Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0001397

Physical Location & Seq

Genomic Coordinates Reverse (-)

56439211 .. 56444341

Gene Structure 5131 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG376800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 942 bp

ATGTGCACAGCCATACCCTGTTTTCAGAGAGGCTGTTTCCGGAACTTGACCCACGACCATCAGGTTGCTACGGCAAGGCATTCTGTTTCTGCCAATATTTTACCCAAGAAGGGAGTTACACCAAGGAAAAATGATGTCACATTCATTTCTCCAACTGGGGAGGAGATTAACAATAAAAAACAACTGGAGCAGTACCTAAAATCACATCCTGGTAACCCTGCAATGTCGGAGTTTGATTGGAGCACAGGTGAAACCCCTAGGAGATCATCCAGGATCAGTGAAAAGGTCAAGTTGACTCCCCCACCGGAGAATGAGCCTCCAAAGAAAAGAGGCCGGAAATCATCAGGTTCAAAGGACAATAAAGTGGAGACTACTGATGCAGAACATGGTACGAATGACACTGAAATGAAAGATGCAGAGGTAGCTGAGAAGAAAGATGGAGAAGCTGAGAAACAGGTTGAGAATGGAGGAAAAGCAGCAGAAGAAACTGACCAAATTAAGACCACAGATACCAAAACTGAAGAAACTATCCCAGAGGATGGTAAGGAGACTCAGACTCATGTTATGGAAACTCAAGGTGAAGAGAAAGATGAAAAGTCAAACAGTGTTGCATCAGAGGAACAACCTGCTGAAGTAGCTTTGGCTACTGAGGTAACTGAAAACAACAAGGAAAAGGTGCCACAAGCTGAGGGGGAGGAAGGAAATGGCTCTACTGACAAGAAACAGGACAACACAACATCTGCTGTGACCATTGAAGAAAATGGAGCACCAGAGAAAGTGAATCTGAAGGGAATAGCACCATCTGTGGAGGAAGAGATCAAAGGGAAACAAGAGGTCGATGGGAAAAGCGATGCTCCAGCTGAGGAGAAAGTTAAGACAAAGGATGGGGAGGTAGTTGAAAATGGTAAGGTTGGCCAAGTGGTTAAACCTGATGCTGCATAA

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

313

Amino Acids

34.07

Weight (kDa)

4.97

Isoelectric Point (pI)

42.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
MBD	PF01429	35 - 87	2.8e-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

Tree File

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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)
Acc36I	ACCTGC	1 cut(s)	634
AccB1I	GGYRCC	1 cut(s)	676
AccB7I	CCANNNNNTGG	1 cut(s)	539
AccIII	TCCGGA	1 cut(s)	39
AclWI	GGATC	1 cut(s)	281
AcoI	YGGCCR	1 cut(s)	913
AcuI	CTGAAG	3 cut(s)	540, 651, 806
AfaI	GTAC	2 cut(s)	194, 391
AfiI	CCNNNNNNNGG	2 cut(s)	110, 539
AgsI	TTSAA	3 cut(s)	351, 755, 899
AjnI	CCWGG	2 cut(s)	208, 269
AluBI	AGCT	5 cut(s)	425, 446, 638, 686, 860
AluI	AGCT	5 cut(s)	425, 446, 638, 686, 860
Alw21I	GWGCWC	3 cut(s)	8, 245, 769
Alw26I	GTCTC	2 cut(s)	362, 542
Alw44I	GTGCAC	1 cut(s)	4
AlwI	GGATC	1 cut(s)	281
Aor13HI	TCCGGA	1 cut(s)	39
AoxI	GGCC	2 cut(s)	331, 913
ApaLI	GTGCAC	1 cut(s)	4
ApeKI	GCWGC	2 cut(s)	476, 935
AspA2I	CCTAGG	1 cut(s)	257
AsuHPI	GGTGA	2 cut(s)	260, 590
AvrII	CCTAGG	1 cut(s)	257
BaeGI	GKGCMC	1 cut(s)	8
BalI	TGGCCA	1 cut(s)	915
BanI	GGYRCC	1 cut(s)	676
Bbv12I	GWGCWC	3 cut(s)	8, 245, 769
BbvCI	CCTCAGC	2 cut(s)	687, 861
BbvI	GCAGC	2 cut(s)	488, 922
BccI	CCATC	6 cut(s)	66, 431, 533, 808, 833, 878
BceAI	ACGGC	1 cut(s)	87
BciT130I	CCWGG	2 cut(s)	210, 271
BcoDI	GTCTC	2 cut(s)	362, 542
BfaI	CTAG	1 cut(s)	258
BfuAI	ACCTGC	1 cut(s)	634
BisI	GCNGC	2 cut(s)	477, 936
BlnI	CCTAGG	1 cut(s)	257
BlsI	GCNGC	2 cut(s)	478, 937
Bme1390I	CCNGG	2 cut(s)	210, 271
BmiI	GGNNCC	1 cut(s)	678
BmrFI	CCNGG	2 cut(s)	210, 271
BmrI	ACTGGG	1 cut(s)	165
BmsI	GCATC	5 cut(s)	367, 403, 620, 841, 922
BmuI	ACTGGG	1 cut(s)	165
BpmI	CTGGAG	2 cut(s)	206, 840
Bpu10I	CCTNAGC	2 cut(s)	687, 861
BpuEI	CTTGAG	1 cut(s)	558
BsaJI	CCNNGG	2 cut(s)	122, 257
BsaWI	WCCGGW	2 cut(s)	39, 304
BsaXI	ACNNNNNCTCC	2 cut(s)	232, 262
Bsc4I	CCNNNNNNNGG	2 cut(s)	110, 539
Bse1I	ACTGG	2 cut(s)	160, 189
Bse3DI	GCAATG	1 cut(s)	228
BseAI	TCCGGA	1 cut(s)	39
BseBI	CCWGG	2 cut(s)	210, 271
BseDI	CCNNGG	2 cut(s)	122, 257
BseGI	GGATG	4 cut(s)	205, 266, 544, 889
BseLI	CCNNNNNNNGG	2 cut(s)	110, 539
BseMI	GCAATG	1 cut(s)	228
BseMII	CTCAG	6 cut(s)	417, 438, 566, 639, 678, 852
BseNI	ACTGG	2 cut(s)	160, 189
BseRI	GAGGAG	2 cut(s)	176, 878
BseSI	GKGCMC	1 cut(s)	8
BseXI	GCAGC	2 cut(s)	488, 922
BshFI	GGCC	2 cut(s)	333, 915
BshNI	GGYRCC	1 cut(s)	676
BsiHKAI	GWGCWC	3 cut(s)	8, 245, 769
BsiSI	CCGG	3 cut(s)	40, 305, 334
BslI	CCNNNNNNNGG	2 cut(s)	110, 539
BsmAI	GTCTC	2 cut(s)	362, 542
BsmI	GAATGC	1 cut(s)	79
BsnI	GGCC	2 cut(s)	333, 915
Bsp1286I	GDGCHC	3 cut(s)	8, 245, 769
Bsp13I	TCCGGA	1 cut(s)	39
Bsp143I	GATC	3 cut(s)	263, 273, 816
BspANI	GGCC	2 cut(s)	333, 915
BspCNI	CTCAG	6 cut(s)	418, 439, 565, 640, 679, 853
BspEI	TCCGGA	1 cut(s)	39
BspLI	GGNNCC	1 cut(s)	678
BspMI	ACCTGC	1 cut(s)	634
BspPI	GGATC	1 cut(s)	281
BspT107I	GGYRCC	1 cut(s)	676
BsrDI	GCAATG	1 cut(s)	228
BsrI	ACTGG	2 cut(s)	160, 189
BssECI	CCNNGG	2 cut(s)	122, 257
BssMI	GATC	3 cut(s)	263, 273, 816
BssT1I	CCWWGG	2 cut(s)	122, 257
Bst2UI	CCWGG	2 cut(s)	210, 271
Bst4CI	ACNGT	1 cut(s)	605
Bst6I	CTCTTC	2 cut(s)	576, 807
BstDEI	CTNAG	6 cut(s)	426, 447, 552, 648, 687, 861
BstEII	GGTNACC	1 cut(s)	212
BstF5I	GGATG	4 cut(s)	205, 266, 544, 889
BstKTI	GATC	3 cut(s)	266, 276, 819
BstMAI	GTCTC	2 cut(s)	362, 542
BstMBI	GATC	3 cut(s)	263, 273, 816
BstMWI	GCNNNNNNNGC	2 cut(s)	422, 635
BstNI	CCWGG	2 cut(s)	210, 271
BstPI	GGTNACC	1 cut(s)	212
BstSCI	CCNGG	2 cut(s)	208, 269
BstSLI	GKGCMC	1 cut(s)	8
BstV1I	GCAGC	2 cut(s)	488, 922
BsuRI	GGCC	2 cut(s)	333, 915
BtgZI	GCGATG	1 cut(s)	864
BtsCI	GGATG	4 cut(s)	205, 266, 544, 889
BtsIMutI	CAGTG	3 cut(s)	283, 399, 610
BveI	ACCTGC	1 cut(s)	634
Csp6I	GTAC	2 cut(s)	193, 390
CviAII	CATG	2 cut(s)	386, 560
CviQI	GTAC	2 cut(s)	193, 390
DdeI	CTNAG	6 cut(s)	426, 447, 552, 648, 687, 861
DpnI	GATC	3 cut(s)	265, 275, 818
DpnII	GATC	3 cut(s)	263, 273, 816
EaeI	YGGCCR	1 cut(s)	913
Eam1104I	CTCTTC	2 cut(s)	576, 807
EarI	CTCTTC	2 cut(s)	576, 807
Eco130I	CCWWGG	2 cut(s)	122, 257
Eco57I	CTGAAG	3 cut(s)	540, 651, 806
Eco91I	GGTNACC	1 cut(s)	212
EcoO65I	GGTNACC	1 cut(s)	212
EcoRII	CCWGG	2 cut(s)	208, 269
EcoT14I	CCWWGG	2 cut(s)	122, 257
ErhI	CCWWGG	2 cut(s)	122, 257
FaeI	CATG	2 cut(s)	389, 563
FaiI	YATR	5 cut(s)	14, 387, 561, 566, 940
FatI	CATG	2 cut(s)	385, 559
Fnu4HI	GCNGC	2 cut(s)	477, 936
FokI	GGATG	4 cut(s)	192, 253, 551, 896
Fsp4HI	GCNGC	2 cut(s)	477, 936
FspBI	CTAG	1 cut(s)	258
GluI	GCNGC	2 cut(s)	477, 936
GsuI	CTGGAG	2 cut(s)	206, 840
HaeIII	GGCC	2 cut(s)	333, 915
HapII	CCGG	3 cut(s)	40, 305, 334
Hin1II	CATG	2 cut(s)	389, 563
HincII	GTYRAC	1 cut(s)	294
HindII	GTYRAC	1 cut(s)	294
HinfI	GANTC	4 cut(s)	295, 550, 556, 781
HpaII	CCGG	3 cut(s)	40, 305, 334
HphI	GGTGA	2 cut(s)	260, 590
Hpy166II	GTNNAC	2 cut(s)	6, 294
Hpy188I	TCNGA	5 cut(s)	27, 229, 555, 616, 786
Hpy188III	TCNNGA	1 cut(s)	40
Hpy8I	GTNNAC	2 cut(s)	6, 294
HpyAV	CCTTC	3 cut(s)	103, 692, 781
HpyCH4III	ACNGT	1 cut(s)	605
HpyCH4V	TGCA	6 cut(s)	6, 221, 380, 416, 611, 938
HpyF10VI	GCNNNNNNNGC	2 cut(s)	422, 635
HpyF3I	CTNAG	6 cut(s)	426, 447, 552, 648, 687, 861
Hsp92II	CATG	2 cut(s)	389, 563
Kpn2I	TCCGGA	1 cut(s)	39
Kzo9I	GATC	3 cut(s)	263, 273, 816
LmnI	GCTCC	4 cut(s)	187, 240, 764, 859
Lsp1109I	GCAGC	2 cut(s)	488, 922
LweI	GCATC	5 cut(s)	367, 403, 620, 841, 922
MaeI	CTAG	1 cut(s)	258
MaeIII	GTNAC	5 cut(s)	115, 136, 212, 652, 745
MalI	GATC	3 cut(s)	265, 275, 818
MboI	GATC	3 cut(s)	263, 273, 816
MboII	GAAGA	6 cut(s)	442, 494, 533, 593, 767, 824
MhlI	GDGCHC	3 cut(s)	8, 245, 769
MlsI	TGGCCA	1 cut(s)	915
MluCI	AATT	1 cut(s)	495
MluNI	TGGCCA	1 cut(s)	915
MlyI	GAGTC	3 cut(s)	289, 544, 550
MmeI	TCCRAC	2 cut(s)	176, 207
Mox20I	TGGCCA	1 cut(s)	915
MroI	TCCGGA	1 cut(s)	39
MscI	TGGCCA	1 cut(s)	915
MseI	TTAA	4 cut(s)	168, 498, 873, 924
MslI	CAYNNNNRTG	1 cut(s)	404
Msp20I	TGGCCA	1 cut(s)	915
MspA1I	CMGCKG	1 cut(s)	860
MspI	CCGG	3 cut(s)	40, 305, 334
MspR9I	CCNGG	2 cut(s)	210, 271
Mva1269I	GAATGC	1 cut(s)	79
MvaI	CCWGG	2 cut(s)	210, 271
MwoI	GCNNNNNNNGC	2 cut(s)	422, 635
NdeII	GATC	3 cut(s)	263, 273, 816
NlaIII	CATG	2 cut(s)	389, 563
NlaIV	GGNNCC	1 cut(s)	678
NmuCI	GTSAC	2 cut(s)	136, 745
PctI	GAATGC	1 cut(s)	79
PfeI	GAWTC	1 cut(s)	781
PflMI	CCANNNNNTGG	1 cut(s)	539
PfoI	TCCNGGA	1 cut(s)	269
PkrI	GCNGC	2 cut(s)	478, 937
PleI	GAGTC	3 cut(s)	289, 544, 550
PpsI	GAGTC	3 cut(s)	289, 544, 550
Psp6I	CCWGG	2 cut(s)	208, 269
PspEI	GGTNACC	1 cut(s)	212
PspGI	CCWGG	2 cut(s)	208, 269
PspN4I	GGNNCC	1 cut(s)	678
PvuII	CAGCTG	1 cut(s)	860
RsaI	GTAC	2 cut(s)	194, 391
RsaNI	GTAC	2 cut(s)	193, 390
RseI	CAYNNNNRTG	1 cut(s)	404
SaqAI	TTAA	4 cut(s)	168, 498, 873, 924
SatI	GCNGC	2 cut(s)	477, 936
Sau3AI	GATC	3 cut(s)	263, 273, 816
SchI	GAGTC	3 cut(s)	289, 544, 550
ScrFI	CCNGG	2 cut(s)	210, 271
SduI	GDGCHC	3 cut(s)	8, 245, 769
SfaNI	GCATC	5 cut(s)	367, 403, 620, 841, 922
SmiMI	CAYNNNNRTG	1 cut(s)	404
SmlI	CTYRAG	1 cut(s)	573
SmoI	CTYRAG	1 cut(s)	573
Sse9I	AATT	1 cut(s)	495
SspI	AATATT	1 cut(s)	97
SspMI	CTAG	1 cut(s)	258
StyD4I	CCNGG	2 cut(s)	208, 269
StyI	CCWWGG	2 cut(s)	122, 257
TaaI	ACNGT	1 cut(s)	605
TaqI	TCGA	1 cut(s)	837
TasI	AATT	1 cut(s)	495
TfiI	GAWTC	1 cut(s)	781
Tru1I	TTAA	4 cut(s)	168, 498, 873, 924
Tru9I	TTAA	4 cut(s)	168, 498, 873, 924
TscAI	CASTG	3 cut(s)	283, 406, 610
TseFI	GTSAC	2 cut(s)	136, 745
TseI	GCWGC	2 cut(s)	476, 935
Tsp45I	GTSAC	2 cut(s)	136, 745
TspDTI	ATGAA	3 cut(s)	133, 422, 606
TspRI	CASTG	3 cut(s)	283, 406, 610
Van91I	CCANNNNNTGG	1 cut(s)	539
VneI	GTGCAC	1 cut(s)	4
XmaJI	CCTAGG	1 cut(s)	257
XspI	CTAG	1 cut(s)	258

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