Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0001858

Physical Location & Seq

Genomic Coordinates Forward (+)

324361 .. 326797

Gene Structure 2437 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG004700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 609 bp

ATGGGGAAGCTACTGAGGGGTAGGAATGATGAGTATGGAGGTGTGATCGTCCACCTCCACATGGATGATGAGGCTATGGACCCTGCCACTTTCATTTCATCTCTTACCTCTTCAGTTGCGGTTTGGAAGCTCCAGGTGTTAGTAGTCCAAGAAAAGGGAGGACAGTATGGTGGGACAGGCGTGTGGAAGCTCCCTACTGGAGCTGTCGATGAGGGGGAAGATATCTATGCAGCAGCTGTGAGAGAAGTTAAAGAAGAAACAGGAATTGACTCAGAGTTTATAGAAATTCTAGCATTCAGACAGATCCACAAGTCGTTCTTTCAGAAATCGGATTTGTTTTTTCTGTGCATGTTGCGACCCCTCTCCTTTGACATCCAGAAGCAGGAAAAAGAGATAGAAGCAGCCAAGTGGATGCCATTTGAGGAATATGCAGCTCAACCATATGCCCAGAAATATGAGTTTCTGATGTACCTCCATGACATATGCAAAGCAAAGATTGATGGGAACTATACTGGATTTTCTCCAATACCTACAACTAGTTATTCTGTTCAGAAGAGCTACTTGTACTTGAATAGTACCGAAGCACCCAAGAGATATAGTAAACTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003824 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006950 GO:0006979 GO:0008150 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0036094 GO:0044424 GO:0044444 GO:0044464 GO:0047631 GO:0048037 GO:0050662 GO:0050896 GO:0051287 GO:0097159 GO:1901265 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

NUDIX

Protein Analysis

202

Amino Acids

23.01

Weight (kDa)

5.3

Isoelectric Point (pI)

46.97

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NUDIX	PF00293	45 - 150	1.8e-22	NUDIX 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: OG0001858)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G47650 AT5G47650 AT5G47650 AT5G47650 AT5G47650
fragaria_vesca	FvH4_3g00340 FvH4_3g00340 FvH4_3g00360 FvH4_3g00360 FvH4_3g00360 FvH4_3g00360 FvH4_3g00360
malus_domestica	MD05G1361300.v1.1 MD09G1128200.v1.1 MD10G1338700.v1.1 MD13G1112600.v1.1
prunus_persica	Prupe.4G004000_v2.0.a1 Prupe.4G004100_v2.0.a1
pyrus_communis	pycom10g28840
rosa_chinensis	RchiOBHm_Chr5g0000521 RchiOBHm_Chr5g0000551
rosa_laevigata	RLG00000030874 RLG00000030875
rosa_multiflora	Rmu_co8017860.1_g000001 Rmu_sc0003699.1_g000001 Rmu_sc0003699.1_g000002 Rmu_sc0008807.1_g000001 Rmu_sc0008807.1_g000002 Rmu_sc0021546.1_g000001
rosa_roxburghii	Rroxscaffold_1G00075650 Rroxscaffold_1G00075660
rosa_rugosa	Rorug04G0384400 Rorug04G0384500 Rorug04G0384600 Rorug04G0384800 Rorug04G0384800
rosa_samantha	Rh5AG004300 Rh5AG004500 Rh5BG005800 Rh5BG006100 Rh5CG004700 Rh5CG004900 Rh5DG004700 Rh5DG004900
rosa_wichuraiana	Rw5G000440 Rw5G000450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	119
AclWI	GGATC	1 cut(s)	298
AcsI	RAATTY	1 cut(s)	285
AcuI	CTGAAG	1 cut(s)	96
AfaI	GTAC	3 cut(s)	470, 566, 577
AfiI	CCNNNNNNNGG	3 cut(s)	61, 154, 382
AgsI	TTSAA	1 cut(s)	571
AhlI	ACTAGT	1 cut(s)	536
AjnI	CCWGG	1 cut(s)	132
AluBI	AGCT	7 cut(s)	10, 130, 190, 203, 236, 434, 558
AluI	AGCT	7 cut(s)	10, 130, 190, 203, 236, 434, 558
AlwI	GGATC	1 cut(s)	298
AlwNI	CAGNNNCTG	1 cut(s)	236
ApeKI	GCWGC	4 cut(s)	230, 233, 401, 431
ApoI	RAATTY	1 cut(s)	285
AspS9I	GGNCC	1 cut(s)	79
AvaII	GGWCC	1 cut(s)	79
BbvI	GCAGC	4 cut(s)	242, 245, 413, 443
BccI	CCATC	1 cut(s)	494
BciT130I	CCWGG	1 cut(s)	134
BcuI	ACTAGT	1 cut(s)	536
BfaI	CTAG	2 cut(s)	290, 537
BisI	GCNGC	4 cut(s)	231, 234, 402, 432
BlsI	GCNGC	4 cut(s)	232, 235, 403, 433
Bme1390I	CCNGG	1 cut(s)	134
Bme18I	GGWCC	1 cut(s)	79
BmgT120I	GGNCC	1 cut(s)	79
BmiI	GGNNCC	1 cut(s)	81
BmrFI	CCNGG	1 cut(s)	134
BmsI	GCATC	1 cut(s)	402
BpmI	CTGGAG	2 cut(s)	116, 219
Bsc4I	CCNNNNNNNGG	3 cut(s)	61, 154, 382
Bse1I	ACTGG	2 cut(s)	202, 517
BseBI	CCWGG	1 cut(s)	134
BseGI	GGATG	3 cut(s)	70, 372, 417
BseLI	CCNNNNNNNGG	3 cut(s)	61, 154, 382
BseMII	CTCAG	2 cut(s)	5, 285
BseNI	ACTGG	2 cut(s)	202, 517
BseXI	GCAGC	4 cut(s)	242, 245, 413, 443
BslFI	GGGAC	1 cut(s)	187
BslI	CCNNNNNNNGG	3 cut(s)	61, 154, 382
BsmFI	GGGAC	1 cut(s)	187
BsmI	GAATGC	1 cut(s)	293
Bsp143I	GATC	2 cut(s)	45, 303
BspACI	CCGC	1 cut(s)	119
BspCNI	CTCAG	2 cut(s)	6, 284
BspLI	GGNNCC	1 cut(s)	81
BspPI	GGATC	1 cut(s)	298
BspQI	GCTCTTC	1 cut(s)	548
BsrI	ACTGG	2 cut(s)	202, 517
BssMI	GATC	2 cut(s)	45, 303
Bst2UI	CCWGG	1 cut(s)	134
Bst4CI	ACNGT	1 cut(s)	165
Bst6I	CTCTTC	2 cut(s)	115, 548
BstDEI	CTNAG	2 cut(s)	14, 271
BstF5I	GGATG	3 cut(s)	70, 372, 417
BstKTI	GATC	2 cut(s)	48, 306
BstMBI	GATC	2 cut(s)	45, 303
BstNI	CCWGG	1 cut(s)	134
BstNSI	RCATGY	1 cut(s)	352
BstSCI	CCNGG	1 cut(s)	132
BstV1I	GCAGC	4 cut(s)	242, 245, 413, 443
BstX2I	RGATCY	1 cut(s)	303
BstYI	RGATCY	1 cut(s)	303
BtsCI	GGATG	3 cut(s)	70, 372, 417
CaiI	CAGNNNCTG	1 cut(s)	236
Cfr13I	GGNCC	1 cut(s)	79
Csp6I	GTAC	3 cut(s)	469, 565, 576
CviAII	CATG	3 cut(s)	61, 349, 476
CviJI	RGCY	9 cut(s)	10, 74, 130, 190, 203, 236, 404, 434, 558
CviKI_1	RGCY	9 cut(s)	10, 74, 130, 190, 203, 236, 404, 434, 558
CviQI	GTAC	3 cut(s)	469, 565, 576
DdeI	CTNAG	2 cut(s)	14, 271
DpnI	GATC	2 cut(s)	47, 305
DpnII	GATC	2 cut(s)	45, 303
Eam1104I	CTCTTC	2 cut(s)	115, 548
EarI	CTCTTC	2 cut(s)	115, 548
Eco32I	GATATC	1 cut(s)	223
Eco47I	GGWCC	1 cut(s)	79
Eco57I	CTGAAG	1 cut(s)	96
EcoRII	CCWGG	1 cut(s)	132
EcoRV	GATATC	1 cut(s)	223
FaeI	CATG	3 cut(s)	64, 352, 479
FalI	AAGNNNNNCTT	4 cut(s)	302, 334, 545, 577
FaqI	GGGAC	1 cut(s)	187
FatI	CATG	3 cut(s)	60, 348, 475
FauNDI	CATATG	2 cut(s)	442, 482
Fnu4HI	GCNGC	4 cut(s)	231, 234, 402, 432
FokI	GGATG	3 cut(s)	77, 359, 424
Fsp4HI	GCNGC	4 cut(s)	231, 234, 402, 432
FspBI	CTAG	2 cut(s)	290, 537
GluI	GCNGC	4 cut(s)	231, 234, 402, 432
GsuI	CTGGAG	2 cut(s)	116, 219
Hin1II	CATG	3 cut(s)	64, 352, 479
HinfI	GANTC	1 cut(s)	269
Hpy166II	GTNNAC	2 cut(s)	52, 602
Hpy188I	TCNGA	7 cut(s)	274, 299, 324, 331, 465, 552, 608
Hpy188III	TCNNGA	1 cut(s)	376
Hpy8I	GTNNAC	2 cut(s)	52, 602
HpyCH4III	ACNGT	1 cut(s)	165
HpyCH4V	TGCA	4 cut(s)	230, 348, 431, 486
HpyF3I	CTNAG	2 cut(s)	14, 271
Hsp92II	CATG	3 cut(s)	64, 352, 479
Kzo9I	GATC	2 cut(s)	45, 303
LguI	GCTCTTC	1 cut(s)	548
LmnI	GCTCC	3 cut(s)	135, 195, 200
Lsp1109I	GCAGC	4 cut(s)	242, 245, 413, 443
LweI	GCATC	1 cut(s)	402
MaeI	CTAG	2 cut(s)	290, 537
MalI	GATC	2 cut(s)	47, 305
MboI	GATC	2 cut(s)	45, 303
MboII	GAAGA	4 cut(s)	102, 230, 266, 565
MflI	RGATCY	1 cut(s)	303
MluCI	AATT	2 cut(s)	264, 285
MlyI	GAGTC	1 cut(s)	263
MseI	TTAA	1 cut(s)	249
MslI	CAYNNNNRTG	1 cut(s)	63
MspA1I	CMGCKG	1 cut(s)	236
MspR9I	CCNGG	1 cut(s)	134
Mva1269I	GAATGC	1 cut(s)	293
MvaI	CCWGG	1 cut(s)	134
NdeI	CATATG	2 cut(s)	442, 482
NdeII	GATC	2 cut(s)	45, 303
NlaIII	CATG	3 cut(s)	64, 352, 479
NlaIV	GGNNCC	1 cut(s)	81
NspI	RCATGY	1 cut(s)	352
PciSI	GCTCTTC	1 cut(s)	548
PctI	GAATGC	1 cut(s)	293
PkrI	GCNGC	4 cut(s)	232, 235, 403, 433
PleI	GAGTC	1 cut(s)	263
PpsI	GAGTC	1 cut(s)	263
Psp6I	CCWGG	1 cut(s)	132
PspGI	CCWGG	1 cut(s)	132
PspN4I	GGNNCC	1 cut(s)	81
PspPI	GGNCC	1 cut(s)	79
PstNI	CAGNNNCTG	1 cut(s)	236
PsuI	RGATCY	1 cut(s)	303
PvuII	CAGCTG	1 cut(s)	236
RsaI	GTAC	3 cut(s)	470, 566, 577
RsaNI	GTAC	3 cut(s)	469, 565, 576
RseI	CAYNNNNRTG	1 cut(s)	63
SapI	GCTCTTC	1 cut(s)	548
SaqAI	TTAA	1 cut(s)	249
SatI	GCNGC	4 cut(s)	231, 234, 402, 432
Sau3AI	GATC	2 cut(s)	45, 303
Sau96I	GGNCC	1 cut(s)	79
SchI	GAGTC	1 cut(s)	263
ScrFI	CCNGG	1 cut(s)	134
SfaNI	GCATC	1 cut(s)	402
SinI	GGWCC	1 cut(s)	79
SmiMI	CAYNNNNRTG	1 cut(s)	63
SpeI	ACTAGT	1 cut(s)	536
Sse9I	AATT	2 cut(s)	264, 285
SsiI	CCGC	1 cut(s)	119
SspMI	CTAG	2 cut(s)	290, 537
StyD4I	CCNGG	1 cut(s)	132
TaaI	ACNGT	1 cut(s)	165
TaqI	TCGA	1 cut(s)	207
TasI	AATT	2 cut(s)	264, 285
TatI	WGTACW	1 cut(s)	564
Tru1I	TTAA	1 cut(s)	249
Tru9I	TTAA	1 cut(s)	249
TseI	GCWGC	4 cut(s)	230, 233, 401, 431
TspDTI	ATGAA	2 cut(s)	82, 87
VpaK11BI	GGWCC	1 cut(s)	79
XapI	RAATTY	1 cut(s)	285
XceI	RCATGY	1 cut(s)	352
XspI	CTAG	2 cut(s)	290, 537

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