Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7A

Orthogroup ID

OG0014986

Physical Location & Seq

Genomic Coordinates Reverse (-)

36606670 .. 36611171

Gene Structure 4502 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7AG322700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 858 bp

ATGGGGCTCTTGGTTCATGCACTTGGCTTCACTCTCTCTGCTTCTTCTTCACTGCTCTTCTCAAATGACAACCTCCGAATTCCGCCAATCTCACACTCCAACCTACGATTTGCAGGTCATCAATTCAATTTCAGGGGAAAGCATCATAAGGCTAGAATTGCAACCTCCAGCTTCACTTGTTTCTCTGCCCTGGAAGATAAACCGGAGGAGTCTGTAGTAGTAGTGAAAGAGAAAAGCGTGTCAGTGATTCTTTTGGCTGGGGGGAAGGGTAAAAGGATGGGTGCCAGTATGCCGAAACAGTATCTCCCGCTTTTAAGCCAGCCTATTGCATTGTACAGCTTCTATACTTTCTCACGCATGCCTCAAGTGAAGGAAATCATTGTAGTTTGTGATCCCTCCTACAGGGATGTTTTTGAAGACTCCAAGCATAAGATCCACACAGAACTTAAATTCACGTTGCCTGGGAAGGAAAGACAAGATTCTGTTTACAGTGGACTCCAGGCTATTGATTTGACCTCTGAGCTTGTTTGCATCCATGATTCTGCAAGACCTCTGGTATCATCAGGAGATGTTGAGAAGGCAAACTATGAGTCTTTTGTAGTCCGAACTCTGGACAGGAGAACACTTTGGGAAATGCAGACACCACAGGTCATCAAACCTGACTTGCTCAAAAAGGGCTTTGAACTTGTTAACAGAGAAGGCCTTGAAGTTACTGATGACGTGTCTATTGTTGAGCACCTTCCACATCCTGTGTACATCACTGAAGGATCTTACACCAACATCAAGGTCACAACGCCAGATGATTTATTACTCGCAGAAAGAATATTGAGTATGGACACTAAAAAGTCTTCAGGATGA

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

285

Amino Acids

31.88

Weight (kDa)

7.16

Isoelectric Point (pI)

37.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
IspD	PF01128	80 - 193	1.7e-21	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase
NTP_transf_3	PF12804	82 - 173	4.6e-08	MobA-like NTP transferase domain
IspD	PF01128	193 - 277	4.3e-22	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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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, 775
AcsI	RAATTY	2 cut(s)	78, 449
AcuI	CTGAAG	2 cut(s)	783, 834
AfaI	GTAC	2 cut(s)	335, 755
AfiI	CCNNNNNNNGG	2 cut(s)	402, 610
AflIII	ACRYGT	1 cut(s)	720
AgsI	TTSAA	4 cut(s)	127, 416, 683, 707
AjiI	CACGTC	1 cut(s)	721
AjnI	CCWGG	3 cut(s)	189, 460, 498
AluBI	AGCT	3 cut(s)	171, 339, 523
AluI	AGCT	3 cut(s)	171, 339, 523
Alw21I	GWGCWC	1 cut(s)	738
AlwI	GGATC	3 cut(s)	386, 427, 775
AoxI	GGCC	1 cut(s)	700
ApoI	RAATTY	2 cut(s)	78, 449
ArsI	GACNNNNNNTTYG	2 cut(s)	575, 607
BanI	GGYRCC	1 cut(s)	281
BanII	GRGCYC	1 cut(s)	9
BbsI	GAAGAC	2 cut(s)	423, 840
Bbv12I	GWGCWC	1 cut(s)	738
BccI	CCATC	1 cut(s)	271
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
Bme1390I	CCNGG	3 cut(s)	191, 462, 500
BmgBI	CACGTC	1 cut(s)	721
BmiI	GGNNCC	1 cut(s)	283
BmrFI	CCNGG	3 cut(s)	191, 462, 500
BmsI	GCATC	2 cut(s)	151, 540
BpiI	GAAGAC	2 cut(s)	423, 840
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	2 cut(s)	288, 318
Bsc4I	CCNNNNNNNGG	2 cut(s)	402, 610
Bse1I	ACTGG	1 cut(s)	285
BseBI	CCWGG	3 cut(s)	191, 462, 500
BseDI	CCNNGG	2 cut(s)	189, 461
BseGI	GGATG	4 cut(s)	282, 412, 531, 745
BseLI	CCNNNNNNNGG	2 cut(s)	402, 610
BseMII	CTCAG	1 cut(s)	510
BseNI	ACTGG	1 cut(s)	285
BseRI	GAGGAG	1 cut(s)	221
BseYI	CCCAGC	1 cut(s)	257
BshFI	GGCC	1 cut(s)	702
BshNI	GGYRCC	1 cut(s)	281
BsiHKAI	GWGCWC	1 cut(s)	738
BsiSI	CCGG	1 cut(s)	203
BslI	CCNNNNNNNGG	2 cut(s)	402, 610
BsnI	GGCC	1 cut(s)	702
Bsp1286I	GDGCHC	2 cut(s)	9, 738
Bsp1407I	TGTACA	2 cut(s)	333, 753
Bsp143I	GATC	3 cut(s)	391, 432, 767
BspACI	CCGC	2 cut(s)	83, 308
BspANI	GGCC	1 cut(s)	702
BspCNI	CTCAG	1 cut(s)	511
BspLI	GGNNCC	1 cut(s)	283
BspMI	ACCTGC	1 cut(s)	104
BspPI	GGATC	3 cut(s)	386, 427, 775
BspQI	GCTCTTC	1 cut(s)	62
BspT107I	GGYRCC	1 cut(s)	281
BsrGI	TGTACA	2 cut(s)	333, 753
BsrI	ACTGG	1 cut(s)	285
BssECI	CCNNGG	2 cut(s)	189, 461
BssMI	GATC	3 cut(s)	391, 432, 767
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, 753
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, 745
BstKTI	GATC	3 cut(s)	394, 435, 770
BstMBI	GATC	3 cut(s)	391, 432, 767
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
BstV2I	GAAGAC	2 cut(s)	423, 840
BstX2I	RGATCY	2 cut(s)	432, 767
BstYI	RGATCY	2 cut(s)	432, 767
BsuRI	GGCC	1 cut(s)	702
BtrI	CACGTC	1 cut(s)	721
BtsCI	GGATG	4 cut(s)	282, 412, 531, 745
BtsI	GCAGTG	1 cut(s)	50
BtsIMutI	CAGTG	4 cut(s)	50, 249, 496, 759
BveI	ACCTGC	1 cut(s)	104
Cac8I	GCNNGC	2 cut(s)	320, 359
Csp6I	GTAC	2 cut(s)	334, 754
CviAII	CATG	3 cut(s)	17, 358, 536
CviQI	GTAC	2 cut(s)	334, 754
DdeI	CTNAG	1 cut(s)	519
DpnI	GATC	3 cut(s)	393, 434, 769
DpnII	GATC	3 cut(s)	391, 432, 767
Eam1104I	CTCTTC	1 cut(s)	62
EarI	CTCTTC	1 cut(s)	62
EciI	GGCGGA	1 cut(s)	72
Eco147I	AGGCCT	1 cut(s)	702
Eco24I	GRGCYC	1 cut(s)	9
Eco57I	CTGAAG	2 cut(s)	783, 834
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, 588, 833
FatI	CATG	3 cut(s)	16, 357, 535
FauI	CCCGC	1 cut(s)	315
FokI	GGATG	4 cut(s)	289, 419, 518, 732
FriOI	GRGCYC	1 cut(s)	9
FspBI	CTAG	1 cut(s)	153
GsaI	CCCAGC	1 cut(s)	261
GsuI	CTGGAG	2 cut(s)	151, 482
HaeIII	GGCC	1 cut(s)	702
HapII	CCGG	1 cut(s)	203
Hin1II	CATG	3 cut(s)	20, 361, 539
HincII	GTYRAC	1 cut(s)	691
HindII	GTYRAC	1 cut(s)	691
HinfI	GANTC	7 cut(s)	209, 247, 419, 479, 495, 539, 590
HpaI	GTTAAC	1 cut(s)	691
HpaII	CCGG	1 cut(s)	203
Hpy166II	GTNNAC	4 cut(s)	487, 494, 691, 754
Hpy188I	TCNGA	3 cut(s)	77, 520, 605
Hpy188III	TCNNGA	3 cut(s)	564, 611, 852
Hpy8I	GTNNAC	4 cut(s)	487, 494, 691, 754
HpyAV	CCTTC	7 cut(s)	259, 364, 460, 571, 692, 749, 758
HpyCH4III	ACNGT	2 cut(s)	300, 491
HpyCH4IV	ACGT	2 cut(s)	455, 720
HpyCH4V	TGCA	7 cut(s)	20, 113, 161, 329, 531, 545, 637
HpyF10VI	GCNNNNNNNGC	1 cut(s)	158
HpyF3I	CTNAG	1 cut(s)	519
HpySE526I	ACGT	2 cut(s)	455, 720
Hsp92II	CATG	3 cut(s)	20, 361, 539
KspAI	GTTAAC	1 cut(s)	691
Kzo9I	GATC	3 cut(s)	391, 432, 767
LguI	GCTCTTC	1 cut(s)	62
LweI	GCATC	2 cut(s)	151, 540
MaeI	CTAG	1 cut(s)	153
MaeII	ACGT	2 cut(s)	455, 720
MaeIII	GTNAC	2 cut(s)	709, 787
MalI	GATC	3 cut(s)	393, 434, 769
MboI	GATC	3 cut(s)	391, 432, 767
MboII	GAAGA	6 cut(s)	36, 39, 49, 206, 428, 840
MflI	RGATCY	2 cut(s)	432, 767
MhlI	GDGCHC	2 cut(s)	9, 738
MluCI	AATT	5 cut(s)	78, 122, 127, 156, 449
MlyI	GAGTC	4 cut(s)	218, 413, 489, 599
MmeI	TCCRAC	1 cut(s)	123
MnlI	CCTC	7 cut(s)	83, 175, 199, 372, 406, 526, 561
MseI	TTAA	3 cut(s)	314, 447, 690
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, 767
NlaIII	CATG	3 cut(s)	20, 361, 539
NlaIV	GGNNCC	1 cut(s)	283
NmuCI	GTSAC	1 cut(s)	787
NspI	RCATGY	1 cut(s)	361
PaeI	GCATGC	1 cut(s)	361
PceI	AGGCCT	1 cut(s)	702
PciSI	GCTCTTC	1 cut(s)	62
PfeI	GAWTC	3 cut(s)	247, 479, 539
PleI	GAGTC	4 cut(s)	217, 413, 489, 598
PpsI	GAGTC	4 cut(s)	217, 413, 489, 598
Psp6I	CCWGG	3 cut(s)	189, 460, 498
PspFI	CCCAGC	1 cut(s)	257
PspGI	CCWGG	3 cut(s)	189, 460, 498
PspN4I	GGNNCC	1 cut(s)	283
PsuI	RGATCY	2 cut(s)	432, 767
RsaI	GTAC	2 cut(s)	335, 755
RsaNI	GTAC	2 cut(s)	334, 754
SapI	GCTCTTC	1 cut(s)	62
SaqAI	TTAA	3 cut(s)	314, 447, 690
Sau3AI	GATC	3 cut(s)	391, 432, 767
SchI	GAGTC	4 cut(s)	218, 413, 489, 599
ScrFI	CCNGG	3 cut(s)	191, 462, 500
SduI	GDGCHC	2 cut(s)	9, 738
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)	702
SsiI	CCGC	2 cut(s)	83, 308
SspI	AATATT	1 cut(s)	825
SspMI	CTAG	1 cut(s)	153
StuI	AGGCCT	1 cut(s)	702
StyD4I	CCNGG	3 cut(s)	189, 460, 498
TaaI	ACNGT	2 cut(s)	300, 491
TaiI	ACGT	2 cut(s)	458, 723
TasI	AATT	5 cut(s)	78, 122, 127, 156, 449
TatI	WGTACW	2 cut(s)	333, 753
TfiI	GAWTC	3 cut(s)	247, 479, 539
Tru1I	TTAA	3 cut(s)	314, 447, 690
Tru9I	TTAA	3 cut(s)	314, 447, 690
TscAI	CASTG	4 cut(s)	57, 249, 496, 766
TseFI	GTSAC	1 cut(s)	787
Tsp45I	GTSAC	1 cut(s)	787
TspDTI	ATGAA	1 cut(s)	5
TspRI	CASTG	4 cut(s)	57, 249, 496, 766
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.