Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0018051

Physical Location & Seq

Genomic Coordinates Reverse (-)

978127 .. 978837

Gene Structure 711 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG016000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 381 bp

ATGATGGTCGGAGAAAAGAAAATATATGCACTCATCGTGGAGGATGACCGAGTCACTCAGATGCGCCACCGTATGCTCTTAAAACGATTCAAATGTGAAAGTCATGTTGCGGGGAATGGAAAGGAAGCAATCGATCTCTTTCGCTCGGGAGCTAGTTTTGAAGTTGTTCTCATGGATATGGAGATGCCTGTTATGAATGGACTCGAGGCAACGAAGGAACTACGAGCAATGGGTTTTGAAGGCCTTATTGTTGGTGTCACTTCTCGTGATCTTGATTTTGCAAAACAAGTTTTCAATGAAGCGGGCGCAGATTCTTGTTATGAAAAGCCTCTAACTCCTGAATATGTTACCTCCATTCTTCAAGAAATAAACGATAACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000156 GO:0000160 GO:0003674 GO:0003824 GO:0004721 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006355 GO:0006464 GO:0006470 GO:0006793 GO:0006796 GO:0006807 GO:0007154 GO:0007165 GO:0008150 GO:0008152 GO:0009719 GO:0009725 GO:0009735 GO:0009736 GO:0009755 GO:0009889 GO:0009987 GO:0010033 GO:0010468 GO:0010556 GO:0016311 GO:0016787 GO:0016788 GO:0016791 GO:0019219 GO:0019222 GO:0019538 GO:0023052 GO:0031323 GO:0031326 GO:0032870 GO:0035556 GO:0036211 GO:0042221 GO:0042578 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044464 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0051716 GO:0060089 GO:0060255 GO:0065007 GO:0070887 GO:0071310 GO:0071368 GO:0071495 GO:0071704 GO:0080090 GO:0101006 GO:0140096 GO:1901564 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Response_reg

Protein Analysis

126

Amino Acids

14.21

Weight (kDa)

4.93

Isoelectric Point (pI)

27.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Response_reg	PF00072	11 - 119	8.5e-18	Response regulator receiver domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0018051)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g01360
rosa_chinensis	RchiOBHm_Chr3g0448931
rosa_laevigata	RLG00000025865
rosa_multiflora	Rmu_sc0003116.1_g000016
rosa_roxburghii	Rroxscaffold_6G00427110
rosa_rugosa	Rorug02G0617200
rosa_samantha	Rh3AG015600 Rh3BG015700 Rh3CG014700 Rh3DG016000
rosa_wichuraiana	Rw3G001160

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	110, 302
AgsI	TTSAA	5 cut(s)	91, 161, 239, 295, 362
AluBI	AGCT	1 cut(s)	152
AluI	AGCT	1 cut(s)	152
Ama87I	CYCGRG	2 cut(s)	145, 203
AoxI	GGCC	1 cut(s)	241
Asp700I	GAANNNNTTC	1 cut(s)	165
AspLEI	GCGC	2 cut(s)	66, 308
AvaI	CYCGRG	2 cut(s)	145, 203
BauI	CACGAG	1 cut(s)	264
BfaI	CTAG	2 cut(s)	153, 379
BmeT110I	CYCGRG	2 cut(s)	145, 203
BmsI	GCATC	2 cut(s)	51, 174
Bsa29I	ATCGAT	1 cut(s)	132
Bse3DI	GCAATG	1 cut(s)	234
BseCI	ATCGAT	1 cut(s)	132
BseGI	GGATG	1 cut(s)	49
BseMI	GCAATG	1 cut(s)	234
BseMII	CTCAG	1 cut(s)	71
BshFI	GGCC	1 cut(s)	243
BshVI	ATCGAT	1 cut(s)	132
BsiHKCI	CYCGRG	2 cut(s)	145, 203
BsnI	GGCC	1 cut(s)	243
BsoBI	CYCGRG	2 cut(s)	145, 203
Bsp143I	GATC	2 cut(s)	133, 268
BspACI	CCGC	2 cut(s)	110, 302
BspANI	GGCC	1 cut(s)	243
BspCNI	CTCAG	1 cut(s)	70
BspDI	ATCGAT	1 cut(s)	132
BsrDI	GCAATG	1 cut(s)	234
BssMI	GATC	2 cut(s)	133, 268
BssSI	CACGAG	1 cut(s)	264
Bst2BI	CACGAG	1 cut(s)	264
Bst4CI	ACNGT	1 cut(s)	71
BstC8I	GCNNGC	1 cut(s)	304
BstDEI	CTNAG	1 cut(s)	57
BstF5I	GGATG	1 cut(s)	49
BstHHI	GCGC	2 cut(s)	66, 308
BstKTI	GATC	2 cut(s)	136, 271
BstMBI	GATC	2 cut(s)	133, 268
Bsu15I	ATCGAT	1 cut(s)	132
BsuRI	GGCC	1 cut(s)	243
BsuTUI	ATCGAT	1 cut(s)	132
BtsCI	GGATG	1 cut(s)	49
Cac8I	GCNNGC	1 cut(s)	304
CfoI	GCGC	2 cut(s)	66, 308
ClaI	ATCGAT	1 cut(s)	132
CviAII	CATG	2 cut(s)	104, 172
CviJI	RGCY	3 cut(s)	152, 243, 328
CviKI_1	RGCY	3 cut(s)	152, 243, 328
DdeI	CTNAG	1 cut(s)	57
DpnI	GATC	2 cut(s)	135, 270
DpnII	GATC	2 cut(s)	133, 268
Eco147I	AGGCCT	1 cut(s)	243
Eco88I	CYCGRG	2 cut(s)	145, 203
FaeI	CATG	2 cut(s)	107, 175
FaiI	YATR	9 cut(s)	25, 27, 74, 105, 173, 179, 194, 321, 345
FatI	CATG	2 cut(s)	103, 171
FauI	CCCGC	2 cut(s)	103, 295
FokI	GGATG	1 cut(s)	56
FspBI	CTAG	2 cut(s)	153, 379
GlaI	GCGC	2 cut(s)	65, 307
HaeIII	GGCC	1 cut(s)	243
HhaI	GCGC	2 cut(s)	66, 308
Hin1II	CATG	2 cut(s)	107, 175
Hin6I	GCGC	2 cut(s)	64, 306
HinP1I	GCGC	2 cut(s)	64, 306
HinfI	GANTC	4 cut(s)	51, 87, 201, 311
Hpy188I	TCNGA	2 cut(s)	11, 60
Hpy188III	TCNNGA	5 cut(s)	147, 266, 272, 338, 362
HpyAV	CCTTC	2 cut(s)	208, 233
HpyCH4III	ACNGT	1 cut(s)	71
HpyCH4V	TGCA	2 cut(s)	29, 281
HpyF3I	CTNAG	1 cut(s)	57
Hsp92II	CATG	2 cut(s)	107, 175
HspAI	GCGC	2 cut(s)	64, 306
Kzo9I	GATC	2 cut(s)	133, 268
LmnI	GCTCC	1 cut(s)	149
LpnPI	CCDG	2 cut(s)	201, 351
LweI	GCATC	2 cut(s)	51, 174
MaeI	CTAG	2 cut(s)	153, 379
MaeIII	GTNAC	3 cut(s)	52, 256, 346
MalI	GATC	2 cut(s)	135, 270
MboI	GATC	2 cut(s)	133, 268
MboII	GAAGA	1 cut(s)	350
MlyI	GAGTC	2 cut(s)	60, 195
MnlI	CCTC	4 cut(s)	34, 199, 339, 361
MroXI	GAANNNNTTC	1 cut(s)	165
MseI	TTAA	1 cut(s)	80
MslI	CAYNNNNRTG	2 cut(s)	59, 176
NdeII	GATC	2 cut(s)	133, 268
NlaIII	CATG	2 cut(s)	107, 175
NmuCI	GTSAC	2 cut(s)	52, 256
PaeR7I	CTCGAG	1 cut(s)	203
PceI	AGGCCT	1 cut(s)	243
PdmI	GAANNNNTTC	1 cut(s)	165
PfeI	GAWTC	2 cut(s)	87, 311
PflFI	GACNNNGTC	1 cut(s)	50
PleI	GAGTC	2 cut(s)	59, 195
PpsI	GAGTC	2 cut(s)	59, 195
PspXI	VCTCGAGB	1 cut(s)	203
PsyI	GACNNNGTC	1 cut(s)	50
RseI	CAYNNNNRTG	2 cut(s)	59, 176
SaqAI	TTAA	1 cut(s)	80
Sau3AI	GATC	2 cut(s)	133, 268
SchI	GAGTC	2 cut(s)	60, 195
SetI	ASST	2 cut(s)	154, 353
SfaNI	GCATC	2 cut(s)	51, 174
Sfr274I	CTCGAG	1 cut(s)	203
SlaI	CTCGAG	1 cut(s)	203
SmiMI	CAYNNNNRTG	2 cut(s)	59, 176
SmlI	CTYRAG	1 cut(s)	203
SmoI	CTYRAG	1 cut(s)	203
SseBI	AGGCCT	1 cut(s)	243
SsiI	CCGC	2 cut(s)	110, 302
SspMI	CTAG	2 cut(s)	153, 379
StuI	AGGCCT	1 cut(s)	243
TaaI	ACNGT	1 cut(s)	71
TaqI	TCGA	2 cut(s)	132, 204
TaqII	GACCGA	1 cut(s)	63
TfiI	GAWTC	2 cut(s)	87, 311
Tru1I	TTAA	1 cut(s)	80
Tru9I	TTAA	1 cut(s)	80
TseFI	GTSAC	2 cut(s)	52, 256
Tsp45I	GTSAC	2 cut(s)	52, 256
TspDTI	ATGAA	3 cut(s)	209, 312, 336
Tth111I	GACNNNGTC	1 cut(s)	50
XhoI	CTCGAG	1 cut(s)	203
XmnI	GAANNNNTTC	1 cut(s)	165
XspI	CTAG	2 cut(s)	153, 379

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