Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0001397

Physical Location & Seq

Genomic Coordinates Reverse (-)

58142208 .. 58147326

Gene Structure 5119 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG399200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 939 bp

ATGTGCACAGCCATACCCTGTTGTTTCCGGAACTCGACCCACGACCATCAGGTTGCTACGGCAAGGCATTCTGTTTCTGCCAATATTTTACCCAAGAAGGGAGTTACACCAAGGAAAAATGATGTCACATTCATTTCTCCAACTGGGGAGGAGATTAACAATAAAAAACAACTGGAGCAGTACCTAAAATCACATCCTGGTAACCCTGCATTGTCGGAGTTTGATTGGAGCACAGGTGAAACCCCTAGGAGATCATCCAGGATCAGTGAAAAGGTCAAGTCGACTCCCCCACCAGAGAATGAGCCTCCAAAGAAAAGAGGCCGGAAATCATCAGGTTCAAAGGACAATAAAGTGGAGACTACTGATGCAGAACATGGTACGAATGACACTGAAATGAAAGATGCAGAGGTAGCTGAGAAGAAAGATGGAGAAGCTGAGAAACAGGTTGAGAATGGAGGAAAAGCACCAGAAGAAACTGATCAAATTAAGACCACAGATACCAAAACTGAAGAAACTATCCCAGAGGATGGTAAGGAGACTCAGACTGATGTTATGGAAACTCAAGGTGGAGAGAAAGATGAAAAGTCAAATAGTGTTGCATCAGAGGAACAACCTGCTGAAGTAGCTTTGGCTAGTGAGGTAACTGAAAACAACAAGGAAAAGGTGCCACAAGCTGAGGGAGAGGAAGGAAATGGCTCTACTGACAAGAAACAGGACAACACAACAGCTGCTGTGAACATTGAAGAAAATGGAGCACCAGAGAAAGAGAATCTGAAGGGAATAGCACCATCTGTGGAGGAAGAGATCAAAGGGAAACAAGATGGACCAGAGGTCGATGGGAAAGGCGATGCTCCAGCTGAGGAGAAAGTTAAGACAAAGGATGGGGAGGTAGTTGAAAATGGTAAGGTTGACCAAGTGGTTAAACCTGATGCTGCATAA

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

312

Amino Acids

33.76

Weight (kDa)

4.8

Isoelectric Point (pI)

43.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
MBD	PF01429	31 - 83	2.4e-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

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)	622
AccB1I	GGYRCC	1 cut(s)	664
AccB7I	CCANNNNNTGG	1 cut(s)	527
AccI	GTMKAC	1 cut(s)	281
AccIII	TCCGGA	1 cut(s)	27
AclWI	GGATC	1 cut(s)	269
AcuI	CTGAAG	3 cut(s)	528, 639, 794
AfaI	GTAC	2 cut(s)	182, 379
AfiI	CCNNNNNNNGG	2 cut(s)	98, 527
AgsI	TTSAA	3 cut(s)	339, 743, 896
AhdI	GACNNNNNGTC	1 cut(s)	830
AjnI	CCWGG	2 cut(s)	196, 257
AluBI	AGCT	6 cut(s)	413, 434, 626, 674, 728, 857
AluI	AGCT	6 cut(s)	413, 434, 626, 674, 728, 857
Alw21I	GWGCWC	3 cut(s)	8, 233, 757
Alw26I	GTCTC	2 cut(s)	350, 530
Alw44I	GTGCAC	1 cut(s)	4
AlwI	GGATC	1 cut(s)	269
AlwNI	CAGNNNCTG	1 cut(s)	731
Aor13HI	TCCGGA	1 cut(s)	27
AoxI	GGCC	1 cut(s)	319
ApaLI	GTGCAC	1 cut(s)	4
ApeKI	GCWGC	2 cut(s)	728, 932
AspA2I	CCTAGG	1 cut(s)	245
AspS9I	GGNCC	1 cut(s)	824
AsuHPI	GGTGA	1 cut(s)	248
AvaII	GGWCC	1 cut(s)	824
AvrII	CCTAGG	1 cut(s)	245
BaeGI	GKGCMC	1 cut(s)	8
BanI	GGYRCC	1 cut(s)	664
Bbv12I	GWGCWC	3 cut(s)	8, 233, 757
BbvCI	CCTCAGC	2 cut(s)	675, 858
BbvI	GCAGC	2 cut(s)	715, 919
BccI	CCATC	7 cut(s)	54, 419, 521, 796, 815, 830, 875
BceAI	ACGGC	1 cut(s)	75
BciT130I	CCWGG	2 cut(s)	198, 259
BclI	TGATCA	1 cut(s)	478
BcoDI	GTCTC	2 cut(s)	350, 530
BfaI	CTAG	2 cut(s)	246, 633
BfuAI	ACCTGC	1 cut(s)	622
BisI	GCNGC	2 cut(s)	729, 933
BlnI	CCTAGG	1 cut(s)	245
BlsI	GCNGC	2 cut(s)	730, 934
Bme1390I	CCNGG	2 cut(s)	198, 259
Bme18I	GGWCC	1 cut(s)	824
BmeRI	GACNNNNNGTC	1 cut(s)	830
BmgT120I	GGNCC	1 cut(s)	824
BmiI	GGNNCC	1 cut(s)	666
BmrFI	CCNGG	2 cut(s)	198, 259
BmrI	ACTGGG	1 cut(s)	153
BmsI	GCATC	5 cut(s)	355, 391, 608, 838, 919
BmuI	ACTGGG	1 cut(s)	153
BpmI	CTGGAG	2 cut(s)	194, 837
Bpu10I	CCTNAGC	2 cut(s)	675, 858
BpuEI	CTTGAG	1 cut(s)	546
BsaJI	CCNNGG	2 cut(s)	110, 245
BsaWI	WCCGGW	1 cut(s)	27
BsaXI	ACNNNNNCTCC	2 cut(s)	220, 250
Bsc4I	CCNNNNNNNGG	2 cut(s)	98, 527
Bse1I	ACTGG	2 cut(s)	148, 177
BseAI	TCCGGA	1 cut(s)	27
BseBI	CCWGG	2 cut(s)	198, 259
BseDI	CCNNGG	2 cut(s)	110, 245
BseGI	GGATG	4 cut(s)	193, 254, 532, 886
BseLI	CCNNNNNNNGG	2 cut(s)	98, 527
BseMII	CTCAG	5 cut(s)	405, 426, 554, 666, 849
BseNI	ACTGG	2 cut(s)	148, 177
BseRI	GAGGAG	2 cut(s)	164, 875
BseSI	GKGCMC	1 cut(s)	8
BseXI	GCAGC	2 cut(s)	715, 919
BshFI	GGCC	1 cut(s)	321
BshNI	GGYRCC	1 cut(s)	664
BsiHKAI	GWGCWC	3 cut(s)	8, 233, 757
BsiSI	CCGG	2 cut(s)	28, 322
BslI	CCNNNNNNNGG	2 cut(s)	98, 527
BsmAI	GTCTC	2 cut(s)	350, 530
BsmI	GAATGC	1 cut(s)	67
BsnI	GGCC	1 cut(s)	321
Bsp1286I	GDGCHC	3 cut(s)	8, 233, 757
Bsp13I	TCCGGA	1 cut(s)	27
Bsp143I	GATC	4 cut(s)	251, 261, 478, 804
BspANI	GGCC	1 cut(s)	321
BspCNI	CTCAG	5 cut(s)	406, 427, 553, 667, 850
BspEI	TCCGGA	1 cut(s)	27
BspLI	GGNNCC	1 cut(s)	666
BspMI	ACCTGC	1 cut(s)	622
BspPI	GGATC	1 cut(s)	269
BspT107I	GGYRCC	1 cut(s)	664
BsrI	ACTGG	2 cut(s)	148, 177
BssECI	CCNNGG	2 cut(s)	110, 245
BssMI	GATC	4 cut(s)	251, 261, 478, 804
BssT1I	CCWWGG	2 cut(s)	110, 245
Bst2UI	CCWGG	2 cut(s)	198, 259
Bst6I	CTCTTC	1 cut(s)	795
BstDEI	CTNAG	5 cut(s)	414, 435, 540, 675, 858
BstEII	GGTNACC	1 cut(s)	200
BstF5I	GGATG	4 cut(s)	193, 254, 532, 886
BstKTI	GATC	4 cut(s)	254, 264, 481, 807
BstMAI	GTCTC	2 cut(s)	350, 530
BstMBI	GATC	4 cut(s)	251, 261, 478, 804
BstMWI	GCNNNNNNNGC	2 cut(s)	410, 623
BstNI	CCWGG	2 cut(s)	198, 259
BstPI	GGTNACC	1 cut(s)	200
BstSCI	CCNGG	2 cut(s)	196, 257
BstSLI	GKGCMC	1 cut(s)	8
BstV1I	GCAGC	2 cut(s)	715, 919
BsuRI	GGCC	1 cut(s)	321
BtgZI	GCGATG	1 cut(s)	861
BtsCI	GGATG	4 cut(s)	193, 254, 532, 886
BtsIMutI	CAGTG	2 cut(s)	271, 387
BveI	ACCTGC	1 cut(s)	622
CaiI	CAGNNNCTG	1 cut(s)	731
Cfr13I	GGNCC	1 cut(s)	824
Csp6I	GTAC	2 cut(s)	181, 378
CviAII	CATG	1 cut(s)	374
CviQI	GTAC	2 cut(s)	181, 378
DdeI	CTNAG	5 cut(s)	414, 435, 540, 675, 858
DpnI	GATC	4 cut(s)	253, 263, 480, 806
DpnII	GATC	4 cut(s)	251, 261, 478, 804
DriI	GACNNNNNGTC	1 cut(s)	830
Eam1104I	CTCTTC	1 cut(s)	795
Eam1105I	GACNNNNNGTC	1 cut(s)	830
EarI	CTCTTC	1 cut(s)	795
Eco130I	CCWWGG	2 cut(s)	110, 245
Eco47I	GGWCC	1 cut(s)	824
Eco57I	CTGAAG	3 cut(s)	528, 639, 794
Eco91I	GGTNACC	1 cut(s)	200
EcoO65I	GGTNACC	1 cut(s)	200
EcoRII	CCWGG	2 cut(s)	196, 257
EcoT14I	CCWWGG	2 cut(s)	110, 245
ErhI	CCWWGG	2 cut(s)	110, 245
FaeI	CATG	1 cut(s)	377
FaiI	YATR	4 cut(s)	14, 375, 554, 937
FatI	CATG	1 cut(s)	373
FbaI	TGATCA	1 cut(s)	478
FblI	GTMKAC	1 cut(s)	281
Fnu4HI	GCNGC	2 cut(s)	729, 933
FokI	GGATG	4 cut(s)	180, 241, 539, 893
Fsp4HI	GCNGC	2 cut(s)	729, 933
FspBI	CTAG	2 cut(s)	246, 633
GluI	GCNGC	2 cut(s)	729, 933
GsuI	CTGGAG	2 cut(s)	194, 837
HaeIII	GGCC	1 cut(s)	321
HapII	CCGG	2 cut(s)	28, 322
Hin1II	CATG	1 cut(s)	377
HincII	GTYRAC	2 cut(s)	282, 910
HindII	GTYRAC	2 cut(s)	282, 910
HinfI	GANTC	3 cut(s)	283, 538, 769
HpaII	CCGG	2 cut(s)	28, 322
HphI	GGTGA	1 cut(s)	248
Hpy166II	GTNNAC	4 cut(s)	6, 282, 736, 910
Hpy188I	TCNGA	4 cut(s)	217, 543, 604, 774
Hpy188III	TCNNGA	1 cut(s)	28
Hpy8I	GTNNAC	4 cut(s)	6, 282, 736, 910
HpyAV	CCTTC	3 cut(s)	91, 680, 769
HpyCH4V	TGCA	6 cut(s)	6, 209, 368, 404, 599, 935
HpyF10VI	GCNNNNNNNGC	2 cut(s)	410, 623
HpyF3I	CTNAG	5 cut(s)	414, 435, 540, 675, 858
Hsp92II	CATG	1 cut(s)	377
Kpn2I	TCCGGA	1 cut(s)	27
Ksp22I	TGATCA	1 cut(s)	478
Kzo9I	GATC	4 cut(s)	251, 261, 478, 804
LmnI	GCTCC	4 cut(s)	175, 228, 752, 856
Lsp1109I	GCAGC	2 cut(s)	715, 919
LweI	GCATC	5 cut(s)	355, 391, 608, 838, 919
MaeI	CTAG	2 cut(s)	246, 633
MaeIII	GTNAC	4 cut(s)	103, 124, 200, 640
MalI	GATC	4 cut(s)	253, 263, 480, 806
MboI	GATC	4 cut(s)	251, 261, 478, 804
MboII	GAAGA	5 cut(s)	430, 482, 521, 755, 812
MhlI	GDGCHC	3 cut(s)	8, 233, 757
MluCI	AATT	1 cut(s)	483
MlyI	GAGTC	2 cut(s)	277, 532
MmeI	TCCRAC	2 cut(s)	164, 195
MroI	TCCGGA	1 cut(s)	27
MseI	TTAA	4 cut(s)	156, 486, 870, 921
MslI	CAYNNNNRTG	1 cut(s)	392
MspA1I	CMGCKG	2 cut(s)	728, 857
MspI	CCGG	2 cut(s)	28, 322
MspR9I	CCNGG	2 cut(s)	198, 259
Mva1269I	GAATGC	1 cut(s)	67
MvaI	CCWGG	2 cut(s)	198, 259
MwoI	GCNNNNNNNGC	2 cut(s)	410, 623
NdeII	GATC	4 cut(s)	251, 261, 478, 804
NlaIII	CATG	1 cut(s)	377
NlaIV	GGNNCC	1 cut(s)	666
NmuCI	GTSAC	1 cut(s)	124
PctI	GAATGC	1 cut(s)	67
PfeI	GAWTC	1 cut(s)	769
PflMI	CCANNNNNTGG	1 cut(s)	527
PfoI	TCCNGGA	1 cut(s)	257
PkrI	GCNGC	2 cut(s)	730, 934
PleI	GAGTC	2 cut(s)	277, 532
PpsI	GAGTC	2 cut(s)	277, 532
Psp6I	CCWGG	2 cut(s)	196, 257
PspEI	GGTNACC	1 cut(s)	200
PspGI	CCWGG	2 cut(s)	196, 257
PspN4I	GGNNCC	1 cut(s)	666
PspPI	GGNCC	1 cut(s)	824
PstNI	CAGNNNCTG	1 cut(s)	731
PvuII	CAGCTG	2 cut(s)	728, 857
RsaI	GTAC	2 cut(s)	182, 379
RsaNI	GTAC	2 cut(s)	181, 378
RseI	CAYNNNNRTG	1 cut(s)	392
SalI	GTCGAC	1 cut(s)	280
SaqAI	TTAA	4 cut(s)	156, 486, 870, 921
SatI	GCNGC	2 cut(s)	729, 933
Sau3AI	GATC	4 cut(s)	251, 261, 478, 804
Sau96I	GGNCC	1 cut(s)	824
SchI	GAGTC	2 cut(s)	277, 532
ScrFI	CCNGG	2 cut(s)	198, 259
SduI	GDGCHC	3 cut(s)	8, 233, 757
SfaNI	GCATC	5 cut(s)	355, 391, 608, 838, 919
SinI	GGWCC	1 cut(s)	824
SmiMI	CAYNNNNRTG	1 cut(s)	392
SmlI	CTYRAG	1 cut(s)	561
SmoI	CTYRAG	1 cut(s)	561
Sse9I	AATT	1 cut(s)	483
SspI	AATATT	1 cut(s)	85
SspMI	CTAG	2 cut(s)	246, 633
StyD4I	CCNGG	2 cut(s)	196, 257
StyI	CCWWGG	2 cut(s)	110, 245
TaqI	TCGA	3 cut(s)	35, 281, 834
TasI	AATT	1 cut(s)	483
TfiI	GAWTC	1 cut(s)	769
Tru1I	TTAA	4 cut(s)	156, 486, 870, 921
Tru9I	TTAA	4 cut(s)	156, 486, 870, 921
TscAI	CASTG	2 cut(s)	271, 394
TseFI	GTSAC	1 cut(s)	124
TseI	GCWGC	2 cut(s)	728, 932
Tsp45I	GTSAC	1 cut(s)	124
TspDTI	ATGAA	3 cut(s)	121, 410, 594
TspRI	CASTG	2 cut(s)	271, 394
Van91I	CCANNNNNTGG	1 cut(s)	527
VneI	GTGCAC	1 cut(s)	4
VpaK11BI	GGWCC	1 cut(s)	824
XmaJI	CCTAGG	1 cut(s)	245
XmiI	GTMKAC	1 cut(s)	281
XspI	CTAG	2 cut(s)	246, 633

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