Basic Information

Type: gene

Biological Identity

Species

pyrus_communis

Chromosome

Chr16

Orthogroup ID

OG0012911

Physical Location & Seq

Genomic Coordinates Forward (+)

12522108 .. 12523290

Gene Structure 1183 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

N/A

Sequence Viewer

CDS Protein Promoter (2k)

Length: 549 bp

ATGAAGAGGGCAGCTCCCTGGGATGAGCAGGTGGATGTTATTTCATCAGATGACTCTTCTTCCCCGGAAATGGAGATGGAATCCGTTAATGAGTGCGATAGCAAGCAGTCAGACACTAATATCACATTTGATCAACCTGACAAAGAAATAACACCAGAAGGTACGTGCTTTGGCACGAAGGGCAGAGATGTATCAAGACTACATGAAGCAGATCCTTTGTCGATCCCATCAAACCGTGGCTCTGTTATTCCATTTACCTCATGGACGGGTTTAGGCAAGTCCATTAAGCAATTGTATGGACAACCTTTGCATTACCTCACCAATCTTCTCCTAAAACAGTGGGATCAGCTGAGGATCGGCAGTGAGGCGGAGTACAGGCCCTTGGATACCATCATTCATCCTTGTAAAGCTGAAGCCACCATCTGGCTCGTTGAAGAAGTCCACCGGCACACCTCATCTCATCATCATGTAGCAAATCTCTGGCTCAAAGATCCGATGCACCATGCCTCCATTGACGCCATATTTCCCCAGCTACGAAGCAAATCGTGA

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

183

Amino Acids

20.61

Weight (kDa)

5.5

Isoelectric Point (pI)

51.81

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RdDM_RDM1	PF09187	73 - 177	1.2e-55	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)
AarI	CACCTGC	1 cut(s)	19
Acc36I	ACCTGC	1 cut(s)	19
AccB7I	CCANNNNNTGG	1 cut(s)	423
AciI	CCGC	1 cut(s)	368
AclWI	GGATC	5 cut(s)	206, 217, 351, 362, 485
AcuI	CTGAAG	1 cut(s)	432
AcyI	GRCGYC	1 cut(s)	516
AfaI	GTAC	2 cut(s)	163, 374
AfiI	CCNNNNNNNGG	2 cut(s)	70, 423
AgsI	TTSAA	1 cut(s)	434
AjnI	CCWGG	1 cut(s)	17
AluBI	AGCT	4 cut(s)	14, 349, 410, 532
AluI	AGCT	4 cut(s)	14, 349, 410, 532
AlwI	GGATC	5 cut(s)	206, 217, 351, 362, 485
AoxI	GGCC	1 cut(s)	377
ApeKI	GCWGC	1 cut(s)	11
AspS9I	GGNCC	1 cut(s)	378
AsuC2I	CCSGG	1 cut(s)	65
AsuHPI	GGTGA	1 cut(s)	310
BbvCI	CCTCAGC	1 cut(s)	350
BbvI	GCAGC	1 cut(s)	23
BccI	CCATC	4 cut(s)	70, 235, 398, 428
BciT130I	CCWGG	1 cut(s)	19
BciVI	GTATCC	1 cut(s)	379
BclI	TGATCA	1 cut(s)	130
BcnI	CCSGG	1 cut(s)	65
BfuAI	ACCTGC	1 cut(s)	19
BfuI	GTATCC	1 cut(s)	379
BisI	GCNGC	1 cut(s)	12
BlsI	GCNGC	1 cut(s)	13
Bme1390I	CCNGG	2 cut(s)	19, 65
BmgT120I	GGNCC	1 cut(s)	378
BmrFI	CCNGG	2 cut(s)	19, 65
BmsI	GCATC	1 cut(s)	486
BplI	GAGNNNNNCTC	1 cut(s)	30
Bpu10I	CCTNAGC	1 cut(s)	350
BpuMI	CCSGG	1 cut(s)	65
BsaAI	YACGTR	1 cut(s)	165
BsaHI	GRCGYC	1 cut(s)	516
BsaJI	CCNNGG	5 cut(s)	17, 18, 63, 235, 381
BsaXI	ACNNNNNCTCC	2 cut(s)	491, 521
Bsc4I	CCNNNNNNNGG	2 cut(s)	70, 423
Bse118I	RCCGGY	1 cut(s)	444
BseBI	CCWGG	1 cut(s)	19
BseDI	CCNNGG	5 cut(s)	17, 18, 63, 235, 381
BseGI	GGATG	3 cut(s)	28, 40, 397
BseLI	CCNNNNNNNGG	2 cut(s)	70, 423
BseMII	CTCAG	1 cut(s)	341
BseXI	GCAGC	1 cut(s)	23
BseYI	CCCAGC	1 cut(s)	528
BshFI	GGCC	1 cut(s)	379
BsiSI	CCGG	2 cut(s)	65, 445
BslI	CCNNNNNNNGG	2 cut(s)	70, 423
BsnI	GGCC	1 cut(s)	379
Bsp143I	GATC	6 cut(s)	130, 211, 222, 343, 354, 490
BspACI	CCGC	1 cut(s)	368
BspANI	GGCC	1 cut(s)	379
BspCNI	CTCAG	1 cut(s)	342
BspMI	ACCTGC	1 cut(s)	19
BspPI	GGATC	5 cut(s)	206, 217, 351, 362, 485
BsrFI	RCCGGY	1 cut(s)	444
BssAI	RCCGGY	1 cut(s)	444
BssECI	CCNNGG	5 cut(s)	17, 18, 63, 235, 381
BssMI	GATC	6 cut(s)	130, 211, 222, 343, 354, 490
BssNI	GRCGYC	1 cut(s)	516
BssT1I	CCWWGG	1 cut(s)	381
Bst2UI	CCWGG	1 cut(s)	19
Bst4CI	ACNGT	2 cut(s)	236, 339
Bst6I	CTCTTC	1 cut(s)	61
BstACI	GRCGYC	1 cut(s)	516
BstBAI	YACGTR	1 cut(s)	165
BstC8I	GCNNGC	1 cut(s)	104
BstDEI	CTNAG	1 cut(s)	350
BstDSI	CCRYGG	1 cut(s)	235
BstF5I	GGATG	3 cut(s)	28, 40, 397
BstKTI	GATC	6 cut(s)	133, 214, 225, 346, 357, 493
BstMBI	GATC	6 cut(s)	130, 211, 222, 343, 354, 490
BstMWI	GCNNNNNNNGC	1 cut(s)	180
BstNI	CCWGG	1 cut(s)	19
BstSCI	CCNGG	2 cut(s)	17, 63
BstV1I	GCAGC	1 cut(s)	23
BstX2I	RGATCY	2 cut(s)	211, 490
BstYI	RGATCY	2 cut(s)	211, 490
BsuI	GTATCC	1 cut(s)	379
BsuRI	GGCC	1 cut(s)	379
BtgI	CCRYGG	1 cut(s)	235
BtsCI	GGATG	3 cut(s)	28, 40, 397
BtsI	GCAGTG	1 cut(s)	367
BtsIMutI	CAGTG	2 cut(s)	344, 367
BveI	ACCTGC	1 cut(s)	19
Cac8I	GCNNGC	1 cut(s)	104
Cfr10I	RCCGGY	1 cut(s)	444
Cfr13I	GGNCC	1 cut(s)	378
CseI	GACGC	1 cut(s)	524
Csp6I	GTAC	2 cut(s)	162, 373
CviAII	CATG	4 cut(s)	203, 261, 467, 503
CviJI	RGCY	9 cut(s)	14, 240, 349, 379, 410, 416, 427, 484, 532
CviKI_1	RGCY	9 cut(s)	14, 240, 349, 379, 410, 416, 427, 484, 532
CviQI	GTAC	2 cut(s)	162, 373
DdeI	CTNAG	1 cut(s)	350
DpnI	GATC	6 cut(s)	132, 213, 224, 345, 356, 492
DpnII	GATC	6 cut(s)	130, 211, 222, 343, 354, 490
Eam1104I	CTCTTC	1 cut(s)	61
EarI	CTCTTC	1 cut(s)	61
EciI	GGCGGA	1 cut(s)	383
Eco130I	CCWWGG	1 cut(s)	381
Eco57I	CTGAAG	1 cut(s)	432
EcoO109I	RGGNCCY	1 cut(s)	378
EcoRII	CCWGG	1 cut(s)	17
EcoT14I	CCWWGG	1 cut(s)	381
ErhI	CCWWGG	1 cut(s)	381
FaeI	CATG	4 cut(s)	206, 264, 470, 506
FaiI	YATR	6 cut(s)	204, 262, 297, 468, 504, 521
FatI	CATG	4 cut(s)	202, 260, 466, 502
FbaI	TGATCA	1 cut(s)	130
Fnu4HI	GCNGC	1 cut(s)	12
FokI	GGATG	3 cut(s)	35, 47, 384
Fsp4HI	GCNGC	1 cut(s)	12
GluI	GCNGC	1 cut(s)	12
GsaI	CCCAGC	1 cut(s)	532
HaeIII	GGCC	1 cut(s)	379
HapII	CCGG	2 cut(s)	65, 445
HgaI	GACGC	1 cut(s)	524
Hin1I	GRCGYC	1 cut(s)	516
Hin1II	CATG	4 cut(s)	206, 264, 470, 506
HinfI	GANTC	2 cut(s)	53, 80
HpaII	CCGG	2 cut(s)	65, 445
HphI	GGTGA	1 cut(s)	310
Hpy166II	GTNNAC	1 cut(s)	442
Hpy188I	TCNGA	3 cut(s)	49, 112, 495
Hpy188III	TCNNGA	2 cut(s)	195, 546
Hpy8I	GTNNAC	1 cut(s)	442
HpyAV	CCTTC	2 cut(s)	152, 172
HpyCH4III	ACNGT	2 cut(s)	236, 339
HpyCH4IV	ACGT	1 cut(s)	164
HpyCH4V	TGCA	2 cut(s)	310, 499
HpyF10VI	GCNNNNNNNGC	1 cut(s)	180
HpyF3I	CTNAG	1 cut(s)	350
HpySE526I	ACGT	1 cut(s)	164
Hsp92I	GRCGYC	1 cut(s)	516
Hsp92II	CATG	4 cut(s)	206, 264, 470, 506
Ksp22I	TGATCA	1 cut(s)	130
Kzo9I	GATC	6 cut(s)	130, 211, 222, 343, 354, 490
LmnI	GCTCC	1 cut(s)	19
Lsp1109I	GCAGC	1 cut(s)	23
LweI	GCATC	1 cut(s)	486
MaeII	ACGT	1 cut(s)	164
MalI	GATC	6 cut(s)	132, 213, 224, 345, 356, 492
MboI	GATC	6 cut(s)	130, 211, 222, 343, 354, 490
MboII	GAAGA	5 cut(s)	16, 48, 51, 317, 446
MfeI	CAATTG	1 cut(s)	290
MflI	RGATCY	2 cut(s)	211, 490
MluCI	AATT	1 cut(s)	290
MlyI	GAGTC	1 cut(s)	47
MnlI	CCTC	6 cut(s)	268, 326, 345, 358, 463, 517
MseI	TTAA	2 cut(s)	87, 285
MslI	CAYNNNNRTG	1 cut(s)	465
MspA1I	CMGCKG	1 cut(s)	349
MspI	CCGG	2 cut(s)	65, 445
MspR9I	CCNGG	2 cut(s)	19, 65
MunI	CAATTG	1 cut(s)	290
MvaI	CCWGG	1 cut(s)	19
MwoI	GCNNNNNNNGC	1 cut(s)	180
NciI	CCSGG	1 cut(s)	65
NdeII	GATC	6 cut(s)	130, 211, 222, 343, 354, 490
NlaIII	CATG	4 cut(s)	206, 264, 470, 506
PaqCI	CACCTGC	1 cut(s)	19
PasI	CCCWGGG	1 cut(s)	18
PfeI	GAWTC	1 cut(s)	80
PflMI	CCANNNNNTGG	1 cut(s)	423
PkrI	GCNGC	1 cut(s)	13
PleI	GAGTC	1 cut(s)	47
PpsI	GAGTC	1 cut(s)	47
Ppu21I	YACGTR	1 cut(s)	165
Psp6I	CCWGG	1 cut(s)	17
PspFI	CCCAGC	1 cut(s)	528
PspGI	CCWGG	1 cut(s)	17
PspPI	GGNCC	1 cut(s)	378
PsuI	RGATCY	2 cut(s)	211, 490
PvuII	CAGCTG	1 cut(s)	349
RsaI	GTAC	2 cut(s)	163, 374
RsaNI	GTAC	2 cut(s)	162, 373
RseI	CAYNNNNRTG	1 cut(s)	465
SaqAI	TTAA	2 cut(s)	87, 285
SatI	GCNGC	1 cut(s)	12
Sau3AI	GATC	6 cut(s)	130, 211, 222, 343, 354, 490
Sau96I	GGNCC	1 cut(s)	378
SchI	GAGTC	1 cut(s)	47
ScrFI	CCNGG	2 cut(s)	19, 65
SfaNI	GCATC	1 cut(s)	486
SmiMI	CAYNNNNRTG	1 cut(s)	465
Sse9I	AATT	1 cut(s)	290
SsiI	CCGC	1 cut(s)	368
StyD4I	CCNGG	2 cut(s)	17, 63
StyI	CCWWGG	1 cut(s)	381
TaaI	ACNGT	2 cut(s)	236, 339
TaiI	ACGT	1 cut(s)	167
TaqI	TCGA	1 cut(s)	221
TasI	AATT	1 cut(s)	290
TatI	WGTACW	1 cut(s)	372
TfiI	GAWTC	1 cut(s)	80
Tru1I	TTAA	2 cut(s)	87, 285
Tru9I	TTAA	2 cut(s)	87, 285
TscAI	CASTG	2 cut(s)	344, 367
TseI	GCWGC	1 cut(s)	11
TspDTI	ATGAA	4 cut(s)	17, 33, 219, 386
TspGWI	ACGGA	1 cut(s)	73
TspRI	CASTG	2 cut(s)	344, 367
Van91I	CCANNNNNTGG	1 cut(s)	423
XcmI	CCANNNNNNNNNTGG	1 cut(s)	258

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