Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0001397

Physical Location & Seq

Genomic Coordinates Forward (+)

81197737 .. 81199459

Gene Structure 1723 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG523600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 579 bp

ATGATTCGTTATCTATCTGCCAGTGTGTTATGTCAATATAACAAGTTTGTGGTGGTCTGTGTTAATCTGCAGTTTGTGCCCAAGCAAAGTGGAACTCCTAAGAAAAATGAGATCATATTTACGGCTCCAACTGGAGAGGAGATCTCCAACAAAAAACAGCTGGAACAATACCTGAAGGCACACCCTGGTGGCCCTTCAGTGTCGGAGTTTGATTGGGGCACTGGTGAGACCCCAAGGAGATCGGCTAGGATTAGTGAGAAGGTCAAGGCAACTCCATCCCCAGAGAGTGATCCCCCAAAGAAGCGAAGCAGAAAAACATCAGCTTCGAAGAAGGATAGCAAAGAAAAGGAAGCTGCTCCTCAAGAAACTGAGGGGACAAAAGTTAGTCATGTGCAAGATGCTGATAAAGCTGTGAAGGATAACGATACTGAGATGGAAAAGGCTGATGTGAAGGAAAACCAAGATGAGGATAAAGTACAAGATGCAGATACCAAGGCAGAAGTAGCTCCTCCTGAAGAAGCTAAAGTTGATGTAGGAATCATGTCTATATTTTTTTTCCCGGAGTTCTTAGCAACTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0008327 GO:0036094 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044444 GO:0044464 GO:0097159 GO:1901265 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

MBD

Protein Analysis

192

Amino Acids

21.29

Weight (kDa)

5.61

Isoelectric Point (pI)

49.8

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
MBD	PF01429	24 - 79	4e-10	Methyl-CpG binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001397)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G15790 AT3G15790 AT3G15790
fragaria_vesca	FvH4_1g03020 FvH4_1g03020 FvH4_1g03020 FvH4_1g03020 FvH4_6g29820 FvH4_6g29820 FvH4_6g29820 FvH4_6g29820 FvH4_6g29820 FvH4_6g29820
malus_domestica	MD00G1123000.v1.1 MD02G1029600.v1.1 MD15G1171000.v1.1 MD17G1210700.v1.1
prunus_persica	Prupe.3G086000_v2.0.a1 Prupe.7G245300_v2.0.a1
pyrus_communis	pycom02g02450 pycom09g14100 pycom15g15250 pycom17g21570
rosa_chinensis	RchiOBHm_Chr2g0088151 RchiOBHm_Chr2g0135641
rosa_laevigata	RLG00000015926 RLG00000019474
rosa_multiflora	Rmu_co8260895.1_g000001 Rmu_sc0002398.1_g000036 Rmu_sc0003275.1_g000050
rosa_roxburghii	Rroxscaffold_2G00109020 Rroxscaffold_2G00152920 Rroxscaffold_6G00395860 Rroxscaffold_7G00180210
rosa_rugosa	Rorug01G0481300 Rorug02G0325200
rosa_samantha	Rh2AG036300 Rh2AG376800 Rh2BG035500 Rh2BG076400 Rh2BG383100 Rh2CG036700 Rh2CG078600 Rh2CG362500 Rh2DG036000 Rh2DG399200 Rh5DG523600
rosa_wichuraiana	Rw1G013660 Rw2G002860 Rw2G030730 Rw4G021240 Rw4G021900 Rw7G017350

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	284
AcuI	CTGAAG	3 cut(s)	180, 194, 534
AfaI	GTAC	1 cut(s)	477
AfiI	CCNNNNNNNGG	1 cut(s)	466
AjnI	CCWGG	1 cut(s)	184
AleI	CACNNNNGTG	1 cut(s)	186
AluBI	AGCT	6 cut(s)	160, 323, 353, 410, 506, 521
AluI	AGCT	6 cut(s)	160, 323, 353, 410, 506, 521
Alw26I	GTCTC	1 cut(s)	221
AlwI	GGATC	1 cut(s)	284
AoxI	GGCC	1 cut(s)	190
ApeKI	GCWGC	1 cut(s)	353
AspS9I	GGNCC	1 cut(s)	191
AsuC2I	CCSGG	1 cut(s)	560
AsuHPI	GGTGA	1 cut(s)	236
AsuII	TTCGAA	1 cut(s)	326
BaeGI	GKGCMC	2 cut(s)	81, 221
BbvI	GCAGC	1 cut(s)	340
BccI	CCATC	2 cut(s)	283, 427
BceAI	ACGGC	1 cut(s)	138
BciT130I	CCWGG	1 cut(s)	186
BcnI	CCSGG	1 cut(s)	560
BcoDI	GTCTC	1 cut(s)	221
BfaI	CTAG	1 cut(s)	246
BfmI	CTRYAG	1 cut(s)	68
BglII	AGATCT	1 cut(s)	141
BisI	GCNGC	1 cut(s)	354
BlsI	GCNGC	1 cut(s)	355
Bme1390I	CCNGG	2 cut(s)	186, 560
BmgT120I	GGNCC	1 cut(s)	191
BmiI	GGNNCC	1 cut(s)	126
BmrFI	CCNGG	2 cut(s)	186, 560
BmsI	GCATC	2 cut(s)	388, 472
BplI	GAGNNNNNCTC	2 cut(s)	128, 160
BpmI	CTGGAG	1 cut(s)	153
Bpu14I	TTCGAA	1 cut(s)	326
BpuEI	CTTGAG	1 cut(s)	345
BpuMI	CCSGG	1 cut(s)	560
BsaI	GGTCTC	1 cut(s)	221
BsaJI	CCNNGG	3 cut(s)	184, 233, 492
Bsc4I	CCNNNNNNNGG	1 cut(s)	466
Bse1I	ACTGG	3 cut(s)	21, 136, 226
BseBI	CCWGG	1 cut(s)	186
BseDI	CCNNGG	3 cut(s)	184, 233, 492
BseGI	GGATG	1 cut(s)	275
BseLI	CCNNNNNNNGG	1 cut(s)	466
BseMII	CTCAG	2 cut(s)	360, 420
BseNI	ACTGG	3 cut(s)	21, 136, 226
BseRI	GAGGAG	3 cut(s)	152, 348, 498
BseSI	GKGCMC	2 cut(s)	81, 221
BseXI	GCAGC	1 cut(s)	340
BshFI	GGCC	1 cut(s)	192
BsiSI	CCGG	1 cut(s)	560
BslFI	GGGAC	1 cut(s)	388
BslI	CCNNNNNNNGG	1 cut(s)	466
BsmAI	GTCTC	1 cut(s)	221
BsmFI	GGGAC	1 cut(s)	388
BsnI	GGCC	1 cut(s)	192
Bso31I	GGTCTC	1 cut(s)	221
Bsp119I	TTCGAA	1 cut(s)	326
Bsp1286I	GDGCHC	2 cut(s)	81, 221
Bsp143I	GATC	4 cut(s)	111, 141, 239, 289
BspANI	GGCC	1 cut(s)	192
BspCNI	CTCAG	2 cut(s)	361, 421
BspLI	GGNNCC	1 cut(s)	126
BspMAI	CTGCAG	1 cut(s)	72
BspPI	GGATC	1 cut(s)	284
BspT104I	TTCGAA	1 cut(s)	326
BspTNI	GGTCTC	1 cut(s)	221
BsrI	ACTGG	3 cut(s)	21, 136, 226
BssECI	CCNNGG	3 cut(s)	184, 233, 492
BssMI	GATC	4 cut(s)	111, 141, 239, 289
BssT1I	CCWWGG	2 cut(s)	233, 492
Bst2UI	CCWGG	1 cut(s)	186
BstAPI	GCANNNNNTGC	1 cut(s)	76
BstBI	TTCGAA	1 cut(s)	326
BstDEI	CTNAG	4 cut(s)	99, 369, 429, 568
BstF5I	GGATG	1 cut(s)	275
BstKTI	GATC	4 cut(s)	114, 144, 242, 292
BstMAI	GTCTC	1 cut(s)	221
BstMBI	GATC	4 cut(s)	111, 141, 239, 289
BstMWI	GCNNNNNNNGC	3 cut(s)	76, 407, 503
BstNI	CCWGG	1 cut(s)	186
BstSCI	CCNGG	2 cut(s)	184, 558
BstSFI	CTRYAG	1 cut(s)	68
BstSLI	GKGCMC	2 cut(s)	81, 221
BstV1I	GCAGC	1 cut(s)	340
BstX2I	RGATCY	1 cut(s)	141
BstYI	RGATCY	1 cut(s)	141
BsuRI	GGCC	1 cut(s)	192
BtsCI	GGATG	1 cut(s)	275
BtsIMutI	CAGTG	3 cut(s)	28, 204, 219
Cfr13I	GGNCC	1 cut(s)	191
Csp6I	GTAC	1 cut(s)	476
CspCI	CAANNNNNGTGG	2 cut(s)	70, 105
CviAII	CATG	2 cut(s)	389, 541
CviQI	GTAC	1 cut(s)	476
DdeI	CTNAG	4 cut(s)	99, 369, 429, 568
DpnI	GATC	4 cut(s)	113, 143, 241, 291
DpnII	GATC	4 cut(s)	111, 141, 239, 289
Eco130I	CCWWGG	2 cut(s)	233, 492
Eco31I	GGTCTC	1 cut(s)	221
Eco57I	CTGAAG	3 cut(s)	180, 194, 534
EcoRII	CCWGG	1 cut(s)	184
EcoT14I	CCWWGG	2 cut(s)	233, 492
ErhI	CCWWGG	2 cut(s)	233, 492
FaeI	CATG	2 cut(s)	392, 544
FaiI	YATR	6 cut(s)	31, 39, 116, 390, 542, 548
FaqI	GGGAC	1 cut(s)	388
FatI	CATG	2 cut(s)	388, 540
Fnu4HI	GCNGC	1 cut(s)	354
FokI	GGATG	1 cut(s)	262
Fsp4HI	GCNGC	1 cut(s)	354
FspBI	CTAG	1 cut(s)	246
GluI	GCNGC	1 cut(s)	354
GsuI	CTGGAG	1 cut(s)	153
HaeIII	GGCC	1 cut(s)	192
HapII	CCGG	1 cut(s)	560
Hin1II	CATG	2 cut(s)	392, 544
HinfI	GANTC	2 cut(s)	4, 537
HpaII	CCGG	1 cut(s)	560
HphI	GGTGA	1 cut(s)	236
Hpy188I	TCNGA	1 cut(s)	205
Hpy188III	TCNNGA	2 cut(s)	362, 512
HpyAV	CCTTC	6 cut(s)	169, 204, 253, 325, 409, 445
HpyCH4V	TGCA	3 cut(s)	70, 394, 485
HpyF10VI	GCNNNNNNNGC	3 cut(s)	76, 407, 503
HpyF3I	CTNAG	4 cut(s)	99, 369, 429, 568
Hsp92II	CATG	2 cut(s)	392, 544
Kzo9I	GATC	4 cut(s)	111, 141, 239, 289
LmnI	GCTCC	3 cut(s)	130, 361, 511
Lsp1109I	GCAGC	1 cut(s)	340
LweI	GCATC	2 cut(s)	388, 472
MaeI	CTAG	1 cut(s)	246
MalI	GATC	4 cut(s)	113, 143, 241, 291
MboI	GATC	4 cut(s)	111, 141, 239, 289
MboII	GAAGA	2 cut(s)	340, 527
MflI	RGATCY	1 cut(s)	141
MhlI	GDGCHC	2 cut(s)	81, 221
MmeI	TCCRAC	3 cut(s)	152, 171, 183
MnlI	CCTC	5 cut(s)	130, 364, 369, 460, 519
MseI	TTAA	1 cut(s)	63
MslI	CAYNNNNRTG	1 cut(s)	186
MspA1I	CMGCKG	1 cut(s)	160
MspI	CCGG	1 cut(s)	560
MspR9I	CCNGG	2 cut(s)	186, 560
MvaI	CCWGG	1 cut(s)	186
MwoI	GCNNNNNNNGC	3 cut(s)	76, 407, 503
NciI	CCSGG	1 cut(s)	560
NdeII	GATC	4 cut(s)	111, 141, 239, 289
NlaIII	CATG	2 cut(s)	392, 544
NlaIV	GGNNCC	1 cut(s)	126
NspV	TTCGAA	1 cut(s)	326
OliI	CACNNNNGTG	1 cut(s)	186
PfeI	GAWTC	2 cut(s)	4, 537
PfoI	TCCNGGA	1 cut(s)	558
PkrI	GCNGC	1 cut(s)	355
Psp6I	CCWGG	1 cut(s)	184
PspGI	CCWGG	1 cut(s)	184
PspN4I	GGNNCC	1 cut(s)	126
PspPI	GGNCC	1 cut(s)	191
PstI	CTGCAG	1 cut(s)	72
PsuI	RGATCY	1 cut(s)	141
PvuII	CAGCTG	1 cut(s)	160
RsaI	GTAC	1 cut(s)	477
RsaNI	GTAC	1 cut(s)	476
RseI	CAYNNNNRTG	1 cut(s)	186
SaqAI	TTAA	1 cut(s)	63
SatI	GCNGC	1 cut(s)	354
Sau3AI	GATC	4 cut(s)	111, 141, 239, 289
Sau96I	GGNCC	1 cut(s)	191
ScrFI	CCNGG	2 cut(s)	186, 560
SduI	GDGCHC	2 cut(s)	81, 221
SetI	ASST	8 cut(s)	162, 174, 264, 325, 355, 412, 508, 523
SfaNI	GCATC	2 cut(s)	388, 472
SfcI	CTRYAG	1 cut(s)	68
SfuI	TTCGAA	1 cut(s)	326
SmiMI	CAYNNNNRTG	1 cut(s)	186
SmlI	CTYRAG	1 cut(s)	360
SmoI	CTYRAG	1 cut(s)	360
SspMI	CTAG	1 cut(s)	246
StyD4I	CCNGG	2 cut(s)	184, 558
StyI	CCWWGG	2 cut(s)	233, 492
TaqI	TCGA	1 cut(s)	326
TatI	WGTACW	1 cut(s)	475
TfiI	GAWTC	2 cut(s)	4, 537
Tru1I	TTAA	1 cut(s)	63
Tru9I	TTAA	1 cut(s)	63
TscAI	CASTG	3 cut(s)	28, 204, 226
TseI	GCWGC	1 cut(s)	353
TspRI	CASTG	3 cut(s)	28, 204, 226
XspI	CTAG	1 cut(s)	246

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