Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0003483

Physical Location & Seq

Genomic Coordinates Reverse (-)

38528165 .. 38534635

Gene Structure 6471 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG342900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 513 bp

ATGCAGAAACCGAAGTCTGTAGTAGTGAAAGAGAAAAGCTTGTCAGTGATTCTTTTGGCTAGAGGAAAGGGTAAAAGGTGTGAGGTTTCTTTGCCAGGTGGGAAAACAGAGGAGGGAGACAAGGATGATGGTGACACAGCACCAAGAGAAGCGAAAGAGGAGATTGGTTTGGATCCTAAGCTTGTGAATGTTGTCACTGTTCTTGAACCATTTTTGTCAAAGCACCTACTGAGAGTTGTACCTGTTATCGGTATACTTAACGATAAGGAAGCATTCAAGCCTGCTCCAAATCCGGCCAAAGTGGAATCAGTATTTGATGCTCCCTTGGAAATGTTCATCAAGTTGGAAGCTCTGGTGACTAACGATGCTAGAGAATCAGAAATCCAGGTTTTCAAGGGTTTGTACGAGAATGCAACAAACCAGATTCATGTTGGCGCACATCTAGCAATGCTGACTGCGATTCGTGATGTTTGCAAGCTTGTCTTTACGCAGCTCACTAGTTGGAAGGTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006104 GO:0006139 GO:0006163 GO:0006164 GO:0006637 GO:0006725 GO:0006732 GO:0006753 GO:0006790 GO:0006793 GO:0006796 GO:0006807 GO:0008150 GO:0008152 GO:0008893 GO:0009058 GO:0009108 GO:0009117 GO:0009150 GO:0009152 GO:0009165 GO:0009259 GO:0009260 GO:0009987 GO:0010945 GO:0015936 GO:0015937 GO:0016462 GO:0016787 GO:0016788 GO:0016794 GO:0016817 GO:0016818 GO:0018130 GO:0019438 GO:0019637 GO:0019693 GO:0033865 GO:0033866 GO:0033875 GO:0034030 GO:0034032 GO:0034033 GO:0034641 GO:0034654 GO:0035383 GO:0042578 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043603 GO:0044237 GO:0044238 GO:0044249 GO:0044271 GO:0044281 GO:0044424 GO:0044444 GO:0044464 GO:0046390 GO:0046483 GO:0051186 GO:0051188 GO:0055086 GO:0071704 GO:0072521 GO:0072522 GO:0090407 GO:1901135 GO:1901137 GO:1901293 GO:1901360 GO:1901362 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko04146 map04146

Pfam Domains

Protein Families

NUDIX

Protein Analysis

170

Amino Acids

18.68

Weight (kDa)

6.84

Isoelectric Point (pI)

21.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NUDIX	PF00293	10 - 75	2.6e-09	NUDIX domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0003483)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr1g0344821 RchiOBHm_Chr1g0344831 RchiOBHm_Chr3g0471831 RchiOBHm_Chr5g0080341 RchiOBHm_Chr7g0235701
rosa_multiflora	Rmu_sc0000079.1_g000003 Rmu_sc0000322.1_g000042 Rmu_sc0001266.1_g000018 Rmu_sc0003941.1_g000012 Rmu_sc0004465.1_g000027 Rmu_sc0005738.1_g000015 Rmu_sc0016401.1_g000001 Rmu_sc0018213.1_g000001
rosa_roxburghii	Rroxscaffold_3G00233470 Rroxscaffold_3G00234220
rosa_samantha	Rh2BG430200 Rh2CG546400 Rh2DG440200 Rh3CG281000 Rh3CG281100 Rh3CG367000 Rh3DG277100 Rh3DG297300 Rh3DG342900 Rh3DG365000 Rh4AG049800 Rh4CG237300 Rh4CG237800 Rh4DG160500 Rh5CG565500 Rh5DG412600 Rh6BG298900 Rh7DG372800 Rh7DG372900
rosa_wichuraiana	Rw3G022420 Rw4G018200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	253
AclWI	GGATC	2 cut(s)	167, 180
AcoI	YGGCCR	1 cut(s)	294
AfaI	GTAC	2 cut(s)	240, 404
AfiI	CCNNNNNNNGG	1 cut(s)	248
AgsI	TTSAA	3 cut(s)	206, 277, 394
AhlI	ACTAGT	1 cut(s)	497
AjnI	CCWGG	2 cut(s)	94, 384
AluBI	AGCT	5 cut(s)	39, 181, 350, 478, 493
AluI	AGCT	5 cut(s)	39, 181, 350, 478, 493
Alw26I	GTCTC	1 cut(s)	111
AlwI	GGATC	2 cut(s)	167, 180
AoxI	GGCC	1 cut(s)	294
ApeKI	GCWGC	1 cut(s)	490
AspLEI	GCGC	1 cut(s)	437
AsuHPI	GGTGA	2 cut(s)	143, 367
BamHI	GGATCC	1 cut(s)	172
BbvI	GCAGC	1 cut(s)	502
BccI	CCATC	1 cut(s)	122
BciT130I	CCWGG	2 cut(s)	96, 386
BcoDI	GTCTC	1 cut(s)	111
BcuI	ACTAGT	1 cut(s)	497
BfaI	CTAG	4 cut(s)	60, 369, 443, 498
BfmI	CTRYAG	1 cut(s)	18
BisI	GCNGC	1 cut(s)	491
BlsI	GCNGC	1 cut(s)	492
Bme1390I	CCNGG	2 cut(s)	96, 386
BmiI	GGNNCC	1 cut(s)	174
BmrFI	CCNGG	2 cut(s)	96, 386
BmsI	GCATC	2 cut(s)	307, 355
Bpu10I	CCTNAGC	1 cut(s)	177
BsaJI	CCNNGG	1 cut(s)	324
Bsc4I	CCNNNNNNNGG	1 cut(s)	248
Bse3DI	GCAATG	1 cut(s)	453
BseBI	CCWGG	2 cut(s)	96, 386
BseDI	CCNNGG	1 cut(s)	324
BseGI	GGATG	1 cut(s)	130
BseLI	CCNNNNNNNGG	1 cut(s)	248
BseMI	GCAATG	1 cut(s)	453
BseMII	CTCAG	1 cut(s)	221
BseRI	GAGGAG	2 cut(s)	125, 173
BseXI	GCAGC	1 cut(s)	502
BshFI	GGCC	1 cut(s)	296
BsiSI	CCGG	1 cut(s)	293
BslI	CCNNNNNNNGG	1 cut(s)	248
BsmAI	GTCTC	1 cut(s)	111
BsmI	GAATGC	2 cut(s)	272, 415
BsnI	GGCC	1 cut(s)	296
Bsp143I	GATC	1 cut(s)	172
BspANI	GGCC	1 cut(s)	296
BspCNI	CTCAG	1 cut(s)	222
BspLI	GGNNCC	1 cut(s)	174
BspPI	GGATC	2 cut(s)	167, 180
BsrDI	GCAATG	1 cut(s)	453
BssECI	CCNNGG	1 cut(s)	324
BssMI	GATC	1 cut(s)	172
BssNAI	GTATAC	1 cut(s)	254
BssT1I	CCWWGG	1 cut(s)	324
Bst1107I	GTATAC	1 cut(s)	254
Bst2UI	CCWGG	2 cut(s)	96, 386
Bst4CI	ACNGT	1 cut(s)	199
BstC8I	GCNNGC	2 cut(s)	282, 476
BstDEI	CTNAG	2 cut(s)	177, 230
BstF5I	GGATG	1 cut(s)	130
BstHHI	GCGC	1 cut(s)	437
BstKTI	GATC	1 cut(s)	175
BstMAI	GTCTC	1 cut(s)	111
BstMBI	GATC	1 cut(s)	172
BstMWI	GCNNNNNNNGC	1 cut(s)	443
BstNI	CCWGG	2 cut(s)	96, 386
BstSCI	CCNGG	2 cut(s)	94, 384
BstSFI	CTRYAG	1 cut(s)	18
BstV1I	GCAGC	1 cut(s)	502
BstX2I	RGATCY	1 cut(s)	172
BstYI	RGATCY	1 cut(s)	172
BstZ17I	GTATAC	1 cut(s)	254
BsuRI	GGCC	1 cut(s)	296
BtsCI	GGATG	1 cut(s)	130
BtsIMutI	CAGTG	2 cut(s)	51, 195
Cac8I	GCNNGC	2 cut(s)	282, 476
CfoI	GCGC	1 cut(s)	437
Csp6I	GTAC	2 cut(s)	239, 403
CviAII	CATG	1 cut(s)	428
CviJI	RGCY	8 cut(s)	39, 59, 181, 280, 296, 350, 478, 493
CviKI_1	RGCY	8 cut(s)	39, 59, 181, 280, 296, 350, 478, 493
CviQI	GTAC	2 cut(s)	239, 403
DdeI	CTNAG	2 cut(s)	177, 230
DpnI	GATC	1 cut(s)	174
DpnII	GATC	1 cut(s)	172
EaeI	YGGCCR	1 cut(s)	294
Eco130I	CCWWGG	1 cut(s)	324
EcoRII	CCWGG	2 cut(s)	94, 384
EcoT14I	CCWWGG	1 cut(s)	324
ErhI	CCWWGG	1 cut(s)	324
FaeI	CATG	1 cut(s)	431
FaiI	YATR	2 cut(s)	254, 429
FalI	AAGNNNNNCTT	2 cut(s)	467, 499
FatI	CATG	1 cut(s)	427
FblI	GTMKAC	1 cut(s)	253
Fnu4HI	GCNGC	1 cut(s)	491
FokI	GGATG	1 cut(s)	137
Fsp4HI	GCNGC	1 cut(s)	491
FspBI	CTAG	4 cut(s)	60, 369, 443, 498
GlaI	GCGC	1 cut(s)	436
GluI	GCNGC	1 cut(s)	491
HaeIII	GGCC	1 cut(s)	296
HapII	CCGG	1 cut(s)	293
HhaI	GCGC	1 cut(s)	437
Hin1II	CATG	1 cut(s)	431
Hin6I	GCGC	1 cut(s)	435
HinP1I	GCGC	1 cut(s)	435
HindIII	AAGCTT	3 cut(s)	37, 179, 476
HinfI	GANTC	5 cut(s)	49, 305, 374, 424, 460
HpaII	CCGG	1 cut(s)	293
HphI	GGTGA	2 cut(s)	143, 367
Hpy166II	GTNNAC	1 cut(s)	254
Hpy188I	TCNGA	1 cut(s)	379
Hpy188III	TCNNGA	2 cut(s)	203, 464
Hpy8I	GTNNAC	1 cut(s)	254
HpyAV	CCTTC	1 cut(s)	499
HpyCH4III	ACNGT	1 cut(s)	199
HpyCH4V	TGCA	3 cut(s)	4, 413, 474
HpyF10VI	GCNNNNNNNGC	1 cut(s)	443
HpyF3I	CTNAG	2 cut(s)	177, 230
Hsp92II	CATG	1 cut(s)	431
HspAI	GCGC	1 cut(s)	435
Kzo9I	GATC	1 cut(s)	172
LmnI	GCTCC	2 cut(s)	289, 325
LpnPI	CCDG	9 cut(s)	81, 108, 255, 294, 306, 338, 371, 398, 434
Lsp1109I	GCAGC	1 cut(s)	502
LweI	GCATC	2 cut(s)	307, 355
MaeI	CTAG	4 cut(s)	60, 369, 443, 498
MaeIII	GTNAC	3 cut(s)	131, 193, 355
MalI	GATC	1 cut(s)	174
MboI	GATC	1 cut(s)	172
MflI	RGATCY	1 cut(s)	172
MmeI	TCCRAC	2 cut(s)	324, 482
MnlI	CCTC	5 cut(s)	56, 76, 103, 106, 151
MseI	TTAA	1 cut(s)	258
MspI	CCGG	1 cut(s)	293
MspR9I	CCNGG	2 cut(s)	96, 386
Mva1269I	GAATGC	2 cut(s)	272, 415
MvaI	CCWGG	2 cut(s)	96, 386
MwoI	GCNNNNNNNGC	1 cut(s)	443
NdeII	GATC	1 cut(s)	172
NlaIII	CATG	1 cut(s)	431
NlaIV	GGNNCC	1 cut(s)	174
NmuCI	GTSAC	3 cut(s)	131, 193, 355
PctI	GAATGC	2 cut(s)	272, 415
PfeI	GAWTC	5 cut(s)	49, 305, 374, 424, 460
PkrI	GCNGC	1 cut(s)	492
Psp6I	CCWGG	2 cut(s)	94, 384
PspGI	CCWGG	2 cut(s)	94, 384
PspN4I	GGNNCC	1 cut(s)	174
PsuI	RGATCY	1 cut(s)	172
RsaI	GTAC	2 cut(s)	240, 404
RsaNI	GTAC	2 cut(s)	239, 403
SaqAI	TTAA	1 cut(s)	258
SatI	GCNGC	1 cut(s)	491
Sau3AI	GATC	1 cut(s)	172
ScrFI	CCNGG	2 cut(s)	96, 386
SfaNI	GCATC	2 cut(s)	307, 355
SfcI	CTRYAG	1 cut(s)	18
SpeI	ACTAGT	1 cut(s)	497
SspMI	CTAG	4 cut(s)	60, 369, 443, 498
StyD4I	CCNGG	2 cut(s)	94, 384
StyI	CCWWGG	1 cut(s)	324
TaaI	ACNGT	1 cut(s)	199
TfiI	GAWTC	5 cut(s)	49, 305, 374, 424, 460
Tru1I	TTAA	1 cut(s)	258
Tru9I	TTAA	1 cut(s)	258
TscAI	CASTG	2 cut(s)	51, 202
TseFI	GTSAC	3 cut(s)	131, 193, 355
TseI	GCWGC	1 cut(s)	490
Tsp45I	GTSAC	3 cut(s)	131, 193, 355
TspDTI	ATGAA	2 cut(s)	325, 416
TspRI	CASTG	2 cut(s)	51, 202
XcmI	CCANNNNNNNNNTGG	1 cut(s)	428
XmiI	GTMKAC	1 cut(s)	253
XspI	CTAG	4 cut(s)	60, 369, 443, 498

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