Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0002003

Physical Location & Seq

Genomic Coordinates Forward (+)

54265458 .. 54268793

Gene Structure 3336 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG338500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 426 bp

ATGACCACCGCCGTCGCAACAACCGCTCAGGCCGGCCGAGGCAAGCCCAAGTCCACCAAATCCGTCTCCAGGTCCTCCAAGGCCGGCCTCCAATTCCCCGTCGGCCGTATCGCTCGCTTCCTCAAATCCGGCAAGTACGCCGAGCGAGTCGGCGCCGGCGCTCCCGTCTACCTCTCCGCCGTCCTCGAGTATCTCGCCGCTGAGGTTCTTGAGCTCGCTGGAAATGCCGCTAGAGATAACAAGAAGAATCGGATCGTTCCGAGGCACATTCAGCTGGCTGTGCGTAATGACGAGGAGTTGAGCAAGCTTTTGGGGACTGTGACTATTGCTAATGGAGGTGTCTTGCCTAACATTCATCAGAATCTGCTGCCGAAGAAGACTGGGAAAGGCAAGGGAGACATTGGATCGGCGTCGCAAGAGTTTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044424 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko04217 ko05034 ko05322 map04217 map05034 map05322

Pfam Domains

Protein Families

Histone Histone_H2A_C

Protein Analysis

141

Amino Acids

14.87

Weight (kDa)

10.32

Isoelectric Point (pI)

32.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Histone	PF00125	17 - 95	9e-15	Core histone H2A/H2B/H3/H4 domain
Histone_H2A_C	PF16211	98 - 131	1.7e-19	C-terminus of histone H2A

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: OG0002003)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G08880 AT1G54690
fragaria_vesca	FvH4_2g24430 FvH4_2g24440 FvH4_6g04950
malus_domestica	MD03G1273800.v1.1 MD03G1273900.v1.1 MD04G1212600.v1.1 MD11G1296200.v1.1 MD12G1227300.v1.1 MD17G1159100.v1.1
prunus_persica	Prupe.6G332900_v2.0.a1 Prupe.8G250000_v2.0.a1 Prupe.8G250100_v2.0.a1
pyrus_communis	pycom03g21800 pycom03g21810 pycom04g18860 pycom12g21210 pycom14g01910
rosa_chinensis	RchiOBHm_Chr3g0453441 RchiOBHm_Chr6g0292261 RchiOBHm_Chr6g0292281
rosa_laevigata	RLG00000012046 RLG00000012047 RLG00000025514
rosa_multiflora	Rmu_co8413311.1_g000001 Rmu_sc0002993.1_g000016 Rmu_sc0037544.1_g000002
rosa_roxburghii	Rroxscaffold_6G00430410 Rroxscaffold_7G00175250 Rroxscaffold_7G00175270
rosa_rugosa	Rorug02G0649100 Rorug06G0225000 Rorug06G0225100
rosa_samantha	Rh3BG053300 Rh3CG052600 Rh3DG053400 Rh6AG338300 Rh6AG338500 Rh6CG352500 Rh6CG352700 Rh6DG338500
rosa_wichuraiana	Rw3G003990 Rw6G029440 Rw6G029460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	152
AccBSI	CCGCTC	1 cut(s)	26
AccI	GTMKAC	1 cut(s)	168
AciI	CCGC	5 cut(s)	9, 24, 177, 198, 228
AclWI	GGATC	2 cut(s)	260, 412
AcoI	YGGCCR	2 cut(s)	34, 103
AcyI	GRCGYC	2 cut(s)	153, 410
AfaI	GTAC	1 cut(s)	137
AfiI	CCNNNNNNNGG	1 cut(s)	69
AjnI	CCWGG	1 cut(s)	68
AluBI	AGCT	3 cut(s)	214, 274, 307
AluI	AGCT	3 cut(s)	214, 274, 307
Alw21I	GWGCWC	1 cut(s)	216
Alw26I	GTCTC	2 cut(s)	70, 390
AlwI	GGATC	2 cut(s)	260, 412
AlwNI	CAGNNNCTG	1 cut(s)	364
Ama87I	CYCGRG	1 cut(s)	185
AoxI	GGCC	5 cut(s)	30, 34, 81, 85, 103
ApeKI	GCWGC	1 cut(s)	367
AspLEI	GCGC	2 cut(s)	155, 161
AspS9I	GGNCC	1 cut(s)	72
AvaI	CYCGRG	1 cut(s)	185
AvaII	GGWCC	1 cut(s)	72
BanI	GGYRCC	1 cut(s)	152
BanII	GRGCYC	1 cut(s)	216
BbsI	GAAGAC	1 cut(s)	383
Bbv12I	GWGCWC	1 cut(s)	216
BbvCI	CCTCAGC	1 cut(s)	201
BbvI	GCAGC	1 cut(s)	354
BceAI	ACGGC	2 cut(s)	90, 164
BciT130I	CCWGG	1 cut(s)	70
BcoDI	GTCTC	2 cut(s)	70, 390
BfaI	CTAG	1 cut(s)	231
BfoI	RGCGCY	2 cut(s)	156, 162
BisI	GCNGC	3 cut(s)	198, 228, 368
BlsI	GCNGC	3 cut(s)	199, 229, 369
Bme1390I	CCNGG	1 cut(s)	70
Bme18I	GGWCC	1 cut(s)	72
BmeT110I	CYCGRG	1 cut(s)	185
BmgT120I	GGNCC	1 cut(s)	72
BmiI	GGNNCC	1 cut(s)	154
BmrFI	CCNGG	1 cut(s)	70
BmrI	ACTGGG	1 cut(s)	390
BmuI	ACTGGG	1 cut(s)	390
BpiI	GAAGAC	1 cut(s)	383
BpmI	CTGGAG	1 cut(s)	52
Bpu10I	CCTNAGC	2 cut(s)	27, 201
BpuEI	CTTGAG	1 cut(s)	230
BsaHI	GRCGYC	2 cut(s)	153, 410
BsaJI	CCNNGG	3 cut(s)	37, 78, 260
Bsc4I	CCNNNNNNNGG	1 cut(s)	69
Bse118I	RCCGGY	3 cut(s)	32, 83, 155
Bse1I	ACTGG	1 cut(s)	385
BseBI	CCWGG	1 cut(s)	70
BseDI	CCNNGG	3 cut(s)	37, 78, 260
BseLI	CCNNNNNNNGG	1 cut(s)	69
BseMII	CTCAG	2 cut(s)	41, 192
BseNI	ACTGG	1 cut(s)	385
BseRI	GAGGAG	1 cut(s)	308
BseX3I	CGGCCG	2 cut(s)	34, 103
BseXI	GCAGC	1 cut(s)	354
Bsh1285I	CGRYCG	2 cut(s)	37, 106
BshFI	GGCC	5 cut(s)	32, 36, 83, 87, 105
BshNI	GGYRCC	1 cut(s)	152
BsiEI	CGRYCG	2 cut(s)	37, 106
BsiHKAI	GWGCWC	1 cut(s)	216
BsiHKCI	CYCGRG	1 cut(s)	185
BsiSI	CCGG	4 cut(s)	33, 84, 129, 156
BslFI	GGGAC	1 cut(s)	328
BslI	CCNNNNNNNGG	1 cut(s)	69
BsmAI	GTCTC	2 cut(s)	70, 390
BsmBI	CGTCTC	1 cut(s)	70
BsmFI	GGGAC	1 cut(s)	328
BsnI	GGCC	5 cut(s)	32, 36, 83, 87, 105
BsoBI	CYCGRG	1 cut(s)	185
Bsp1286I	GDGCHC	1 cut(s)	216
Bsp143I	GATC	2 cut(s)	252, 404
BspACI	CCGC	5 cut(s)	9, 24, 177, 198, 228
BspANI	GGCC	5 cut(s)	32, 36, 83, 87, 105
BspCNI	CTCAG	2 cut(s)	40, 193
BspLI	GGNNCC	1 cut(s)	154
BspPI	GGATC	2 cut(s)	260, 412
BspT107I	GGYRCC	1 cut(s)	152
BsrBI	CCGCTC	1 cut(s)	26
BsrFI	RCCGGY	3 cut(s)	32, 83, 155
BsrI	ACTGG	1 cut(s)	385
BssAI	RCCGGY	3 cut(s)	32, 83, 155
BssECI	CCNNGG	3 cut(s)	37, 78, 260
BssMI	GATC	2 cut(s)	252, 404
BssNI	GRCGYC	2 cut(s)	153, 410
BssT1I	CCWWGG	1 cut(s)	78
Bst2UI	CCWGG	1 cut(s)	70
Bst4CI	ACNGT	1 cut(s)	319
BstACI	GRCGYC	2 cut(s)	153, 410
BstC8I	GCNNGC	8 cut(s)	34, 44, 85, 115, 157, 216, 276, 305
BstDEI	CTNAG	2 cut(s)	27, 201
BstH2I	RGCGCY	2 cut(s)	156, 162
BstHHI	GCGC	2 cut(s)	155, 161
BstKTI	GATC	2 cut(s)	255, 407
BstMAI	GTCTC	2 cut(s)	70, 390
BstMBI	GATC	2 cut(s)	252, 404
BstMCI	CGRYCG	2 cut(s)	37, 106
BstMWI	GCNNNNNNNGC	4 cut(s)	23, 224, 271, 280
BstNI	CCWGG	1 cut(s)	70
BstSCI	CCNGG	1 cut(s)	68
BstV1I	GCAGC	1 cut(s)	354
BstV2I	GAAGAC	1 cut(s)	383
BstZI	CGGCCG	2 cut(s)	34, 103
BsuRI	GGCC	5 cut(s)	32, 36, 83, 87, 105
Cac8I	GCNNGC	8 cut(s)	34, 44, 85, 115, 157, 216, 276, 305
CaiI	CAGNNNCTG	1 cut(s)	364
CfoI	GCGC	2 cut(s)	155, 161
Cfr10I	RCCGGY	3 cut(s)	32, 83, 155
Cfr13I	GGNCC	1 cut(s)	72
CseI	GACGC	1 cut(s)	399
Csp6I	GTAC	1 cut(s)	136
CviQI	GTAC	1 cut(s)	136
DdeI	CTNAG	2 cut(s)	27, 201
DinI	GGCGCC	1 cut(s)	154
DpnI	GATC	2 cut(s)	254, 406
DpnII	GATC	2 cut(s)	252, 404
EaeI	YGGCCR	2 cut(s)	34, 103
EagI	CGGCCG	2 cut(s)	34, 103
EciI	GGCGGA	1 cut(s)	166
Ecl136II	GAGCTC	1 cut(s)	214
EclXI	CGGCCG	2 cut(s)	34, 103
Eco130I	CCWWGG	1 cut(s)	78
Eco24I	GRGCYC	1 cut(s)	216
Eco47I	GGWCC	1 cut(s)	72
Eco52I	CGGCCG	2 cut(s)	34, 103
Eco53kI	GAGCTC	1 cut(s)	214
Eco88I	CYCGRG	1 cut(s)	185
EcoICRI	GAGCTC	1 cut(s)	214
EcoO109I	RGGNCCY	1 cut(s)	72
EcoRII	CCWGG	1 cut(s)	68
EcoT14I	CCWWGG	1 cut(s)	78
EcoT38I	GRGCYC	1 cut(s)	216
EgeI	GGCGCC	1 cut(s)	154
EheI	GGCGCC	1 cut(s)	154
ErhI	CCWWGG	1 cut(s)	78
Esp3I	CGTCTC	1 cut(s)	70
FaqI	GGGAC	1 cut(s)	328
FblI	GTMKAC	1 cut(s)	168
Fnu4HI	GCNGC	3 cut(s)	198, 228, 368
FriOI	GRGCYC	1 cut(s)	216
FseI	GGCCGGCC	2 cut(s)	36, 87
Fsp4HI	GCNGC	3 cut(s)	198, 228, 368
FspBI	CTAG	1 cut(s)	231
GlaI	GCGC	2 cut(s)	154, 160
GluI	GCNGC	3 cut(s)	198, 228, 368
GsuI	CTGGAG	1 cut(s)	52
HaeII	RGCGCY	2 cut(s)	156, 162
HaeIII	GGCC	5 cut(s)	32, 36, 83, 87, 105
HapII	CCGG	4 cut(s)	33, 84, 129, 156
HgaI	GACGC	1 cut(s)	399
HhaI	GCGC	2 cut(s)	155, 161
Hin1I	GRCGYC	2 cut(s)	153, 410
Hin6I	GCGC	2 cut(s)	153, 159
HinP1I	GCGC	2 cut(s)	153, 159
HindIII	AAGCTT	1 cut(s)	305
HinfI	GANTC	3 cut(s)	147, 247, 361
HpaII	CCGG	4 cut(s)	33, 84, 129, 156
Hpy166II	GTNNAC	2 cut(s)	54, 169
Hpy188I	TCNGA	3 cut(s)	252, 261, 360
Hpy188III	TCNNGA	1 cut(s)	209
Hpy8I	GTNNAC	2 cut(s)	54, 169
Hpy99I	CGWCG	3 cut(s)	17, 104, 415
HpyCH4III	ACNGT	1 cut(s)	319
HpyF10VI	GCNNNNNNNGC	4 cut(s)	23, 224, 271, 280
HpyF3I	CTNAG	2 cut(s)	27, 201
Hsp92I	GRCGYC	2 cut(s)	153, 410
HspAI	GCGC	2 cut(s)	153, 159
KasI	GGCGCC	1 cut(s)	152
KroI	GCCGGC	3 cut(s)	32, 83, 155
KroNI	GCCGGC	3 cut(s)	34, 85, 157
Kzo9I	GATC	2 cut(s)	252, 404
LmnI	GCTCC	1 cut(s)	166
Lsp1109I	GCAGC	1 cut(s)	354
MaeI	CTAG	1 cut(s)	231
MaeIII	GTNAC	1 cut(s)	319
MalI	GATC	2 cut(s)	254, 406
MbiI	CCGCTC	1 cut(s)	26
MboI	GATC	2 cut(s)	252, 404
MboII	GAAGA	3 cut(s)	256, 385, 388
MhlI	GDGCHC	1 cut(s)	216
MluCI	AATT	1 cut(s)	92
Mly113I	GGCGCC	1 cut(s)	153
MlyI	GAGTC	1 cut(s)	156
MreI	CGCCGGCG	1 cut(s)	155
MroNI	GCCGGC	3 cut(s)	32, 83, 155
MspA1I	CMGCKG	2 cut(s)	200, 274
MspI	CCGG	4 cut(s)	33, 84, 129, 156
MspR9I	CCNGG	1 cut(s)	70
MvaI	CCWGG	1 cut(s)	70
MwoI	GCNNNNNNNGC	4 cut(s)	23, 224, 271, 280
NaeI	GCCGGC	3 cut(s)	34, 85, 157
NarI	GGCGCC	1 cut(s)	153
NdeII	GATC	2 cut(s)	252, 404
NgoMIV	GCCGGC	3 cut(s)	32, 83, 155
NlaIV	GGNNCC	1 cut(s)	154
NmeAIII	GCCGAG	2 cut(s)	62, 166
NmuCI	GTSAC	1 cut(s)	319
PaeR7I	CTCGAG	1 cut(s)	185
PdiI	GCCGGC	3 cut(s)	34, 85, 157
PfeI	GAWTC	2 cut(s)	247, 361
PkrI	GCNGC	3 cut(s)	199, 229, 369
PleI	GAGTC	1 cut(s)	155
PluTI	GGCGCC	1 cut(s)	156
PpsI	GAGTC	1 cut(s)	155
PpuMI	RGGWCCY	1 cut(s)	72
Psp124BI	GAGCTC	1 cut(s)	216
Psp5II	RGGWCCY	1 cut(s)	72
Psp6I	CCWGG	1 cut(s)	68
PspGI	CCWGG	1 cut(s)	68
PspN4I	GGNNCC	1 cut(s)	154
PspPI	GGNCC	1 cut(s)	72
PspPPI	RGGWCCY	1 cut(s)	72
PspXI	VCTCGAGB	1 cut(s)	185
PstNI	CAGNNNCTG	1 cut(s)	364
PvuII	CAGCTG	1 cut(s)	274
RigI	GGCCGGCC	2 cut(s)	36, 87
RsaI	GTAC	1 cut(s)	137
RsaNI	GTAC	1 cut(s)	136
SacI	GAGCTC	1 cut(s)	216
SatI	GCNGC	3 cut(s)	198, 228, 368
Sau3AI	GATC	2 cut(s)	252, 404
Sau96I	GGNCC	1 cut(s)	72
SchI	GAGTC	1 cut(s)	156
ScrFI	CCNGG	1 cut(s)	70
SduI	GDGCHC	1 cut(s)	216
SetI	ASST	7 cut(s)	74, 174, 207, 216, 276, 309, 340
SfoI	GGCGCC	1 cut(s)	154
Sfr274I	CTCGAG	1 cut(s)	185
SgrAI	CRCCGGYG	1 cut(s)	155
SinI	GGWCC	1 cut(s)	72
SlaI	CTCGAG	1 cut(s)	185
SmlI	CTYRAG	2 cut(s)	185, 209
SmoI	CTYRAG	2 cut(s)	185, 209
Sse9I	AATT	1 cut(s)	92
SsiI	CCGC	5 cut(s)	9, 24, 177, 198, 228
SspDI	GGCGCC	1 cut(s)	152
SspMI	CTAG	1 cut(s)	231
SstI	GAGCTC	1 cut(s)	216
StyD4I	CCNGG	1 cut(s)	68
StyI	CCWWGG	1 cut(s)	78
TaaI	ACNGT	1 cut(s)	319
TaqI	TCGA	1 cut(s)	186
TasI	AATT	1 cut(s)	92
TauI	GCSGC	2 cut(s)	200, 230
TfiI	GAWTC	2 cut(s)	247, 361
TseFI	GTSAC	1 cut(s)	319
TseI	GCWGC	1 cut(s)	367
Tsp45I	GTSAC	1 cut(s)	319
TspDTI	ATGAA	1 cut(s)	344
TspGWI	ACGGA	1 cut(s)	52
VpaK11BI	GGWCC	1 cut(s)	72
XhoI	CTCGAG	1 cut(s)	185
XmiI	GTMKAC	1 cut(s)	168
XspI	CTAG	1 cut(s)	231

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