Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0001847

Physical Location & Seq

Genomic Coordinates Forward (+)

23146589 .. 23149323

Gene Structure 2735 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000012852

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1002 bp

ATGTGGACGATGCTGGGTAGCAGCAGTGGTTGTAGAGACCCTAATAATAGGGCTCTGCCTGAGTACTCGATCAAAGCTGCATATCCTCAGTCTGCAATACTACTCACTCCAAAGCTTAGCTCTACTTCCAACATGACCCAAATCCCATTGTTACCATTCAACCACCACCATCAGATGGTTCCAGTGGCGTCGAATGAGCAAGGCAGAAATAGCAGTGATTGTTCTTATAGTTATAAACAACCGGCAGCTGCAGCTGCTCCGCGAAGATCCCGATGGACTCCAACCCCGGAGCAAATAATGCATCTGGAAGAGCTGTATCGATCTGGGATCAAGACGCCATTGGCCCAACAAATCCGACAGGTGACTGCACGGCTTCGAAACTATGGGAGGGTTGAAGGCAAGAATATATTCTACTGGTTTCAGAACCGCCGAGCCAGGGAGAGGCAGAAGACACGCCGTAAACTCACGTCCATGCATCAGTCCGACTCTAAAAAACAACAACAACAACAACAACAAACTGTGACTAACAACACAATTAGCAGTCTCCGGGACAAAGAATCTGCAGGAGTTGATTTTGTTCGTTGTTTTGAAGCTGAGCAGCAGAATAGACGGACACTACCAAGCTTCACTCTTCTTACCGATCAGGAATCATCTTCAGTACTGCAAGAGAGGATGATGAGCATGGTGAAAAGCAATTCCTCCGGGCTACTCATGGAACATACCAATTCACCTGGACTGACCTCAAACACGAACGTGTCAGCTACGTTAAATTACAGAAAGCTCTTGGACTTTCATCACTATTATGATTACAATTACGGTATGGTATTGACTGCACCGAATATTTACAAAGAAGAAGAAGAAGAAAGCACAGAAACTCAAACTCTGAAGCTCTTTCCACTCGAGAGCGACAATCGTAAAGGTGCTAAGGATACCAAATTACCTATGAGCAGAACCACAAGCACAGACTCTACTTCAGATTTCATGGCAGACCAATATTATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001558 GO:0003006 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006355 GO:0007275 GO:0008150 GO:0009553 GO:0009561 GO:0009653 GO:0009790 GO:0009791 GO:0009889 GO:0009908 GO:0009965 GO:0009987 GO:0010016 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0022414 GO:0022603 GO:0022604 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0035670 GO:0040008 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0048229 GO:0048314 GO:0048353 GO:0048366 GO:0048367 GO:0048437 GO:0048438 GO:0048440 GO:0048441 GO:0048444 GO:0048445 GO:0048446 GO:0048465 GO:0048467 GO:0048481 GO:0048482 GO:0048598 GO:0048608 GO:0048638 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051128 GO:0051171 GO:0051252 GO:0051301 GO:0051510 GO:0060255 GO:0061458 GO:0065007 GO:0080090 GO:0090567 GO:0090696 GO:0090697 GO:0090698 GO:0099402 GO:0140110 GO:1903506 GO:1905392 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Homeobox

Protein Analysis

334

Amino Acids

38.26

Weight (kDa)

9.35

Isoelectric Point (pI)

63.38

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Homeodomain	PF00046	88 - 149	6e-13	Homeodomain

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: OG0001847)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g32650 FvH4_4g32660 FvH4_5g02150 FvH4_5g02150
rosa_chinensis	RchiOBHm_Chr2g0140271 RchiOBHm_Chr4g0441531 RchiOBHm_Chr4g0441541 RchiOBHm_Chr6g0282911 RchiOBHm_Chr6g0283101
rosa_laevigata	RLG00000006085 RLG00000006087 RLG00000012846 RLG00000012849 RLG00000012850 RLG00000012852 RLG00000012853 RLG00000019859
rosa_multiflora	Rmu_sc0000159.1_g000025 Rmu_sc0000159.1_g000041 Rmu_sc0000159.1_g000052 Rmu_sc0000353.1_g000028 Rmu_sc0005446.1_g000015 Rmu_sc0012670.1_g000016
rosa_roxburghii	Rroxscaffold_2G00104940 Rroxscaffold_5G00382380 Rroxscaffold_5G00382400
rosa_rugosa	Rorug02G0361700 Rorug04G0334600 Rorug04G0334700 Rorug06G0150700 Rorug06G0151300 Rorug06G0151300
rosa_samantha	Rh2AG412600 Rh2BG423100 Rh2CG398800 Rh2DG432200 Rh4AG385900 Rh4BG400200 Rh4DG392700 Rh4DG392800 Rh6AG264100 Rh6BG267200 Rh6CG266000
rosa_wichuraiana	Rw2G033820 Rw4G033330 Rw6G022800 Rw6G022850

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	234
AccB7I	CCANNNNNTGG	1 cut(s)	175
AccII	CGCG	1 cut(s)	262
AciI	CCGC	2 cut(s)	260, 427
AclWI	GGATC	2 cut(s)	261, 335
AcuI	CTGAAG	3 cut(s)	639, 905, 957
AcyI	GRCGYC	2 cut(s)	188, 335
AfaI	GTAC	2 cut(s)	65, 660
AfiI	CCNNNNNNNGG	3 cut(s)	175, 436, 441
AflIII	ACRYGT	1 cut(s)	753
AgsI	TTSAA	3 cut(s)	160, 395, 590
AjiI	CACGTC	1 cut(s)	468
AjnI	CCWGG	2 cut(s)	434, 730
AleI	CACNNNNGTG	1 cut(s)	752
Alw26I	GTCTC	2 cut(s)	30, 548
AlwI	GGATC	2 cut(s)	261, 335
Ama87I	CYCGRG	1 cut(s)	899
AoxI	GGCC	1 cut(s)	342
ApeKI	GCWGC	7 cut(s)	21, 77, 245, 248, 251, 254, 598
Asp700I	GAANNNNTTC	1 cut(s)	407
AspS9I	GGNCC	1 cut(s)	343
AsuC2I	CCSGG	3 cut(s)	287, 548, 703
AsuHPI	GGTGA	3 cut(s)	373, 697, 720
AsuII	TTCGAA	1 cut(s)	376
AvaI	CYCGRG	1 cut(s)	899
BanII	GRGCYC	1 cut(s)	55
BbsI	GAAGAC	1 cut(s)	455
BbvI	GCAGC	7 cut(s)	33, 64, 235, 241, 257, 263, 610
BccI	CCATC	3 cut(s)	169, 177, 267
BceAI	ACGGC	2 cut(s)	386, 441
BciT130I	CCWGG	2 cut(s)	436, 732
BciVI	GTATCC	1 cut(s)	922
BcnI	CCSGG	3 cut(s)	287, 548, 703
BcoDI	GTCTC	2 cut(s)	30, 548
BfmI	CTRYAG	2 cut(s)	249, 561
BfuI	GTATCC	1 cut(s)	922
BisI	GCNGC	7 cut(s)	22, 78, 246, 249, 252, 255, 599
BlpI	GCTNAGC	2 cut(s)	116, 594
BlsI	GCNGC	7 cut(s)	23, 79, 247, 250, 253, 256, 600
BmcAI	AGTACT	2 cut(s)	65, 660
Bme1390I	CCNGG	5 cut(s)	287, 436, 548, 703, 732
BmeT110I	CYCGRG	1 cut(s)	899
BmgBI	CACGTC	1 cut(s)	468
BmgT120I	GGNCC	1 cut(s)	343
BmiI	GGNNCC	1 cut(s)	180
BmrFI	CCNGG	5 cut(s)	287, 436, 548, 703, 732
BmsI	GCATC	2 cut(s)	310, 484
BpiI	GAAGAC	1 cut(s)	455
Bpu10I	CCTNAGC	1 cut(s)	924
Bpu1102I	GCTNAGC	2 cut(s)	116, 594
Bpu14I	TTCGAA	1 cut(s)	376
BpuMI	CCSGG	3 cut(s)	287, 548, 703
Bsa29I	ATCGAT	1 cut(s)	319
BsaHI	GRCGYC	2 cut(s)	188, 335
BsaI	GGTCTC	1 cut(s)	30
BsaJI	CCNNGG	2 cut(s)	285, 435
Bsc4I	CCNNNNNNNGG	3 cut(s)	175, 436, 441
Bse118I	RCCGGY	1 cut(s)	241
Bse1I	ACTGG	2 cut(s)	182, 419
BseBI	CCWGG	2 cut(s)	436, 732
BseCI	ATCGAT	1 cut(s)	319
BseDI	CCNNGG	2 cut(s)	285, 435
BseGI	GGATG	1 cut(s)	678
BseLI	CCNNNNNNNGG	3 cut(s)	175, 436, 441
BseMII	CTCAG	3 cut(s)	51, 101, 585
BseNI	ACTGG	2 cut(s)	182, 419
BseXI	GCAGC	7 cut(s)	33, 64, 235, 241, 257, 263, 610
BseYI	CCCAGC	1 cut(s)	13
BsgI	GTGCAG	2 cut(s)	351, 816
Bsh1236I	CGCG	1 cut(s)	262
BshFI	GGCC	1 cut(s)	344
BshVI	ATCGAT	1 cut(s)	319
BsiHKCI	CYCGRG	1 cut(s)	899
BsiSI	CCGG	4 cut(s)	242, 287, 547, 702
BslFI	GGGAC	1 cut(s)	563
BslI	CCNNNNNNNGG	3 cut(s)	175, 436, 441
BsmAI	GTCTC	2 cut(s)	30, 548
BsmFI	GGGAC	1 cut(s)	563
BsnI	GGCC	1 cut(s)	344
Bso31I	GGTCTC	1 cut(s)	30
BsoBI	CYCGRG	1 cut(s)	899
Bsp119I	TTCGAA	1 cut(s)	376
Bsp1286I	GDGCHC	1 cut(s)	55
Bsp143I	GATC	5 cut(s)	69, 266, 320, 327, 640
Bsp1720I	GCTNAGC	2 cut(s)	116, 594
BspACI	CCGC	2 cut(s)	260, 427
BspANI	GGCC	1 cut(s)	344
BspCNI	CTCAG	3 cut(s)	52, 100, 586
BspDI	ATCGAT	1 cut(s)	319
BspFNI	CGCG	1 cut(s)	262
BspLI	GGNNCC	1 cut(s)	180
BspMAI	CTGCAG	2 cut(s)	253, 565
BspPI	GGATC	2 cut(s)	261, 335
BspQI	GCTCTTC	1 cut(s)	303
BspT104I	TTCGAA	1 cut(s)	376
BspTNI	GGTCTC	1 cut(s)	30
BsrFI	RCCGGY	1 cut(s)	241
BsrI	ACTGG	2 cut(s)	182, 419
BssAI	RCCGGY	1 cut(s)	241
BssECI	CCNNGG	2 cut(s)	285, 435
BssMI	GATC	5 cut(s)	69, 266, 320, 327, 640
BssNI	GRCGYC	2 cut(s)	188, 335
Bst2UI	CCWGG	2 cut(s)	436, 732
Bst4CI	ACNGT	2 cut(s)	520, 818
Bst6I	CTCTTC	2 cut(s)	303, 636
BstACI	GRCGYC	2 cut(s)	188, 335
BstAPI	GCANNNNNTGC	1 cut(s)	298
BstBI	TTCGAA	1 cut(s)	376
BstDEI	CTNAG	5 cut(s)	60, 87, 116, 594, 924
BstF5I	GGATG	1 cut(s)	678
BstFNI	CGCG	1 cut(s)	262
BstKTI	GATC	5 cut(s)	72, 269, 323, 330, 643
BstMAI	GTCTC	2 cut(s)	30, 548
BstMBI	GATC	5 cut(s)	69, 266, 320, 327, 640
BstMWI	GCNNNNNNNGC	4 cut(s)	210, 251, 254, 298
BstNI	CCWGG	2 cut(s)	436, 732
BstSCI	CCNGG	5 cut(s)	285, 434, 546, 701, 730
BstSFI	CTRYAG	2 cut(s)	249, 561
BstUI	CGCG	1 cut(s)	262
BstV1I	GCAGC	7 cut(s)	33, 64, 235, 241, 257, 263, 610
BstV2I	GAAGAC	1 cut(s)	455
BstX2I	RGATCY	1 cut(s)	266
BstYI	RGATCY	1 cut(s)	266
Bsu15I	ATCGAT	1 cut(s)	319
BsuI	GTATCC	1 cut(s)	922
BsuRI	GGCC	1 cut(s)	344
BsuTUI	ATCGAT	1 cut(s)	319
BtrI	CACGTC	1 cut(s)	468
BtsCI	GGATG	1 cut(s)	678
BtsI	GCAGTG	2 cut(s)	31, 220
BtsIMutI	CAGTG	3 cut(s)	31, 189, 220
Cfr10I	RCCGGY	1 cut(s)	241
Cfr13I	GGNCC	1 cut(s)	343
ClaI	ATCGAT	1 cut(s)	319
CseI	GACGC	2 cut(s)	177, 343
Csp6I	GTAC	2 cut(s)	64, 659
CviAII	CATG	5 cut(s)	133, 472, 682, 712, 982
CviQI	GTAC	2 cut(s)	64, 659
DdeI	CTNAG	5 cut(s)	60, 87, 116, 594, 924
DpnI	GATC	5 cut(s)	71, 268, 322, 329, 642
DpnII	GATC	5 cut(s)	69, 266, 320, 327, 640
Eam1104I	CTCTTC	2 cut(s)	303, 636
EarI	CTCTTC	2 cut(s)	303, 636
Eco24I	GRGCYC	1 cut(s)	55
Eco31I	GGTCTC	1 cut(s)	30
Eco57I	CTGAAG	3 cut(s)	639, 905, 957
Eco88I	CYCGRG	1 cut(s)	899
EcoRII	CCWGG	2 cut(s)	434, 730
EcoT22I	ATGCAT	2 cut(s)	303, 477
EcoT38I	GRGCYC	1 cut(s)	55
FaeI	CATG	5 cut(s)	136, 475, 685, 715, 985
FaqI	GGGAC	1 cut(s)	563
FatI	CATG	5 cut(s)	132, 471, 681, 711, 981
Fnu4HI	GCNGC	7 cut(s)	22, 78, 246, 249, 252, 255, 599
FokI	GGATG	1 cut(s)	685
FriOI	GRGCYC	1 cut(s)	55
Fsp4HI	GCNGC	7 cut(s)	22, 78, 246, 249, 252, 255, 599
GluI	GCNGC	7 cut(s)	22, 78, 246, 249, 252, 255, 599
GsaI	CCCAGC	1 cut(s)	17
HaeIII	GGCC	1 cut(s)	344
HapII	CCGG	4 cut(s)	242, 287, 547, 702
HgaI	GACGC	2 cut(s)	177, 343
Hin1I	GRCGYC	2 cut(s)	188, 335
Hin1II	CATG	5 cut(s)	136, 475, 685, 715, 985
HindIII	AAGCTT	2 cut(s)	113, 622
HinfI	GANTC	5 cut(s)	277, 485, 557, 647, 965
HpaII	CCGG	4 cut(s)	242, 287, 547, 702
HphI	GGTGA	3 cut(s)	373, 697, 720
Hpy166II	GTNNAC	2 cut(s)	6, 461
Hpy188I	TCNGA	6 cut(s)	174, 356, 423, 484, 885, 976
Hpy188III	TCNNGA	5 cut(s)	270, 305, 331, 644, 901
Hpy8I	GTNNAC	2 cut(s)	6, 461
Hpy99I	CGWCG	1 cut(s)	193
HpyAV	CCTTC	1 cut(s)	389
HpyCH4III	ACNGT	2 cut(s)	520, 818
HpyCH4IV	ACGT	3 cut(s)	467, 753, 764
HpyCH4V	TGCA	9 cut(s)	80, 95, 251, 301, 368, 475, 563, 664, 833
HpyF10VI	GCNNNNNNNGC	4 cut(s)	210, 251, 254, 298
HpyF3I	CTNAG	5 cut(s)	60, 87, 116, 594, 924
HpySE526I	ACGT	3 cut(s)	467, 753, 764
Hsp92I	GRCGYC	2 cut(s)	188, 335
Hsp92II	CATG	5 cut(s)	136, 475, 685, 715, 985
Kzo9I	GATC	5 cut(s)	69, 266, 320, 327, 640
LguI	GCTCTTC	1 cut(s)	303
LmnI	GCTCC	2 cut(s)	262, 289
Lsp1109I	GCAGC	7 cut(s)	33, 64, 235, 241, 257, 263, 610
LweI	GCATC	2 cut(s)	310, 484
MaeII	ACGT	3 cut(s)	467, 753, 764
MaeIII	GTNAC	3 cut(s)	150, 361, 520
MalI	GATC	5 cut(s)	71, 268, 322, 329, 642
MboI	GATC	5 cut(s)	69, 266, 320, 327, 640
MboII	GAAGA	9 cut(s)	276, 320, 460, 623, 645, 863, 866, 869, 872
MflI	RGATCY	1 cut(s)	266
MhlI	GDGCHC	1 cut(s)	55
MluCI	AATT	6 cut(s)	534, 694, 724, 769, 811, 935
MlyI	GAGTC	3 cut(s)	271, 479, 959
MmeI	TCCRAC	4 cut(s)	153, 305, 379, 507
MnlI	CCTC	6 cut(s)	96, 381, 435, 663, 709, 751
Mph1103I	ATGCAT	2 cut(s)	303, 477
MroXI	GAANNNNTTC	1 cut(s)	407
MseI	TTAA	1 cut(s)	767
MslI	CAYNNNNRTG	3 cut(s)	470, 752, 801
MspA1I	CMGCKG	2 cut(s)	248, 254
MspI	CCGG	4 cut(s)	242, 287, 547, 702
MspR9I	CCNGG	5 cut(s)	287, 436, 548, 703, 732
MvaI	CCWGG	2 cut(s)	436, 732
MvnI	CGCG	1 cut(s)	262
MwoI	GCNNNNNNNGC	4 cut(s)	210, 251, 254, 298
NciI	CCSGG	3 cut(s)	287, 548, 703
NdeII	GATC	5 cut(s)	69, 266, 320, 327, 640
NlaIII	CATG	5 cut(s)	136, 475, 685, 715, 985
NlaIV	GGNNCC	1 cut(s)	180
NmeAIII	GCCGAG	1 cut(s)	455
NmuCI	GTSAC	2 cut(s)	361, 520
NsiI	ATGCAT	2 cut(s)	303, 477
NspV	TTCGAA	1 cut(s)	376
OliI	CACNNNNGTG	1 cut(s)	752
PaeR7I	CTCGAG	1 cut(s)	899
PciSI	GCTCTTC	1 cut(s)	303
PdmI	GAANNNNTTC	1 cut(s)	407
PfeI	GAWTC	2 cut(s)	557, 647
PflMI	CCANNNNNTGG	1 cut(s)	175
PfoI	TCCNGGA	1 cut(s)	546
PkrI	GCNGC	7 cut(s)	23, 79, 247, 250, 253, 256, 600
PleI	GAGTC	3 cut(s)	271, 479, 959
PpsI	GAGTC	3 cut(s)	271, 479, 959
PsiI	TTATAA	1 cut(s)	234
Psp6I	CCWGG	2 cut(s)	434, 730
PspFI	CCCAGC	1 cut(s)	13
PspGI	CCWGG	2 cut(s)	434, 730
PspN4I	GGNNCC	1 cut(s)	180
PspPI	GGNCC	1 cut(s)	343
PstI	CTGCAG	2 cut(s)	253, 565
PsuI	RGATCY	1 cut(s)	266
PvuII	CAGCTG	2 cut(s)	248, 254
RsaI	GTAC	2 cut(s)	65, 660
RsaNI	GTAC	2 cut(s)	64, 659
RseI	CAYNNNNRTG	3 cut(s)	470, 752, 801
SapI	GCTCTTC	1 cut(s)	303
SaqAI	TTAA	1 cut(s)	767
SatI	GCNGC	7 cut(s)	22, 78, 246, 249, 252, 255, 599
Sau3AI	GATC	5 cut(s)	69, 266, 320, 327, 640
Sau96I	GGNCC	1 cut(s)	343
ScaI	AGTACT	2 cut(s)	65, 660
SchI	GAGTC	3 cut(s)	271, 479, 959
ScrFI	CCNGG	5 cut(s)	287, 436, 548, 703, 732
SduI	GDGCHC	1 cut(s)	55
SfaNI	GCATC	2 cut(s)	310, 484
SfcI	CTRYAG	2 cut(s)	249, 561
Sfr274I	CTCGAG	1 cut(s)	899
SfuI	TTCGAA	1 cut(s)	376
SlaI	CTCGAG	1 cut(s)	899
SmiMI	CAYNNNNRTG	3 cut(s)	470, 752, 801
SmlI	CTYRAG	1 cut(s)	899
SmoI	CTYRAG	1 cut(s)	899
Sse9I	AATT	6 cut(s)	534, 694, 724, 769, 811, 935
SsiI	CCGC	2 cut(s)	260, 427
SspI	AATATT	2 cut(s)	841, 995
StyD4I	CCNGG	5 cut(s)	285, 434, 546, 701, 730
TaaI	ACNGT	2 cut(s)	520, 818
TaiI	ACGT	3 cut(s)	470, 756, 767
TaqI	TCGA	5 cut(s)	68, 191, 319, 376, 900
TasI	AATT	6 cut(s)	534, 694, 724, 769, 811, 935
TatI	WGTACW	2 cut(s)	63, 658
TfiI	GAWTC	2 cut(s)	557, 647
Tru1I	TTAA	1 cut(s)	767
Tru9I	TTAA	1 cut(s)	767
TscAI	CASTG	3 cut(s)	31, 189, 220
TseFI	GTSAC	2 cut(s)	361, 520
TseI	GCWGC	7 cut(s)	21, 77, 245, 248, 251, 254, 598
Tsp45I	GTSAC	2 cut(s)	361, 520
TspDTI	ATGAA	2 cut(s)	782, 970
TspGWI	ACGGA	1 cut(s)	625
TspRI	CASTG	3 cut(s)	31, 189, 220
Van91I	CCANNNNNTGG	1 cut(s)	175
XhoI	CTCGAG	1 cut(s)	899
XmnI	GAANNNNTTC	1 cut(s)	407
ZrmI	AGTACT	2 cut(s)	65, 660
Zsp2I	ATGCAT	2 cut(s)	303, 477

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