Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0009302

Physical Location & Seq

Genomic Coordinates Reverse (-)

65656535 .. 65658969

Gene Structure 2435 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG348500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 651 bp

ATGGCGGTTAATTCACCGACTAGTCGCTGCGCCGCTCAGCTCAGCCGCTCCCTCGCTCCTCGCTCACCTCTCCCTTTCTCCAACCGGACCTTCACCCGACCCGGATTCCGCCCCGACCCGGCGACCCCCAGGCTCGTCTCCGTCCGTTGCCAGACGCCGTCTCCGGACGCTTTCCGATCCAAGCGGCCGGTCGGTCTCGGCGAGCCCGAAGCTCCGATCGGGTCCTCGGGTTCTTCGTCCACCTCCTCGGCCATTGATTTTCTCACGTTGTGCCACTCTCTCAAGACTACGAAAAGGAAAGGGTGGGTGAATCATGGAATAAAGGGCGAGTCGATTGCTGACCACATGTACCGCATGGCTTTGATGTCTTTGATTGCTGGTGATATTCCTGGTTTGAATAGAGAAAGGTGTATTAAGATTGCAATTGTGCATGACATTGCAGAAGCTATCGTTGGAGATATAACACCATCTGATGGTGTGCCTAAAAAGGAAAAGAGCAGAATGGAGGAAGCAGCTTTGAATGAAATGTGTGTGGTTCTTGGTGGAGGGATGAGAGCTGAAGAGATCAAAGAACTTTGGGCAGAGTATGAAAACAATTCTTCAATAGAGGCTAATCTTGTGAAGGATTTTGACAAAGTATGTATATCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HD_3

Protein Analysis

216

Amino Acids

23.42

Weight (kDa)

8.55

Isoelectric Point (pI)

48.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HD_3	PF13023	92 - 214	3e-39	HD domain
HD	PF01966	113 - 213	3.7e-09	HD 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: OG0009302)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G26160 AT1G26160
fragaria_vesca	FvH4_1g00280 FvH4_4g28490 FvH4_4g28490
malus_domestica	MD16G1051400.v1.1
prunus_persica	Prupe.1G301100_v2.0.a1 Prupe.1G301100_v2.0.a1 Prupe.1G301100_v2.0.a1
pyrus_communis	pycom16g04520
rosa_chinensis	RchiOBHm_Chr4g0436461
rosa_laevigata	RLG00000006517
rosa_multiflora	Rmu_sc0000579.1_g000006
rosa_roxburghii	Rroxscaffold_5G00377600
rosa_rugosa	Rorug04G0294000 Rorug04G0294100 Rorug04G0294200
rosa_samantha	Rh4AG348500 Rh4BG357200 Rh4CG371700 Rh4DG350900
rosa_wichuraiana	Rw4G030460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	473
AccBSI	CCGCTC	2 cut(s)	35, 48
AccIII	TCCGGA	1 cut(s)	163
AciI	CCGC	6 cut(s)	5, 33, 46, 109, 184, 352
AclWI	GGATC	1 cut(s)	171
AcoI	YGGCCR	2 cut(s)	185, 249
AcuI	CTGAAG	1 cut(s)	579
AcyI	GRCGYC	1 cut(s)	155
AdeI	CACNNNGTG	1 cut(s)	270
AfaI	GTAC	1 cut(s)	350
AfiI	CCNNNNNNNGG	2 cut(s)	118, 473
AflIII	ACRYGT	1 cut(s)	345
AgsI	TTSAA	3 cut(s)	397, 520, 603
AhlI	ACTAGT	1 cut(s)	20
AjnI	CCWGG	2 cut(s)	128, 388
AjuI	GAANNNNNNNTTGG	4 cut(s)	74, 106, 435, 467
AluBI	AGCT	5 cut(s)	40, 212, 446, 515, 557
AluI	AGCT	5 cut(s)	40, 212, 446, 515, 557
Alw26I	GTCTC	3 cut(s)	142, 165, 200
AlwI	GGATC	1 cut(s)	171
Ama87I	CYCGRG	1 cut(s)	226
Aor13HI	TCCGGA	1 cut(s)	163
AoxI	GGCC	2 cut(s)	185, 249
ApeKI	GCWGC	2 cut(s)	27, 512
AspLEI	GCGC	1 cut(s)	32
AspS9I	GGNCC	2 cut(s)	87, 222
AsuC2I	CCSGG	2 cut(s)	102, 119
AsuHPI	GGTGA	5 cut(s)	6, 57, 85, 319, 392
AvaI	CYCGRG	1 cut(s)	226
AvaII	GGWCC	2 cut(s)	87, 222
BanII	GRGCYC	1 cut(s)	207
BbvI	GCAGC	2 cut(s)	14, 524
BccI	CCATC	2 cut(s)	467, 475
BceAI	ACGGC	1 cut(s)	142
BcgI	CGANNNNNNTGC	2 cut(s)	317, 351
BciT130I	CCWGG	2 cut(s)	130, 390
BcnI	CCSGG	2 cut(s)	102, 119
BcoDI	GTCTC	3 cut(s)	142, 165, 200
BcuI	ACTAGT	1 cut(s)	20
BfaI	CTAG	1 cut(s)	21
BisI	GCNGC	5 cut(s)	28, 33, 46, 185, 513
BlpI	GCTNAGC	2 cut(s)	36, 41
BlsI	GCNGC	5 cut(s)	29, 34, 47, 186, 514
Bme1390I	CCNGG	4 cut(s)	102, 119, 130, 390
Bme18I	GGWCC	2 cut(s)	87, 222
BmeT110I	CYCGRG	1 cut(s)	226
BmgT120I	GGNCC	2 cut(s)	87, 222
BmiI	GGNNCC	1 cut(s)	223
BmrFI	CCNGG	4 cut(s)	102, 119, 130, 390
Bpu1102I	GCTNAGC	2 cut(s)	36, 41
BpuEI	CTTGAG	1 cut(s)	266
BpuMI	CCSGG	2 cut(s)	102, 119
BsaHI	GRCGYC	1 cut(s)	155
BsaI	GGTCTC	1 cut(s)	200
BsaJI	CCNNGG	3 cut(s)	128, 225, 246
BsaWI	WCCGGW	2 cut(s)	84, 163
BsaXI	ACNNNNNCTCC	2 cut(s)	145, 175
Bsc4I	CCNNNNNNNGG	2 cut(s)	118, 473
Bse118I	RCCGGY	1 cut(s)	187
Bse3DI	GCAATG	1 cut(s)	435
BseAI	TCCGGA	1 cut(s)	163
BseBI	CCWGG	2 cut(s)	130, 390
BseDI	CCNNGG	3 cut(s)	128, 225, 246
BseGI	GGATG	1 cut(s)	555
BseLI	CCNNNNNNNGG	2 cut(s)	118, 473
BseMI	GCAATG	1 cut(s)	435
BseMII	CTCAG	2 cut(s)	50, 55
BseRI	GAGGAG	2 cut(s)	48, 235
BseX3I	CGGCCG	1 cut(s)	185
BseXI	GCAGC	2 cut(s)	14, 524
Bsh1285I	CGRYCG	3 cut(s)	188, 192, 219
BshFI	GGCC	2 cut(s)	187, 251
BsiEI	CGRYCG	3 cut(s)	188, 192, 219
BsiHKCI	CYCGRG	1 cut(s)	226
BsiSI	CCGG	5 cut(s)	85, 102, 119, 164, 188
BslI	CCNNNNNNNGG	2 cut(s)	118, 473
BsmAI	GTCTC	3 cut(s)	142, 165, 200
BsmBI	CGTCTC	2 cut(s)	142, 165
BsnI	GGCC	2 cut(s)	187, 251
Bso31I	GGTCTC	1 cut(s)	200
BsoBI	CYCGRG	1 cut(s)	226
Bsp1286I	GDGCHC	1 cut(s)	207
Bsp13I	TCCGGA	1 cut(s)	163
Bsp143I	GATC	3 cut(s)	176, 216, 564
Bsp1720I	GCTNAGC	2 cut(s)	36, 41
BspACI	CCGC	6 cut(s)	5, 33, 46, 109, 184, 352
BspANI	GGCC	2 cut(s)	187, 251
BspCNI	CTCAG	2 cut(s)	49, 54
BspEI	TCCGGA	1 cut(s)	163
BspLI	GGNNCC	1 cut(s)	223
BspPI	GGATC	1 cut(s)	171
BspTNI	GGTCTC	1 cut(s)	200
BsrBI	CCGCTC	2 cut(s)	35, 48
BsrDI	GCAATG	1 cut(s)	435
BsrFI	RCCGGY	1 cut(s)	187
BssAI	RCCGGY	1 cut(s)	187
BssECI	CCNNGG	3 cut(s)	128, 225, 246
BssMI	GATC	3 cut(s)	176, 216, 564
BssNI	GRCGYC	1 cut(s)	155
Bst2UI	CCWGG	2 cut(s)	130, 390
Bst6I	CTCTTC	1 cut(s)	555
BstACI	GRCGYC	1 cut(s)	155
BstC8I	GCNNGC	1 cut(s)	203
BstDEI	CTNAG	2 cut(s)	36, 41
BstF5I	GGATG	1 cut(s)	555
BstHHI	GCGC	1 cut(s)	32
BstKTI	GATC	3 cut(s)	179, 219, 567
BstMAI	GTCTC	3 cut(s)	142, 165, 200
BstMBI	GATC	3 cut(s)	176, 216, 564
BstMCI	CGRYCG	3 cut(s)	188, 192, 219
BstNI	CCWGG	2 cut(s)	130, 390
BstNSI	RCATGY	1 cut(s)	349
BstSCI	CCNGG	4 cut(s)	100, 117, 128, 388
BstV1I	GCAGC	2 cut(s)	14, 524
BstZI	CGGCCG	1 cut(s)	185
BsuRI	GGCC	2 cut(s)	187, 251
BtsCI	GGATG	1 cut(s)	555
Cac8I	GCNNGC	1 cut(s)	203
CfoI	GCGC	1 cut(s)	32
Cfr10I	RCCGGY	1 cut(s)	187
Cfr13I	GGNCC	2 cut(s)	87, 222
CseI	GACGC	2 cut(s)	163, 176
Csp6I	GTAC	1 cut(s)	349
CviAII	CATG	4 cut(s)	314, 346, 355, 431
CviQI	GTAC	1 cut(s)	349
DdeI	CTNAG	2 cut(s)	36, 41
DpnI	GATC	3 cut(s)	178, 218, 566
DpnII	GATC	3 cut(s)	176, 216, 564
DraIII	CACNNNGTG	1 cut(s)	270
EaeI	YGGCCR	2 cut(s)	185, 249
EagI	CGGCCG	1 cut(s)	185
Eam1104I	CTCTTC	1 cut(s)	555
EarI	CTCTTC	1 cut(s)	555
EciI	GGCGGA	1 cut(s)	98
EclXI	CGGCCG	1 cut(s)	185
Eco24I	GRGCYC	1 cut(s)	207
Eco31I	GGTCTC	1 cut(s)	200
Eco47I	GGWCC	2 cut(s)	87, 222
Eco52I	CGGCCG	1 cut(s)	185
Eco57I	CTGAAG	1 cut(s)	579
Eco88I	CYCGRG	1 cut(s)	226
EcoO109I	RGGNCCY	1 cut(s)	222
EcoRII	CCWGG	2 cut(s)	128, 388
EcoT38I	GRGCYC	1 cut(s)	207
Esp3I	CGTCTC	2 cut(s)	142, 165
FaeI	CATG	4 cut(s)	317, 349, 358, 434
FaiI	YATR	8 cut(s)	315, 347, 356, 432, 461, 588, 640, 644
FatI	CATG	4 cut(s)	313, 345, 354, 430
Fnu4HI	GCNGC	5 cut(s)	28, 33, 46, 185, 513
FokI	GGATG	1 cut(s)	562
FriOI	GRGCYC	1 cut(s)	207
Fsp4HI	GCNGC	5 cut(s)	28, 33, 46, 185, 513
FspBI	CTAG	1 cut(s)	21
GlaI	GCGC	1 cut(s)	31
GluI	GCNGC	5 cut(s)	28, 33, 46, 185, 513
HaeIII	GGCC	2 cut(s)	187, 251
HapII	CCGG	5 cut(s)	85, 102, 119, 164, 188
HgaI	GACGC	2 cut(s)	163, 176
HhaI	GCGC	1 cut(s)	32
Hin1I	GRCGYC	1 cut(s)	155
Hin1II	CATG	4 cut(s)	317, 349, 358, 434
Hin6I	GCGC	1 cut(s)	30
HinP1I	GCGC	1 cut(s)	30
HinfI	GANTC	3 cut(s)	105, 310, 329
HpaII	CCGG	5 cut(s)	85, 102, 119, 164, 188
HphI	GGTGA	5 cut(s)	6, 57, 85, 319, 392
Hpy166II	GTNNAC	1 cut(s)	240
Hpy188I	TCNGA	3 cut(s)	176, 216, 472
Hpy188III	TCNNGA	3 cut(s)	164, 283, 648
Hpy8I	GTNNAC	1 cut(s)	240
HpyAV	CCTTC	2 cut(s)	100, 616
HpyCH4IV	ACGT	1 cut(s)	266
HpyCH4V	TGCA	3 cut(s)	422, 430, 440
HpyF3I	CTNAG	2 cut(s)	36, 41
HpySE526I	ACGT	1 cut(s)	266
Hsp92I	GRCGYC	1 cut(s)	155
Hsp92II	CATG	4 cut(s)	317, 349, 358, 434
HspAI	GCGC	1 cut(s)	30
Kpn2I	TCCGGA	1 cut(s)	163
Kzo9I	GATC	3 cut(s)	176, 216, 564
LmnI	GCTCC	3 cut(s)	53, 61, 217
Lsp1109I	GCAGC	2 cut(s)	14, 524
MaeI	CTAG	1 cut(s)	21
MaeII	ACGT	1 cut(s)	266
MalI	GATC	3 cut(s)	178, 218, 566
MbiI	CCGCTC	2 cut(s)	35, 48
MboI	GATC	3 cut(s)	176, 216, 564
MboII	GAAGA	3 cut(s)	225, 572, 591
MfeI	CAATTG	1 cut(s)	423
MhlI	GDGCHC	1 cut(s)	207
MluCI	AATT	3 cut(s)	10, 423, 595
MlyI	GAGTC	1 cut(s)	338
MmeI	TCCRAC	2 cut(s)	105, 433
MnlI	CCTC	9 cut(s)	62, 69, 78, 235, 253, 256, 499, 539, 601
MroI	TCCGGA	1 cut(s)	163
MseI	TTAA	2 cut(s)	9, 414
MspI	CCGG	5 cut(s)	85, 102, 119, 164, 188
MspR9I	CCNGG	4 cut(s)	102, 119, 130, 390
MunI	CAATTG	1 cut(s)	423
MvaI	CCWGG	2 cut(s)	130, 390
NciI	CCSGG	2 cut(s)	102, 119
NdeII	GATC	3 cut(s)	176, 216, 564
NlaIII	CATG	4 cut(s)	317, 349, 358, 434
NlaIV	GGNNCC	1 cut(s)	223
NmeAIII	GCCGAG	2 cut(s)	177, 227
NspI	RCATGY	1 cut(s)	349
PciI	ACATGT	1 cut(s)	345
PcsI	WCGNNNNNNNCGW	3 cut(s)	198, 204, 233
PfeI	GAWTC	2 cut(s)	105, 310
PflFI	GACNNNGTC	1 cut(s)	157
PflMI	CCANNNNNTGG	1 cut(s)	473
PkrI	GCNGC	5 cut(s)	29, 34, 47, 186, 514
Ple19I	CGATCG	1 cut(s)	219
PleI	GAGTC	1 cut(s)	337
PpsI	GAGTC	1 cut(s)	337
PpuMI	RGGWCCY	1 cut(s)	222
PscI	ACATGT	1 cut(s)	345
Psp5II	RGGWCCY	1 cut(s)	222
Psp6I	CCWGG	2 cut(s)	128, 388
PspGI	CCWGG	2 cut(s)	128, 388
PspN4I	GGNNCC	1 cut(s)	223
PspPI	GGNCC	2 cut(s)	87, 222
PspPPI	RGGWCCY	1 cut(s)	222
PsyI	GACNNNGTC	1 cut(s)	157
PvuI	CGATCG	1 cut(s)	219
RsaI	GTAC	1 cut(s)	350
RsaNI	GTAC	1 cut(s)	349
SaqAI	TTAA	2 cut(s)	9, 414
SatI	GCNGC	5 cut(s)	28, 33, 46, 185, 513
Sau3AI	GATC	3 cut(s)	176, 216, 564
Sau96I	GGNCC	2 cut(s)	87, 222
SchI	GAGTC	1 cut(s)	338
ScrFI	CCNGG	4 cut(s)	102, 119, 130, 390
SduI	GDGCHC	1 cut(s)	207
SinI	GGWCC	2 cut(s)	87, 222
SmlI	CTYRAG	1 cut(s)	281
SmoI	CTYRAG	1 cut(s)	281
SpeI	ACTAGT	1 cut(s)	20
Sse9I	AATT	3 cut(s)	10, 423, 595
SsiI	CCGC	6 cut(s)	5, 33, 46, 109, 184, 352
SspMI	CTAG	1 cut(s)	21
StyD4I	CCNGG	4 cut(s)	100, 117, 128, 388
TaiI	ACGT	1 cut(s)	269
TaqI	TCGA	1 cut(s)	332
TaqII	GACCGA	1 cut(s)	182
TasI	AATT	3 cut(s)	10, 423, 595
TauI	GCSGC	3 cut(s)	35, 48, 187
TfiI	GAWTC	2 cut(s)	105, 310
Tru1I	TTAA	2 cut(s)	9, 414
Tru9I	TTAA	2 cut(s)	9, 414
TseI	GCWGC	2 cut(s)	27, 512
TspDTI	ATGAA	2 cut(s)	537, 603
TspGWI	ACGGA	2 cut(s)	130, 134
Tth111I	GACNNNGTC	1 cut(s)	157
Van91I	CCANNNNNTGG	1 cut(s)	473
VpaK11BI	GGWCC	2 cut(s)	87, 222
XceI	RCATGY	1 cut(s)	349
XspI	CTAG	1 cut(s)	21

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