Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0004028

Physical Location & Seq

Genomic Coordinates Reverse (-)

38372500 .. 38372823

Gene Structure 324 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG304300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 324 bp

ATGGTCACCGCTAACCGCTTTTGGTCCCAAATCTTTGGGGTTGCTTTTTCCAATAAACGTTGGTTACATTTCTTTATGTTATTTGTACCAGTAACCGGTTTATGGATAAGTGCTCTTAGAGTAGTCGGTCTGGCCCTGAACCTACGTGCCTATGACTTCGTTTCTCAGGAAATCCGTGCAGCGGAAGATCCTGAATTTGAGACTTTCTACACCAAAAATATTCTCTTAAACGAAGGTATTCGTGCTTGGATGGCGGCTCAAGATCAGCCTCATGAAAACCTTATATTCCCTGAGGAGGTTCTACCCCGTGGAAACGCTCTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009532 GO:0009534 GO:0009535 GO:0009536 GO:0009570 GO:0009579 GO:0010287 GO:0016020 GO:0031976 GO:0031984 GO:0034357 GO:0042651 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044464 GO:0055035

KEGG Pathways

Metabolic & Signaling

ko00195 ko01100 map00195 map01100

Pfam Domains

Protein Families

Photo_RC

Protein Analysis

107

Amino Acids

12.4

Weight (kDa)

5.6

Isoelectric Point (pI)

60.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Photo_RC	PF00124	4 - 72	3.9e-08	Photosynthetic reaction centre protein

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)

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0004028)

Species	Orthologous Gene IDs
arabidopsis_thaliana	ATCG00270
malus_domestica	MD08G1154700.v1.1 MD09G1235700.v1.1
rosa_chinensis	RchiOBHm_Chr6g0258011 RchiOBHm_CPg0502321 RchiOBHm_CPg0502341 RchiOBHm_MTg0498861
rosa_laevigata	RLG00000000046 RLG00000000114 RLG00000000115 RLG00000000229 RLG00000000230 RLG00000000245 RLG00000000265 RLG00000000285 RLG00000000286 RLG00000000298 RLG00000000319 RLG00000000320 RLG00000000336 RLG00000000341 RLG00000000342 RLG00000001029
rosa_multiflora	Rmu_sc0000861.1_g000070 Rmu_sc0009742.1_g000009
rosa_roxburghii	Rroxscaffold_2G00119060 Rroxscaffold_2G00119340 Rroxscaffold_4G00315040
rosa_rugosa	Rorug06G0354500.1 RorugMtG0002000
rosa_samantha	Rh1BG017300 Rh5BG294500 Rh5DG304300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	4 cut(s)	9, 16, 182, 254
AclI	AACGTT	1 cut(s)	58
AclWI	GGATC	1 cut(s)	182
AcsI	RAATTY	1 cut(s)	194
AfaI	GTAC	1 cut(s)	87
AfiI	CCNNNNNNNGG	4 cut(s)	95, 102, 181, 295
AgeI	ACCGGT	1 cut(s)	95
Alw21I	GWGCWC	1 cut(s)	115
Alw26I	GTCTC	1 cut(s)	194
AlwI	GGATC	1 cut(s)	182
AoxI	GGCC	1 cut(s)	132
ApeKI	GCWGC	1 cut(s)	179
ApoI	RAATTY	1 cut(s)	194
AsiGI	ACCGGT	1 cut(s)	95
Asp700I	GAANNNNTTC	1 cut(s)	237
AspS9I	GGNCC	2 cut(s)	24, 133
AvaII	GGWCC	1 cut(s)	24
AxyI	CCTNAGG	1 cut(s)	291
Bbv12I	GWGCWC	1 cut(s)	115
BbvI	GCAGC	1 cut(s)	191
BccI	CCATC	1 cut(s)	244
BcoDI	GTCTC	1 cut(s)	194
BisI	GCNGC	2 cut(s)	180, 255
BlsI	GCNGC	2 cut(s)	181, 256
Bme18I	GGWCC	1 cut(s)	24
BmgT120I	GGNCC	2 cut(s)	24, 133
BmiI	GGNNCC	1 cut(s)	26
BpuEI	CTTGAG	1 cut(s)	243
BsaAI	YACGTR	1 cut(s)	146
BsaJI	CCNNGG	1 cut(s)	307
BsaWI	WCCGGW	1 cut(s)	95
Bsc4I	CCNNNNNNNGG	4 cut(s)	95, 102, 181, 295
Bse118I	RCCGGY	1 cut(s)	95
Bse1I	ACTGG	1 cut(s)	89
Bse21I	CCTNAGG	1 cut(s)	291
BseDI	CCNNGG	1 cut(s)	307
BseGI	GGATG	1 cut(s)	255
BseLI	CCNNNNNNNGG	4 cut(s)	95, 102, 181, 295
BseMII	CTCAG	2 cut(s)	179, 282
BseNI	ACTGG	1 cut(s)	89
BseRI	GAGGAG	1 cut(s)	308
BseXI	GCAGC	1 cut(s)	191
BsgI	GTGCAG	1 cut(s)	198
BshFI	GGCC	1 cut(s)	134
BshTI	ACCGGT	1 cut(s)	95
BsiHKAI	GWGCWC	1 cut(s)	115
BsiSI	CCGG	1 cut(s)	96
BslFI	GGGAC	1 cut(s)	10
BslI	CCNNNNNNNGG	4 cut(s)	95, 102, 181, 295
BsmAI	GTCTC	1 cut(s)	194
BsmFI	GGGAC	1 cut(s)	10
BsnI	GGCC	1 cut(s)	134
Bsp1286I	GDGCHC	1 cut(s)	115
Bsp143I	GATC	2 cut(s)	187, 262
BspACI	CCGC	4 cut(s)	9, 16, 182, 254
BspANI	GGCC	1 cut(s)	134
BspCNI	CTCAG	2 cut(s)	178, 283
BspHI	TCATGA	1 cut(s)	271
BspLI	GGNNCC	1 cut(s)	26
BspPI	GGATC	1 cut(s)	182
BsrFI	RCCGGY	1 cut(s)	95
BsrI	ACTGG	1 cut(s)	89
BssAI	RCCGGY	1 cut(s)	95
BssECI	CCNNGG	1 cut(s)	307
BssMI	GATC	2 cut(s)	187, 262
BstBAI	YACGTR	1 cut(s)	146
BstDEI	CTNAG	3 cut(s)	116, 165, 291
BstDSI	CCRYGG	1 cut(s)	307
BstEII	GGTNACC	1 cut(s)	4
BstF5I	GGATG	1 cut(s)	255
BstKTI	GATC	2 cut(s)	190, 265
BstMAI	GTCTC	1 cut(s)	194
BstMBI	GATC	2 cut(s)	187, 262
BstMWI	GCNNNNNNNGC	1 cut(s)	251
BstPI	GGTNACC	1 cut(s)	4
BstV1I	GCAGC	1 cut(s)	191
BstX2I	RGATCY	1 cut(s)	187
BstXI	CCANNNNNNTGG	1 cut(s)	35
BstYI	RGATCY	1 cut(s)	187
Bsu36I	CCTNAGG	1 cut(s)	291
BsuRI	GGCC	1 cut(s)	134
BtgI	CCRYGG	1 cut(s)	307
BtsCI	GGATG	1 cut(s)	255
CciI	TCATGA	1 cut(s)	271
Cfr10I	RCCGGY	1 cut(s)	95
Cfr13I	GGNCC	2 cut(s)	24, 133
Csp6I	GTAC	1 cut(s)	86
CspAI	ACCGGT	1 cut(s)	95
CviAII	CATG	1 cut(s)	272
CviJI	RGCY	3 cut(s)	134, 257, 268
CviKI_1	RGCY	3 cut(s)	134, 257, 268
CviQI	GTAC	1 cut(s)	86
DdeI	CTNAG	3 cut(s)	116, 165, 291
DpnI	GATC	2 cut(s)	189, 264
DpnII	GATC	2 cut(s)	187, 262
Eco47I	GGWCC	1 cut(s)	24
Eco81I	CCTNAGG	1 cut(s)	291
Eco91I	GGTNACC	1 cut(s)	4
EcoO65I	GGTNACC	1 cut(s)	4
FaeI	CATG	1 cut(s)	275
FaiI	YATR	5 cut(s)	77, 103, 153, 273, 284
FaqI	GGGAC	1 cut(s)	10
FatI	CATG	1 cut(s)	271
Fnu4HI	GCNGC	2 cut(s)	180, 255
FokI	GGATG	1 cut(s)	262
Fsp4HI	GCNGC	2 cut(s)	180, 255
GluI	GCNGC	2 cut(s)	180, 255
HaeIII	GGCC	1 cut(s)	134
HapII	CCGG	1 cut(s)	96
Hin1II	CATG	1 cut(s)	275
HpaII	CCGG	1 cut(s)	96
Hpy188III	TCNNGA	4 cut(s)	167, 191, 260, 272
HpyAV	CCTTC	1 cut(s)	227
HpyCH4IV	ACGT	2 cut(s)	58, 145
HpyCH4V	TGCA	1 cut(s)	179
HpyF10VI	GCNNNNNNNGC	1 cut(s)	251
HpyF3I	CTNAG	3 cut(s)	116, 165, 291
HpySE526I	ACGT	2 cut(s)	58, 145
Hsp92II	CATG	1 cut(s)	275
Kzo9I	GATC	2 cut(s)	187, 262
LpnPI	CCDG	7 cut(s)	102, 109, 116, 149, 152, 204, 303
Lsp1109I	GCAGC	1 cut(s)	191
MaeII	ACGT	2 cut(s)	58, 145
MaeIII	GTNAC	3 cut(s)	4, 63, 91
MalI	GATC	2 cut(s)	189, 264
MboI	GATC	2 cut(s)	187, 262
MboII	GAAGA	1 cut(s)	197
MflI	RGATCY	1 cut(s)	187
MhlI	GDGCHC	1 cut(s)	115
MluCI	AATT	1 cut(s)	194
MnlI	CCTC	3 cut(s)	279, 286, 289
MroXI	GAANNNNTTC	1 cut(s)	237
MseI	TTAA	2 cut(s)	227, 322
MspA1I	CMGCKG	1 cut(s)	182
MspI	CCGG	1 cut(s)	96
MwoI	GCNNNNNNNGC	1 cut(s)	251
NdeII	GATC	2 cut(s)	187, 262
NlaIII	CATG	1 cut(s)	275
NlaIV	GGNNCC	1 cut(s)	26
NmuCI	GTSAC	1 cut(s)	4
PagI	TCATGA	1 cut(s)	271
PdmI	GAANNNNTTC	1 cut(s)	237
PinAI	ACCGGT	1 cut(s)	95
PkrI	GCNGC	2 cut(s)	181, 256
Ppu21I	YACGTR	1 cut(s)	146
Psp1406I	AACGTT	1 cut(s)	58
PspEI	GGTNACC	1 cut(s)	4
PspN4I	GGNNCC	1 cut(s)	26
PspPI	GGNCC	2 cut(s)	24, 133
PsuI	RGATCY	1 cut(s)	187
RsaI	GTAC	1 cut(s)	87
RsaNI	GTAC	1 cut(s)	86
SaqAI	TTAA	2 cut(s)	227, 322
SatI	GCNGC	2 cut(s)	180, 255
Sau3AI	GATC	2 cut(s)	187, 262
Sau96I	GGNCC	2 cut(s)	24, 133
SduI	GDGCHC	1 cut(s)	115
SetI	ASST	6 cut(s)	61, 144, 148, 238, 282, 300
SinI	GGWCC	1 cut(s)	24
SmlI	CTYRAG	1 cut(s)	258
SmoI	CTYRAG	1 cut(s)	258
Sse9I	AATT	1 cut(s)	194
SsiI	CCGC	4 cut(s)	9, 16, 182, 254
SspI	AATATT	1 cut(s)	220
TaiI	ACGT	2 cut(s)	61, 148
TaqII	GACCGA	1 cut(s)	116
TasI	AATT	1 cut(s)	194
TauI	GCSGC	1 cut(s)	257
Tru1I	TTAA	2 cut(s)	227, 322
Tru9I	TTAA	2 cut(s)	227, 322
TseFI	GTSAC	1 cut(s)	4
TseI	GCWGC	1 cut(s)	179
Tsp45I	GTSAC	1 cut(s)	4
TspDTI	ATGAA	1 cut(s)	288
TspGWI	ACGGA	1 cut(s)	164
VpaK11BI	GGWCC	1 cut(s)	24
XapI	RAATTY	1 cut(s)	194
XmnI	GAANNNNTTC	1 cut(s)	237

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