Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0001397

Physical Location & Seq

Genomic Coordinates Reverse (-)

2450524 .. 2452864

Gene Structure 2341 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG035500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 888 bp

ATGGCAAGCTCAGTGGAGAAGGAGGAGGTTGTGACCTTAGAGCTACCAGCTCCTTCTGGTTGGATGAAGAAGTTTGTGCCCAAGCAAAGTGGAACTCCTAAGAAAAATGAGATCATATTTACGGCTCCAACTGGAGAGGAGATCTCCAACAAAAAACAGCTGGAACAATACCTGAAGGCACACCCTGGTGGCCCTTCAGTGTCGGAGTTTGATTGGGGCACTGGTGAGACCCCAAGGAGATCGGCTAGGATTAGTGAGAAGGTCAAGGCAACTCCATCCCCAGAAAGTGATCCCCCGAAGAAGCGAAGCAGAAAAACATCAGCTTCGAAGAAGGATAGCAAAGAAAAGGAAGCTGCTCCTCAAGGAACTGAGGAGACAAAAGTTAGTGATGTGCAAGATGCTGATAAAGCTGTGAAGGATAACGATACTGAGATGGAAAAGGCTGATGTGAAGGAAAACCAAGATGAGGATAAAGTACAAGATGCAGATACCAAGGCAGAAGTAGCTCCTCCCGAAGAAGCTAAAGTTGATGTAGGAACCAATGATGGGAAGGAAGTTGAGGGTTCTGGCTCTGGAGAACAAAATGAAAAGAAAGGTTTGGAAGGAGGAAAAGTAGAAGAAAAGGTCGGGCAACCACCATCTGAGGCGCAGGAAAAGGAAGTGACTGGGGATCAGGGCAAAGCAGACATAGCTACCGCACATGAGGACAAACATGAAGGAGAAGGAGAGGAAAAAGAAAAACATAATGAAAGTGAAACTAAGGAGAAAGAAGCAGCACAAGGGAAGGATGAGGAACATAAGAGTTCAGGTGTTCATGAGTTGGGCAAGAAGATTGAAGCAGCAGTGACTGACAATGGCAGCAACGGCAATGAGGCTGCGAAGGTTTAG

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

295

Amino Acids

31.83

Weight (kDa)

4.92

Isoelectric Point (pI)

44.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
MBD	PF01429	9 - 79	7.6e-15	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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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)
AciI	CCGC	1 cut(s)	696
AclWI	GGATC	2 cut(s)	284, 678
AcuI	CTGAAG	2 cut(s)	180, 194
AfaI	GTAC	1 cut(s)	477
AfiI	CCNNNNNNNGG	2 cut(s)	466, 546
AgsI	TTSAA	1 cut(s)	836
AjnI	CCWGG	1 cut(s)	184
AleI	CACNNNNGTG	1 cut(s)	186
Alw26I	GTCTC	2 cut(s)	221, 368
AlwI	GGATC	2 cut(s)	284, 678
AlwNI	CAGNNNCTG	1 cut(s)	848
AoxI	GGCC	1 cut(s)	190
ApeKI	GCWGC	5 cut(s)	353, 773, 839, 858, 875
AspLEI	GCGC	1 cut(s)	649
AspS9I	GGNCC	1 cut(s)	191
AsuHPI	GGTGA	1 cut(s)	236
AsuII	TTCGAA	1 cut(s)	326
BaeGI	GKGCMC	2 cut(s)	81, 221
BbvI	GCAGC	5 cut(s)	340, 785, 851, 862, 870
BccI	CCATC	4 cut(s)	283, 427, 539, 646
BceAI	ACGGC	2 cut(s)	138, 880
BciT130I	CCWGG	1 cut(s)	186
BcoDI	GTCTC	2 cut(s)	221, 368
BfaI	CTAG	1 cut(s)	246
BglII	AGATCT	1 cut(s)	141
BisI	GCNGC	5 cut(s)	354, 774, 840, 859, 876
BlsI	GCNGC	5 cut(s)	355, 775, 841, 860, 877
Bme1390I	CCNGG	1 cut(s)	186
BmgT120I	GGNCC	1 cut(s)	191
BmiI	GGNNCC	2 cut(s)	126, 538
BmrFI	CCNGG	1 cut(s)	186
BmrI	ACTGGG	1 cut(s)	675
BmsI	GCATC	2 cut(s)	388, 472
BmuI	ACTGGG	1 cut(s)	675
BplI	GAGNNNNNCTC	2 cut(s)	128, 160
BpmI	CTGGAG	2 cut(s)	153, 594
Bpu14I	TTCGAA	1 cut(s)	326
BpuEI	CTTGAG	1 cut(s)	345
BsaI	GGTCTC	1 cut(s)	221
BsaJI	CCNNGG	3 cut(s)	184, 233, 492
BsaXI	ACNNNNNCTCC	2 cut(s)	597, 627
Bsc4I	CCNNNNNNNGG	2 cut(s)	466, 546
Bse1I	ACTGG	3 cut(s)	136, 226, 670
Bse3DI	GCAATG	1 cut(s)	874
BseBI	CCWGG	1 cut(s)	186
BseDI	CCNNGG	3 cut(s)	184, 233, 492
BseGI	GGATG	3 cut(s)	69, 275, 793
BseLI	CCNNNNNNNGG	2 cut(s)	466, 546
BseMI	GCAATG	1 cut(s)	874
BseMII	CTCAG	4 cut(s)	24, 360, 420, 633
BseNI	ACTGG	3 cut(s)	136, 226, 670
BseRI	GAGGAG	5 cut(s)	38, 152, 348, 386, 498
BseSI	GKGCMC	2 cut(s)	81, 221
BseXI	GCAGC	5 cut(s)	340, 785, 851, 862, 870
BshFI	GGCC	1 cut(s)	192
BslI	CCNNNNNNNGG	2 cut(s)	466, 546
BsmAI	GTCTC	2 cut(s)	221, 368
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	5 cut(s)	111, 141, 239, 289, 670
BspACI	CCGC	1 cut(s)	696
BspANI	GGCC	1 cut(s)	192
BspCNI	CTCAG	4 cut(s)	23, 361, 421, 634
BspHI	TCATGA	1 cut(s)	814
BspLI	GGNNCC	2 cut(s)	126, 538
BspPI	GGATC	2 cut(s)	284, 678
BspT104I	TTCGAA	1 cut(s)	326
BspTNI	GGTCTC	1 cut(s)	221
BsrDI	GCAATG	1 cut(s)	874
BsrI	ACTGG	3 cut(s)	136, 226, 670
BssECI	CCNNGG	3 cut(s)	184, 233, 492
BssMI	GATC	5 cut(s)	111, 141, 239, 289, 670
BssT1I	CCWWGG	2 cut(s)	233, 492
Bst2UI	CCWGG	1 cut(s)	186
BstBI	TTCGAA	1 cut(s)	326
BstC8I	GCNNGC	1 cut(s)	7
BstDEI	CTNAG	7 cut(s)	10, 37, 99, 369, 429, 642, 759
BstF5I	GGATG	3 cut(s)	69, 275, 793
BstHHI	GCGC	1 cut(s)	649
BstKTI	GATC	5 cut(s)	114, 144, 242, 292, 673
BstMAI	GTCTC	2 cut(s)	221, 368
BstMBI	GATC	5 cut(s)	111, 141, 239, 289, 670
BstMWI	GCNNNNNNNGC	4 cut(s)	407, 503, 689, 864
BstNI	CCWGG	1 cut(s)	186
BstSCI	CCNGG	1 cut(s)	184
BstSLI	GKGCMC	2 cut(s)	81, 221
BstV1I	GCAGC	5 cut(s)	340, 785, 851, 862, 870
BstX2I	RGATCY	1 cut(s)	141
BstYI	RGATCY	1 cut(s)	141
BsuRI	GGCC	1 cut(s)	192
BtsCI	GGATG	3 cut(s)	69, 275, 793
BtsI	GCAGTG	1 cut(s)	849
BtsIMutI	CAGTG	4 cut(s)	18, 204, 219, 849
Cac8I	GCNNGC	1 cut(s)	7
CaiI	CAGNNNCTG	1 cut(s)	848
CciI	TCATGA	1 cut(s)	814
CfoI	GCGC	1 cut(s)	649
Cfr13I	GGNCC	1 cut(s)	191
Csp6I	GTAC	1 cut(s)	476
CspCI	CAANNNNNGTGG	3 cut(s)	29, 70, 105
CviAII	CATG	3 cut(s)	701, 713, 815
CviQI	GTAC	1 cut(s)	476
DdeI	CTNAG	7 cut(s)	10, 37, 99, 369, 429, 642, 759
DpnI	GATC	5 cut(s)	113, 143, 241, 291, 672
DpnII	GATC	5 cut(s)	111, 141, 239, 289, 670
Eco130I	CCWWGG	2 cut(s)	233, 492
Eco31I	GGTCTC	1 cut(s)	221
Eco57I	CTGAAG	2 cut(s)	180, 194
EcoRII	CCWGG	1 cut(s)	184
EcoT14I	CCWWGG	2 cut(s)	233, 492
ErhI	CCWWGG	2 cut(s)	233, 492
FaeI	CATG	3 cut(s)	704, 716, 818
FaiI	YATR	7 cut(s)	116, 689, 702, 714, 744, 798, 816
FatI	CATG	3 cut(s)	700, 712, 814
Fnu4HI	GCNGC	5 cut(s)	354, 774, 840, 859, 876
FokI	GGATG	3 cut(s)	76, 262, 800
Fsp4HI	GCNGC	5 cut(s)	354, 774, 840, 859, 876
FspBI	CTAG	1 cut(s)	246
GlaI	GCGC	1 cut(s)	648
GluI	GCNGC	5 cut(s)	354, 774, 840, 859, 876
GsuI	CTGGAG	2 cut(s)	153, 594
HaeIII	GGCC	1 cut(s)	192
HhaI	GCGC	1 cut(s)	649
Hin1II	CATG	3 cut(s)	704, 716, 818
Hin6I	GCGC	1 cut(s)	647
HinP1I	GCGC	1 cut(s)	647
HphI	GGTGA	1 cut(s)	236
Hpy188I	TCNGA	2 cut(s)	205, 643
Hpy188III	TCNNGA	3 cut(s)	512, 573, 815
HpyCH4V	TGCA	2 cut(s)	394, 485
HpyF10VI	GCNNNNNNNGC	4 cut(s)	407, 503, 689, 864
HpyF3I	CTNAG	7 cut(s)	10, 37, 99, 369, 429, 642, 759
Hsp92II	CATG	3 cut(s)	704, 716, 818
HspAI	GCGC	1 cut(s)	647
Kzo9I	GATC	5 cut(s)	111, 141, 239, 289, 670
LmnI	GCTCC	4 cut(s)	55, 130, 361, 511
Lsp1109I	GCAGC	5 cut(s)	340, 785, 851, 862, 870
LweI	GCATC	2 cut(s)	388, 472
MaeI	CTAG	1 cut(s)	246
MaeIII	GTNAC	3 cut(s)	31, 661, 844
MalI	GATC	5 cut(s)	113, 143, 241, 291, 672
MboI	GATC	5 cut(s)	111, 141, 239, 289, 670
MboII	GAAGA	6 cut(s)	79, 310, 340, 527, 629, 841
MflI	RGATCY	1 cut(s)	141
MhlI	GDGCHC	2 cut(s)	81, 221
MmeI	TCCRAC	4 cut(s)	41, 152, 171, 183
MslI	CAYNNNNRTG	1 cut(s)	186
MspA1I	CMGCKG	1 cut(s)	160
MspR9I	CCNGG	1 cut(s)	186
MvaI	CCWGG	1 cut(s)	186
MwoI	GCNNNNNNNGC	4 cut(s)	407, 503, 689, 864
NdeII	GATC	5 cut(s)	111, 141, 239, 289, 670
NlaIII	CATG	3 cut(s)	704, 716, 818
NlaIV	GGNNCC	2 cut(s)	126, 538
NmuCI	GTSAC	3 cut(s)	31, 661, 844
NspV	TTCGAA	1 cut(s)	326
OliI	CACNNNNGTG	1 cut(s)	186
PagI	TCATGA	1 cut(s)	814
PkrI	GCNGC	5 cut(s)	355, 775, 841, 860, 877
Psp6I	CCWGG	1 cut(s)	184
PspGI	CCWGG	1 cut(s)	184
PspN4I	GGNNCC	2 cut(s)	126, 538
PspPI	GGNCC	1 cut(s)	191
PstNI	CAGNNNCTG	1 cut(s)	848
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
SatI	GCNGC	5 cut(s)	354, 774, 840, 859, 876
Sau3AI	GATC	5 cut(s)	111, 141, 239, 289, 670
Sau96I	GGNCC	1 cut(s)	191
ScrFI	CCNGG	1 cut(s)	186
SduI	GDGCHC	2 cut(s)	81, 221
SfaNI	GCATC	2 cut(s)	388, 472
SfuI	TTCGAA	1 cut(s)	326
SmiMI	CAYNNNNRTG	1 cut(s)	186
SmlI	CTYRAG	1 cut(s)	360
SmoI	CTYRAG	1 cut(s)	360
SsiI	CCGC	1 cut(s)	696
SspMI	CTAG	1 cut(s)	246
StyD4I	CCNGG	1 cut(s)	184
StyI	CCWWGG	2 cut(s)	233, 492
TaqI	TCGA	1 cut(s)	326
TatI	WGTACW	1 cut(s)	475
TscAI	CASTG	4 cut(s)	18, 204, 226, 849
TseFI	GTSAC	3 cut(s)	31, 661, 844
TseI	GCWGC	5 cut(s)	353, 773, 839, 858, 875
Tsp45I	GTSAC	3 cut(s)	31, 661, 844
TspDTI	ATGAA	5 cut(s)	80, 600, 729, 762, 803
TspRI	CASTG	4 cut(s)	18, 204, 226, 849
XspI	CTAG	1 cut(s)	246

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