Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0009243

Physical Location & Seq

Genomic Coordinates Reverse (-)

65276545 .. 65280975

Gene Structure 4431 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG493700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 834 bp

ATGGAGGAATACAATAATAGTAATGAAATGGATCATGAGAATCAAGGCACTCCTAGAGGAAATTTCCTCTACGCTTCTTCAAATCTTGGAGGCAACTATGGTAGAGCTGCTGCTGCTGCTGCTGCAGGTGATCATAATCAGCAGATCAACACCTTTCATCTTCAATCAAGCGGTGGCGAGTGTTTTCCGTCAACACAACCAACCGTGAAGACCGAAGCAGCCGGTAGTACTTCCCAGCATGCTCATCACCACCACCACAAATTTCATCATCCTCAGTTTTCTCCTCCTTCATTAATATTGTCAAGAGGGCACAATGATCAGATACCGGTTCAGCAGCAGCAGCACATAGAAAACGAGAATGAAGTAGAGGCCATCAAAGCTAAGATCATTGCTCACCCTCACTACTCTAACCTCTTGCAAGCTTACATGGATTGCCAAAGGGTGGGAGCTCCTTCTGAAGTTGTGGCTCGTCTCTCAGCTGCGCGCCAAGAGTTTGAAGCACGACAGCGATCTTCAGTCAGTTCGAGAGATGCTTCTTCAAAAGACCCCGAACTCGATCAGTTCATGGAAGCTTACTATGATATGCTGGTTAAGTATCGGGAGGAACTAACAAGGCCCATACAAGAAGCAATGGATTTCATGAGGAAGATTGAAACTCAGCTTAACATGCTTGGCAATAATAGCAACACTACTCCTCTGCGCATCTTCTCGGCCTCTGCACTAGGGCAAATTACGAAGAGGAAGAAGATGAAGATCGAAGAAGCAACAGCAACCAGTACACCTACCCTTTTCACGAGAGGCTTAATTAACATACACATACCAGGACAAGTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001708 GO:0003002 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0007275 GO:0007389 GO:0008150 GO:0009888 GO:0009889 GO:0009987 GO:0010051 GO:0010087 GO:0010089 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0030154 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0045165 GO:0048856 GO:0048869 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

ELK Homeobox_KN KNOX1 KNOX2

Protein Analysis

277

Amino Acids

30.98

Weight (kDa)

6.46

Isoelectric Point (pI)

54.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
KNOX1	PF03790	124 - 166	4.1e-23	KNOX1 domain
KNOX2	PF03791	180 - 224	1e-24	KNOX2 domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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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: OG0009243)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G08150
fragaria_vesca	FvH4_2g32400 FvH4_2g32400
malus_domestica	MD08G1075200.v1.1 MD15G1062700.v1.1
prunus_persica	Prupe.1G416700_v2.0.a1 Prupe.1G416700_v2.0.a1
pyrus_communis	pycom08g06220 pycom15g05940
rosa_chinensis	RchiOBHm_Chr6g0310301
rosa_laevigata	RLG00000010493
rosa_multiflora	Rmu_sc0002348.1_g000017
rosa_roxburghii	Rroxscaffold_7G00158680
rosa_rugosa	Rorug06G0378500 Rorug06G0378500 Rorug06G0378600 Rorug06G0378700
rosa_samantha	Rh6AG493000 Rh6BG502600 Rh6CG507600 Rh6DG493700
rosa_wichuraiana	Rw6G042900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	116
Acc16I	TGCGCA	1 cut(s)	701
Acc36I	ACCTGC	1 cut(s)	116
AccB7I	CCANNNNNTGG	1 cut(s)	442
AccII	CGCG	1 cut(s)	484
AciI	CCGC	1 cut(s)	171
AclWI	GGATC	1 cut(s)	39
AcsI	RAATTY	2 cut(s)	61, 260
AcuI	CTGAAG	2 cut(s)	477, 498
AfaI	GTAC	2 cut(s)	229, 778
AfiI	CCNNNNNNNGG	1 cut(s)	442
AgeI	ACCGGT	1 cut(s)	325
AgsI	TTSAA	5 cut(s)	81, 164, 497, 540, 653
AjnI	CCWGG	1 cut(s)	820
AluBI	AGCT	7 cut(s)	107, 380, 422, 449, 479, 572, 661
AluI	AGCT	7 cut(s)	107, 380, 422, 449, 479, 572, 661
Alw21I	GWGCWC	1 cut(s)	451
Alw26I	GTCTC	1 cut(s)	476
AlwI	GGATC	1 cut(s)	39
AoxI	GGCC	3 cut(s)	369, 614, 711
ApoI	RAATTY	2 cut(s)	61, 260
AseI	ATTAAT	1 cut(s)	293
AsiGI	ACCGGT	1 cut(s)	325
AspLEI	GCGC	3 cut(s)	484, 486, 702
AspS9I	GGNCC	1 cut(s)	615
AsuHPI	GGTGA	3 cut(s)	140, 239, 386
BaeGI	GKGCMC	1 cut(s)	312
BanII	GRGCYC	1 cut(s)	451
BauI	CACGAG	1 cut(s)	793
BbsI	GAAGAC	1 cut(s)	215
Bbv12I	GWGCWC	1 cut(s)	451
BccI	CCATC	1 cut(s)	380
BciT130I	CCWGG	1 cut(s)	822
BclI	TGATCA	2 cut(s)	130, 316
BcoDI	GTCTC	1 cut(s)	476
BfaI	CTAG	2 cut(s)	54, 722
BfmI	CTRYAG	1 cut(s)	123
BfuAI	ACCTGC	1 cut(s)	116
BmcAI	AGTACT	1 cut(s)	229
Bme1390I	CCNGG	1 cut(s)	822
BmgT120I	GGNCC	1 cut(s)	615
BmrFI	CCNGG	1 cut(s)	822
BmsI	GCATC	2 cut(s)	520, 711
BpiI	GAAGAC	1 cut(s)	215
BsaBI	GATNNNNATC	2 cut(s)	135, 752
BsaWI	WCCGGW	1 cut(s)	325
Bsc4I	CCNNNNNNNGG	1 cut(s)	442
Bse118I	RCCGGY	2 cut(s)	221, 325
Bse1I	ACTGG	1 cut(s)	774
Bse3DI	GCAATG	2 cut(s)	387, 636
Bse8I	GATNNNNATC	2 cut(s)	135, 752
BseBI	CCWGG	1 cut(s)	822
BseGI	GGATG	1 cut(s)	268
BseJI	GATNNNNATC	2 cut(s)	135, 752
BseLI	CCNNNNNNNGG	1 cut(s)	442
BseMI	GCAATG	2 cut(s)	387, 636
BseMII	CTCAG	3 cut(s)	287, 489, 671
BseNI	ACTGG	1 cut(s)	774
BsePI	GCGCGC	1 cut(s)	482
BseRI	GAGGAG	2 cut(s)	273, 684
BseSI	GKGCMC	1 cut(s)	312
BseYI	CCCAGC	1 cut(s)	234
BsgI	GTGCAG	1 cut(s)	702
Bsh1236I	CGCG	1 cut(s)	484
BshFI	GGCC	3 cut(s)	371, 616, 713
BshTI	ACCGGT	1 cut(s)	325
BsiHKAI	GWGCWC	1 cut(s)	451
BsiSI	CCGG	2 cut(s)	222, 326
BslI	CCNNNNNNNGG	1 cut(s)	442
BsmAI	GTCTC	1 cut(s)	476
BsmBI	CGTCTC	1 cut(s)	476
BsnI	GGCC	3 cut(s)	371, 616, 713
Bsp1286I	GDGCHC	2 cut(s)	312, 451
Bsp143I	GATC	8 cut(s)	31, 130, 144, 316, 384, 509, 556, 753
BspACI	CCGC	1 cut(s)	171
BspANI	GGCC	3 cut(s)	371, 616, 713
BspCNI	CTCAG	3 cut(s)	286, 488, 670
BspFNI	CGCG	1 cut(s)	484
BspHI	TCATGA	2 cut(s)	34, 639
BspMAI	CTGCAG	1 cut(s)	127
BspMI	ACCTGC	1 cut(s)	116
BspPI	GGATC	1 cut(s)	39
BsrDI	GCAATG	2 cut(s)	387, 636
BsrFI	RCCGGY	2 cut(s)	221, 325
BsrI	ACTGG	1 cut(s)	774
BssAI	RCCGGY	2 cut(s)	221, 325
BssHII	GCGCGC	1 cut(s)	482
BssMI	GATC	8 cut(s)	31, 130, 144, 316, 384, 509, 556, 753
BssSI	CACGAG	1 cut(s)	793
Bst2BI	CACGAG	1 cut(s)	793
Bst2UI	CCWGG	1 cut(s)	822
Bst4CI	ACNGT	1 cut(s)	205
Bst6I	CTCTTC	1 cut(s)	731
BstC8I	GCNNGC	3 cut(s)	240, 420, 484
BstDEI	CTNAG	4 cut(s)	273, 381, 475, 657
BstF5I	GGATG	1 cut(s)	268
BstFNI	CGCG	1 cut(s)	484
BstHHI	GCGC	3 cut(s)	484, 486, 702
BstKTI	GATC	8 cut(s)	34, 133, 147, 319, 387, 512, 559, 756
BstMAI	GTCTC	1 cut(s)	476
BstMBI	GATC	8 cut(s)	31, 130, 144, 316, 384, 509, 556, 753
BstMWI	GCNNNNNNNGC	8 cut(s)	113, 116, 119, 122, 340, 377, 667, 681
BstNI	CCWGG	1 cut(s)	822
BstNSI	RCATGY	2 cut(s)	242, 670
BstSCI	CCNGG	1 cut(s)	820
BstSFI	CTRYAG	1 cut(s)	123
BstSLI	GKGCMC	1 cut(s)	312
BstUI	CGCG	1 cut(s)	484
BstV2I	GAAGAC	1 cut(s)	215
BsuRI	GGCC	3 cut(s)	371, 616, 713
BtsCI	GGATG	1 cut(s)	268
BveI	ACCTGC	1 cut(s)	116
Cac8I	GCNNGC	3 cut(s)	240, 420, 484
CciI	TCATGA	2 cut(s)	34, 639
CfoI	GCGC	3 cut(s)	484, 486, 702
Cfr10I	RCCGGY	2 cut(s)	221, 325
Cfr13I	GGNCC	1 cut(s)	615
Csp6I	GTAC	2 cut(s)	228, 777
CspAI	ACCGGT	1 cut(s)	325
CviAII	CATG	6 cut(s)	35, 239, 427, 565, 640, 667
CviQI	GTAC	2 cut(s)	228, 777
DdeI	CTNAG	4 cut(s)	273, 381, 475, 657
DpnI	GATC	8 cut(s)	33, 132, 146, 318, 386, 511, 558, 755
DpnII	GATC	8 cut(s)	31, 130, 144, 316, 384, 509, 556, 753
Eam1104I	CTCTTC	1 cut(s)	731
EarI	CTCTTC	1 cut(s)	731
Ecl136II	GAGCTC	1 cut(s)	449
Eco24I	GRGCYC	1 cut(s)	451
Eco53kI	GAGCTC	1 cut(s)	449
Eco57I	CTGAAG	2 cut(s)	477, 498
EcoICRI	GAGCTC	1 cut(s)	449
EcoRII	CCWGG	1 cut(s)	820
EcoT38I	GRGCYC	1 cut(s)	451
Esp3I	CGTCTC	1 cut(s)	476
FaeI	CATG	6 cut(s)	38, 242, 430, 568, 643, 670
FatI	CATG	6 cut(s)	34, 238, 426, 564, 639, 666
FbaI	TGATCA	2 cut(s)	130, 316
FokI	GGATG	1 cut(s)	255
FriOI	GRGCYC	1 cut(s)	451
FspBI	CTAG	2 cut(s)	54, 722
FspI	TGCGCA	1 cut(s)	701
GlaI	GCGC	3 cut(s)	483, 485, 701
GsaI	CCCAGC	1 cut(s)	238
HaeIII	GGCC	3 cut(s)	371, 616, 713
HapII	CCGG	2 cut(s)	222, 326
HhaI	GCGC	3 cut(s)	484, 486, 702
Hin1II	CATG	6 cut(s)	38, 242, 430, 568, 643, 670
Hin6I	GCGC	3 cut(s)	482, 484, 700
HinP1I	GCGC	3 cut(s)	482, 484, 700
HincII	GTYRAC	1 cut(s)	192
HindII	GTYRAC	1 cut(s)	192
HindIII	AAGCTT	2 cut(s)	420, 570
HinfI	GANTC	1 cut(s)	40
HpaII	CCGG	2 cut(s)	222, 326
HphI	GGTGA	3 cut(s)	140, 239, 386
Hpy166II	GTNNAC	2 cut(s)	192, 779
Hpy188I	TCNGA	2 cut(s)	321, 457
Hpy188III	TCNNGA	6 cut(s)	35, 303, 525, 599, 640, 793
Hpy8I	GTNNAC	2 cut(s)	192, 779
HpyAV	CCTTC	2 cut(s)	297, 462
HpyCH4III	ACNGT	1 cut(s)	205
HpyCH4V	TGCA	3 cut(s)	125, 418, 719
HpyF10VI	GCNNNNNNNGC	8 cut(s)	113, 116, 119, 122, 340, 377, 667, 681
HpyF3I	CTNAG	4 cut(s)	273, 381, 475, 657
Hsp92II	CATG	6 cut(s)	38, 242, 430, 568, 643, 670
HspAI	GCGC	3 cut(s)	482, 484, 700
Ksp22I	TGATCA	2 cut(s)	130, 316
Kzo9I	GATC	8 cut(s)	31, 130, 144, 316, 384, 509, 556, 753
LmnI	GCTCC	2 cut(s)	446, 454
LpnPI	CCDG	7 cut(s)	111, 235, 248, 339, 572, 787, 807
LweI	GCATC	2 cut(s)	520, 711
MaeI	CTAG	2 cut(s)	54, 722
MalI	GATC	8 cut(s)	33, 132, 146, 318, 386, 511, 558, 755
MboI	GATC	8 cut(s)	31, 130, 144, 316, 384, 509, 556, 753
MhlI	GDGCHC	2 cut(s)	312, 451
MluCI	AATT	4 cut(s)	61, 260, 729, 804
MseI	TTAA	5 cut(s)	293, 591, 663, 803, 807
MspA1I	CMGCKG	1 cut(s)	479
MspI	CCGG	2 cut(s)	222, 326
MspR9I	CCNGG	1 cut(s)	822
MvaI	CCWGG	1 cut(s)	822
MvnI	CGCG	1 cut(s)	484
MwoI	GCNNNNNNNGC	8 cut(s)	113, 116, 119, 122, 340, 377, 667, 681
NdeII	GATC	8 cut(s)	31, 130, 144, 316, 384, 509, 556, 753
NlaIII	CATG	6 cut(s)	38, 242, 430, 568, 643, 670
NmeAIII	GCCGAG	1 cut(s)	689
NsbI	TGCGCA	1 cut(s)	701
NspI	RCATGY	2 cut(s)	242, 670
PacI	TTAATTAA	1 cut(s)	807
PaeI	GCATGC	1 cut(s)	242
PagI	TCATGA	2 cut(s)	34, 639
PaqCI	CACCTGC	1 cut(s)	116
PauI	GCGCGC	1 cut(s)	482
PfeI	GAWTC	1 cut(s)	40
PflMI	CCANNNNNTGG	1 cut(s)	442
PinAI	ACCGGT	1 cut(s)	325
PshBI	ATTAAT	1 cut(s)	293
Psp124BI	GAGCTC	1 cut(s)	451
Psp6I	CCWGG	1 cut(s)	820
PspFI	CCCAGC	1 cut(s)	234
PspGI	CCWGG	1 cut(s)	820
PspPI	GGNCC	1 cut(s)	615
PstI	CTGCAG	1 cut(s)	127
PteI	GCGCGC	1 cut(s)	482
PvuII	CAGCTG	1 cut(s)	479
RsaI	GTAC	2 cut(s)	229, 778
RsaNI	GTAC	2 cut(s)	228, 777
SacI	GAGCTC	1 cut(s)	451
SaqAI	TTAA	5 cut(s)	293, 591, 663, 803, 807
Sau3AI	GATC	8 cut(s)	31, 130, 144, 316, 384, 509, 556, 753
Sau96I	GGNCC	1 cut(s)	615
ScaI	AGTACT	1 cut(s)	229
ScrFI	CCNGG	1 cut(s)	822
SduI	GDGCHC	2 cut(s)	312, 451
SfaNI	GCATC	2 cut(s)	520, 711
SfcI	CTRYAG	1 cut(s)	123
SphI	GCATGC	1 cut(s)	242
Sse9I	AATT	4 cut(s)	61, 260, 729, 804
SsiI	CCGC	1 cut(s)	171
SspI	AATATT	1 cut(s)	297
SspMI	CTAG	2 cut(s)	54, 722
SstI	GAGCTC	1 cut(s)	451
StyD4I	CCNGG	1 cut(s)	820
TaaI	ACNGT	1 cut(s)	205
TaqI	TCGA	3 cut(s)	524, 555, 756
TaqII	GACCGA	1 cut(s)	227
TasI	AATT	4 cut(s)	61, 260, 729, 804
TatI	WGTACW	2 cut(s)	227, 776
TfiI	GAWTC	1 cut(s)	40
Tru1I	TTAA	5 cut(s)	293, 591, 663, 803, 807
Tru9I	TTAA	5 cut(s)	293, 591, 663, 803, 807
TspDTI	ATGAA	8 cut(s)	39, 146, 254, 279, 375, 553, 628, 764
TspGWI	ACGGA	1 cut(s)	177
Van91I	CCANNNNNTGG	1 cut(s)	442
VspI	ATTAAT	1 cut(s)	293
XapI	RAATTY	2 cut(s)	61, 260
XceI	RCATGY	2 cut(s)	242, 670
XspI	CTAG	2 cut(s)	54, 722
ZrmI	AGTACT	1 cut(s)	229

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