Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0020436

Physical Location & Seq

Genomic Coordinates Forward (+)

20151393 .. 20152954

Gene Structure 1562 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG117400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 468 bp

ATGGCAAGCGTAGACATTATACCAGCAGCTATGTGGAAAGACTTGGAGAGGGTGTCAGAAGCACCAGAAAGCACGGCTAGAAGTCTGAAAGGCCCATGGTTGTTGTTTGTGTCTAAGAATGGATATGGAAAGCGTGTTTCCTTGAGCAGATTTCACTCTTCCCGTCTGAACAGAGTGGGTCTGATAGGTTACAAGTTTTCCGTGGAGGACCGATTGGCAGCAGTTTTTGTGGTTGGATTCTCTGTGGCAGAGGATGGTGAAAGTGATGAACAAGTGGTCCTGGTAAGCCAAAGTGGTACTGTGAATAGAATTAAGGTGCGGGATATCTCAATACAGTCTCGCTATGCAAGGGGTGTTATTTTGATGCGACTCGATCTTGCTGGAAAGATTCAGTCTGCTTCATTAATATCAGCAACAGATGATGTGCCAGAGATTGAAGTTGATGATGAAGCTGCAATTCATGGTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005737 GO:0005739 GO:0009295 GO:0009507 GO:0009536 GO:0016592 GO:0031974 GO:0031981 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0070013

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DNA_gyraseA_C DNA_topoisoIV

Protein Analysis

155

Amino Acids

16.94

Weight (kDa)

5.72

Isoelectric Point (pI)

38.2

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_gyraseA_C	PF03989	33 - 78	6.7e-06	DNA gyrase C-terminal domain, beta-propeller
DNA_gyraseA_C	PF03989	91 - 136	1.9e-07	DNA gyrase C-terminal domain, beta-propeller

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0020436)

Species	Orthologous Gene IDs
pyrus_communis	pycom07g04210
rosa_chinensis	RchiOBHm_Chr1g0331311
rosa_multiflora	Rmu_sc0005956.1_g000014 Rmu_sc0005956.1_g000017 Rmu_sc0011261.1_g000004
rosa_samantha	Rh1AG117400

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	12
AciI	CCGC	1 cut(s)	319
AfaI	GTAC	1 cut(s)	298
AgsI	TTSAA	1 cut(s)	437
AjnI	CCWGG	1 cut(s)	279
AloI	GAACNNNNNNTCC	2 cut(s)	261, 293
AluBI	AGCT	2 cut(s)	29, 452
AluI	AGCT	2 cut(s)	29, 452
Alw26I	GTCTC	1 cut(s)	342
AoxI	GGCC	1 cut(s)	91
ApeKI	GCWGC	3 cut(s)	26, 218, 452
AseI	ATTAAT	1 cut(s)	404
AspS9I	GGNCC	3 cut(s)	92, 208, 277
AsuHPI	GGTGA	1 cut(s)	269
AvaII	GGWCC	2 cut(s)	208, 277
BbvI	GCAGC	3 cut(s)	38, 230, 439
BccI	CCATC	1 cut(s)	248
BceAI	ACGGC	1 cut(s)	90
BciT130I	CCWGG	1 cut(s)	281
BcoDI	GTCTC	1 cut(s)	342
BfaI	CTAG	1 cut(s)	78
BisI	GCNGC	3 cut(s)	27, 219, 453
BlsI	GCNGC	3 cut(s)	28, 220, 454
Bme1390I	CCNGG	1 cut(s)	281
Bme18I	GGWCC	2 cut(s)	208, 277
BmgT120I	GGNCC	3 cut(s)	92, 208, 277
BmrFI	CCNGG	1 cut(s)	281
BmsI	GCATC	1 cut(s)	354
BpuEI	CTTGAG	1 cut(s)	163
BsaJI	CCNNGG	2 cut(s)	95, 201
BsaXI	ACNNNNNCTCC	2 cut(s)	38, 68
BseBI	CCWGG	1 cut(s)	281
BseDI	CCNNGG	2 cut(s)	95, 201
BseGI	GGATG	1 cut(s)	259
BseXI	GCAGC	3 cut(s)	38, 230, 439
BshFI	GGCC	1 cut(s)	93
BsmAI	GTCTC	1 cut(s)	342
BsnI	GGCC	1 cut(s)	93
Bsp143I	GATC	1 cut(s)	373
Bsp19I	CCATGG	1 cut(s)	95
BspACI	CCGC	1 cut(s)	319
BspANI	GGCC	1 cut(s)	93
BssECI	CCNNGG	2 cut(s)	95, 201
BssMI	GATC	1 cut(s)	373
BssT1I	CCWWGG	1 cut(s)	95
Bst2UI	CCWGG	1 cut(s)	281
Bst4CI	ACNGT	2 cut(s)	301, 336
Bst6I	CTCTTC	1 cut(s)	163
BstC8I	GCNNGC	1 cut(s)	7
BstDEI	CTNAG	1 cut(s)	114
BstDSI	CCRYGG	2 cut(s)	95, 201
BstF5I	GGATG	1 cut(s)	259
BstKTI	GATC	1 cut(s)	376
BstMAI	GTCTC	1 cut(s)	342
BstMBI	GATC	1 cut(s)	373
BstNI	CCWGG	1 cut(s)	281
BstSCI	CCNGG	1 cut(s)	279
BstV1I	GCAGC	3 cut(s)	38, 230, 439
BsuRI	GGCC	1 cut(s)	93
BtgI	CCRYGG	2 cut(s)	95, 201
BtsCI	GGATG	1 cut(s)	259
Cac8I	GCNNGC	1 cut(s)	7
Cfr13I	GGNCC	3 cut(s)	92, 208, 277
Csp6I	GTAC	1 cut(s)	297
CviAII	CATG	2 cut(s)	96, 461
CviJI	RGCY	5 cut(s)	29, 77, 93, 288, 452
CviKI_1	RGCY	5 cut(s)	29, 77, 93, 288, 452
CviQI	GTAC	1 cut(s)	297
DdeI	CTNAG	1 cut(s)	114
DpnI	GATC	1 cut(s)	375
DpnII	GATC	1 cut(s)	373
Eam1104I	CTCTTC	1 cut(s)	163
EarI	CTCTTC	1 cut(s)	163
Eco130I	CCWWGG	1 cut(s)	95
Eco32I	GATATC	1 cut(s)	325
Eco47I	GGWCC	2 cut(s)	208, 277
EcoRII	CCWGG	1 cut(s)	279
EcoRV	GATATC	1 cut(s)	325
EcoT14I	CCWWGG	1 cut(s)	95
ErhI	CCWWGG	1 cut(s)	95
FaeI	CATG	2 cut(s)	99, 464
FaiI	YATR	6 cut(s)	20, 32, 97, 126, 345, 462
FatI	CATG	2 cut(s)	95, 460
FauI	CCCGC	1 cut(s)	312
FblI	GTMKAC	1 cut(s)	12
Fnu4HI	GCNGC	3 cut(s)	27, 219, 453
FokI	GGATG	1 cut(s)	266
Fsp4HI	GCNGC	3 cut(s)	27, 219, 453
FspBI	CTAG	1 cut(s)	78
GluI	GCNGC	3 cut(s)	27, 219, 453
HaeIII	GGCC	1 cut(s)	93
Hin1II	CATG	2 cut(s)	99, 464
HinfI	GANTC	3 cut(s)	237, 369, 388
HphI	GGTGA	1 cut(s)	269
Hpy166II	GTNNAC	1 cut(s)	13
Hpy188I	TCNGA	4 cut(s)	58, 87, 168, 183
Hpy8I	GTNNAC	1 cut(s)	13
HpyCH4III	ACNGT	2 cut(s)	301, 336
HpyCH4V	TGCA	2 cut(s)	347, 455
HpyF3I	CTNAG	1 cut(s)	114
Hsp92II	CATG	2 cut(s)	99, 464
Kzo9I	GATC	1 cut(s)	373
LpnPI	CCDG	6 cut(s)	36, 78, 266, 293, 366, 441
Lsp1109I	GCAGC	3 cut(s)	38, 230, 439
LweI	GCATC	1 cut(s)	354
MaeI	CTAG	1 cut(s)	78
MaeIII	GTNAC	1 cut(s)	188
MalI	GATC	1 cut(s)	375
MboI	GATC	1 cut(s)	373
MboII	GAAGA	1 cut(s)	150
MluCI	AATT	2 cut(s)	309, 456
MlyI	GAGTC	1 cut(s)	363
MmeI	TCCRAC	1 cut(s)	214
MnlI	CCTC	3 cut(s)	42, 199, 244
MseI	TTAA	3 cut(s)	312, 404, 466
MspR9I	CCNGG	1 cut(s)	281
MvaI	CCWGG	1 cut(s)	281
NcoI	CCATGG	1 cut(s)	95
NdeII	GATC	1 cut(s)	373
NlaIII	CATG	2 cut(s)	99, 464
PfeI	GAWTC	2 cut(s)	237, 388
PkrI	GCNGC	3 cut(s)	28, 220, 454
PleI	GAGTC	1 cut(s)	363
PpsI	GAGTC	1 cut(s)	363
PshBI	ATTAAT	1 cut(s)	404
Psp6I	CCWGG	1 cut(s)	279
PspGI	CCWGG	1 cut(s)	279
PspPI	GGNCC	3 cut(s)	92, 208, 277
RsaI	GTAC	1 cut(s)	298
RsaNI	GTAC	1 cut(s)	297
SaqAI	TTAA	3 cut(s)	312, 404, 466
SatI	GCNGC	3 cut(s)	27, 219, 453
Sau3AI	GATC	1 cut(s)	373
Sau96I	GGNCC	3 cut(s)	92, 208, 277
SchI	GAGTC	1 cut(s)	363
ScrFI	CCNGG	1 cut(s)	281
SetI	ASST	4 cut(s)	31, 190, 318, 454
SfaNI	GCATC	1 cut(s)	354
SinI	GGWCC	2 cut(s)	208, 277
SmlI	CTYRAG	1 cut(s)	142
SmoI	CTYRAG	1 cut(s)	142
Sse9I	AATT	2 cut(s)	309, 456
SsiI	CCGC	1 cut(s)	319
SspMI	CTAG	1 cut(s)	78
StyD4I	CCNGG	1 cut(s)	279
StyI	CCWWGG	1 cut(s)	95
TaaI	ACNGT	2 cut(s)	301, 336
TaqI	TCGA	1 cut(s)	372
TaqII	GACCGA	1 cut(s)	225
TasI	AATT	2 cut(s)	309, 456
TfiI	GAWTC	2 cut(s)	237, 388
Tru1I	TTAA	3 cut(s)	312, 404, 466
Tru9I	TTAA	3 cut(s)	312, 404, 466
TseI	GCWGC	3 cut(s)	26, 218, 452
TspDTI	ATGAA	4 cut(s)	282, 390, 449, 462
TspGWI	ACGGA	1 cut(s)	190
VpaK11BI	GGWCC	2 cut(s)	208, 277
VspI	ATTAAT	1 cut(s)	404
XcmI	CCANNNNNNNNNTGG	1 cut(s)	30
XmiI	GTMKAC	1 cut(s)	12
XspI	CTAG	1 cut(s)	78

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