Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0009695

Physical Location & Seq

Genomic Coordinates Reverse (-)

6171766 .. 6173813

Gene Structure 2048 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG079200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 507 bp

ATGCCAATTAGCCCTGAACAAGAAGCTCTTGAAGCGCAGAAGGATGCGCAGGAAGTGCACAGGTATGCGGTATGGGGCCTCCTACCAGAGAATGCGAACACAAGGATCAAGAAGGTGATGGAGGCGCTCCGGGAAGAATTTGGTGGGCCGGAGATCGAGCCCCACATCACCATAGTCGGATCCTGCCTAATGACGGAAGATGAAGCGATCGGCTCATTTAGAGAAGGTTGTAACTCGGTCAAGCAAATCTACTGCAAAGTCGAAAACTTCGAGACTAGTAAATTCTATTTCCAGTGTCTTTCTCTCGTCATGGAAATAACCGAGGACCTAAAGGCTCAAACTCGTTGGTTTGCCGGTTGCATGAATCGCCCCTTCCGTAAGTTGTTTACATTTTCTTTTTCTGTCAAATATTGTATAATTTGTATGTGCATAAATTTTCTGGTTAATTTGCGGCTGTACACTTGCCAAAAATACTCCGAAGATCAAATTTTCGTTGTTCTTCTTTGA

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

168

Amino Acids

19.51

Weight (kDa)

5.32

Isoelectric Point (pI)

53.87

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)	48
AciI	CCGC	2 cut(s)	68, 451
AclWI	GGATC	3 cut(s)	113, 174, 187
AcsI	RAATTY	4 cut(s)	137, 281, 433, 486
AfaI	GTAC	1 cut(s)	458
AfiI	CCNNNNNNNGG	1 cut(s)	193
AgsI	TTSAA	1 cut(s)	32
AhlI	ACTAGT	1 cut(s)	275
AluBI	AGCT	1 cut(s)	26
AluI	AGCT	1 cut(s)	26
Alw21I	GWGCWC	1 cut(s)	60
Alw26I	GTCTC	1 cut(s)	266
Alw44I	GTGCAC	1 cut(s)	56
AlwI	GGATC	3 cut(s)	113, 174, 187
AoxI	GGCC	2 cut(s)	76, 146
ApaLI	GTGCAC	1 cut(s)	56
ApoI	RAATTY	4 cut(s)	137, 281, 433, 486
AspLEI	GCGC	3 cut(s)	37, 49, 127
AspS9I	GGNCC	3 cut(s)	76, 146, 325
AsuC2I	CCSGG	1 cut(s)	131
AsuHPI	GGTGA	2 cut(s)	127, 160
AvaII	GGWCC	1 cut(s)	325
BaeGI	GKGCMC	1 cut(s)	60
BamHI	GGATCC	1 cut(s)	179
BanII	GRGCYC	1 cut(s)	162
Bbv12I	GWGCWC	1 cut(s)	60
BccI	CCATC	1 cut(s)	112
BcnI	CCSGG	1 cut(s)	131
BcoDI	GTCTC	1 cut(s)	266
BcuI	ACTAGT	1 cut(s)	275
BfaI	CTAG	1 cut(s)	276
BfoI	RGCGCY	1 cut(s)	128
BisI	GCNGC	1 cut(s)	452
BlsI	GCNGC	1 cut(s)	453
Bme1390I	CCNGG	1 cut(s)	131
Bme18I	GGWCC	1 cut(s)	325
BmgT120I	GGNCC	3 cut(s)	76, 146, 325
BmiI	GGNNCC	2 cut(s)	77, 181
BmrFI	CCNGG	1 cut(s)	131
BmsI	GCATC	1 cut(s)	34
BpuMI	CCSGG	1 cut(s)	131
BsaJI	CCNNGG	1 cut(s)	321
Bsc4I	CCNNNNNNNGG	1 cut(s)	193
Bse118I	RCCGGY	1 cut(s)	353
Bse1I	ACTGG	1 cut(s)	292
BseDI	CCNNGG	1 cut(s)	321
BseGI	GGATG	1 cut(s)	49
BseLI	CCNNNNNNNGG	1 cut(s)	193
BseNI	ACTGG	1 cut(s)	292
BseSI	GKGCMC	1 cut(s)	60
Bsh1285I	CGRYCG	1 cut(s)	210
BshFI	GGCC	2 cut(s)	78, 148
BsiEI	CGRYCG	1 cut(s)	210
BsiHKAI	GWGCWC	1 cut(s)	60
BsiSI	CCGG	3 cut(s)	130, 149, 354
BslI	CCNNNNNNNGG	1 cut(s)	193
BsmAI	GTCTC	1 cut(s)	266
BsmI	GAATGC	1 cut(s)	97
BsnI	GGCC	2 cut(s)	78, 148
Bsp1286I	GDGCHC	2 cut(s)	60, 162
Bsp1407I	TGTACA	1 cut(s)	456
Bsp143I	GATC	5 cut(s)	105, 153, 179, 207, 481
BspACI	CCGC	2 cut(s)	68, 451
BspANI	GGCC	2 cut(s)	78, 148
BspLI	GGNNCC	2 cut(s)	77, 181
BspPI	GGATC	3 cut(s)	113, 174, 187
BsrFI	RCCGGY	1 cut(s)	353
BsrGI	TGTACA	1 cut(s)	456
BsrI	ACTGG	1 cut(s)	292
BssAI	RCCGGY	1 cut(s)	353
BssECI	CCNNGG	1 cut(s)	321
BssMI	GATC	5 cut(s)	105, 153, 179, 207, 481
BstAPI	GCANNNNNTGC	1 cut(s)	55
BstAUI	TGTACA	1 cut(s)	456
BstF5I	GGATG	1 cut(s)	49
BstH2I	RGCGCY	1 cut(s)	128
BstHHI	GCGC	3 cut(s)	37, 49, 127
BstKTI	GATC	5 cut(s)	108, 156, 182, 210, 484
BstMAI	GTCTC	1 cut(s)	266
BstMBI	GATC	5 cut(s)	105, 153, 179, 207, 481
BstMCI	CGRYCG	1 cut(s)	210
BstMWI	GCNNNNNNNGC	3 cut(s)	32, 55, 366
BstSCI	CCNGG	1 cut(s)	129
BstSLI	GKGCMC	1 cut(s)	60
BstX2I	RGATCY	1 cut(s)	179
BstYI	RGATCY	1 cut(s)	179
BsuRI	GGCC	2 cut(s)	78, 148
BtsCI	GGATG	1 cut(s)	49
BtsIMutI	CAGTG	1 cut(s)	299
CfoI	GCGC	3 cut(s)	37, 49, 127
Cfr10I	RCCGGY	1 cut(s)	353
Cfr13I	GGNCC	3 cut(s)	76, 146, 325
Csp6I	GTAC	1 cut(s)	457
CviAII	CATG	2 cut(s)	310, 361
CviJI	RGCY	8 cut(s)	12, 26, 78, 148, 160, 213, 335, 454
CviKI_1	RGCY	8 cut(s)	12, 26, 78, 148, 160, 213, 335, 454
CviQI	GTAC	1 cut(s)	457
DpnI	GATC	5 cut(s)	107, 155, 181, 209, 483
DpnII	GATC	5 cut(s)	105, 153, 179, 207, 481
Eco24I	GRGCYC	1 cut(s)	162
Eco47I	GGWCC	1 cut(s)	325
EcoO109I	RGGNCCY	2 cut(s)	76, 325
EcoT38I	GRGCYC	1 cut(s)	162
FaeI	CATG	2 cut(s)	313, 364
FaiI	YATR	8 cut(s)	66, 73, 173, 311, 362, 416, 425, 431
FalI	AAGNNNNNCTT	2 cut(s)	12, 44
FatI	CATG	2 cut(s)	309, 360
Fnu4HI	GCNGC	1 cut(s)	452
FokI	GGATG	1 cut(s)	56
FriOI	GRGCYC	1 cut(s)	162
Fsp4HI	GCNGC	1 cut(s)	452
FspBI	CTAG	1 cut(s)	276
FspI	TGCGCA	1 cut(s)	48
GlaI	GCGC	3 cut(s)	36, 48, 126
GluI	GCNGC	1 cut(s)	452
HaeII	RGCGCY	1 cut(s)	128
HaeIII	GGCC	2 cut(s)	78, 148
HapII	CCGG	3 cut(s)	130, 149, 354
HhaI	GCGC	3 cut(s)	37, 49, 127
Hin1II	CATG	2 cut(s)	313, 364
Hin6I	GCGC	3 cut(s)	35, 47, 125
HinP1I	GCGC	3 cut(s)	35, 47, 125
HinfI	GANTC	1 cut(s)	364
HpaII	CCGG	3 cut(s)	130, 149, 354
HphI	GGTGA	2 cut(s)	127, 160
Hpy166II	GTNNAC	3 cut(s)	58, 387, 459
Hpy188I	TCNGA	2 cut(s)	179, 478
Hpy188III	TCNNGA	3 cut(s)	29, 109, 271
Hpy8I	GTNNAC	3 cut(s)	58, 387, 459
HpyAV	CCTTC	4 cut(s)	34, 106, 218, 382
HpyCH4V	TGCA	4 cut(s)	58, 255, 360, 429
HpyF10VI	GCNNNNNNNGC	3 cut(s)	32, 55, 366
Hsp92II	CATG	2 cut(s)	313, 364
HspAI	GCGC	3 cut(s)	35, 47, 125
Kzo9I	GATC	5 cut(s)	105, 153, 179, 207, 481
LmnI	GCTCC	1 cut(s)	132
LweI	GCATC	1 cut(s)	34
MaeI	CTAG	1 cut(s)	276
MaeIII	GTNAC	1 cut(s)	230
MalI	GATC	5 cut(s)	107, 155, 181, 209, 483
MboI	GATC	5 cut(s)	105, 153, 179, 207, 481
MboII	GAAGA	4 cut(s)	146, 209, 491, 491
MflI	RGATCY	1 cut(s)	179
MhlI	GDGCHC	2 cut(s)	60, 162
MluCI	AATT	7 cut(s)	6, 137, 281, 417, 433, 445, 486
MmeI	TCCRAC	1 cut(s)	157
MnlI	CCTC	3 cut(s)	89, 115, 316
MseI	TTAA	1 cut(s)	444
MslI	CAYNNNNRTG	1 cut(s)	63
MspI	CCGG	3 cut(s)	130, 149, 354
MspR9I	CCNGG	1 cut(s)	131
Mva1269I	GAATGC	1 cut(s)	97
MwoI	GCNNNNNNNGC	3 cut(s)	32, 55, 366
NciI	CCSGG	1 cut(s)	131
NdeII	GATC	5 cut(s)	105, 153, 179, 207, 481
NlaIII	CATG	2 cut(s)	313, 364
NlaIV	GGNNCC	2 cut(s)	77, 181
NsbI	TGCGCA	1 cut(s)	48
PcsI	WCGNNNNNNNCGW	2 cut(s)	267, 373
PctI	GAATGC	1 cut(s)	97
PfeI	GAWTC	1 cut(s)	364
PfoI	TCCNGGA	1 cut(s)	129
PkrI	GCNGC	1 cut(s)	453
Ple19I	CGATCG	1 cut(s)	210
PpuMI	RGGWCCY	1 cut(s)	325
Psp5II	RGGWCCY	1 cut(s)	325
PspN4I	GGNNCC	2 cut(s)	77, 181
PspPI	GGNCC	3 cut(s)	76, 146, 325
PspPPI	RGGWCCY	1 cut(s)	325
PsuI	RGATCY	1 cut(s)	179
PvuI	CGATCG	1 cut(s)	210
RsaI	GTAC	1 cut(s)	458
RsaNI	GTAC	1 cut(s)	457
RseI	CAYNNNNRTG	1 cut(s)	63
SaqAI	TTAA	1 cut(s)	444
SatI	GCNGC	1 cut(s)	452
Sau3AI	GATC	5 cut(s)	105, 153, 179, 207, 481
Sau96I	GGNCC	3 cut(s)	76, 146, 325
ScrFI	CCNGG	1 cut(s)	131
SduI	GDGCHC	2 cut(s)	60, 162
SetI	ASST	5 cut(s)	28, 65, 117, 229, 330
SfaNI	GCATC	1 cut(s)	34
SinI	GGWCC	1 cut(s)	325
SmiMI	CAYNNNNRTG	1 cut(s)	63
SpeI	ACTAGT	1 cut(s)	275
Sse9I	AATT	7 cut(s)	6, 137, 281, 417, 433, 445, 486
SsiI	CCGC	2 cut(s)	68, 451
SspI	AATATT	1 cut(s)	410
SspMI	CTAG	1 cut(s)	276
StyD4I	CCNGG	1 cut(s)	129
TaqI	TCGA	3 cut(s)	156, 261, 270
TaqII	GACCGA	1 cut(s)	226
TasI	AATT	7 cut(s)	6, 137, 281, 417, 433, 445, 486
TatI	WGTACW	1 cut(s)	456
TauI	GCSGC	1 cut(s)	454
TfiI	GAWTC	1 cut(s)	364
Tru1I	TTAA	1 cut(s)	444
Tru9I	TTAA	1 cut(s)	444
TscAI	CASTG	1 cut(s)	299
TspDTI	ATGAA	2 cut(s)	216, 377
TspGWI	ACGGA	2 cut(s)	209, 365
TspRI	CASTG	1 cut(s)	299
VneI	GTGCAC	1 cut(s)	56
VpaK11BI	GGWCC	1 cut(s)	325
XapI	RAATTY	4 cut(s)	137, 281, 433, 486
XspI	CTAG	1 cut(s)	276

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