Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0003001

Physical Location & Seq

Genomic Coordinates Reverse (-)

35314206 .. 35315480

Gene Structure 1275 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG323700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 309 bp

ATGCAACAAATGGGTTTGCAAGCACACCTTATGAGCCAAGCTTTGCGCAAAATGTCAGGACATGCATCTAAAGCTGGATGTACTCTCATATTCTTGAATCAAATAAGATATAAGATTGGTGTGTATTATGGGAATCCAGAAGTGACATCTGGAGGAATTGCATTAAAGTTCTTTGCCTCAGTTCGCCTGGAAATACGTTCTACAGGGAAAATAAAATCTGTAAAAGGAGACAAGGAAATTGGGGTTCGGGTCCGTGTACGAGTGCAAAAGAGTAAGATCCTTGTCGTAAGAAGTTGTTGTAGGTTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000150 GO:0000217 GO:0000400 GO:0000724 GO:0000725 GO:0000730 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003697 GO:0003824 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006312 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008094 GO:0008150 GO:0008152 GO:0009314 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009628 GO:0009987 GO:0010212 GO:0016043 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022607 GO:0033554 GO:0034622 GO:0034641 GO:0042148 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0045003 GO:0046483 GO:0050896 GO:0051716 GO:0065003 GO:0065004 GO:0071704 GO:0071824 GO:0071840 GO:0090304 GO:0090735 GO:0097159 GO:0140097 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko03440 map03440

Pfam Domains

Protein Families

RecA

Protein Analysis

102

Amino Acids

11.37

Weight (kDa)

10.66

Isoelectric Point (pI)

40.2

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RecA_N	PF00154	2 - 93	4.8e-33	RecA N-terminal domain

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: OG0003001)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G79050 AT1G79050
fragaria_vesca	FvH4_1g27813
malus_domestica	MD09G1277400.v1.1 MD17G1270800.v1.1
prunus_persica	Prupe.3G015400_v2.0.a1 Prupe.3G015400_v2.0.a1 Prupe.3G015400_v2.0.a1 Prupe.3G015400_v2.0.a1
pyrus_communis	pycom09g18680 pycom17g26930
rosa_chinensis	RchiOBHm_Chr1g0376401 RchiOBHm_Chr3g0485071 RchiOBHm_Chr3g0485081 RchiOBHm_Chr3g0488901 RchiOBHm_Chr3g0488941 RchiOBHm_Chr3g0488951 RchiOBHm_Chr6g0270261
rosa_laevigata	RLG00000001730 RLG00000022906
rosa_multiflora	Rmu_sc0001208.1_g000006
rosa_roxburghii	Rroxscaffold_5G00371550 Rroxscaffold_6G00393780
rosa_rugosa	Rorug03G0242300
rosa_samantha	Rh2CG293500 Rh3AG266100 Rh3AG290500 Rh3BG327500 Rh3CG324800 Rh3DG323400 Rh3DG323700 Rh3DG329000 Rh5AG166700
rosa_wichuraiana	Rw1G015550 Rw1G026850 Rw3G025730 Rw5G015170 Rw7G021290

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	47
AclWI	GGATC	1 cut(s)	271
AfaI	GTAC	2 cut(s)	82, 258
AgsI	TTSAA	1 cut(s)	97
AjnI	CCWGG	1 cut(s)	186
AluBI	AGCT	2 cut(s)	41, 74
AluI	AGCT	2 cut(s)	41, 74
Alw26I	GTCTC	1 cut(s)	222
AlwI	GGATC	1 cut(s)	271
AspLEI	GCGC	1 cut(s)	48
AspS9I	GGNCC	1 cut(s)	250
AvaII	GGWCC	1 cut(s)	250
BciT130I	CCWGG	1 cut(s)	188
BcoDI	GTCTC	1 cut(s)	222
BfmI	CTRYAG	1 cut(s)	201
Bme1390I	CCNGG	1 cut(s)	188
Bme18I	GGWCC	1 cut(s)	250
BmgT120I	GGNCC	1 cut(s)	250
BmiI	GGNNCC	1 cut(s)	251
BmrFI	CCNGG	1 cut(s)	188
BmsI	GCATC	1 cut(s)	74
BpmI	CTGGAG	1 cut(s)	171
BseBI	CCWGG	1 cut(s)	188
BseGI	GGATG	1 cut(s)	83
BseMII	CTCAG	1 cut(s)	192
BsmAI	GTCTC	1 cut(s)	222
Bsp143I	GATC	1 cut(s)	276
BspCNI	CTCAG	1 cut(s)	191
BspLI	GGNNCC	1 cut(s)	251
BspPI	GGATC	1 cut(s)	271
BssMI	GATC	1 cut(s)	276
Bst2UI	CCWGG	1 cut(s)	188
BstC8I	GCNNGC	1 cut(s)	21
BstDEI	CTNAG	1 cut(s)	178
BstF5I	GGATG	1 cut(s)	83
BstHHI	GCGC	1 cut(s)	48
BstKTI	GATC	1 cut(s)	279
BstMAI	GTCTC	1 cut(s)	222
BstMBI	GATC	1 cut(s)	276
BstMWI	GCNNNNNNNGC	1 cut(s)	71
BstNI	CCWGG	1 cut(s)	188
BstNSI	RCATGY	1 cut(s)	65
BstSCI	CCNGG	1 cut(s)	186
BstSFI	CTRYAG	1 cut(s)	201
BstX2I	RGATCY	1 cut(s)	276
BstYI	RGATCY	1 cut(s)	276
BtsCI	GGATG	1 cut(s)	83
Cac8I	GCNNGC	1 cut(s)	21
CfoI	GCGC	1 cut(s)	48
Cfr13I	GGNCC	1 cut(s)	250
Csp6I	GTAC	2 cut(s)	81, 257
CviAII	CATG	1 cut(s)	62
CviJI	RGCY	3 cut(s)	36, 41, 74
CviKI_1	RGCY	3 cut(s)	36, 41, 74
CviQI	GTAC	2 cut(s)	81, 257
DdeI	CTNAG	1 cut(s)	178
DpnI	GATC	1 cut(s)	278
DpnII	GATC	1 cut(s)	276
Eco47I	GGWCC	1 cut(s)	250
EcoRII	CCWGG	1 cut(s)	186
EcoT22I	ATGCAT	1 cut(s)	67
FaeI	CATG	1 cut(s)	65
FaiI	YATR	5 cut(s)	32, 63, 89, 111, 129
FalI	AAGNNNNNCTT	2 cut(s)	12, 44
FatI	CATG	1 cut(s)	61
FokI	GGATG	1 cut(s)	90
FspI	TGCGCA	1 cut(s)	47
GlaI	GCGC	1 cut(s)	47
GsuI	CTGGAG	1 cut(s)	171
HhaI	GCGC	1 cut(s)	48
Hin1II	CATG	1 cut(s)	65
Hin6I	GCGC	1 cut(s)	46
HinP1I	GCGC	1 cut(s)	46
HindIII	AAGCTT	1 cut(s)	39
HinfI	GANTC	2 cut(s)	97, 133
Hpy166II	GTNNAC	1 cut(s)	257
Hpy188III	TCNNGA	4 cut(s)	57, 94, 137, 150
Hpy8I	GTNNAC	1 cut(s)	257
HpyCH4IV	ACGT	1 cut(s)	196
HpyCH4V	TGCA	5 cut(s)	4, 19, 65, 161, 265
HpyF10VI	GCNNNNNNNGC	1 cut(s)	71
HpyF3I	CTNAG	1 cut(s)	178
HpySE526I	ACGT	1 cut(s)	196
Hsp92II	CATG	1 cut(s)	65
HspAI	GCGC	1 cut(s)	46
Kzo9I	GATC	1 cut(s)	276
LpnPI	CCDG	7 cut(s)	42, 60, 135, 150, 173, 189, 200
LweI	GCATC	1 cut(s)	74
MaeII	ACGT	1 cut(s)	196
MaeIII	GTNAC	1 cut(s)	142
MalI	GATC	1 cut(s)	278
MboI	GATC	1 cut(s)	276
MflI	RGATCY	1 cut(s)	276
MluCI	AATT	2 cut(s)	156, 237
MnlI	CCTC	2 cut(s)	146, 187
Mph1103I	ATGCAT	1 cut(s)	67
MseI	TTAA	1 cut(s)	164
MspR9I	CCNGG	1 cut(s)	188
MvaI	CCWGG	1 cut(s)	188
MwoI	GCNNNNNNNGC	1 cut(s)	71
NdeII	GATC	1 cut(s)	276
NlaIII	CATG	1 cut(s)	65
NlaIV	GGNNCC	1 cut(s)	251
NmuCI	GTSAC	1 cut(s)	142
NsbI	TGCGCA	1 cut(s)	47
NsiI	ATGCAT	1 cut(s)	67
NspI	RCATGY	1 cut(s)	65
PfeI	GAWTC	2 cut(s)	97, 133
Psp6I	CCWGG	1 cut(s)	186
PspGI	CCWGG	1 cut(s)	186
PspN4I	GGNNCC	1 cut(s)	251
PspPI	GGNCC	1 cut(s)	250
PsuI	RGATCY	1 cut(s)	276
RsaI	GTAC	2 cut(s)	82, 258
RsaNI	GTAC	2 cut(s)	81, 257
SaqAI	TTAA	1 cut(s)	164
Sau3AI	GATC	1 cut(s)	276
Sau96I	GGNCC	1 cut(s)	250
ScrFI	CCNGG	1 cut(s)	188
SetI	ASST	5 cut(s)	30, 43, 76, 199, 305
SfaNI	GCATC	1 cut(s)	74
SfcI	CTRYAG	1 cut(s)	201
SinI	GGWCC	1 cut(s)	250
Sse9I	AATT	2 cut(s)	156, 237
StyD4I	CCNGG	1 cut(s)	186
TaiI	ACGT	1 cut(s)	199
TasI	AATT	2 cut(s)	156, 237
TatI	WGTACW	1 cut(s)	80
TfiI	GAWTC	2 cut(s)	97, 133
Tru1I	TTAA	1 cut(s)	164
Tru9I	TTAA	1 cut(s)	164
TseFI	GTSAC	1 cut(s)	142
Tsp45I	GTSAC	1 cut(s)	142
TspGWI	ACGGA	1 cut(s)	242
VpaK11BI	GGWCC	1 cut(s)	250
XceI	RCATGY	1 cut(s)	65
Zsp2I	ATGCAT	1 cut(s)	67

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