Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0001847

Physical Location & Seq

Genomic Coordinates Forward (+)

23064537 .. 23067375

Gene Structure 2839 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000012846

Sequence Viewer

CDS Protein Promoter (2k)

Length: 990 bp

ATGATGGGTAGCAGCGGTGGTTGTAGAGACCCTAATAGTAGGGCTCTGCCTGAGTACTACTCGATCAAAGCTGCATATCCTCAGCCTGCAGTACTACTCACTCCAAATCTTGGCTGTACTTCCAACATGACCCAAATCCCTTTGTTACCATTCAACCACCACCATCAGATAGTTCCAGTGACGTCGAATGAGCAAGGCAGAAATAGCAGTGAATGTTTTTATAGTGACAAACAACCGGCAGCTGCAGCTTCTCCTCGAAGTTCCCGATGGAGTCCAACCCCGGAGCAGATAATGCATCTGGAAGAGCTGTATCGATCTGGGATCAAGACACTTACGGCCCAACAAATTCGACAGGTGGCTGCACGGCTTCGAAACTATGGGAGGGTTGAAGGCAAGAATGTCTTCTACTGGTTTCAGAACCGCCGAGCCAGGGAGAGGCAGAAGACACGCCGTGATGAACTCATGTCCATGTATCAGTCTGACATCAAACGACAACAACAACAAACTTTGACTAACAACACAATTAGCAGTCTCCGGGACAAAGAATCTGCGGGAGTTGATTTTGTTCGTTGTTTTGAAGTTGAGCTGCAGAATAGACGGACACTACCAAGCTTCACTCTTCTTACCGATCAGGAATCATCTTCAATACTGCAAGAGAGGATGATGAGCATGGGGAAAAGCAATTCCTCCGAGCTACTTGTGGAACATACCGATTCACCTGGATTGACCTCAAACACAAACGCGTCAGCTGCATTAATTTACAGAAAGCTCTTGGACTTTCATCACTGTTATGATTACGATTACGGTATGGTATTGATTACACCAAATATTTACAAAGAAGAAGAAGAACAAAGAAGAGAAACTCAAACTTTGAAGCTCTTTCCCCTTGAGATCGACAATCTTAAGGGTGCTAAGGATACCAAATTACCTATGAGTAGAACCACAAGCACATATACTACTTCAGATTTCATGGCAGATCAATATTATTAG

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

330

Amino Acids

37.83

Weight (kDa)

8.48

Isoelectric Point (pI)

65.94

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Homeodomain	PF00046	86 - 147	7.6e-14	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)
AatII	GACGTC	1 cut(s)	185
AccB7I	CCANNNNNTGG	1 cut(s)	110
AccII	CGCG	1 cut(s)	743
AciI	CCGC	3 cut(s)	15, 421, 551
AclWI	GGATC	1 cut(s)	329
AcsI	RAATTY	1 cut(s)	345
AcuI	CTGAAG	1 cut(s)	945
AcyI	GRCGYC	1 cut(s)	182
AdeI	CACNNNGTG	1 cut(s)	452
AfaI	GTAC	3 cut(s)	56, 93, 118
AfiI	CCNNNNNNNGG	3 cut(s)	110, 430, 435
AflII	CTTAAG	1 cut(s)	902
AflIII	ACRYGT	1 cut(s)	741
AgsI	TTSAA	5 cut(s)	154, 389, 578, 645, 874
AjnI	CCWGG	2 cut(s)	428, 718
Alw26I	GTCTC	2 cut(s)	21, 536
AlwI	GGATC	1 cut(s)	329
AoxI	GGCC	1 cut(s)	336
ApeKI	GCWGC	8 cut(s)	12, 71, 239, 242, 245, 359, 586, 749
ApoI	RAATTY	1 cut(s)	345
AseI	ATTAAT	1 cut(s)	755
Asp700I	GAANNNNTTC	1 cut(s)	401
AspS9I	GGNCC	1 cut(s)	337
AsuC2I	CCSGG	2 cut(s)	281, 536
AsuHPI	GGTGA	1 cut(s)	708
AsuII	TTCGAA	1 cut(s)	370
BanII	GRGCYC	1 cut(s)	46
BbsI	GAAGAC	2 cut(s)	394, 449
BbvCI	CCTCAGC	1 cut(s)	81
BbvI	GCAGC	8 cut(s)	24, 58, 229, 251, 257, 346, 573, 736
BccI	CCATC	2 cut(s)	171, 261
BceAI	ACGGC	3 cut(s)	351, 380, 435
BciT130I	CCWGG	2 cut(s)	430, 720
BciVI	GTATCC	1 cut(s)	910
BcnI	CCSGG	2 cut(s)	281, 536
BcoDI	GTCTC	2 cut(s)	21, 536
BfmI	CTRYAG	3 cut(s)	87, 243, 587
BfrI	CTTAAG	1 cut(s)	902
BfuI	GTATCC	1 cut(s)	910
BisI	GCNGC	8 cut(s)	13, 72, 240, 243, 246, 360, 587, 750
BlsI	GCNGC	8 cut(s)	14, 73, 241, 244, 247, 361, 588, 751
BmcAI	AGTACT	2 cut(s)	56, 93
Bme1390I	CCNGG	4 cut(s)	281, 430, 536, 720
BmgT120I	GGNCC	1 cut(s)	337
BmrFI	CCNGG	4 cut(s)	281, 430, 536, 720
BmsI	GCATC	1 cut(s)	304
BpiI	GAAGAC	2 cut(s)	394, 449
BplI	GAGNNNNNCTC	2 cut(s)	44, 76
Bpu10I	CCTNAGC	2 cut(s)	81, 912
Bpu14I	TTCGAA	1 cut(s)	370
BpuEI	CTTGAG	1 cut(s)	908
BpuMI	CCSGG	2 cut(s)	281, 536
Bsa29I	ATCGAT	1 cut(s)	313
BsaHI	GRCGYC	1 cut(s)	182
BsaI	GGTCTC	1 cut(s)	21
BsaJI	CCNNGG	2 cut(s)	279, 429
Bsc4I	CCNNNNNNNGG	3 cut(s)	110, 430, 435
Bse118I	RCCGGY	1 cut(s)	235
Bse1I	ACTGG	2 cut(s)	176, 413
BseBI	CCWGG	2 cut(s)	430, 720
BseCI	ATCGAT	1 cut(s)	313
BseDI	CCNNGG	2 cut(s)	279, 429
BseGI	GGATG	1 cut(s)	666
BseLI	CCNNNNNNNGG	3 cut(s)	110, 430, 435
BseMII	CTCAG	2 cut(s)	42, 95
BseNI	ACTGG	2 cut(s)	176, 413
BseRI	GAGGAG	1 cut(s)	243
BseXI	GCAGC	8 cut(s)	24, 58, 229, 251, 257, 346, 573, 736
BsgI	GTGCAG	1 cut(s)	345
Bsh1236I	CGCG	1 cut(s)	743
BshFI	GGCC	1 cut(s)	338
BshVI	ATCGAT	1 cut(s)	313
BsiSI	CCGG	3 cut(s)	236, 281, 535
BslFI	GGGAC	1 cut(s)	551
BslI	CCNNNNNNNGG	3 cut(s)	110, 430, 435
BsmAI	GTCTC	2 cut(s)	21, 536
BsmFI	GGGAC	1 cut(s)	551
BsnI	GGCC	1 cut(s)	338
Bso31I	GGTCTC	1 cut(s)	21
Bsp119I	TTCGAA	1 cut(s)	370
Bsp1286I	GDGCHC	1 cut(s)	46
Bsp143I	GATC	6 cut(s)	63, 314, 321, 628, 891, 976
BspACI	CCGC	3 cut(s)	15, 421, 551
BspANI	GGCC	1 cut(s)	338
BspCNI	CTCAG	2 cut(s)	43, 94
BspDI	ATCGAT	1 cut(s)	313
BspFNI	CGCG	1 cut(s)	743
BspMAI	CTGCAG	3 cut(s)	91, 247, 591
BspPI	GGATC	1 cut(s)	329
BspQI	GCTCTTC	1 cut(s)	297
BspT104I	TTCGAA	1 cut(s)	370
BspTI	CTTAAG	1 cut(s)	902
BspTNI	GGTCTC	1 cut(s)	21
BsrFI	RCCGGY	1 cut(s)	235
BsrI	ACTGG	2 cut(s)	176, 413
BssAI	RCCGGY	1 cut(s)	235
BssECI	CCNNGG	2 cut(s)	279, 429
BssMI	GATC	6 cut(s)	63, 314, 321, 628, 891, 976
BssNI	GRCGYC	1 cut(s)	182
Bst2UI	CCWGG	2 cut(s)	430, 720
Bst4CI	ACNGT	2 cut(s)	788, 806
Bst6I	CTCTTC	3 cut(s)	297, 624, 850
BstACI	GRCGYC	1 cut(s)	182
BstAFI	CTTAAG	1 cut(s)	902
BstAPI	GCANNNNNTGC	1 cut(s)	292
BstBI	TTCGAA	1 cut(s)	370
BstC8I	GCNNGC	1 cut(s)	87
BstDEI	CTNAG	3 cut(s)	51, 81, 912
BstF5I	GGATG	1 cut(s)	666
BstFNI	CGCG	1 cut(s)	743
BstKTI	GATC	6 cut(s)	66, 317, 324, 631, 894, 979
BstMAI	GTCTC	2 cut(s)	21, 536
BstMBI	GATC	6 cut(s)	63, 314, 321, 628, 891, 976
BstMWI	GCNNNNNNNGC	4 cut(s)	204, 245, 292, 749
BstNI	CCWGG	2 cut(s)	430, 720
BstSCI	CCNGG	4 cut(s)	279, 428, 534, 718
BstSFI	CTRYAG	3 cut(s)	87, 243, 587
BstUI	CGCG	1 cut(s)	743
BstV1I	GCAGC	8 cut(s)	24, 58, 229, 251, 257, 346, 573, 736
BstV2I	GAAGAC	2 cut(s)	394, 449
Bsu15I	ATCGAT	1 cut(s)	313
BsuI	GTATCC	1 cut(s)	910
BsuRI	GGCC	1 cut(s)	338
BsuTUI	ATCGAT	1 cut(s)	313
BtsCI	GGATG	1 cut(s)	666
BtsI	GCAGTG	1 cut(s)	214
BtsIMutI	CAGTG	3 cut(s)	183, 214, 784
Cac8I	GCNNGC	1 cut(s)	87
Cfr10I	RCCGGY	1 cut(s)	235
Cfr13I	GGNCC	1 cut(s)	337
ClaI	ATCGAT	1 cut(s)	313
CseI	GACGC	1 cut(s)	732
Csp6I	GTAC	3 cut(s)	55, 92, 117
CviAII	CATG	5 cut(s)	127, 463, 469, 670, 970
CviQI	GTAC	3 cut(s)	55, 92, 117
DdeI	CTNAG	3 cut(s)	51, 81, 912
DpnI	GATC	6 cut(s)	65, 316, 323, 630, 893, 978
DpnII	GATC	6 cut(s)	63, 314, 321, 628, 891, 976
DraIII	CACNNNGTG	1 cut(s)	452
Eam1104I	CTCTTC	3 cut(s)	297, 624, 850
EarI	CTCTTC	3 cut(s)	297, 624, 850
Eco24I	GRGCYC	1 cut(s)	46
Eco31I	GGTCTC	1 cut(s)	21
Eco57I	CTGAAG	1 cut(s)	945
EcoRII	CCWGG	2 cut(s)	428, 718
EcoT22I	ATGCAT	1 cut(s)	297
EcoT38I	GRGCYC	1 cut(s)	46
FaeI	CATG	5 cut(s)	130, 466, 472, 673, 973
FalI	AAGNNNNNCTT	2 cut(s)	386, 418
FaqI	GGGAC	1 cut(s)	551
FatI	CATG	5 cut(s)	126, 462, 468, 669, 969
FauI	CCCGC	1 cut(s)	544
Fnu4HI	GCNGC	8 cut(s)	13, 72, 240, 243, 246, 360, 587, 750
FokI	GGATG	1 cut(s)	673
FriOI	GRGCYC	1 cut(s)	46
Fsp4HI	GCNGC	8 cut(s)	13, 72, 240, 243, 246, 360, 587, 750
GluI	GCNGC	8 cut(s)	13, 72, 240, 243, 246, 360, 587, 750
HaeIII	GGCC	1 cut(s)	338
HapII	CCGG	3 cut(s)	236, 281, 535
HgaI	GACGC	1 cut(s)	732
Hin1I	GRCGYC	1 cut(s)	182
Hin1II	CATG	5 cut(s)	130, 466, 472, 673, 973
HindIII	AAGCTT	1 cut(s)	610
HinfI	GANTC	4 cut(s)	271, 545, 635, 713
HpaII	CCGG	3 cut(s)	236, 281, 535
HphI	GGTGA	1 cut(s)	708
Hpy188I	TCNGA	5 cut(s)	168, 417, 481, 691, 964
Hpy188III	TCNNGA	4 cut(s)	264, 299, 325, 632
Hpy99I	CGWCG	1 cut(s)	187
HpyAV	CCTTC	1 cut(s)	383
HpyCH4III	ACNGT	2 cut(s)	788, 806
HpyCH4IV	ACGT	1 cut(s)	182
HpyCH4V	TGCA	8 cut(s)	74, 89, 245, 295, 362, 589, 652, 752
HpyF10VI	GCNNNNNNNGC	4 cut(s)	204, 245, 292, 749
HpyF3I	CTNAG	3 cut(s)	51, 81, 912
HpySE526I	ACGT	1 cut(s)	182
Hsp92I	GRCGYC	1 cut(s)	182
Hsp92II	CATG	5 cut(s)	130, 466, 472, 673, 973
Kzo9I	GATC	6 cut(s)	63, 314, 321, 628, 891, 976
LguI	GCTCTTC	1 cut(s)	297
LmnI	GCTCC	1 cut(s)	283
Lsp1109I	GCAGC	8 cut(s)	24, 58, 229, 251, 257, 346, 573, 736
LweI	GCATC	1 cut(s)	304
MaeII	ACGT	1 cut(s)	182
MaeIII	GTNAC	3 cut(s)	144, 178, 224
MalI	GATC	6 cut(s)	65, 316, 323, 630, 893, 978
MboI	GATC	6 cut(s)	63, 314, 321, 628, 891, 976
MboII	GAAGA	9 cut(s)	314, 394, 454, 611, 633, 851, 854, 857, 867
MhlI	GDGCHC	1 cut(s)	46
MluCI	AATT	5 cut(s)	345, 522, 682, 756, 923
MluI	ACGCGT	1 cut(s)	741
MlyI	GAGTC	1 cut(s)	280
MmeI	TCCRAC	2 cut(s)	147, 299
MnlI	CCTC	7 cut(s)	90, 264, 375, 429, 651, 697, 739
Mph1103I	ATGCAT	1 cut(s)	297
MroXI	GAANNNNTTC	1 cut(s)	401
MseI	TTAA	2 cut(s)	755, 903
MslI	CAYNNNNRTG	2 cut(s)	467, 789
MspA1I	CMGCKG	3 cut(s)	15, 242, 749
MspCI	CTTAAG	1 cut(s)	902
MspI	CCGG	3 cut(s)	236, 281, 535
MspR9I	CCNGG	4 cut(s)	281, 430, 536, 720
MvaI	CCWGG	2 cut(s)	430, 720
MvnI	CGCG	1 cut(s)	743
MwoI	GCNNNNNNNGC	4 cut(s)	204, 245, 292, 749
NciI	CCSGG	2 cut(s)	281, 536
NdeII	GATC	6 cut(s)	63, 314, 321, 628, 891, 976
NlaIII	CATG	5 cut(s)	130, 466, 472, 673, 973
NmeAIII	GCCGAG	1 cut(s)	449
NmuCI	GTSAC	2 cut(s)	178, 224
NsiI	ATGCAT	1 cut(s)	297
NspV	TTCGAA	1 cut(s)	370
PciSI	GCTCTTC	1 cut(s)	297
PcsI	WCGNNNNNNNCGW	1 cut(s)	262
PdmI	GAANNNNTTC	1 cut(s)	401
PfeI	GAWTC	3 cut(s)	545, 635, 713
PflMI	CCANNNNNTGG	1 cut(s)	110
PfoI	TCCNGGA	1 cut(s)	534
PkrI	GCNGC	8 cut(s)	14, 73, 241, 244, 247, 361, 588, 751
PleI	GAGTC	1 cut(s)	279
PpsI	GAGTC	1 cut(s)	279
PshBI	ATTAAT	1 cut(s)	755
Psp6I	CCWGG	2 cut(s)	428, 718
PspGI	CCWGG	2 cut(s)	428, 718
PspPI	GGNCC	1 cut(s)	337
PstI	CTGCAG	3 cut(s)	91, 247, 591
PvuII	CAGCTG	2 cut(s)	242, 749
RsaI	GTAC	3 cut(s)	56, 93, 118
RsaNI	GTAC	3 cut(s)	55, 92, 117
RseI	CAYNNNNRTG	2 cut(s)	467, 789
SapI	GCTCTTC	1 cut(s)	297
SaqAI	TTAA	2 cut(s)	755, 903
SatI	GCNGC	8 cut(s)	13, 72, 240, 243, 246, 360, 587, 750
Sau3AI	GATC	6 cut(s)	63, 314, 321, 628, 891, 976
Sau96I	GGNCC	1 cut(s)	337
ScaI	AGTACT	2 cut(s)	56, 93
SchI	GAGTC	1 cut(s)	280
ScrFI	CCNGG	4 cut(s)	281, 430, 536, 720
SduI	GDGCHC	1 cut(s)	46
SfaNI	GCATC	1 cut(s)	304
SfcI	CTRYAG	3 cut(s)	87, 243, 587
SfuI	TTCGAA	1 cut(s)	370
SmiMI	CAYNNNNRTG	2 cut(s)	467, 789
SmlI	CTYRAG	2 cut(s)	887, 902
SmoI	CTYRAG	2 cut(s)	887, 902
Sse9I	AATT	5 cut(s)	345, 522, 682, 756, 923
SsiI	CCGC	3 cut(s)	15, 421, 551
SspI	AATATT	2 cut(s)	829, 983
StyD4I	CCNGG	4 cut(s)	279, 428, 534, 718
TaaI	ACNGT	2 cut(s)	788, 806
TaiI	ACGT	1 cut(s)	185
TaqI	TCGA	7 cut(s)	62, 185, 256, 313, 349, 370, 894
TasI	AATT	5 cut(s)	345, 522, 682, 756, 923
TatI	WGTACW	3 cut(s)	54, 91, 116
TfiI	GAWTC	3 cut(s)	545, 635, 713
Tru1I	TTAA	2 cut(s)	755, 903
Tru9I	TTAA	2 cut(s)	755, 903
TscAI	CASTG	3 cut(s)	183, 214, 791
TseFI	GTSAC	2 cut(s)	178, 224
TseI	GCWGC	8 cut(s)	12, 71, 239, 242, 245, 359, 586, 749
Tsp45I	GTSAC	2 cut(s)	178, 224
TspDTI	ATGAA	3 cut(s)	471, 770, 958
TspGWI	ACGGA	1 cut(s)	613
TspRI	CASTG	3 cut(s)	183, 214, 791
Van91I	CCANNNNNTGG	1 cut(s)	110
Vha464I	CTTAAG	1 cut(s)	902
VspI	ATTAAT	1 cut(s)	755
XapI	RAATTY	1 cut(s)	345
XmnI	GAANNNNTTC	1 cut(s)	401
ZraI	GACGTC	1 cut(s)	183
ZrmI	AGTACT	2 cut(s)	56, 93
Zsp2I	ATGCAT	1 cut(s)	297

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