	283, 624
BmrFI	CCNGG	3 cut(s)	191, 462, 500
BmsI	GCATC	2 cut(s)	151, 540
BpiI	GAAGAC	2 cut(s)	423, 909
BpmI	CTGGAG	2 cut(s)	151, 482
BpuEI	CTTGAG	1 cut(s)	348
BsaJI	CCNNGG	2 cut(s)	189, 461
BsaWI	WCCGGW	1 cut(s)	202
BsaXI	ACNNNNNCTCC	4 cut(s)	288, 318, 597, 627
Bsc4I	CCNNNNNNNGG	2 cut(s)	402, 679
Bse1I	ACTGG	2 cut(s)	285, 626
BseBI	CCWGG	3 cut(s)	191, 462, 500
BseDI	CCNNGG	2 cut(s)	189, 461
BseGI	GGATG	4 cut(s)	282, 412, 531, 814
BseLI	CCNNNNNNNGG	2 cut(s)	402, 679
BseMII	CTCAG	1 cut(s)	510
BseNI	ACTGG	2 cut(s)	285, 626
BseRI	GAGGAG	1 cut(s)	221
BseXI	GCAGC	1 cut(s)	620
BseYI	CCCAGC	1 cut(s)	257
BshFI	GGCC	1 cut(s)	771
BshNI	GGYRCC	1 cut(s)	281
BsiHKAI	GWGCWC	1 cut(s)	807
BsiSI	CCGG	1 cut(s)	203
BslI	CCNNNNNNNGG	2 cut(s)	402, 679
BsnI	GGCC	1 cut(s)	771
Bsp1286I	GDGCHC	2 cut(s)	9, 807
Bsp1407I	TGTACA	2 cut(s)	333, 822
Bsp143I	GATC	3 cut(s)	391, 432, 836
BspACI	CCGC	2 cut(s)	83, 308
BspANI	GGCC	1 cut(s)	771
BspCNI	CTCAG	1 cut(s)	511
BspLI	GGNNCC	2 cut(s)	283, 624
BspMI	ACCTGC	1 cut(s)	104
BspPI	GGATC	3 cut(s)	386, 427, 844
BspQI	GCTCTTC	1 cut(s)	62
BspT107I	GGYRCC	1 cut(s)	281
BsrGI	TGTACA	2 cut(s)	333, 822
BsrI	ACTGG	2 cut(s)	285, 626
BssECI	CCNNGG	2 cut(s)	189, 461
BssMI	GATC	3 cut(s)	391, 432, 836
Bst2UI	CCWGG	3 cut(s)	191, 462, 500
Bst4CI	ACNGT	2 cut(s)	300, 491
Bst6I	CTCTTC	1 cut(s)	62
BstAUI	TGTACA	2 cut(s)	333, 822
BstC8I	GCNNGC	2 cut(s)	320, 359
BstDEI	CTNAG	1 cut(s)	519
BstENI	CCTNNNNNAGG	1 cut(s)	400
BstF5I	GGATG	4 cut(s)	282, 412, 531, 814
BstKTI	GATC	3 cut(s)	394, 435, 839
BstMBI	GATC	3 cut(s)	391, 432, 836
BstMWI	GCNNNNNNNGC	1 cut(s)	158
BstNI	CCWGG	3 cut(s)	191, 462, 500
BstNSI	RCATGY	1 cut(s)	361
BstSCI	CCNGG	3 cut(s)	189, 460, 498
BstSFI	CTRYAG	2 cut(s)	213, 400
BstV1I	GCAGC	1 cut(s)	620
BstV2I	GAAGAC	2 cut(s)	423, 909
BstX2I	RGATCY	2 cut(s)	432, 836
BstYI	RGATCY	2 cut(s)	432, 836
BsuRI	GGCC	1 cut(s)	771
BtrI	CACGTC	1 cut(s)	790
BtsCI	GGATG	4 cut(s)	282, 412, 531, 814
BtsI	GCAGTG	1 cut(s)	50
BtsIMutI	CAGTG	4 cut(s)	50, 249, 496, 828
BveI	ACCTGC	1 cut(s)	104
Cac8I	GCNNGC	2 cut(s)	320, 359
Csp6I	GTAC	3 cut(s)	334, 614, 823
CviAII	CATG	3 cut(s)	17, 358, 536
CviQI	GTAC	3 cut(s)	334, 614, 823
DdeI	CTNAG	1 cut(s)	519
DpnI	GATC	3 cut(s)	393, 434, 838
DpnII	GATC	3 cut(s)	391, 432, 836
Eam1104I	CTCTTC	1 cut(s)	62
EarI	CTCTTC	1 cut(s)	62
EciI	GGCGGA	1 cut(s)	72
Eco147I	AGGCCT	1 cut(s)	771
Eco24I	GRGCYC	1 cut(s)	9
Eco57I	CTGAAG	2 cut(s)	852, 903
EcoNI	CCTNNNNNAGG	1 cut(s)	400
EcoRI	GAATTC	1 cut(s)	78
EcoRII	CCWGG	3 cut(s)	189, 460, 498
EcoT38I	GRGCYC	1 cut(s)	9
FaeI	CATG	3 cut(s)	20, 361, 539
FaiI	YATR	9 cut(s)	18, 147, 290, 345, 359, 429, 537, 657, 902
FatI	CATG	3 cut(s)	16, 357, 535
FauI	CCCGC	1 cut(s)	315
Fnu4HI	GCNGC	1 cut(s)	609
FokI	GGATG	4 cut(s)	289, 419, 518, 801
FriOI	GRGCYC	1 cut(s)	9
Fsp4HI	GCNGC	1 cut(s)	609
FspBI	CTAG	1 cut(s)	153
GluI	GCNGC	1 cut(s)	609
GsaI	CCCAGC	1 cut(s)	261
GsuI	CTGGAG	2 cut(s)	151, 482
HaeIII	GGCC	1 cut(s)	771
HapII	CCGG	1 cut(s)	203
Hin1II	CATG	3 cut(s)	20, 361, 539
HincII	GTYRAC	1 cut(s)	760
HindII	GTYRAC	1 cut(s)	760
HinfI	GANTC	7 cut(s)	209, 247, 419, 479, 495, 539, 659
HpaI	GTTAAC	1 cut(s)	760
HpaII	CCGG	1 cut(s)	203
Hpy166II	GTNNAC	4 cut(s)	487, 494, 760, 823
Hpy188I	TCNGA	3 cut(s)	77, 520, 674
Hpy188III	TCNNGA	3 cut(s)	564, 680, 921
Hpy8I	GTNNAC	4 cut(s)	487, 494, 760, 823
HpyAV	CCTTC	7 cut(s)	259, 364, 460, 571, 761, 818, 827
HpyCH4III	ACNGT	2 cut(s)	300, 491
HpyCH4IV	ACGT	2 cut(s)	455, 789
HpyCH4V	TGCA	7 cut(s)	20, 113, 161, 329, 531, 545, 706
HpyF10VI	GCNNNNNNNGC	1 cut(s)	158
HpyF3I	CTNAG	1 cut(s)	519
HpySE526I	ACGT	2 cut(s)	455, 789
Hsp92II	CATG	3 cut(s)	20, 361, 539
KspAI	GTTAAC	1 cut(s)	760
Kzo9I	GATC	3 cut(s)	391, 432, 836
LguI	GCTCTTC	1 cut(s)	62
LmnI	GCTCC	1 cut(s)	605
Lsp1109I	GCAGC	1 cut(s)	620
LweI	GCATC	2 cut(s)	151, 540
MaeI	CTAG	1 cut(s)	153
MaeII	ACGT	2 cut(s)	455, 789
MaeIII	GTNAC	2 cut(s)	778, 856
MalI	GATC	3 cut(s)	393, 434, 838
MboI	GATC	3 cut(s)	391, 432, 836
MboII	GAAGA	6 cut(s)	36, 39, 49, 206, 428, 909
MflI	RGATCY	2 cut(s)	432, 836
MhlI	GDGCHC	2 cut(s)	9, 807
MluCI	AATT	5 cut(s)	78, 122, 127, 156, 449
MlyI	GAGTC	4 cut(s)	218, 413, 489, 668
MmeI	TCCRAC	1 cut(s)	123
MnlI	CCTC	8 cut(s)	83, 175, 199, 372, 406, 526, 561, 640
MseI	TTAA	5 cut(s)	314, 447, 585, 599, 759
MspA1I	CMGCKG	1 cut(s)	611
MspI	CCGG	1 cut(s)	203
MspR9I	CCNGG	3 cut(s)	191, 462, 500
MvaI	CCWGG	3 cut(s)	191, 462, 500
MwoI	GCNNNNNNNGC	1 cut(s)	158
NdeII	GATC	3 cut(s)	391, 432, 836
NlaIII	CATG	3 cut(s)	20, 361, 539
NlaIV	GGNNCC	2 cut(s)	283, 624
NmuCI	GTSAC	1 cut(s)	856
NspI	RCATGY	1 cut(s)	361
PaeI	GCATGC	1 cut(s)	361
PceI	AGGCCT	1 cut(s)	771
PciSI	GCTCTTC	1 cut(s)	62
PfeI	GAWTC	3 cut(s)	247, 479, 539
PkrI	GCNGC	1 cut(s)	610
PleI	GAGTC	4 cut(s)	217, 413, 489, 667
PpsI	GAGTC	4 cut(s)	217, 413, 489, 667
Psp6I	CCWGG	3 cut(s)	189, 460, 498
PspFI	CCCAGC	1 cut(s)	257
PspGI	CCWGG	3 cut(s)	189, 460, 498
PspN4I	GGNNCC	2 cut(s)	283, 624
PsrI	GAACNNNNNNTAC	2 cut(s)	606, 638
PsuI	RGATCY	2 cut(s)	432, 836
PvuII	CAGCTG	1 cut(s)	611
RsaI	GTAC	3 cut(s)	335, 615, 824
RsaNI	GTAC	3 cut(s)	334, 614, 823
SapI	GCTCTTC	1 cut(s)	62
SaqAI	TTAA	5 cut(s)	314, 447, 585, 599, 759
SatI	GCNGC	1 cut(s)	609
Sau3AI	GATC	3 cut(s)	391, 432, 836
SchI	GAGTC	4 cut(s)	218, 413, 489, 668
ScrFI	CCNGG	3 cut(s)	191, 462, 500
SduI	GDGCHC	2 cut(s)	9, 807
SfaNI	GCATC	2 cut(s)	151, 540
SfcI	CTRYAG	2 cut(s)	213, 400
SmlI	CTYRAG	1 cut(s)	363
SmoI	CTYRAG	1 cut(s)	363
SphI	GCATGC	1 cut(s)	361
Sse9I	AATT	5 cut(s)	78, 122, 127, 156, 449
SseBI	AGGCCT	1 cut(s)	771
SsiI	CCGC	2 cut(s)	83, 308
SspI	AATATT	1 cut(s)	894
SspMI	CTAG	1 cut(s)	153
StuI	AGGCCT	1 cut(s)	771
StyD4I	CCNGG	3 cut(s)	189, 460, 498
TaaI	ACNGT	2 cut(s)	300, 491
TaiI	ACGT	2 cut(s)	458, 792
TasI	AATT	5 cut(s)	78, 122, 127, 156, 449
TatI	WGTACW	3 cut(s)	333, 613, 822
TfiI	GAWTC	3 cut(s)	247, 479, 539
Tru1I	TTAA	5 cut(s)	314, 447, 585, 599, 759
Tru9I	TTAA	5 cut(s)	314, 447, 585, 599, 759
TscAI	CASTG	4 cut(s)	57, 249, 496, 835
TseFI	GTSAC	1 cut(s)	856
TseI	GCWGC	1 cut(s)	608
Tsp45I	GTSAC	1 cut(s)	856
TspDTI	ATGAA	1 cut(s)	5
TspRI	CASTG	4 cut(s)	57, 249, 496, 835
XagI	CCTNNNNNAGG	1 cut(s)	400
XapI	RAATTY	2 cut(s)	78, 449
XceI	RCATGY	1 cut(s)	361
XspI	CTAG	1 cut(s)	153

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