Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0009695

Physical Location & Seq

Genomic Coordinates Reverse (-)

6174304 .. 6177170

Gene Structure 2867 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG079200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 390 bp

ATGCCATCCCAAGAACAAGAAGCATTGGAAGCGTTCAAGGATGCGCAAGAAATGCACATGTATGCAGTGTGGGCTCTTCCACCAACACATGTGCTCCCACGAATCAAGACGGTGATGGAGGGCCTACGAGCCGAATTCGGTGGTCCTGAAATCGAACCTCACATCACCGTTTTGGGATCCATGTTAAGGACGGAAGAAGATGCGATCCAACAATTCAAAGATGCTTGTAACATTATCACCCGCTTTGAATGTAACGTCGATCACATTGAAACTAGTCGGTTTTTTACCAGTGTGTCTCCCTCATCATTGATCCAATCGAAGATTTATGGGGTGAAATCGGACGCTTTGTTAGGATCTTCGAACACACTTTCCCTTGTTGTCCACATTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000394 GO:0003674 GO:0003824 GO:0004112 GO:0004113 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006388 GO:0006396 GO:0006399 GO:0006725 GO:0006753 GO:0006793 GO:0006796 GO:0006807 GO:0008033 GO:0008081 GO:0008150 GO:0008152 GO:0008380 GO:0009117 GO:0009187 GO:0009987 GO:0010467 GO:0016070 GO:0016787 GO:0016788 GO:0019637 GO:0034470 GO:0034641 GO:0034660 GO:0042578 GO:0043170 GO:0044237 GO:0044238 GO:0044281 GO:0044424 GO:0044464 GO:0046483 GO:0055086 GO:0071704 GO:0090304 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

2_5_RNA_ligase2 CPDase

Protein Analysis

129

Amino Acids

14.4

Weight (kDa)

5.11

Isoelectric Point (pI)

81.51

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0009695)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g07310 FvH4_6g07320
rosa_chinensis	RchiOBHm_Chr3g0456921 RchiOBHm_Chr3g0456931
rosa_laevigata	RLG00000025263 RLG00000025264
rosa_multiflora	Rmu_co8272005.1_g000001 Rmu_sc0000133.1_g000001 Rmu_sc0000133.1_g000002 Rmu_sc0016008.1_g000001
rosa_roxburghii	Rroxscaffold_6G00422360
rosa_rugosa	Rorug03G0017100 Rorug03G0017200 Rorug03G0017300 Rorug03G0017400
rosa_samantha	Rh3AG077200 Rh3AG077400 Rh3BG079200 Rh3BG079300 Rh3CG079100 Rh3CG079200 Rh3DG080900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	45
AciI	CCGC	1 cut(s)	241
AclWI	GGATC	5 cut(s)	171, 184, 199, 304, 361
AcsI	RAATTY	1 cut(s)	134
AfiI	CCNNNNNNNGG	1 cut(s)	186
AflIII	ACRYGT	2 cut(s)	57, 88
AgsI	TTSAA	4 cut(s)	37, 217, 248, 269
AhlI	ACTAGT	1 cut(s)	272
AloI	GAACNNNNNNTCC	2 cut(s)	353, 385
Alw21I	GWGCWC	1 cut(s)	96
Alw26I	GTCTC	1 cut(s)	300
AlwI	GGATC	5 cut(s)	171, 184, 199, 304, 361
AoxI	GGCC	1 cut(s)	121
ApoI	RAATTY	1 cut(s)	134
AspLEI	GCGC	1 cut(s)	46
AspS9I	GGNCC	2 cut(s)	121, 143
AsuHPI	GGTGA	4 cut(s)	124, 157, 229, 343
AsuII	TTCGAA	1 cut(s)	359
AvaII	GGWCC	1 cut(s)	143
BamHI	GGATCC	1 cut(s)	176
BanII	GRGCYC	1 cut(s)	76
Bbv12I	GWGCWC	1 cut(s)	96
BccI	CCATC	2 cut(s)	13, 109
BcoDI	GTCTC	1 cut(s)	300
BcuI	ACTAGT	1 cut(s)	272
BfaI	CTAG	1 cut(s)	273
Bme18I	GGWCC	1 cut(s)	143
BmgT120I	GGNCC	2 cut(s)	121, 143
BmiI	GGNNCC	1 cut(s)	178
BmsI	GCATC	3 cut(s)	31, 190, 211
Bpu14I	TTCGAA	1 cut(s)	359
BsaXI	ACNNNNNCTCC	2 cut(s)	78, 108
Bsc4I	CCNNNNNNNGG	1 cut(s)	186
Bse1I	ACTGG	1 cut(s)	288
BseGI	GGATG	2 cut(s)	5, 46
BseLI	CCNNNNNNNGG	1 cut(s)	186
BseNI	ACTGG	1 cut(s)	288
BshFI	GGCC	1 cut(s)	123
BsiHKAI	GWGCWC	1 cut(s)	96
BslI	CCNNNNNNNGG	1 cut(s)	186
BsmAI	GTCTC	1 cut(s)	300
BsnI	GGCC	1 cut(s)	123
Bsp119I	TTCGAA	1 cut(s)	359
Bsp1286I	GDGCHC	2 cut(s)	76, 96
Bsp143I	GATC	5 cut(s)	176, 204, 259, 309, 353
BspACI	CCGC	1 cut(s)	241
BspANI	GGCC	1 cut(s)	123
BspLI	GGNNCC	1 cut(s)	178
BspPI	GGATC	5 cut(s)	171, 184, 199, 304, 361
BspQI	GCTCTTC	1 cut(s)	81
BspT104I	TTCGAA	1 cut(s)	359
BsrI	ACTGG	1 cut(s)	288
BssMI	GATC	5 cut(s)	176, 204, 259, 309, 353
Bst4CI	ACNGT	2 cut(s)	112, 169
Bst6I	CTCTTC	1 cut(s)	81
BstAPI	GCANNNNNTGC	1 cut(s)	52
BstBI	TTCGAA	1 cut(s)	359
BstF5I	GGATG	2 cut(s)	5, 46
BstHHI	GCGC	1 cut(s)	46
BstKTI	GATC	5 cut(s)	179, 207, 262, 312, 356
BstMAI	GTCTC	1 cut(s)	300
BstMBI	GATC	5 cut(s)	176, 204, 259, 309, 353
BstMWI	GCNNNNNNNGC	3 cut(s)	29, 52, 71
BstNSI	RCATGY	2 cut(s)	61, 92
BstX2I	RGATCY	2 cut(s)	176, 353
BstYI	RGATCY	2 cut(s)	176, 353
BsuRI	GGCC	1 cut(s)	123
BtsCI	GGATG	2 cut(s)	5, 46
BtsI	GCAGTG	1 cut(s)	72
BtsIMutI	CAGTG	2 cut(s)	72, 295
CfoI	GCGC	1 cut(s)	46
Cfr13I	GGNCC	2 cut(s)	121, 143
CseI	GACGC	1 cut(s)	350
CviAII	CATG	3 cut(s)	58, 89, 181
CviJI	RGCY	3 cut(s)	74, 123, 131
CviKI_1	RGCY	3 cut(s)	74, 123, 131
DpnI	GATC	5 cut(s)	178, 206, 261, 311, 355
DpnII	GATC	5 cut(s)	176, 204, 259, 309, 353
Eam1104I	CTCTTC	1 cut(s)	81
EarI	CTCTTC	1 cut(s)	81
Eco24I	GRGCYC	1 cut(s)	76
Eco47I	GGWCC	1 cut(s)	143
EcoO109I	RGGNCCY	1 cut(s)	121
EcoRI	GAATTC	1 cut(s)	134
EcoT38I	GRGCYC	1 cut(s)	76
FaeI	CATG	3 cut(s)	61, 92, 184
FaiI	YATR	5 cut(s)	59, 63, 90, 182, 327
FatI	CATG	3 cut(s)	57, 88, 180
FauI	CCCGC	1 cut(s)	248
FokI	GGATG	1 cut(s)	53
FriOI	GRGCYC	1 cut(s)	76
FspBI	CTAG	1 cut(s)	273
FspI	TGCGCA	1 cut(s)	45
GlaI	GCGC	1 cut(s)	45
HaeIII	GGCC	1 cut(s)	123
HgaI	GACGC	1 cut(s)	350
HhaI	GCGC	1 cut(s)	46
Hin1II	CATG	3 cut(s)	61, 92, 184
Hin6I	GCGC	1 cut(s)	44
HinP1I	GCGC	1 cut(s)	44
HinfI	GANTC	1 cut(s)	102
HphI	GGTGA	4 cut(s)	124, 157, 229, 343
Hpy166II	GTNNAC	1 cut(s)	382
Hpy188I	TCNGA	1 cut(s)	340
Hpy188III	TCNNGA	2 cut(s)	106, 146
Hpy8I	GTNNAC	1 cut(s)	382
Hpy99I	CGWCG	1 cut(s)	260
HpyCH4III	ACNGT	2 cut(s)	112, 169
HpyCH4IV	ACGT	1 cut(s)	255
HpyCH4V	TGCA	2 cut(s)	55, 65
HpyF10VI	GCNNNNNNNGC	3 cut(s)	29, 52, 71
HpySE526I	ACGT	1 cut(s)	255
Hsp92II	CATG	3 cut(s)	61, 92, 184
HspAI	GCGC	1 cut(s)	44
Kzo9I	GATC	5 cut(s)	176, 204, 259, 309, 353
LguI	GCTCTTC	1 cut(s)	81
LmnI	GCTCC	1 cut(s)	99
LpnPI	CCDG	2 cut(s)	159, 301
LweI	GCATC	3 cut(s)	31, 190, 211
MaeI	CTAG	1 cut(s)	273
MaeII	ACGT	1 cut(s)	255
MaeIII	GTNAC	2 cut(s)	227, 251
MalI	GATC	5 cut(s)	178, 206, 261, 311, 355
MboI	GATC	5 cut(s)	176, 204, 259, 309, 353
MboII	GAAGA	5 cut(s)	68, 206, 209, 331, 348
MflI	RGATCY	2 cut(s)	176, 353
MhlI	GDGCHC	2 cut(s)	76, 96
MluCI	AATT	2 cut(s)	134, 212
MmeI	TCCRAC	1 cut(s)	232
MnlI	CCTC	3 cut(s)	112, 168, 310
MseI	TTAA	1 cut(s)	185
MslI	CAYNNNNRTG	1 cut(s)	60
MwoI	GCNNNNNNNGC	3 cut(s)	29, 52, 71
NdeII	GATC	5 cut(s)	176, 204, 259, 309, 353
NlaIII	CATG	3 cut(s)	61, 92, 184
NlaIV	GGNNCC	1 cut(s)	178
NsbI	TGCGCA	1 cut(s)	45
NspI	RCATGY	2 cut(s)	61, 92
NspV	TTCGAA	1 cut(s)	359
PciI	ACATGT	2 cut(s)	57, 88
PciSI	GCTCTTC	1 cut(s)	81
PfeI	GAWTC	1 cut(s)	102
PscI	ACATGT	2 cut(s)	57, 88
PspN4I	GGNNCC	1 cut(s)	178
PspPI	GGNCC	2 cut(s)	121, 143
PsuI	RGATCY	2 cut(s)	176, 353
RseI	CAYNNNNRTG	1 cut(s)	60
SapI	GCTCTTC	1 cut(s)	81
SaqAI	TTAA	1 cut(s)	185
Sau3AI	GATC	5 cut(s)	176, 204, 259, 309, 353
Sau96I	GGNCC	2 cut(s)	121, 143
SduI	GDGCHC	2 cut(s)	76, 96
SetI	ASST	2 cut(s)	160, 258
SfaNI	GCATC	3 cut(s)	31, 190, 211
SfuI	TTCGAA	1 cut(s)	359
SinI	GGWCC	1 cut(s)	143
SmiMI	CAYNNNNRTG	1 cut(s)	60
SpeI	ACTAGT	1 cut(s)	272
Sse9I	AATT	2 cut(s)	134, 212
SsiI	CCGC	1 cut(s)	241
SspMI	CTAG	1 cut(s)	273
TaaI	ACNGT	2 cut(s)	112, 169
TaiI	ACGT	1 cut(s)	258
TaqI	TCGA	4 cut(s)	153, 258, 317, 359
TasI	AATT	2 cut(s)	134, 212
TfiI	GAWTC	1 cut(s)	102
Tru1I	TTAA	1 cut(s)	185
Tru9I	TTAA	1 cut(s)	185
TscAI	CASTG	2 cut(s)	72, 295
TspGWI	ACGGA	1 cut(s)	206
TspRI	CASTG	2 cut(s)	72, 295
VpaK11BI	GGWCC	1 cut(s)	143
XapI	RAATTY	1 cut(s)	134
XceI	RCATGY	2 cut(s)	61, 92
XspI	CTAG	1 cut(s)	273

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