Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0003001

Physical Location & Seq

Genomic Coordinates Reverse (-)

36272754 .. 36284818

Gene Structure 12065 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG329000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 459 bp

ATGGGTGGATATGTGACAACCAATAGGCTTGGAGGAAATGCTATGCTTGTTGATGCAGAACATGCCTTTGATCCAGCATATTCAAAAGCATTGGGTGTAGATGTAGAAAATCTAATTGTCTGCCAGCCTGATCATGGTGAAATGGCACTTGATCGAGAATTTGGTGCCATTGATCTTATCAGTGTCTATTCTGTCTCGGCTCTCACTCCACGAGCAGAAATTGAAATTGGTGTGTATTATGGGAATCCAGAAGTGACATCTAGAGGAATTGCATTAAAGTTCTTTGCCTCAGTTCGCCTGGAAATACGTTCTACAAGGAAAATAAAATCTGTAAAAGGAGACGAGGAAATTGGGGTTCAGGTCCGTGTACGAGTGCAAAAGAGTAAGATAGTTCACAATAGTCTTCTAAGTACACCAGAAACTACCTTCTTGAAACTAACAAAAAGCAAAAGCACCTAA

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

152

Amino Acids

16.63

Weight (kDa)

7.85

Isoelectric Point (pI)

16.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RecA_N	PF00154	8 - 75	3.9e-20	RecA N-terminal domain
RecA_N	PF00154	76 - 131	1.7e-13	RecA N-terminal 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: 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)
AccB1I	GGYRCC	1 cut(s)	164
AclWI	GGATC	1 cut(s)	65
AcsI	RAATTY	1 cut(s)	158
AfaI	GTAC	2 cut(s)	369, 412
AfiI	CCNNNNNNNGG	1 cut(s)	134
AgsI	TTSAA	3 cut(s)	84, 224, 433
AjnI	CCWGG	1 cut(s)	297
AjuI	GAANNNNNNNTTGG	2 cut(s)	210, 242
Alw26I	GTCTC	2 cut(s)	199, 333
AlwI	GGATC	1 cut(s)	65
ApoI	RAATTY	1 cut(s)	158
AspS9I	GGNCC	1 cut(s)	361
AsuHPI	GGTGA	1 cut(s)	149
AvaII	GGWCC	1 cut(s)	361
BanI	GGYRCC	1 cut(s)	164
BauI	CACGAG	1 cut(s)	210
BbsI	GAAGAC	1 cut(s)	395
BciT130I	CCWGG	1 cut(s)	299
BclI	TGATCA	1 cut(s)	130
BcoDI	GTCTC	2 cut(s)	199, 333
BfaI	CTAG	1 cut(s)	261
Bme1390I	CCNGG	1 cut(s)	299
Bme18I	GGWCC	1 cut(s)	361
BmgT120I	GGNCC	1 cut(s)	361
BmiI	GGNNCC	1 cut(s)	166
BmrFI	CCNGG	1 cut(s)	299
BmsI	GCATC	1 cut(s)	43
BpiI	GAAGAC	1 cut(s)	395
Bsc4I	CCNNNNNNNGG	1 cut(s)	134
BseBI	CCWGG	1 cut(s)	299
BseLI	CCNNNNNNNGG	1 cut(s)	134
BseMII	CTCAG	1 cut(s)	303
BshNI	GGYRCC	1 cut(s)	164
BslI	CCNNNNNNNGG	1 cut(s)	134
BsmAI	GTCTC	2 cut(s)	199, 333
BsmBI	CGTCTC	1 cut(s)	333
Bsp143I	GATC	4 cut(s)	70, 130, 151, 172
BspCNI	CTCAG	1 cut(s)	302
BspLI	GGNNCC	1 cut(s)	166
BspPI	GGATC	1 cut(s)	65
BspT107I	GGYRCC	1 cut(s)	164
BssMI	GATC	4 cut(s)	70, 130, 151, 172
BssSI	CACGAG	1 cut(s)	210
Bst2BI	CACGAG	1 cut(s)	210
Bst2UI	CCWGG	1 cut(s)	299
BstAPI	GCANNNNNTGC	1 cut(s)	62
BstC8I	GCNNGC	1 cut(s)	125
BstDEI	CTNAG	2 cut(s)	289, 407
BstKTI	GATC	4 cut(s)	73, 133, 154, 175
BstMAI	GTCTC	2 cut(s)	199, 333
BstMBI	GATC	4 cut(s)	70, 130, 151, 172
BstMWI	GCNNNNNNNGC	1 cut(s)	62
BstNI	CCWGG	1 cut(s)	299
BstNSI	RCATGY	1 cut(s)	65
BstSCI	CCNGG	1 cut(s)	297
BstV2I	GAAGAC	1 cut(s)	395
BtsIMutI	CAGTG	1 cut(s)	187
Cac8I	GCNNGC	1 cut(s)	125
Cfr13I	GGNCC	1 cut(s)	361
Csp6I	GTAC	2 cut(s)	368, 411
CviAII	CATG	2 cut(s)	62, 134
CviJI	RGCY	3 cut(s)	28, 127, 200
CviKI_1	RGCY	3 cut(s)	28, 127, 200
CviQI	GTAC	2 cut(s)	368, 411
DdeI	CTNAG	2 cut(s)	289, 407
DpnI	GATC	4 cut(s)	72, 132, 153, 174
DpnII	GATC	4 cut(s)	70, 130, 151, 172
Eco47I	GGWCC	1 cut(s)	361
EcoRII	CCWGG	1 cut(s)	297
Esp3I	CGTCTC	1 cut(s)	333
FaeI	CATG	2 cut(s)	65, 137
FaiI	YATR	6 cut(s)	12, 44, 63, 79, 135, 240
FatI	CATG	2 cut(s)	61, 133
FbaI	TGATCA	1 cut(s)	130
FspBI	CTAG	1 cut(s)	261
Hin1II	CATG	2 cut(s)	65, 137
HinfI	GANTC	1 cut(s)	244
HphI	GGTGA	1 cut(s)	149
Hpy166II	GTNNAC	3 cut(s)	368, 394, 413
Hpy188III	TCNNGA	4 cut(s)	155, 248, 261, 430
Hpy8I	GTNNAC	3 cut(s)	368, 394, 413
HpyAV	CCTTC	1 cut(s)	436
HpyCH4IV	ACGT	1 cut(s)	307
HpyCH4V	TGCA	3 cut(s)	56, 272, 376
HpyF10VI	GCNNNNNNNGC	1 cut(s)	62
HpyF3I	CTNAG	2 cut(s)	289, 407
HpySE526I	ACGT	1 cut(s)	307
Hsp92II	CATG	2 cut(s)	65, 137
Ksp22I	TGATCA	1 cut(s)	130
Kzo9I	GATC	4 cut(s)	70, 130, 151, 172
LpnPI	CCDG	8 cut(s)	87, 137, 141, 261, 284, 311, 344, 429
LweI	GCATC	1 cut(s)	43
MaeI	CTAG	1 cut(s)	261
MaeII	ACGT	1 cut(s)	307
MaeIII	GTNAC	2 cut(s)	13, 253
MalI	GATC	4 cut(s)	72, 132, 153, 174
MboI	GATC	4 cut(s)	70, 130, 151, 172
MboII	GAAGA	1 cut(s)	395
MluCI	AATT	6 cut(s)	114, 158, 219, 225, 267, 348
MnlI	CCTC	4 cut(s)	26, 257, 298, 337
MseI	TTAA	1 cut(s)	275
MspR9I	CCNGG	1 cut(s)	299
MvaI	CCWGG	1 cut(s)	299
MwoI	GCNNNNNNNGC	1 cut(s)	62
NdeII	GATC	4 cut(s)	70, 130, 151, 172
NlaIII	CATG	2 cut(s)	65, 137
NlaIV	GGNNCC	1 cut(s)	166
NmeAIII	GCCGAG	1 cut(s)	176
NmuCI	GTSAC	2 cut(s)	13, 253
NspI	RCATGY	1 cut(s)	65
PfeI	GAWTC	1 cut(s)	244
Psp6I	CCWGG	1 cut(s)	297
PspGI	CCWGG	1 cut(s)	297
PspN4I	GGNNCC	1 cut(s)	166
PspPI	GGNCC	1 cut(s)	361
RsaI	GTAC	2 cut(s)	369, 412
RsaNI	GTAC	2 cut(s)	368, 411
SaqAI	TTAA	1 cut(s)	275
Sau3AI	GATC	4 cut(s)	70, 130, 151, 172
Sau96I	GGNCC	1 cut(s)	361
ScrFI	CCNGG	1 cut(s)	299
SetI	ASST	4 cut(s)	310, 363, 428, 458
SfaNI	GCATC	1 cut(s)	43
SinI	GGWCC	1 cut(s)	361
Sse9I	AATT	6 cut(s)	114, 158, 219, 225, 267, 348
SspMI	CTAG	1 cut(s)	261
StyD4I	CCNGG	1 cut(s)	297
TaiI	ACGT	1 cut(s)	310
TaqI	TCGA	1 cut(s)	154
TasI	AATT	6 cut(s)	114, 158, 219, 225, 267, 348
TatI	WGTACW	1 cut(s)	410
TfiI	GAWTC	1 cut(s)	244
Tru1I	TTAA	1 cut(s)	275
Tru9I	TTAA	1 cut(s)	275
TscAI	CASTG	1 cut(s)	187
TseFI	GTSAC	2 cut(s)	13, 253
Tsp45I	GTSAC	2 cut(s)	13, 253
TspGWI	ACGGA	1 cut(s)	353
TspRI	CASTG	1 cut(s)	187
VpaK11BI	GGWCC	1 cut(s)	361
XapI	RAATTY	1 cut(s)	158
XbaI	TCTAGA	1 cut(s)	260
XceI	RCATGY	1 cut(s)	65
XcmI	CCANNNNNNNNNTGG	1 cut(s)	131
XspI	CTAG	1 cut(s)	261

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