Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0010830

Physical Location & Seq

Genomic Coordinates Forward (+)

32268855 .. 32277549

Gene Structure 8695 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG278100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 642 bp

ATGCTGCTGCCGATGGGGCTCTTGGTTCATGCATTTGACTCTTCACTGCTCTTCTCAAATGACAACCTCCTAATTTCACCAATCTCACACTCCAACCTAAGATTTGCAGGTCATCAATTCAATTTCAAGGAAAAGCATCATAAGGCTAGAATTGCAACCTCCAGCTTCATTTGTTTCTCTGCAAAGCTTGCCCAAGAGGATAAACCGGAGCCTGTAGTAGTGAAAGAGAAAAACGTGTCTTATCAGATAGATTGGTACATGACCTTATTTACCACATTGAGTTGGCAAAAGGCTCTAAATGGGCCTGGAATCCCAAAGGGATCTGAGTTCGAATACTTGAGAACTTTTCACAGGGGTGAAAATGCTCCTAGGCCCCATCACAAAATGAGCATAATCACTTACGGGGGAACAAGGCGGCGGATGGTTTTGTTGTCAAGGCCAAATGCCATAGACGGCTACTTTCCAGGCTTGGGTTTCATCAATATCATTGTGGTTCGGAAAACTCCACATGTAATCATGAGGAGACACACCGGAGAAGACATTCCCATCTTTTCGCTCAAACCGAAGATCATCAGCATTGGCGTAGTTGGAATCCATCGTTCCATCATCGATCAGAAGAACATCATTAGAATGGGATTGTAG

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

213

Amino Acids

24.24

Weight (kDa)

10.13

Isoelectric Point (pI)

42.14

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0010830)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G19290 AT1G19290
fragaria_vesca	FvH4_2g40380 FvH4_2g40380
malus_domestica	MD15G1444300.v1.1
prunus_persica	Prupe.1G585600_v2.0.a1
pyrus_communis	pycom15g39140
rosa_chinensis	RchiOBHm_Chr3g0486911 RchiOBHm_Chr6g0300361
rosa_laevigata	RLG00000011344
rosa_multiflora	Rmu_sc0001670.1_g000017
rosa_roxburghii	Rroxscaffold_2G00128300 Rroxscaffold_7G00167860
rosa_rugosa	Rorug06G0295300
rosa_samantha	Rh3AG278100 Rh6AG408100 Rh6BG415400 Rh6CG422800 Rh6DG408400
rosa_wichuraiana	Rw6G035690

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	98
AciI	CCGC	2 cut(s)	415, 418
AclWI	GGATC	1 cut(s)	328
AfaI	GTAC	1 cut(s)	257
AfiI	CCNNNNNNNGG	1 cut(s)	470
AflIII	ACRYGT	2 cut(s)	234, 508
AgsI	TTSAA	2 cut(s)	121, 127
AjnI	CCWGG	2 cut(s)	304, 463
AleI	CACNNNNGTG	1 cut(s)	354
AluBI	AGCT	2 cut(s)	165, 187
AluI	AGCT	2 cut(s)	165, 187
Alw26I	GTCTC	1 cut(s)	517
AlwI	GGATC	1 cut(s)	328
AoxI	GGCC	3 cut(s)	302, 371, 437
ApeKI	GCWGC	2 cut(s)	4, 7
Asp700I	GAANNNNTTC	1 cut(s)	540
AspA2I	CCTAGG	1 cut(s)	368
AspS9I	GGNCC	2 cut(s)	302, 372
AsuHPI	GGTGA	2 cut(s)	69, 368
AsuII	TTCGAA	1 cut(s)	330
AvrII	CCTAGG	1 cut(s)	368
BanII	GRGCYC	1 cut(s)	21
BbsI	GAAGAC	1 cut(s)	543
BccI	CCATC	6 cut(s)	7, 384, 415, 554, 603, 611
BceAI	ACGGC	1 cut(s)	469
BciT130I	CCWGG	2 cut(s)	306, 465
BcoDI	GTCTC	1 cut(s)	517
BfaI	CTAG	2 cut(s)	147, 369
BfmI	CTRYAG	1 cut(s)	213
BfuAI	ACCTGC	1 cut(s)	98
BglI	GCCNNNNNGGC	1 cut(s)	16
BisI	GCNGC	3 cut(s)	5, 8, 416
BlnI	CCTAGG	1 cut(s)	368
BlsI	GCNGC	3 cut(s)	6, 9, 417
Bme1390I	CCNGG	2 cut(s)	306, 465
BmgT120I	GGNCC	2 cut(s)	302, 372
BmiI	GGNNCC	2 cut(s)	210, 374
BmrFI	CCNGG	2 cut(s)	306, 465
BmsI	GCATC	1 cut(s)	145
BpiI	GAAGAC	1 cut(s)	543
BpmI	CTGGAG	1 cut(s)	145
Bpu14I	TTCGAA	1 cut(s)	330
BpuEI	CTTGAG	1 cut(s)	358
Bsa29I	ATCGAT	1 cut(s)	609
BsaJI	CCNNGG	1 cut(s)	368
BsaWI	WCCGGW	2 cut(s)	205, 530
Bsc4I	CCNNNNNNNGG	1 cut(s)	470
BseBI	CCWGG	2 cut(s)	306, 465
BseCI	ATCGAT	1 cut(s)	609
BseDI	CCNNGG	1 cut(s)	368
BseGI	GGATG	1 cut(s)	426
BseLI	CCNNNNNNNGG	1 cut(s)	470
BseMII	CTCAG	1 cut(s)	315
BseRI	GAGGAG	1 cut(s)	535
BshFI	GGCC	3 cut(s)	304, 373, 439
BshVI	ATCGAT	1 cut(s)	609
BsiSI	CCGG	2 cut(s)	206, 531
BslI	CCNNNNNNNGG	1 cut(s)	470
BsmAI	GTCTC	1 cut(s)	517
BsnI	GGCC	3 cut(s)	304, 373, 439
Bsp119I	TTCGAA	1 cut(s)	330
Bsp1286I	GDGCHC	1 cut(s)	21
Bsp143I	GATC	3 cut(s)	320, 567, 610
BspACI	CCGC	2 cut(s)	415, 418
BspANI	GGCC	3 cut(s)	304, 373, 439
BspCNI	CTCAG	1 cut(s)	316
BspDI	ATCGAT	1 cut(s)	609
BspHI	TCATGA	1 cut(s)	516
BspLI	GGNNCC	2 cut(s)	210, 374
BspMI	ACCTGC	1 cut(s)	98
BspPI	GGATC	1 cut(s)	328
BspQI	GCTCTTC	1 cut(s)	56
BspT104I	TTCGAA	1 cut(s)	330
BssECI	CCNNGG	1 cut(s)	368
BssMI	GATC	3 cut(s)	320, 567, 610
BssT1I	CCWWGG	1 cut(s)	368
Bst2UI	CCWGG	2 cut(s)	306, 465
Bst6I	CTCTTC	2 cut(s)	46, 56
BstAPI	GCANNNNNTGC	1 cut(s)	188
BstBI	TTCGAA	1 cut(s)	330
BstC8I	GCNNGC	1 cut(s)	189
BstDEI	CTNAG	2 cut(s)	98, 324
BstF5I	GGATG	1 cut(s)	426
BstKTI	GATC	3 cut(s)	323, 570, 613
BstMAI	GTCTC	1 cut(s)	517
BstMBI	GATC	3 cut(s)	320, 567, 610
BstMWI	GCNNNNNNNGC	3 cut(s)	16, 152, 188
BstNI	CCWGG	2 cut(s)	306, 465
BstNSI	RCATGY	1 cut(s)	512
BstSCI	CCNGG	2 cut(s)	304, 463
BstSFI	CTRYAG	1 cut(s)	213
BstV2I	GAAGAC	1 cut(s)	543
BstX2I	RGATCY	1 cut(s)	320
BstYI	RGATCY	1 cut(s)	320
Bsu15I	ATCGAT	1 cut(s)	609
BsuRI	GGCC	3 cut(s)	304, 373, 439
BsuTUI	ATCGAT	1 cut(s)	609
BtsCI	GGATG	1 cut(s)	426
BtsI	GCAGTG	1 cut(s)	44
BtsIMutI	CAGTG	1 cut(s)	44
BveI	ACCTGC	1 cut(s)	98
Cac8I	GCNNGC	1 cut(s)	189
CciI	TCATGA	1 cut(s)	516
Cfr13I	GGNCC	2 cut(s)	302, 372
ClaI	ATCGAT	1 cut(s)	609
Csp6I	GTAC	1 cut(s)	256
CviAII	CATG	4 cut(s)	29, 259, 509, 517
CviQI	GTAC	1 cut(s)	256
DdeI	CTNAG	2 cut(s)	98, 324
DpnI	GATC	3 cut(s)	322, 569, 612
DpnII	GATC	3 cut(s)	320, 567, 610
Eam1104I	CTCTTC	2 cut(s)	46, 56
EarI	CTCTTC	2 cut(s)	46, 56
EciI	GGCGGA	1 cut(s)	433
Eco130I	CCWWGG	1 cut(s)	368
Eco24I	GRGCYC	1 cut(s)	21
EcoO109I	RGGNCCY	1 cut(s)	372
EcoRII	CCWGG	2 cut(s)	304, 463
EcoT14I	CCWWGG	1 cut(s)	368
EcoT22I	ATGCAT	1 cut(s)	34
EcoT38I	GRGCYC	1 cut(s)	21
ErhI	CCWWGG	1 cut(s)	368
FaeI	CATG	4 cut(s)	32, 262, 512, 520
FaiI	YATR	7 cut(s)	30, 141, 260, 392, 449, 510, 518
FatI	CATG	4 cut(s)	28, 258, 508, 516
Fnu4HI	GCNGC	3 cut(s)	5, 8, 416
FokI	GGATG	1 cut(s)	433
FriOI	GRGCYC	1 cut(s)	21
Fsp4HI	GCNGC	3 cut(s)	5, 8, 416
FspBI	CTAG	2 cut(s)	147, 369
GluI	GCNGC	3 cut(s)	5, 8, 416
GsuI	CTGGAG	1 cut(s)	145
HaeIII	GGCC	3 cut(s)	304, 373, 439
HapII	CCGG	2 cut(s)	206, 531
Hin1II	CATG	4 cut(s)	32, 262, 512, 520
HindIII	AAGCTT	1 cut(s)	185
HinfI	GANTC	3 cut(s)	38, 309, 591
HpaII	CCGG	2 cut(s)	206, 531
HphI	GGTGA	2 cut(s)	69, 368
Hpy188I	TCNGA	4 cut(s)	246, 325, 498, 615
Hpy188III	TCNNGA	1 cut(s)	517
HpyCH4IV	ACGT	1 cut(s)	234
HpyCH4V	TGCA	4 cut(s)	32, 107, 155, 182
HpyF10VI	GCNNNNNNNGC	3 cut(s)	16, 152, 188
HpyF3I	CTNAG	2 cut(s)	98, 324
HpySE526I	ACGT	1 cut(s)	234
Hsp92II	CATG	4 cut(s)	32, 262, 512, 520
Kzo9I	GATC	3 cut(s)	320, 567, 610
LguI	GCTCTTC	1 cut(s)	56
LmnI	GCTCC	2 cut(s)	208, 370
LweI	GCATC	1 cut(s)	145
MaeI	CTAG	2 cut(s)	147, 369
MaeII	ACGT	1 cut(s)	234
MalI	GATC	3 cut(s)	322, 569, 612
MboI	GATC	3 cut(s)	320, 567, 610
MboII	GAAGA	5 cut(s)	33, 43, 548, 577, 628
MflI	RGATCY	1 cut(s)	320
MhlI	GDGCHC	1 cut(s)	21
MluCI	AATT	4 cut(s)	72, 116, 121, 150
MlyI	GAGTC	1 cut(s)	32
MmeI	TCCRAC	2 cut(s)	117, 568
MnlI	CCTC	4 cut(s)	77, 169, 190, 513
Mph1103I	ATGCAT	1 cut(s)	34
MroXI	GAANNNNTTC	1 cut(s)	540
MslI	CAYNNNNRTG	2 cut(s)	354, 629
MspI	CCGG	2 cut(s)	206, 531
MspR9I	CCNGG	2 cut(s)	306, 465
MvaI	CCWGG	2 cut(s)	306, 465
MwoI	GCNNNNNNNGC	3 cut(s)	16, 152, 188
NdeII	GATC	3 cut(s)	320, 567, 610
NlaIII	CATG	4 cut(s)	32, 262, 512, 520
NlaIV	GGNNCC	2 cut(s)	210, 374
NsiI	ATGCAT	1 cut(s)	34
NspI	RCATGY	1 cut(s)	512
NspV	TTCGAA	1 cut(s)	330
OliI	CACNNNNGTG	1 cut(s)	354
PagI	TCATGA	1 cut(s)	516
PciI	ACATGT	1 cut(s)	508
PciSI	GCTCTTC	1 cut(s)	56
PcsI	WCGNNNNNNNCGW	1 cut(s)	560
PdmI	GAANNNNTTC	1 cut(s)	540
PfeI	GAWTC	2 cut(s)	309, 591
PkrI	GCNGC	3 cut(s)	6, 9, 417
PleI	GAGTC	1 cut(s)	32
PpsI	GAGTC	1 cut(s)	32
PscI	ACATGT	1 cut(s)	508
Psp6I	CCWGG	2 cut(s)	304, 463
PspGI	CCWGG	2 cut(s)	304, 463
PspN4I	GGNNCC	2 cut(s)	210, 374
PspPI	GGNCC	2 cut(s)	302, 372
PsuI	RGATCY	1 cut(s)	320
RsaI	GTAC	1 cut(s)	257
RsaNI	GTAC	1 cut(s)	256
RseI	CAYNNNNRTG	2 cut(s)	354, 629
SapI	GCTCTTC	1 cut(s)	56
SatI	GCNGC	3 cut(s)	5, 8, 416
Sau3AI	GATC	3 cut(s)	320, 567, 610
Sau96I	GGNCC	2 cut(s)	302, 372
SchI	GAGTC	1 cut(s)	32
ScrFI	CCNGG	2 cut(s)	306, 465
SduI	GDGCHC	1 cut(s)	21
SetI	ASST	8 cut(s)	69, 99, 112, 161, 167, 189, 237, 266
SfaNI	GCATC	1 cut(s)	145
SfcI	CTRYAG	1 cut(s)	213
SfuI	TTCGAA	1 cut(s)	330
SmiMI	CAYNNNNRTG	2 cut(s)	354, 629
SmlI	CTYRAG	1 cut(s)	337
SmoI	CTYRAG	1 cut(s)	337
Sse9I	AATT	4 cut(s)	72, 116, 121, 150
SsiI	CCGC	2 cut(s)	415, 418
SspMI	CTAG	2 cut(s)	147, 369
StyD4I	CCNGG	2 cut(s)	304, 463
StyI	CCWWGG	1 cut(s)	368
TaiI	ACGT	1 cut(s)	237
TaqI	TCGA	2 cut(s)	330, 609
TasI	AATT	4 cut(s)	72, 116, 121, 150
TauI	GCSGC	1 cut(s)	418
TfiI	GAWTC	2 cut(s)	309, 591
TscAI	CASTG	1 cut(s)	51
TseI	GCWGC	2 cut(s)	4, 7
TspDTI	ATGAA	3 cut(s)	17, 157, 466
TspRI	CASTG	1 cut(s)	51
XceI	RCATGY	1 cut(s)	512
XmaJI	CCTAGG	1 cut(s)	368
XmnI	GAANNNNTTC	1 cut(s)	540
XspI	CTAG	2 cut(s)	147, 369
Zsp2I	ATGCAT	1 cut(s)	34

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