Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0001719

Physical Location & Seq

Genomic Coordinates Forward (+)

1113727 .. 1114440

Gene Structure 714 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG016400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 714 bp

ATGGGAGAGGCACCAACTGTGCTGAACATGATTGTTAATCCACCAAAGAGTGACCGAAGGCCACTTCCTCATAAGGTGGAAGAAATGACAGGTGGCTCCCCAACCCCGCCACAGATCCTGTTCAATATGGAAGAGATGGGTTTTAGGGTGATTCACTTGTATGGTCTCACAGAGACTGAAGGTCCAGGGACCTATTGCTCATGGAAACCTGAGTGGGACTCTCTTCCTTCGGATGAGAGATCGAAGCTTAAAGCTCGGCAAGGTGTGCAGCATGTTGCTTTGGAAGAGTTTGACATAAAAGATCCCGTCACCATGGAAAGTGCATCACCTTATGGTAAGACAATGGGTGAAATTATGTTTAGAGGAAACACTCTGATGAGTGGTTATCTTAAAGACTTGAGAGCAACAGAGGAAGCTTTTAAAGTTGGATGGTTTAGAAGTGGGAATTTAGCTATGAAACATCCTGATAAATATATTGAAGTCAAGGACCAGTTGAAGGATGTGATTGTATCTAGGGGAGAGAACATAAGCACAGTTGAGGTTGAAACAGTTTTGTTTAGCCATCCAGCAGTTCTTGAGGCTGCAATTGTTGCAAGGCATGATAATCATTGGGGACAAACTCCTTGTGCATTTGTGAAATTGAAGGATGGCTTTGATGTGAATGCGCAAGAACTAATTGCGTTCTGCCGCGATCATATGCCTCATTTTCGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

AMP-binding AMP-binding_C

Protein Analysis

237

Amino Acids

26.77

Weight (kDa)

5.73

Isoelectric Point (pI)

40.39

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AMP-binding	PF00501	4 - 130	9.8e-15	AMP-binding enzyme
AMP-binding_C	PF13193	180 - 236	1.4e-13	AMP-binding enzyme C-terminal domain

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: OG0001719)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G17650
fragaria_vesca	FvH4_1g10560
malus_domestica	MD15G1233600.v1.1
prunus_persica	Prupe.7G179300_v2.0.a1
pyrus_communis	pycom15g20820
rosa_chinensis	RchiOBHm_Chr2g0097611 RchiOBHm_Chr2g0146681 RchiOBHm_Chr3g0449261 RchiOBHm_Chr3g0449271 RchiOBHm_Chr6g0268031
rosa_laevigata	RLG00000013936 RLG00000016728 RLG00000016729 RLG00000020214 RLG00000025843
rosa_multiflora	Rmu_sc0001839.1_g000028 Rmu_sc0001986.1_g000041 Rmu_sc0003567.1_g000017 Rmu_sc0004220.1_g000001 Rmu_sc0004874.1_g000003
rosa_roxburghii	Rroxscaffold_2G00099970 Rroxscaffold_2G00144660 Rroxscaffold_7G00200080
rosa_rugosa	Rorug02G0067800 Rorug02G0067900 Rorug02G0396000 Rorug02G0619100 Rorug02G0619300 Rorug06G0039100
rosa_samantha	Rh2AG114200 Rh2AG452500 Rh2BG116900 Rh2CG118900 Rh2CG439400 Rh2DG117900 Rh2DG474200 Rh3AG017300 Rh3BG017400 Rh3CG016400 Rh3DG017700 Rh6AG158400 Rh6BG162400 Rh6CG156000
rosa_wichuraiana	Rw0G015740 Rw2G008930 Rw2G036950 Rw3G001320 Rw6G013780

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	666
AccB1I	GGYRCC	1 cut(s)	10
AccII	CGCG	1 cut(s)	690
AciI	CCGC	2 cut(s)	107, 688
AclWI	GGATC	2 cut(s)	109, 296
AcsI	RAATTY	1 cut(s)	445
AcuI	CTGAAG	1 cut(s)	198
AfiI	CCNNNNNNNGG	1 cut(s)	496
AgsI	TTSAA	5 cut(s)	124, 479, 496, 545, 643
AhdI	GACNNNNNGTC	1 cut(s)	180
AjnI	CCWGG	1 cut(s)	184
AluBI	AGCT	4 cut(s)	247, 254, 416, 452
AluI	AGCT	4 cut(s)	247, 254, 416, 452
Alw26I	GTCTC	2 cut(s)	167, 170
AlwI	GGATC	2 cut(s)	109, 296
AlwNI	CAGNNNCTG	2 cut(s)	118, 176
AoxI	GGCC	1 cut(s)	59
ApeKI	GCWGC	2 cut(s)	268, 581
ApoI	RAATTY	1 cut(s)	445
AspLEI	GCGC	1 cut(s)	667
AspS9I	GGNCC	3 cut(s)	182, 189, 487
AsuHPI	GGTGA	4 cut(s)	160, 301, 318, 359
AvaII	GGWCC	3 cut(s)	182, 189, 487
BanI	GGYRCC	1 cut(s)	10
BbvI	GCAGC	2 cut(s)	280, 568
BccI	CCATC	4 cut(s)	130, 423, 570, 641
BciT130I	CCWGG	1 cut(s)	186
BcoDI	GTCTC	2 cut(s)	167, 170
BfaI	CTAG	1 cut(s)	513
BisI	GCNGC	3 cut(s)	269, 582, 688
BlsI	GCNGC	3 cut(s)	270, 583, 689
Bme1390I	CCNGG	1 cut(s)	186
Bme18I	GGWCC	3 cut(s)	182, 189, 487
BmeRI	GACNNNNNGTC	1 cut(s)	180
BmgT120I	GGNCC	3 cut(s)	182, 189, 487
BmiI	GGNNCC	3 cut(s)	12, 97, 190
BmrFI	CCNGG	1 cut(s)	186
BmsI	GCATC	1 cut(s)	332
BplI	GAGNNNNNCTC	2 cut(s)	203, 235
BpuEI	CTTGAG	2 cut(s)	418, 596
BsaI	GGTCTC	1 cut(s)	170
BsaJI	CCNNGG	2 cut(s)	185, 312
Bsc4I	CCNNNNNNNGG	1 cut(s)	496
Bse1I	ACTGG	1 cut(s)	490
BseBI	CCWGG	1 cut(s)	186
BseDI	CCNNGG	2 cut(s)	185, 312
BseGI	GGATG	6 cut(s)	238, 434, 460, 505, 562, 652
BseLI	CCNNNNNNNGG	1 cut(s)	496
BseMII	CTCAG	1 cut(s)	201
BseNI	ACTGG	1 cut(s)	490
BseXI	GCAGC	2 cut(s)	280, 568
BsgI	GTGCAG	1 cut(s)	287
Bsh1236I	CGCG	1 cut(s)	690
BshFI	GGCC	1 cut(s)	61
BshNI	GGYRCC	1 cut(s)	10
BslFI	GGGAC	3 cut(s)	202, 230, 627
BslI	CCNNNNNNNGG	1 cut(s)	496
BsmAI	GTCTC	2 cut(s)	167, 170
BsmFI	GGGAC	3 cut(s)	202, 230, 627
BsmI	GAATGC	1 cut(s)	667
BsnI	GGCC	1 cut(s)	61
Bso31I	GGTCTC	1 cut(s)	170
Bsp143I	GATC	4 cut(s)	114, 239, 301, 691
Bsp19I	CCATGG	1 cut(s)	312
BspACI	CCGC	2 cut(s)	107, 688
BspANI	GGCC	1 cut(s)	61
BspCNI	CTCAG	1 cut(s)	202
BspFNI	CGCG	1 cut(s)	690
BspLI	GGNNCC	3 cut(s)	12, 97, 190
BspPI	GGATC	2 cut(s)	109, 296
BspT107I	GGYRCC	1 cut(s)	10
BspTNI	GGTCTC	1 cut(s)	170
BsrI	ACTGG	1 cut(s)	490
BssECI	CCNNGG	2 cut(s)	185, 312
BssMI	GATC	4 cut(s)	114, 239, 301, 691
BssT1I	CCWWGG	1 cut(s)	312
Bst2UI	CCWGG	1 cut(s)	186
Bst4CI	ACNGT	3 cut(s)	19, 535, 550
Bst6I	CTCTTC	3 cut(s)	126, 228, 279
BstAPI	GCANNNNNTGC	2 cut(s)	265, 590
BstDEI	CTNAG	1 cut(s)	210
BstDSI	CCRYGG	1 cut(s)	312
BstF5I	GGATG	6 cut(s)	238, 434, 460, 505, 562, 652
BstFNI	CGCG	1 cut(s)	690
BstHHI	GCGC	1 cut(s)	667
BstKTI	GATC	4 cut(s)	117, 242, 304, 694
BstMAI	GTCTC	2 cut(s)	167, 170
BstMBI	GATC	4 cut(s)	114, 239, 301, 691
BstMWI	GCNNNNNNNGC	2 cut(s)	265, 590
BstNI	CCWGG	1 cut(s)	186
BstNSI	RCATGY	1 cut(s)	275
BstSCI	CCNGG	1 cut(s)	184
BstUI	CGCG	1 cut(s)	690
BstV1I	GCAGC	2 cut(s)	280, 568
BstX2I	RGATCY	2 cut(s)	114, 301
BstYI	RGATCY	2 cut(s)	114, 301
BsuRI	GGCC	1 cut(s)	61
BtgI	CCRYGG	1 cut(s)	312
BtsCI	GGATG	6 cut(s)	238, 434, 460, 505, 562, 652
CaiI	CAGNNNCTG	2 cut(s)	118, 176
CfoI	GCGC	1 cut(s)	667
Cfr13I	GGNCC	3 cut(s)	182, 189, 487
CviAII	CATG	5 cut(s)	28, 201, 272, 313, 599
CviJI	RGCY	9 cut(s)	61, 96, 247, 254, 416, 452, 561, 581, 651
CviKI_1	RGCY	9 cut(s)	61, 96, 247, 254, 416, 452, 561, 581, 651
DdeI	CTNAG	1 cut(s)	210
DpnI	GATC	4 cut(s)	116, 241, 303, 693
DpnII	GATC	4 cut(s)	114, 239, 301, 691
DraI	TTTAAA	1 cut(s)	421
DriI	GACNNNNNGTC	1 cut(s)	180
Eam1104I	CTCTTC	3 cut(s)	126, 228, 279
Eam1105I	GACNNNNNGTC	1 cut(s)	180
EarI	CTCTTC	3 cut(s)	126, 228, 279
Eco130I	CCWWGG	1 cut(s)	312
Eco31I	GGTCTC	1 cut(s)	170
Eco47I	GGWCC	3 cut(s)	182, 189, 487
Eco57I	CTGAAG	1 cut(s)	198
EcoO109I	RGGNCCY	1 cut(s)	189
EcoRII	CCWGG	1 cut(s)	184
EcoT14I	CCWWGG	1 cut(s)	312
ErhI	CCWWGG	1 cut(s)	312
FaeI	CATG	5 cut(s)	31, 204, 275, 316, 602
FalI	AAGNNNNNCTT	2 cut(s)	635, 667
FaqI	GGGAC	3 cut(s)	202, 230, 627
FatI	CATG	5 cut(s)	27, 200, 271, 312, 598
FauI	CCCGC	1 cut(s)	114
FauNDI	CATATG	1 cut(s)	696
Fnu4HI	GCNGC	3 cut(s)	269, 582, 688
FokI	GGATG	6 cut(s)	245, 441, 447, 512, 549, 659
Fsp4HI	GCNGC	3 cut(s)	269, 582, 688
FspBI	CTAG	1 cut(s)	513
FspI	TGCGCA	1 cut(s)	666
GlaI	GCGC	1 cut(s)	666
GluI	GCNGC	3 cut(s)	269, 582, 688
HaeIII	GGCC	1 cut(s)	61
HhaI	GCGC	1 cut(s)	667
Hin1II	CATG	5 cut(s)	31, 204, 275, 316, 602
Hin6I	GCGC	1 cut(s)	665
HinP1I	GCGC	1 cut(s)	665
HindIII	AAGCTT	2 cut(s)	245, 414
HinfI	GANTC	2 cut(s)	151, 218
HphI	GGTGA	4 cut(s)	160, 301, 318, 359
Hpy188I	TCNGA	2 cut(s)	232, 375
Hpy188III	TCNNGA	2 cut(s)	464, 575
HpyAV	CCTTC	5 cut(s)	51, 173, 237, 490, 637
HpyCH4III	ACNGT	3 cut(s)	19, 535, 550
HpyCH4V	TGCA	5 cut(s)	268, 323, 584, 593, 629
HpyF10VI	GCNNNNNNNGC	2 cut(s)	265, 590
HpyF3I	CTNAG	1 cut(s)	210
Hsp92II	CATG	5 cut(s)	31, 204, 275, 316, 602
HspAI	GCGC	1 cut(s)	665
Kzo9I	GATC	4 cut(s)	114, 239, 301, 691
LmnI	GCTCC	1 cut(s)	101
LpnPI	CCDG	8 cut(s)	75, 131, 171, 198, 222, 477, 503, 579
Lsp1109I	GCAGC	2 cut(s)	280, 568
LweI	GCATC	1 cut(s)	332
MaeI	CTAG	1 cut(s)	513
MaeIII	GTNAC	2 cut(s)	50, 307
MalI	GATC	4 cut(s)	116, 241, 303, 693
MboI	GATC	4 cut(s)	114, 239, 301, 691
MboII	GAAGA	4 cut(s)	92, 143, 215, 296
MfeI	CAATTG	1 cut(s)	585
MflI	RGATCY	2 cut(s)	114, 301
MluCI	AATT	5 cut(s)	351, 445, 585, 638, 675
MlyI	GAGTC	1 cut(s)	212
MmeI	TCCRAC	1 cut(s)	406
MnlI	CCTC	6 cut(s)	78, 356, 403, 532, 571, 711
MseI	TTAA	4 cut(s)	36, 249, 390, 420
MslI	CAYNNNNRTG	2 cut(s)	159, 374
MspR9I	CCNGG	1 cut(s)	186
MunI	CAATTG	1 cut(s)	585
Mva1269I	GAATGC	1 cut(s)	667
MvaI	CCWGG	1 cut(s)	186
MvnI	CGCG	1 cut(s)	690
MwoI	GCNNNNNNNGC	2 cut(s)	265, 590
NcoI	CCATGG	1 cut(s)	312
NdeI	CATATG	1 cut(s)	696
NdeII	GATC	4 cut(s)	114, 239, 301, 691
NlaIII	CATG	5 cut(s)	31, 204, 275, 316, 602
NlaIV	GGNNCC	3 cut(s)	12, 97, 190
NmeAIII	GCCGAG	1 cut(s)	235
NmuCI	GTSAC	2 cut(s)	50, 307
NsbI	TGCGCA	1 cut(s)	666
NspI	RCATGY	1 cut(s)	275
PctI	GAATGC	1 cut(s)	667
PfeI	GAWTC	1 cut(s)	151
PkrI	GCNGC	3 cut(s)	270, 583, 689
PleI	GAGTC	1 cut(s)	212
PpsI	GAGTC	1 cut(s)	212
PpuMI	RGGWCCY	1 cut(s)	189
Psp5II	RGGWCCY	1 cut(s)	189
Psp6I	CCWGG	1 cut(s)	184
PspGI	CCWGG	1 cut(s)	184
PspN4I	GGNNCC	3 cut(s)	12, 97, 190
PspPI	GGNCC	3 cut(s)	182, 189, 487
PspPPI	RGGWCCY	1 cut(s)	189
PstNI	CAGNNNCTG	2 cut(s)	118, 176
PsuI	RGATCY	2 cut(s)	114, 301
RseI	CAYNNNNRTG	2 cut(s)	159, 374
SaqAI	TTAA	4 cut(s)	36, 249, 390, 420
SatI	GCNGC	3 cut(s)	269, 582, 688
Sau3AI	GATC	4 cut(s)	114, 239, 301, 691
Sau96I	GGNCC	3 cut(s)	182, 189, 487
SchI	GAGTC	1 cut(s)	212
ScrFI	CCNGG	1 cut(s)	186
SfaNI	GCATC	1 cut(s)	332
SinI	GGWCC	3 cut(s)	182, 189, 487
SmiMI	CAYNNNNRTG	2 cut(s)	159, 374
SmlI	CTYRAG	2 cut(s)	397, 575
SmoI	CTYRAG	2 cut(s)	397, 575
Sse9I	AATT	5 cut(s)	351, 445, 585, 638, 675
SsiI	CCGC	2 cut(s)	107, 688
SspMI	CTAG	1 cut(s)	513
StyD4I	CCNGG	1 cut(s)	184
StyI	CCWWGG	1 cut(s)	312
TaaI	ACNGT	3 cut(s)	19, 535, 550
TaqI	TCGA	2 cut(s)	242, 709
TaqII	GACCGA	1 cut(s)	69
TasI	AATT	5 cut(s)	351, 445, 585, 638, 675
TauI	GCSGC	1 cut(s)	690
TfiI	GAWTC	1 cut(s)	151
Tru1I	TTAA	4 cut(s)	36, 249, 390, 420
Tru9I	TTAA	4 cut(s)	36, 249, 390, 420
TseFI	GTSAC	2 cut(s)	50, 307
TseI	GCWGC	2 cut(s)	268, 581
Tsp45I	GTSAC	2 cut(s)	50, 307
TspDTI	ATGAA	1 cut(s)	470
VpaK11BI	GGWCC	3 cut(s)	182, 189, 487
XapI	RAATTY	1 cut(s)	445
XceI	RCATGY	1 cut(s)	275
XspI	CTAG	1 cut(s)	513

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