Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0001397

Physical Location & Seq

Genomic Coordinates Reverse (-)

6432989 .. 6436020

Gene Structure 3032 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG078600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 711 bp

ATGGAGAAATGGCAGGATGAGATCAGAGAGTTGCGCGCGATTGATGCTTCGAATGAGGAGGCTAGTGCTGTGAAAGTGGAAATGGCAAGCTCAGTGGAGAAGGAGGAGGTTGTGACCTTAGAGCTACCAGCTCCTTCTGGTTGGATTAAGAAGTTTGTGCCCAAGCAAAGTGGAACTCCTAAGAAAAATGAGATCATATTTACGGCTCCAACTGGAAAGGAGATCTCCAACAAAAAACAGCTGGAACAATACTTGAAGGCACACCCTGGTGGCCCTTCAGTGTCGGAGTTTGATTGGGGCACTGGTGAGACCCCAAGGAGATCGGCTAGGATTAGTGAGAAGGTCAAGGCAACTCCATCCCCAGAGAGTGATCCCCCAAAGAAGCGAAGCAGAAAAACATCAGCTTCGAAGAAGGATAGCAAAGAAAAGGAAGCTGCTCCTCAAGAAACTGAGGGGACAAAAGTTAGTCATGTGCAAAATGCTGATAAAGCTGTGAAGGATAACGATACTGAGATGGAAAAGGCTGATGTGAAGGAAAACCAAGATGAGGATAAAGTACAAGATGCAGATACCAAGGCAGAAGTAGCTCCTCCTGAAGAAGCTAAAGTTGATTTAAATTTTGAAATACACACTACAAATACAGCTTCCAGGTTTCTCATCAACGTGAGTTTCCAAATTGTTGTTGGTCACTTTCTTCAATATCCAAATTAA

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

236

Amino Acids

26.26

Weight (kDa)

5.48

Isoelectric Point (pI)

46.42

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
MBD	PF01429	36 - 106	7.5e-16	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

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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)
AccII	CGCG	2 cut(s)	36, 38
AclWI	GGATC	1 cut(s)	365
AcsI	RAATTY	1 cut(s)	616
AcuI	CTGAAG	2 cut(s)	261, 615
AfaI	GTAC	1 cut(s)	558
AfiI	CCNNNNNNNGG	1 cut(s)	547
AgsI	TTSAA	3 cut(s)	256, 623, 698
AjnI	CCWGG	2 cut(s)	265, 647
AleI	CACNNNNGTG	1 cut(s)	267
Alw26I	GTCTC	1 cut(s)	302
AlwI	GGATC	1 cut(s)	365
AoxI	GGCC	1 cut(s)	271
ApeKI	GCWGC	1 cut(s)	434
ApoI	RAATTY	1 cut(s)	616
AspLEI	GCGC	2 cut(s)	36, 38
AspS9I	GGNCC	1 cut(s)	272
AsuHPI	GGTGA	1 cut(s)	317
AsuII	TTCGAA	2 cut(s)	50, 407
BaeGI	GKGCMC	2 cut(s)	162, 302
BbvI	GCAGC	1 cut(s)	421
BccI	CCATC	2 cut(s)	364, 508
BceAI	ACGGC	1 cut(s)	219
BciT130I	CCWGG	2 cut(s)	267, 649
BcoDI	GTCTC	1 cut(s)	302
BfaI	CTAG	2 cut(s)	63, 327
BglII	AGATCT	1 cut(s)	222
BisI	GCNGC	1 cut(s)	435
BlsI	GCNGC	1 cut(s)	436
Bme1390I	CCNGG	2 cut(s)	267, 649
BmgT120I	GGNCC	1 cut(s)	272
BmiI	GGNNCC	1 cut(s)	207
BmrFI	CCNGG	2 cut(s)	267, 649
BmsI	GCATC	2 cut(s)	34, 553
Bpu14I	TTCGAA	2 cut(s)	50, 407
BpuEI	CTTGAG	1 cut(s)	426
BsaI	GGTCTC	1 cut(s)	302
BsaJI	CCNNGG	3 cut(s)	265, 314, 573
Bsc4I	CCNNNNNNNGG	1 cut(s)	547
Bse1I	ACTGG	2 cut(s)	217, 307
BseBI	CCWGG	2 cut(s)	267, 649
BseDI	CCNNGG	3 cut(s)	265, 314, 573
BseGI	GGATG	2 cut(s)	22, 356
BseLI	CCNNNNNNNGG	1 cut(s)	547
BseMII	CTCAG	3 cut(s)	105, 441, 501
BseNI	ACTGG	2 cut(s)	217, 307
BsePI	GCGCGC	1 cut(s)	34
BseRI	GAGGAG	4 cut(s)	71, 119, 429, 579
BseSI	GKGCMC	2 cut(s)	162, 302
BseXI	GCAGC	1 cut(s)	421
Bsh1236I	CGCG	2 cut(s)	36, 38
BshFI	GGCC	1 cut(s)	273
BslFI	GGGAC	1 cut(s)	469
BslI	CCNNNNNNNGG	1 cut(s)	547
BsmAI	GTCTC	1 cut(s)	302
BsmFI	GGGAC	1 cut(s)	469
BsnI	GGCC	1 cut(s)	273
Bso31I	GGTCTC	1 cut(s)	302
Bsp119I	TTCGAA	2 cut(s)	50, 407
Bsp1286I	GDGCHC	2 cut(s)	162, 302
Bsp143I	GATC	5 cut(s)	21, 192, 222, 320, 370
BspANI	GGCC	1 cut(s)	273
BspCNI	CTCAG	3 cut(s)	104, 442, 502
BspFNI	CGCG	2 cut(s)	36, 38
BspLI	GGNNCC	1 cut(s)	207
BspPI	GGATC	1 cut(s)	365
BspT104I	TTCGAA	2 cut(s)	50, 407
BspTNI	GGTCTC	1 cut(s)	302
BsrI	ACTGG	2 cut(s)	217, 307
BssECI	CCNNGG	3 cut(s)	265, 314, 573
BssHII	GCGCGC	1 cut(s)	34
BssMI	GATC	5 cut(s)	21, 192, 222, 320, 370
BssT1I	CCWWGG	2 cut(s)	314, 573
Bst2UI	CCWGG	2 cut(s)	267, 649
BstBI	TTCGAA	2 cut(s)	50, 407
BstC8I	GCNNGC	2 cut(s)	36, 88
BstDEI	CTNAG	5 cut(s)	91, 118, 180, 450, 510
BstF5I	GGATG	2 cut(s)	22, 356
BstFNI	CGCG	2 cut(s)	36, 38
BstHHI	GCGC	2 cut(s)	36, 38
BstKTI	GATC	5 cut(s)	24, 195, 225, 323, 373
BstMAI	GTCTC	1 cut(s)	302
BstMBI	GATC	5 cut(s)	21, 192, 222, 320, 370
BstMWI	GCNNNNNNNGC	3 cut(s)	44, 488, 584
BstNI	CCWGG	2 cut(s)	267, 649
BstSCI	CCNGG	2 cut(s)	265, 647
BstSLI	GKGCMC	2 cut(s)	162, 302
BstUI	CGCG	2 cut(s)	36, 38
BstV1I	GCAGC	1 cut(s)	421
BstX2I	RGATCY	1 cut(s)	222
BstYI	RGATCY	1 cut(s)	222
BsuRI	GGCC	1 cut(s)	273
BtsCI	GGATG	2 cut(s)	22, 356
BtsIMutI	CAGTG	3 cut(s)	99, 285, 300
Cac8I	GCNNGC	2 cut(s)	36, 88
CfoI	GCGC	2 cut(s)	36, 38
Cfr13I	GGNCC	1 cut(s)	272
Csp6I	GTAC	1 cut(s)	557
CspCI	CAANNNNNGTGG	4 cut(s)	75, 110, 151, 186
CviAII	CATG	1 cut(s)	470
CviQI	GTAC	1 cut(s)	557
DdeI	CTNAG	5 cut(s)	91, 118, 180, 450, 510
DpnI	GATC	5 cut(s)	23, 194, 224, 322, 372
DpnII	GATC	5 cut(s)	21, 192, 222, 320, 370
DraI	TTTAAA	1 cut(s)	615
Eco130I	CCWWGG	2 cut(s)	314, 573
Eco31I	GGTCTC	1 cut(s)	302
Eco57I	CTGAAG	2 cut(s)	261, 615
EcoRII	CCWGG	2 cut(s)	265, 647
EcoT14I	CCWWGG	2 cut(s)	314, 573
ErhI	CCWWGG	2 cut(s)	314, 573
FaeI	CATG	1 cut(s)	473
FaiI	YATR	2 cut(s)	197, 471
FaqI	GGGAC	1 cut(s)	469
FatI	CATG	1 cut(s)	469
Fnu4HI	GCNGC	1 cut(s)	435
FokI	GGATG	2 cut(s)	29, 343
Fsp4HI	GCNGC	1 cut(s)	435
FspBI	CTAG	2 cut(s)	63, 327
GlaI	GCGC	2 cut(s)	35, 37
GluI	GCNGC	1 cut(s)	435
HaeIII	GGCC	1 cut(s)	273
HhaI	GCGC	2 cut(s)	36, 38
Hin1II	CATG	1 cut(s)	473
Hin6I	GCGC	2 cut(s)	34, 36
HinP1I	GCGC	2 cut(s)	34, 36
HphI	GGTGA	1 cut(s)	317
Hpy188I	TCNGA	2 cut(s)	26, 286
Hpy188III	TCNNGA	2 cut(s)	443, 593
HpyAV	CCTTC	8 cut(s)	94, 144, 250, 285, 334, 406, 490, 526
HpyCH4IV	ACGT	1 cut(s)	663
HpyCH4V	TGCA	2 cut(s)	475, 566
HpyF10VI	GCNNNNNNNGC	3 cut(s)	44, 488, 584
HpyF3I	CTNAG	5 cut(s)	91, 118, 180, 450, 510
HpySE526I	ACGT	1 cut(s)	663
Hsp92II	CATG	1 cut(s)	473
HspAI	GCGC	2 cut(s)	34, 36
Kzo9I	GATC	5 cut(s)	21, 192, 222, 320, 370
LmnI	GCTCC	4 cut(s)	136, 211, 442, 592
Lsp1109I	GCAGC	1 cut(s)	421
LweI	GCATC	2 cut(s)	34, 553
MaeI	CTAG	2 cut(s)	63, 327
MaeII	ACGT	1 cut(s)	663
MaeIII	GTNAC	2 cut(s)	112, 686
MalI	GATC	5 cut(s)	23, 194, 224, 322, 372
MboI	GATC	5 cut(s)	21, 192, 222, 320, 370
MboII	GAAGA	3 cut(s)	421, 608, 686
MflI	RGATCY	1 cut(s)	222
MhlI	GDGCHC	2 cut(s)	162, 302
MluCI	AATT	3 cut(s)	616, 675, 706
MmeI	TCCRAC	4 cut(s)	122, 233, 252, 264
MnlI	CCTC	8 cut(s)	49, 52, 97, 100, 445, 450, 541, 600
MseI	TTAA	3 cut(s)	147, 614, 709
MslI	CAYNNNNRTG	2 cut(s)	267, 662
MspA1I	CMGCKG	1 cut(s)	241
MspR9I	CCNGG	2 cut(s)	267, 649
MvaI	CCWGG	2 cut(s)	267, 649
MvnI	CGCG	2 cut(s)	36, 38
MwoI	GCNNNNNNNGC	3 cut(s)	44, 488, 584
NdeII	GATC	5 cut(s)	21, 192, 222, 320, 370
NlaIII	CATG	1 cut(s)	473
NlaIV	GGNNCC	1 cut(s)	207
NmuCI	GTSAC	2 cut(s)	112, 686
NspV	TTCGAA	2 cut(s)	50, 407
OliI	CACNNNNGTG	1 cut(s)	267
PauI	GCGCGC	1 cut(s)	34
PkrI	GCNGC	1 cut(s)	436
Psp6I	CCWGG	2 cut(s)	265, 647
PspGI	CCWGG	2 cut(s)	265, 647
PspN4I	GGNNCC	1 cut(s)	207
PspPI	GGNCC	1 cut(s)	272
PsuI	RGATCY	1 cut(s)	222
PteI	GCGCGC	1 cut(s)	34
PvuII	CAGCTG	1 cut(s)	241
RsaI	GTAC	1 cut(s)	558
RsaNI	GTAC	1 cut(s)	557
RseI	CAYNNNNRTG	2 cut(s)	267, 662
SaqAI	TTAA	3 cut(s)	147, 614, 709
SatI	GCNGC	1 cut(s)	435
Sau3AI	GATC	5 cut(s)	21, 192, 222, 320, 370
Sau96I	GGNCC	1 cut(s)	272
ScrFI	CCNGG	2 cut(s)	267, 649
SduI	GDGCHC	2 cut(s)	162, 302
SfaNI	GCATC	2 cut(s)	34, 553
SfuI	TTCGAA	2 cut(s)	50, 407
SmiI	ATTTAAAT	1 cut(s)	615
SmiMI	CAYNNNNRTG	2 cut(s)	267, 662
SmlI	CTYRAG	1 cut(s)	441
SmoI	CTYRAG	1 cut(s)	441
Sse9I	AATT	3 cut(s)	616, 675, 706
SspMI	CTAG	2 cut(s)	63, 327
StyD4I	CCNGG	2 cut(s)	265, 647
StyI	CCWWGG	2 cut(s)	314, 573
SwaI	ATTTAAAT	1 cut(s)	615
TaiI	ACGT	1 cut(s)	666
TaqI	TCGA	2 cut(s)	50, 407
TasI	AATT	3 cut(s)	616, 675, 706
TatI	WGTACW	1 cut(s)	556
Tru1I	TTAA	3 cut(s)	147, 614, 709
Tru9I	TTAA	3 cut(s)	147, 614, 709
TscAI	CASTG	3 cut(s)	99, 285, 307
TseFI	GTSAC	2 cut(s)	112, 686
TseI	GCWGC	1 cut(s)	434
Tsp45I	GTSAC	2 cut(s)	112, 686
TspRI	CASTG	3 cut(s)	99, 285, 307
XapI	RAATTY	1 cut(s)	616
XcmI	CCANNNNNNNNNTGG	1 cut(s)	680
XspI	CTAG	2 cut(s)	63, 327

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