Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr4

Orthogroup ID

OG0012911

Physical Location & Seq

Genomic Coordinates Forward (+)

27961512 .. 27963617

Gene Structure 2106 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw4G011810.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 501 bp

ATGAAGAGGTCTCATCCATCAAATGACCAGGTTGATGTTATATCATCAGATGACTCGTCTTCCTCAGATGCAGAGATGGAAGTCACTACTGAGTATGTTAGCAAGCAGTTAACATCTGAAGGTGCTCTGATGAGAAGGGCAGAGATGTATCAGGAGTACATGAAGCACATCCCAATCCCAACACACCGTGGCTCTGTTATTCCGTTTACCTCATGGATGGGTTTAGGGAAATCCATTAAGCAGCTTTATGGACAACCTCTGCATTATCTCACCAATATTCAGCTAAAACAGTGGGACCAATTGAGGATCGGCAGTGAAGACGAATACAGGCCCTTGGATGCCATTATTCATCCCTGTAAAGCCGAAGCCACCATCTGGCTCATTGAAGAAGTTCACCGAAACACCTCATCTCATCATCATGTAGCCAATCTGTGGCTATCAGATCCGATGCACCATGCTTTTGTTGATTCCATCTTTCCCCAATTAGACAGCCGCTCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000419 GO:0000428 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006304 GO:0006305 GO:0006306 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010629 GO:0014070 GO:0016070 GO:0016458 GO:0019219 GO:0019222 GO:0030880 GO:0031047 GO:0031050 GO:0031323 GO:0032259 GO:0032991 GO:0034641 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043331 GO:0043412 GO:0043414 GO:0043621 GO:0044030 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0044728 GO:0046483 GO:0048519 GO:0050789 GO:0050794 GO:0050896 GO:0051052 GO:0051171 GO:0051716 GO:0055029 GO:0060255 GO:0061695 GO:0065007 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0080090 GO:0090304 GO:1901360 GO:1901698 GO:1901699 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RdDM_RDM1

Protein Analysis

166

Amino Acids

19.11

Weight (kDa)

5.83

Isoelectric Point (pI)

64.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RdDM_RDM1	PF09187	43 - 161	1e-68	RNA-directed DNA methylation 1

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0012911)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G22680
fragaria_vesca	FvH4_4g00760 FvH4_4g00760 FvH4_5g32450
malus_domestica	MD16G1197500.v1.1
prunus_persica	Prupe.1G018500_v2.0.a1
pyrus_communis	pycom16g16640
rosa_chinensis	RchiOBHm_Chr4g0407591
rosa_laevigata	RLG00000008706 RLG00000010156
rosa_multiflora	Rmu_sc0001942.1_g000058
rosa_roxburghii	Rroxscaffold_5G00352200
rosa_rugosa	Rorug04G0080600 Rorug04G0080700 Rorug04G0080800
rosa_samantha	Rh4AG145400 Rh4CG152100
rosa_wichuraiana	Rw4G011810

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	2 cut(s)	375, 432
AccBSI	CCGCTC	1 cut(s)	495
AciI	CCGC	1 cut(s)	493
AclWI	GGATC	2 cut(s)	314, 437
AcuI	CTGAAG	1 cut(s)	138
AdeI	CACNNNGTG	1 cut(s)	188
AfaI	GTAC	1 cut(s)	158
AfiI	CCNNNNNNNGG	2 cut(s)	375, 432
AgsI	TTSAA	1 cut(s)	386
AjnI	CCWGG	1 cut(s)	27
AluBI	AGCT	2 cut(s)	244, 283
AluI	AGCT	2 cut(s)	244, 283
Alw21I	GWGCWC	1 cut(s)	127
Alw26I	GTCTC	1 cut(s)	15
AlwI	GGATC	2 cut(s)	314, 437
AoxI	GGCC	1 cut(s)	329
ApeKI	GCWGC	1 cut(s)	241
Asp700I	GAANNNNTTC	1 cut(s)	390
AspS9I	GGNCC	2 cut(s)	295, 330
AsuHPI	GGTGA	2 cut(s)	262, 386
AvaII	GGWCC	1 cut(s)	295
BbsI	GAAGAC	2 cut(s)	51, 324
Bbv12I	GWGCWC	1 cut(s)	127
BbvI	GCAGC	1 cut(s)	253
BccI	CCATC	5 cut(s)	25, 70, 211, 380, 479
BciT130I	CCWGG	1 cut(s)	29
BcoDI	GTCTC	1 cut(s)	15
BisI	GCNGC	2 cut(s)	242, 493
BlsI	GCNGC	2 cut(s)	243, 494
Bme1390I	CCNGG	1 cut(s)	29
Bme18I	GGWCC	1 cut(s)	295
BmgT120I	GGNCC	2 cut(s)	295, 330
BmiI	GGNNCC	1 cut(s)	296
BmrFI	CCNGG	1 cut(s)	29
BmsI	GCATC	3 cut(s)	58, 328, 438
BpiI	GAAGAC	2 cut(s)	51, 324
BsaI	GGTCTC	1 cut(s)	15
BsaJI	CCNNGG	2 cut(s)	187, 333
Bsc4I	CCNNNNNNNGG	2 cut(s)	375, 432
BseBI	CCWGG	1 cut(s)	29
BseDI	CCNNGG	2 cut(s)	187, 333
BseGI	GGATG	5 cut(s)	13, 168, 222, 343, 349
BseLI	CCNNNNNNNGG	2 cut(s)	375, 432
BseMII	CTCAG	2 cut(s)	78, 81
BseXI	GCAGC	1 cut(s)	253
BshFI	GGCC	1 cut(s)	331
BsiHKAI	GWGCWC	1 cut(s)	127
BslFI	GGGAC	1 cut(s)	308
BslI	CCNNNNNNNGG	2 cut(s)	375, 432
BsmAI	GTCTC	1 cut(s)	15
BsmFI	GGGAC	1 cut(s)	308
BsnI	GGCC	1 cut(s)	331
Bso31I	GGTCTC	1 cut(s)	15
Bsp1286I	GDGCHC	1 cut(s)	127
Bsp143I	GATC	2 cut(s)	306, 442
BspACI	CCGC	1 cut(s)	493
BspANI	GGCC	1 cut(s)	331
BspCNI	CTCAG	2 cut(s)	77, 82
BspHI	TCATGA	1 cut(s)	497
BspLI	GGNNCC	1 cut(s)	296
BspPI	GGATC	2 cut(s)	314, 437
BspTNI	GGTCTC	1 cut(s)	15
BsrBI	CCGCTC	1 cut(s)	495
BssECI	CCNNGG	2 cut(s)	187, 333
BssMI	GATC	2 cut(s)	306, 442
BssT1I	CCWWGG	1 cut(s)	333
Bst2UI	CCWGG	1 cut(s)	29
Bst4CI	ACNGT	2 cut(s)	188, 291
BstC8I	GCNNGC	1 cut(s)	104
BstDEI	CTNAG	2 cut(s)	64, 90
BstDSI	CCRYGG	1 cut(s)	187
BstF5I	GGATG	5 cut(s)	13, 168, 222, 343, 349
BstKTI	GATC	2 cut(s)	309, 445
BstMAI	GTCTC	1 cut(s)	15
BstMBI	GATC	2 cut(s)	306, 442
BstNI	CCWGG	1 cut(s)	29
BstSCI	CCNGG	1 cut(s)	27
BstV1I	GCAGC	1 cut(s)	253
BstV2I	GAAGAC	2 cut(s)	51, 324
BstX2I	RGATCY	1 cut(s)	442
BstYI	RGATCY	1 cut(s)	442
BsuRI	GGCC	1 cut(s)	331
BtgI	CCRYGG	1 cut(s)	187
BtsCI	GGATG	5 cut(s)	13, 168, 222, 343, 349
BtsI	GCAGTG	1 cut(s)	319
BtsIMutI	CAGTG	2 cut(s)	296, 319
Cac8I	GCNNGC	1 cut(s)	104
CciI	TCATGA	1 cut(s)	497
Cfr13I	GGNCC	2 cut(s)	295, 330
CsiI	ACCWGGT	1 cut(s)	27
Csp6I	GTAC	1 cut(s)	157
CviAII	CATG	5 cut(s)	160, 213, 419, 455, 498
CviQI	GTAC	1 cut(s)	157
DdeI	CTNAG	2 cut(s)	64, 90
DpnI	GATC	2 cut(s)	308, 444
DpnII	GATC	2 cut(s)	306, 442
DraIII	CACNNNGTG	1 cut(s)	188
Eco130I	CCWWGG	1 cut(s)	333
Eco31I	GGTCTC	1 cut(s)	15
Eco47I	GGWCC	1 cut(s)	295
Eco57I	CTGAAG	1 cut(s)	138
EcoO109I	RGGNCCY	1 cut(s)	330
EcoRII	CCWGG	1 cut(s)	27
EcoT14I	CCWWGG	1 cut(s)	333
ErhI	CCWWGG	1 cut(s)	333
FaeI	CATG	5 cut(s)	163, 216, 422, 458, 501
FaiI	YATR	8 cut(s)	41, 96, 161, 214, 249, 420, 456, 499
FaqI	GGGAC	1 cut(s)	308
FatI	CATG	5 cut(s)	159, 212, 418, 454, 497
Fnu4HI	GCNGC	2 cut(s)	242, 493
FokI	GGATG	4 cut(s)	155, 229, 336, 350
Fsp4HI	GCNGC	2 cut(s)	242, 493
GluI	GCNGC	2 cut(s)	242, 493
HaeIII	GGCC	1 cut(s)	331
Hin1II	CATG	5 cut(s)	163, 216, 422, 458, 501
HincII	GTYRAC	1 cut(s)	111
HindII	GTYRAC	1 cut(s)	111
HinfI	GANTC	2 cut(s)	53, 467
HpaI	GTTAAC	1 cut(s)	111
HphI	GGTGA	2 cut(s)	262, 386
Hpy166II	GTNNAC	3 cut(s)	111, 207, 394
Hpy188I	TCNGA	6 cut(s)	49, 67, 118, 129, 442, 447
Hpy188III	TCNNGA	2 cut(s)	152, 498
Hpy8I	GTNNAC	3 cut(s)	111, 207, 394
HpyAV	CCTTC	2 cut(s)	113, 129
HpyCH4III	ACNGT	2 cut(s)	188, 291
HpyCH4V	TGCA	3 cut(s)	71, 262, 451
HpyF3I	CTNAG	2 cut(s)	64, 90
Hsp92II	CATG	5 cut(s)	163, 216, 422, 458, 501
KspAI	GTTAAC	1 cut(s)	111
Kzo9I	GATC	2 cut(s)	306, 442
LpnPI	CCDG	6 cut(s)	14, 41, 137, 313, 361, 367
Lsp1109I	GCAGC	1 cut(s)	253
LweI	GCATC	3 cut(s)	58, 328, 438
MabI	ACCWGGT	1 cut(s)	27
MaeIII	GTNAC	1 cut(s)	82
MalI	GATC	2 cut(s)	308, 444
MbiI	CCGCTC	1 cut(s)	495
MboI	GATC	2 cut(s)	306, 442
MboII	GAAGA	4 cut(s)	16, 51, 329, 398
MfeI	CAATTG	1 cut(s)	299
MflI	RGATCY	1 cut(s)	442
MhlI	GDGCHC	1 cut(s)	127
MluCI	AATT	2 cut(s)	299, 482
MlyI	GAGTC	1 cut(s)	47
MnlI	CCTC	5 cut(s)	73, 220, 267, 297, 415
MroXI	GAANNNNTTC	1 cut(s)	390
MseI	TTAA	2 cut(s)	110, 237
MslI	CAYNNNNRTG	1 cut(s)	417
MspR9I	CCNGG	1 cut(s)	29
MunI	CAATTG	1 cut(s)	299
MvaI	CCWGG	1 cut(s)	29
NdeII	GATC	2 cut(s)	306, 442
NlaIII	CATG	5 cut(s)	163, 216, 422, 458, 501
NlaIV	GGNNCC	1 cut(s)	296
NmuCI	GTSAC	1 cut(s)	82
PagI	TCATGA	1 cut(s)	497
PdmI	GAANNNNTTC	1 cut(s)	390
PfeI	GAWTC	1 cut(s)	467
PflMI	CCANNNNNTGG	2 cut(s)	375, 432
PkrI	GCNGC	2 cut(s)	243, 494
PleI	GAGTC	1 cut(s)	47
PpsI	GAGTC	1 cut(s)	47
Psp6I	CCWGG	1 cut(s)	27
PspGI	CCWGG	1 cut(s)	27
PspN4I	GGNNCC	1 cut(s)	296
PspPI	GGNCC	2 cut(s)	295, 330
PsuI	RGATCY	1 cut(s)	442
RsaI	GTAC	1 cut(s)	158
RsaNI	GTAC	1 cut(s)	157
RseI	CAYNNNNRTG	1 cut(s)	417
SaqAI	TTAA	2 cut(s)	110, 237
SatI	GCNGC	2 cut(s)	242, 493
Sau3AI	GATC	2 cut(s)	306, 442
Sau96I	GGNCC	2 cut(s)	295, 330
SchI	GAGTC	1 cut(s)	47
ScrFI	CCNGG	1 cut(s)	29
SduI	GDGCHC	1 cut(s)	127
SetI	ASST	8 cut(s)	11, 33, 124, 212, 246, 259, 285, 407
SexAI	ACCWGGT	1 cut(s)	27
SfaNI	GCATC	3 cut(s)	58, 328, 438
SinI	GGWCC	1 cut(s)	295
SmiMI	CAYNNNNRTG	1 cut(s)	417
Sse9I	AATT	2 cut(s)	299, 482
SsiI	CCGC	1 cut(s)	493
SspI	AATATT	1 cut(s)	277
StyD4I	CCNGG	1 cut(s)	27
StyI	CCWWGG	1 cut(s)	333
TaaI	ACNGT	2 cut(s)	188, 291
TasI	AATT	2 cut(s)	299, 482
TatI	WGTACW	1 cut(s)	156
TauI	GCSGC	1 cut(s)	495
TfiI	GAWTC	1 cut(s)	467
Tru1I	TTAA	2 cut(s)	110, 237
Tru9I	TTAA	2 cut(s)	110, 237
TscAI	CASTG	2 cut(s)	296, 319
TseFI	GTSAC	1 cut(s)	82
TseI	GCWGC	1 cut(s)	241
Tsp45I	GTSAC	1 cut(s)	82
TspDTI	ATGAA	3 cut(s)	17, 176, 338
TspGWI	ACGGA	1 cut(s)	192
TspRI	CASTG	2 cut(s)	296, 319
Van91I	CCANNNNNTGG	2 cut(s)	375, 432
VpaK11BI	GGWCC	1 cut(s)	295
XmnI	GAANNNNTTC	1 cut(s)	390

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