Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0001397

Physical Location & Seq

Genomic Coordinates Reverse (-)

52455715 .. 52460116

Gene Structure 4402 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000019474

Sequence Viewer

CDS Protein Promoter (2k)

Length: 867 bp

ATGGAGAACAAAGTGGATGAGGTTGTTGCTGTTGAGCTCCCTGCTCCTCCTGCTTGGAAGAAGAAGATTTTACCCAAGAAGGGAGTTACACCAAGGAAAAATGATGTCACATTCATTTCTCCAACTGGGGAGGAGATTAACAATAAAAAACAACTGGAGCAGTACCTAAAATCACATCCTGGTAACCCTGCATTGTCAGAGTTTGATTGGAGCACAGGTGAAACCCCTAGGAGATCATCCAGGATCAGTGAAAAGGTCAAGTCAACTCCCCCACCAGAGAATGAGCCTCCAAAGAAAAGAGGCCGGAAATCATCAGGTTCAAAGGACAATAAAGTGGAGACTACTGATGCGGAACATGGTACGAATGACACTGCAATGAAAGATGCAGAGGTAGCTAAGAAGAAAGATGGAGAAGCTGAGAAACAGGTTGAGAATGGCGGAAAAGCACCAGAGGATGGTAAGGAGACTCAGACTGATGTTAAGGAGACTCAAGGTGGAGAGAAAGATGAAAAAACAAACAGTGTTGCATCAGAGGAACAACCTGCTGAAGTAGCTTTGGCTACTGAGGTAACTGAAAACAACAAGGAAAAGGTGCCACAAGCTGAGGGAGAGGAAGGAAATGGCTCTACTGACAAGAAACAGGACAACACAACAGCTGCTGTGAACATTGAAGAAAATGGAGCACCAGGGAAAGAGAATCTGAAGGGAATGGCACCATCTGGGGAGGAAGAGATCAAAGGGAAACAAGATGTACCAGAGGTCGATGGGAAAAGCGATGCTCCAGCTGAGGAGAAAGTTAAGACTAAGGATGGGGAGGTGGTTGAAAATGGTAAGGTTGACCAAGTGGTTAAACCTGATGCTGCATAA

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

289

Amino Acids

31.06

Weight (kDa)

4.95

Isoelectric Point (pI)

43.28

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
MBD	PF01429	9 - 77	3e-14	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

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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)	550
AccB1I	GGYRCC	2 cut(s)	592, 712
AccB7I	CCANNNNNTGG	1 cut(s)	455
AciI	CCGC	2 cut(s)	350, 438
AclWI	GGATC	1 cut(s)	251
AcuI	CTGAAG	2 cut(s)	567, 722
AfaI	GTAC	3 cut(s)	164, 361, 753
AfiI	CCNNNNNNNGG	2 cut(s)	80, 455
AgsI	TTSAA	3 cut(s)	321, 671, 824
AjnI	CCWGG	3 cut(s)	178, 239, 685
AluBI	AGCT	7 cut(s)	37, 395, 416, 554, 602, 656, 785
AluI	AGCT	7 cut(s)	37, 395, 416, 554, 602, 656, 785
Alw21I	GWGCWC	3 cut(s)	39, 215, 685
Alw26I	GTCTC	3 cut(s)	332, 458, 479
AlwI	GGATC	1 cut(s)	251
AlwNI	CAGNNNCTG	1 cut(s)	659
AoxI	GGCC	1 cut(s)	301
ApeKI	GCWGC	2 cut(s)	656, 860
AspA2I	CCTAGG	1 cut(s)	227
AsuHPI	GGTGA	1 cut(s)	230
AvrII	CCTAGG	1 cut(s)	227
BanI	GGYRCC	2 cut(s)	592, 712
BanII	GRGCYC	1 cut(s)	39
Bbv12I	GWGCWC	3 cut(s)	39, 215, 685
BbvCI	CCTCAGC	2 cut(s)	603, 786
BbvI	GCAGC	2 cut(s)	643, 847
BccI	CCATC	5 cut(s)	401, 449, 724, 758, 803
BciT130I	CCWGG	3 cut(s)	180, 241, 687
BcoDI	GTCTC	3 cut(s)	332, 458, 479
BfaI	CTAG	1 cut(s)	228
BfuAI	ACCTGC	1 cut(s)	550
BisI	GCNGC	2 cut(s)	657, 861
BlnI	CCTAGG	1 cut(s)	227
BlsI	GCNGC	2 cut(s)	658, 862
Bme1390I	CCNGG	3 cut(s)	180, 241, 687
BmiI	GGNNCC	2 cut(s)	594, 714
BmrFI	CCNGG	3 cut(s)	180, 241, 687
BmrI	ACTGGG	1 cut(s)	135
BmsI	GCATC	5 cut(s)	337, 373, 536, 766, 847
BmuI	ACTGGG	1 cut(s)	135
BpmI	CTGGAG	2 cut(s)	176, 765
Bpu10I	CCTNAGC	2 cut(s)	603, 786
BpuEI	CTTGAG	1 cut(s)	474
BsaJI	CCNNGG	3 cut(s)	92, 227, 686
BsaXI	ACNNNNNCTCC	2 cut(s)	202, 232
Bsc4I	CCNNNNNNNGG	2 cut(s)	80, 455
Bse1I	ACTGG	2 cut(s)	130, 159
Bse3DI	GCAATG	1 cut(s)	381
BseBI	CCWGG	3 cut(s)	180, 241, 687
BseDI	CCNNGG	3 cut(s)	92, 227, 686
BseGI	GGATG	5 cut(s)	22, 175, 236, 460, 814
BseLI	CCNNNNNNNGG	2 cut(s)	80, 455
BseMI	GCAATG	1 cut(s)	381
BseMII	CTCAG	5 cut(s)	408, 482, 555, 594, 777
BseNI	ACTGG	2 cut(s)	130, 159
BseRI	GAGGAG	3 cut(s)	36, 146, 803
BseXI	GCAGC	2 cut(s)	643, 847
BshFI	GGCC	1 cut(s)	303
BshNI	GGYRCC	2 cut(s)	592, 712
BsiHKAI	GWGCWC	3 cut(s)	39, 215, 685
BsiSI	CCGG	1 cut(s)	304
BslI	CCNNNNNNNGG	2 cut(s)	80, 455
BsmAI	GTCTC	3 cut(s)	332, 458, 479
BsnI	GGCC	1 cut(s)	303
Bsp1286I	GDGCHC	3 cut(s)	39, 215, 685
Bsp143I	GATC	3 cut(s)	233, 243, 732
BspACI	CCGC	2 cut(s)	350, 438
BspANI	GGCC	1 cut(s)	303
BspCNI	CTCAG	5 cut(s)	409, 481, 556, 595, 778
BspLI	GGNNCC	2 cut(s)	594, 714
BspMI	ACCTGC	1 cut(s)	550
BspPI	GGATC	1 cut(s)	251
BspT107I	GGYRCC	2 cut(s)	592, 712
BsrDI	GCAATG	1 cut(s)	381
BsrI	ACTGG	2 cut(s)	130, 159
BssECI	CCNNGG	3 cut(s)	92, 227, 686
BssMI	GATC	3 cut(s)	233, 243, 732
BssT1I	CCWWGG	2 cut(s)	92, 227
Bst2UI	CCWGG	3 cut(s)	180, 241, 687
Bst4CI	ACNGT	1 cut(s)	521
Bst6I	CTCTTC	1 cut(s)	723
BstDEI	CTNAG	7 cut(s)	396, 417, 468, 564, 603, 786, 804
BstEII	GGTNACC	1 cut(s)	182
BstF5I	GGATG	5 cut(s)	22, 175, 236, 460, 814
BstKTI	GATC	3 cut(s)	236, 246, 735
BstMAI	GTCTC	3 cut(s)	332, 458, 479
BstMBI	GATC	3 cut(s)	233, 243, 732
BstMWI	GCNNNNNNNGC	3 cut(s)	50, 392, 551
BstNI	CCWGG	3 cut(s)	180, 241, 687
BstPI	GGTNACC	1 cut(s)	182
BstSCI	CCNGG	3 cut(s)	178, 239, 685
BstV1I	GCAGC	2 cut(s)	643, 847
BsuRI	GGCC	1 cut(s)	303
BtgZI	GCGATG	1 cut(s)	789
BtsCI	GGATG	5 cut(s)	22, 175, 236, 460, 814
BtsI	GCAGTG	1 cut(s)	369
BtsIMutI	CAGTG	3 cut(s)	253, 369, 526
BveI	ACCTGC	1 cut(s)	550
CaiI	CAGNNNCTG	1 cut(s)	659
Csp6I	GTAC	3 cut(s)	163, 360, 752
CviAII	CATG	1 cut(s)	356
CviQI	GTAC	3 cut(s)	163, 360, 752
DdeI	CTNAG	7 cut(s)	396, 417, 468, 564, 603, 786, 804
DpnI	GATC	3 cut(s)	235, 245, 734
DpnII	GATC	3 cut(s)	233, 243, 732
Eam1104I	CTCTTC	1 cut(s)	723
EarI	CTCTTC	1 cut(s)	723
EciI	GGCGGA	1 cut(s)	453
Ecl136II	GAGCTC	1 cut(s)	37
Eco130I	CCWWGG	2 cut(s)	92, 227
Eco24I	GRGCYC	1 cut(s)	39
Eco53kI	GAGCTC	1 cut(s)	37
Eco57I	CTGAAG	2 cut(s)	567, 722
Eco91I	GGTNACC	1 cut(s)	182
EcoICRI	GAGCTC	1 cut(s)	37
EcoO65I	GGTNACC	1 cut(s)	182
EcoRII	CCWGG	3 cut(s)	178, 239, 685
EcoT14I	CCWWGG	2 cut(s)	92, 227
EcoT38I	GRGCYC	1 cut(s)	39
ErhI	CCWWGG	2 cut(s)	92, 227
FaeI	CATG	1 cut(s)	359
FaiI	YATR	2 cut(s)	357, 865
FatI	CATG	1 cut(s)	355
Fnu4HI	GCNGC	2 cut(s)	657, 861
FokI	GGATG	5 cut(s)	29, 162, 223, 467, 821
FriOI	GRGCYC	1 cut(s)	39
Fsp4HI	GCNGC	2 cut(s)	657, 861
FspBI	CTAG	1 cut(s)	228
GluI	GCNGC	2 cut(s)	657, 861
GsuI	CTGGAG	2 cut(s)	176, 765
HaeIII	GGCC	1 cut(s)	303
HapII	CCGG	1 cut(s)	304
Hin1II	CATG	1 cut(s)	359
HincII	GTYRAC	2 cut(s)	264, 838
HindII	GTYRAC	2 cut(s)	264, 838
HinfI	GANTC	3 cut(s)	466, 487, 697
HpaII	CCGG	1 cut(s)	304
HphI	GGTGA	1 cut(s)	230
Hpy166II	GTNNAC	3 cut(s)	264, 664, 838
Hpy188I	TCNGA	4 cut(s)	199, 471, 532, 702
Hpy8I	GTNNAC	3 cut(s)	264, 664, 838
HpyAV	CCTTC	3 cut(s)	73, 608, 697
HpyCH4III	ACNGT	1 cut(s)	521
HpyCH4V	TGCA	5 cut(s)	191, 374, 386, 527, 863
HpyF10VI	GCNNNNNNNGC	3 cut(s)	50, 392, 551
HpyF3I	CTNAG	7 cut(s)	396, 417, 468, 564, 603, 786, 804
Hsp92II	CATG	1 cut(s)	359
Kzo9I	GATC	3 cut(s)	233, 243, 732
LmnI	GCTCC	6 cut(s)	42, 49, 157, 210, 680, 784
Lsp1109I	GCAGC	2 cut(s)	643, 847
LweI	GCATC	5 cut(s)	337, 373, 536, 766, 847
MaeI	CTAG	1 cut(s)	228
MaeIII	GTNAC	4 cut(s)	85, 106, 182, 568
MalI	GATC	3 cut(s)	235, 245, 734
MboI	GATC	3 cut(s)	233, 243, 732
MboII	GAAGA	6 cut(s)	70, 73, 76, 412, 683, 740
MhlI	GDGCHC	3 cut(s)	39, 215, 685
MlyI	GAGTC	2 cut(s)	460, 481
MmeI	TCCRAC	1 cut(s)	146
MseI	TTAA	4 cut(s)	138, 480, 798, 849
MslI	CAYNNNNRTG	1 cut(s)	374
MspA1I	CMGCKG	2 cut(s)	656, 785
MspI	CCGG	1 cut(s)	304
MspR9I	CCNGG	3 cut(s)	180, 241, 687
MvaI	CCWGG	3 cut(s)	180, 241, 687
MwoI	GCNNNNNNNGC	3 cut(s)	50, 392, 551
NdeII	GATC	3 cut(s)	233, 243, 732
NlaIII	CATG	1 cut(s)	359
NlaIV	GGNNCC	2 cut(s)	594, 714
NmuCI	GTSAC	1 cut(s)	106
PfeI	GAWTC	1 cut(s)	697
PflMI	CCANNNNNTGG	1 cut(s)	455
PfoI	TCCNGGA	1 cut(s)	239
PkrI	GCNGC	2 cut(s)	658, 862
PleI	GAGTC	2 cut(s)	460, 481
PpsI	GAGTC	2 cut(s)	460, 481
Psp124BI	GAGCTC	1 cut(s)	39
Psp6I	CCWGG	3 cut(s)	178, 239, 685
PspEI	GGTNACC	1 cut(s)	182
PspGI	CCWGG	3 cut(s)	178, 239, 685
PspN4I	GGNNCC	2 cut(s)	594, 714
PstNI	CAGNNNCTG	1 cut(s)	659
PvuII	CAGCTG	2 cut(s)	656, 785
RsaI	GTAC	3 cut(s)	164, 361, 753
RsaNI	GTAC	3 cut(s)	163, 360, 752
RseI	CAYNNNNRTG	1 cut(s)	374
SacI	GAGCTC	1 cut(s)	39
SaqAI	TTAA	4 cut(s)	138, 480, 798, 849
SatI	GCNGC	2 cut(s)	657, 861
Sau3AI	GATC	3 cut(s)	233, 243, 732
SchI	GAGTC	2 cut(s)	460, 481
ScrFI	CCNGG	3 cut(s)	180, 241, 687
SduI	GDGCHC	3 cut(s)	39, 215, 685
SfaNI	GCATC	5 cut(s)	337, 373, 536, 766, 847
SmiMI	CAYNNNNRTG	1 cut(s)	374
SmlI	CTYRAG	1 cut(s)	489
SmoI	CTYRAG	1 cut(s)	489
SsiI	CCGC	2 cut(s)	350, 438
SspMI	CTAG	1 cut(s)	228
SstI	GAGCTC	1 cut(s)	39
StyD4I	CCNGG	3 cut(s)	178, 239, 685
StyI	CCWWGG	2 cut(s)	92, 227
TaaI	ACNGT	1 cut(s)	521
TaqI	TCGA	1 cut(s)	762
TfiI	GAWTC	1 cut(s)	697
Tru1I	TTAA	4 cut(s)	138, 480, 798, 849
Tru9I	TTAA	4 cut(s)	138, 480, 798, 849
TscAI	CASTG	3 cut(s)	253, 376, 526
TseFI	GTSAC	1 cut(s)	106
TseI	GCWGC	2 cut(s)	656, 860
Tsp45I	GTSAC	1 cut(s)	106
TspDTI	ATGAA	3 cut(s)	103, 392, 522
TspRI	CASTG	3 cut(s)	253, 376, 526
Van91I	CCANNNNNTGG	1 cut(s)	455
XmaJI	CCTAGG	1 cut(s)	227
XspI	CTAG	1 cut(s)	228

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