Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr2

Orthogroup ID

OG0001847

Physical Location & Seq

Genomic Coordinates Forward (+)

4215975 .. 4217822

Gene Structure 1848 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000006085

Sequence Viewer

CDS Protein Promoter (2k)

Length: 837 bp

ATGTATGCAGTGGTTCCAGTGACGTCTGATGAGCAAGGCAGAAATACCAGTGATTGTTTTTATAGTGATAAACAACCGGCAGCTGCAGCTCCTCCGCGAAGTTCCAGATGGAATCCAACCCCGGAGCAGATAATGCACCTGGAGGAGCTCTATCGATCTGGGATAAAGACACCGACGGCCCAACAAATCCGACAGGTGACTGCTCGGCTTCTAAACTATGGGAGGGTTGAAGGCAAGAATGTATTCTACTGGTTTCAGAACCACCGAGCCAGGGAGAGGCAGAAGAGACGCCGTGAACTCATGTCCATGTATCAGTCTGACTCTAAACAACAACAACAACAACAAACTTTGACTAACAACACAATTAGCCGTCTCCTCGACAAAGAATCTGCAGGAGTTGACTTTGTTCATCGTCTTGAAGTTGAGCAGCAGAATAGACGGACACTACCAAACTTAACTGTTCTTTCCGATCAGGAATCATCTTCAGTACTGCAAGAGAGGATGATGAGCATGGTGAAAAGCAATTCCTCCAAGATACTTGTGGAACAATCCGATTCACCTGGATCGACCTCAGACACAAACGCGTCAGCTACAGTCATTCACACAAAGCTCTTGGACTTCCATCACTATTATGATTATGATTATGGTACGGTATTGACTACACCCAATATTTACAAAGAATTCAAAGAAGAAGAAGAAAGCAGAGAAACTCAAACTCTGGAGCTCTTTCCACTCGAGAGCGACAATCTTAAGGGTGCTAATGATACCAAATTACCTATGAGCAGAACCACAAGCACAGACACTACTTCAGATTTCATGGCAGACCAATATTATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003002 GO:0003006 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0007275 GO:0007389 GO:0008150 GO:0008283 GO:0009791 GO:0009798 GO:0009889 GO:0009908 GO:0009943 GO:0009947 GO:0009955 GO:0010468 GO:0010556 GO:0010865 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048366 GO:0048367 GO:0048608 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0080090 GO:0090567 GO:0097353 GO:0099402 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Homeobox

Protein Analysis

279

Amino Acids

32.14

Weight (kDa)

5.76

Isoelectric Point (pI)

68.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Homeodomain	PF00046	33 - 94	7.5e-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)	26
AccII	CGCG	2 cut(s)	97, 584
AciI	CCGC	1 cut(s)	95
AclWI	GGATC	1 cut(s)	571
AcsI	RAATTY	1 cut(s)	680
AcuI	CTGAAG	2 cut(s)	468, 792
AcyI	GRCGYC	2 cut(s)	23, 289
AfaI	GTAC	2 cut(s)	489, 649
AfiI	CCNNNNNNNGG	2 cut(s)	271, 276
AflII	CTTAAG	1 cut(s)	749
AflIII	ACRYGT	1 cut(s)	582
AgsI	TTSAA	3 cut(s)	230, 419, 685
AjnI	CCWGG	3 cut(s)	138, 269, 559
AluBI	AGCT	6 cut(s)	83, 89, 148, 590, 610, 724
AluI	AGCT	6 cut(s)	83, 89, 148, 590, 610, 724
Alw21I	GWGCWC	2 cut(s)	150, 726
Alw26I	GTCTC	2 cut(s)	280, 377
AlwI	GGATC	1 cut(s)	571
Ama87I	CYCGRG	1 cut(s)	734
AoxI	GGCC	1 cut(s)	177
ApeKI	GCWGC	4 cut(s)	80, 83, 86, 427
ApoI	RAATTY	1 cut(s)	680
Asp700I	GAANNNNTTC	1 cut(s)	242
AspS9I	GGNCC	1 cut(s)	178
AsuC2I	CCSGG	1 cut(s)	122
AsuHPI	GGTGA	3 cut(s)	208, 526, 549
AvaI	CYCGRG	1 cut(s)	734
BanII	GRGCYC	2 cut(s)	150, 726
Bbv12I	GWGCWC	2 cut(s)	150, 726
BbvI	GCAGC	4 cut(s)	70, 92, 98, 439
BccI	CCATC	2 cut(s)	102, 630
BceAI	ACGGC	3 cut(s)	192, 276, 354
BciT130I	CCWGG	3 cut(s)	140, 271, 561
BcnI	CCSGG	1 cut(s)	122
BcoDI	GTCTC	2 cut(s)	280, 377
BfmI	CTRYAG	3 cut(s)	84, 390, 591
BfrI	CTTAAG	1 cut(s)	749
BisI	GCNGC	4 cut(s)	81, 84, 87, 428
BlsI	GCNGC	4 cut(s)	82, 85, 88, 429
BmcAI	AGTACT	1 cut(s)	489
Bme1390I	CCNGG	4 cut(s)	122, 140, 271, 561
BmeT110I	CYCGRG	1 cut(s)	734
BmgT120I	GGNCC	1 cut(s)	178
BmiI	GGNNCC	1 cut(s)	15
BmrFI	CCNGG	4 cut(s)	122, 140, 271, 561
BpmI	CTGGAG	2 cut(s)	161, 740
BpuMI	CCSGG	1 cut(s)	122
Bsa29I	ATCGAT	1 cut(s)	154
BsaHI	GRCGYC	2 cut(s)	23, 289
BsaJI	CCNNGG	2 cut(s)	120, 270
Bsc4I	CCNNNNNNNGG	2 cut(s)	271, 276
Bse118I	RCCGGY	1 cut(s)	76
Bse1I	ACTGG	3 cut(s)	17, 48, 254
BseBI	CCWGG	3 cut(s)	140, 271, 561
BseCI	ATCGAT	1 cut(s)	154
BseDI	CCNNGG	2 cut(s)	120, 270
BseGI	GGATG	1 cut(s)	507
BseLI	CCNNNNNNNGG	2 cut(s)	271, 276
BseMII	CTCAG	1 cut(s)	585
BseNI	ACTGG	3 cut(s)	17, 48, 254
BseRI	GAGGAG	3 cut(s)	81, 158, 365
BseXI	GCAGC	4 cut(s)	70, 92, 98, 439
Bsh1236I	CGCG	2 cut(s)	97, 584
BshFI	GGCC	1 cut(s)	179
BshVI	ATCGAT	1 cut(s)	154
BsiHKAI	GWGCWC	2 cut(s)	150, 726
BsiHKCI	CYCGRG	1 cut(s)	734
BsiSI	CCGG	2 cut(s)	77, 122
BslI	CCNNNNNNNGG	2 cut(s)	271, 276
BsmAI	GTCTC	2 cut(s)	280, 377
BsmBI	CGTCTC	2 cut(s)	280, 377
BsnI	GGCC	1 cut(s)	179
BsoBI	CYCGRG	1 cut(s)	734
Bsp1286I	GDGCHC	2 cut(s)	150, 726
Bsp143I	GATC	3 cut(s)	155, 469, 563
BspACI	CCGC	1 cut(s)	95
BspANI	GGCC	1 cut(s)	179
BspCNI	CTCAG	1 cut(s)	584
BspDI	ATCGAT	1 cut(s)	154
BspFNI	CGCG	2 cut(s)	97, 584
BspLI	GGNNCC	1 cut(s)	15
BspMAI	CTGCAG	2 cut(s)	88, 394
BspPI	GGATC	1 cut(s)	571
BspTI	CTTAAG	1 cut(s)	749
BsrFI	RCCGGY	1 cut(s)	76
BsrI	ACTGG	3 cut(s)	17, 48, 254
BssAI	RCCGGY	1 cut(s)	76
BssECI	CCNNGG	2 cut(s)	120, 270
BssMI	GATC	3 cut(s)	155, 469, 563
BssNI	GRCGYC	2 cut(s)	23, 289
Bst2UI	CCWGG	3 cut(s)	140, 271, 561
Bst4CI	ACNGT	3 cut(s)	460, 595, 652
Bst6I	CTCTTC	1 cut(s)	278
BstACI	GRCGYC	2 cut(s)	23, 289
BstAFI	CTTAAG	1 cut(s)	749
BstAPI	GCANNNNNTGC	1 cut(s)	133
BstDEI	CTNAG	1 cut(s)	571
BstF5I	GGATG	1 cut(s)	507
BstFNI	CGCG	2 cut(s)	97, 584
BstKTI	GATC	3 cut(s)	158, 472, 566
BstMAI	GTCTC	2 cut(s)	280, 377
BstMBI	GATC	3 cut(s)	155, 469, 563
BstMWI	GCNNNNNNNGC	2 cut(s)	86, 133
BstNI	CCWGG	3 cut(s)	140, 271, 561
BstSCI	CCNGG	4 cut(s)	120, 138, 269, 559
BstSFI	CTRYAG	3 cut(s)	84, 390, 591
BstUI	CGCG	2 cut(s)	97, 584
BstV1I	GCAGC	4 cut(s)	70, 92, 98, 439
Bsu15I	ATCGAT	1 cut(s)	154
BsuRI	GGCC	1 cut(s)	179
BsuTUI	ATCGAT	1 cut(s)	154
BtsCI	GGATG	1 cut(s)	507
BtsI	GCAGTG	1 cut(s)	15
BtsIMutI	CAGTG	3 cut(s)	15, 24, 55
Cfr10I	RCCGGY	1 cut(s)	76
Cfr13I	GGNCC	1 cut(s)	178
ClaI	ATCGAT	1 cut(s)	154
CseI	GACGC	2 cut(s)	297, 573
Csp6I	GTAC	2 cut(s)	488, 648
CviAII	CATG	4 cut(s)	301, 307, 511, 817
CviQI	GTAC	2 cut(s)	488, 648
DdeI	CTNAG	1 cut(s)	571
DpnI	GATC	3 cut(s)	157, 471, 565
DpnII	GATC	3 cut(s)	155, 469, 563
Eam1104I	CTCTTC	1 cut(s)	278
EarI	CTCTTC	1 cut(s)	278
Ecl136II	GAGCTC	2 cut(s)	148, 724
Eco24I	GRGCYC	2 cut(s)	150, 726
Eco53kI	GAGCTC	2 cut(s)	148, 724
Eco57I	CTGAAG	2 cut(s)	468, 792
Eco88I	CYCGRG	1 cut(s)	734
EcoICRI	GAGCTC	2 cut(s)	148, 724
EcoRI	GAATTC	1 cut(s)	680
EcoRII	CCWGG	3 cut(s)	138, 269, 559
EcoT38I	GRGCYC	2 cut(s)	150, 726
Esp3I	CGTCTC	2 cut(s)	280, 377
FaeI	CATG	4 cut(s)	304, 310, 514, 820
FatI	CATG	4 cut(s)	300, 306, 510, 816
Fnu4HI	GCNGC	4 cut(s)	81, 84, 87, 428
FokI	GGATG	1 cut(s)	514
FriOI	GRGCYC	2 cut(s)	150, 726
Fsp4HI	GCNGC	4 cut(s)	81, 84, 87, 428
GluI	GCNGC	4 cut(s)	81, 84, 87, 428
GsuI	CTGGAG	2 cut(s)	161, 740
HaeIII	GGCC	1 cut(s)	179
HapII	CCGG	2 cut(s)	77, 122
HgaI	GACGC	2 cut(s)	297, 573
Hin1I	GRCGYC	2 cut(s)	23, 289
Hin1II	CATG	4 cut(s)	304, 310, 514, 820
HincII	GTYRAC	1 cut(s)	400
HindII	GTYRAC	1 cut(s)	400
HinfI	GANTC	5 cut(s)	112, 320, 386, 476, 554
HpaII	CCGG	2 cut(s)	77, 122
HphI	GGTGA	3 cut(s)	208, 526, 549
Hpy166II	GTNNAC	2 cut(s)	296, 400
Hpy188I	TCNGA	8 cut(s)	28, 191, 258, 319, 469, 553, 574, 811
Hpy188III	TCNNGA	5 cut(s)	105, 416, 473, 719, 736
Hpy8I	GTNNAC	2 cut(s)	296, 400
Hpy99I	CGWCG	1 cut(s)	178
HpyAV	CCTTC	1 cut(s)	224
HpyCH4III	ACNGT	3 cut(s)	460, 595, 652
HpyCH4IV	ACGT	1 cut(s)	23
HpyCH4V	TGCA	5 cut(s)	8, 86, 136, 392, 493
HpyF10VI	GCNNNNNNNGC	2 cut(s)	86, 133
HpyF3I	CTNAG	1 cut(s)	571
HpySE526I	ACGT	1 cut(s)	23
Hsp92I	GRCGYC	2 cut(s)	23, 289
Hsp92II	CATG	4 cut(s)	304, 310, 514, 820
Kzo9I	GATC	3 cut(s)	155, 469, 563
LmnI	GCTCC	4 cut(s)	94, 124, 145, 721
Lsp1109I	GCAGC	4 cut(s)	70, 92, 98, 439
MaeII	ACGT	1 cut(s)	23
MaeIII	GTNAC	2 cut(s)	19, 196
MalI	GATC	3 cut(s)	157, 471, 565
MboI	GATC	3 cut(s)	155, 469, 563
MboII	GAAGA	5 cut(s)	295, 474, 701, 704, 707
MhlI	GDGCHC	2 cut(s)	150, 726
MluCI	AATT	4 cut(s)	363, 523, 680, 770
MluI	ACGCGT	1 cut(s)	582
MlyI	GAGTC	1 cut(s)	314
MmeI	TCCRAC	2 cut(s)	140, 214
MnlI	CCTC	8 cut(s)	102, 136, 216, 270, 386, 492, 538, 580
MroXI	GAANNNNTTC	1 cut(s)	242
MseI	TTAA	2 cut(s)	455, 750
MslI	CAYNNNNRTG	2 cut(s)	305, 630
MspA1I	CMGCKG	1 cut(s)	83
MspCI	CTTAAG	1 cut(s)	749
MspI	CCGG	2 cut(s)	77, 122
MspR9I	CCNGG	4 cut(s)	122, 140, 271, 561
MvaI	CCWGG	3 cut(s)	140, 271, 561
MvnI	CGCG	2 cut(s)	97, 584
MwoI	GCNNNNNNNGC	2 cut(s)	86, 133
NciI	CCSGG	1 cut(s)	122
NdeII	GATC	3 cut(s)	155, 469, 563
NlaIII	CATG	4 cut(s)	304, 310, 514, 820
NlaIV	GGNNCC	1 cut(s)	15
NmeAIII	GCCGAG	1 cut(s)	184
NmuCI	GTSAC	2 cut(s)	19, 196
PaeR7I	CTCGAG	1 cut(s)	734
PdmI	GAANNNNTTC	1 cut(s)	242
PfeI	GAWTC	4 cut(s)	112, 386, 476, 554
PkrI	GCNGC	4 cut(s)	82, 85, 88, 429
PleI	GAGTC	1 cut(s)	314
PpsI	GAGTC	1 cut(s)	314
Psp124BI	GAGCTC	2 cut(s)	150, 726
Psp6I	CCWGG	3 cut(s)	138, 269, 559
PspGI	CCWGG	3 cut(s)	138, 269, 559
PspN4I	GGNNCC	1 cut(s)	15
PspPI	GGNCC	1 cut(s)	178
PstI	CTGCAG	2 cut(s)	88, 394
PvuII	CAGCTG	1 cut(s)	83
RsaI	GTAC	2 cut(s)	489, 649
RsaNI	GTAC	2 cut(s)	488, 648
RseI	CAYNNNNRTG	2 cut(s)	305, 630
SacI	GAGCTC	2 cut(s)	150, 726
SaqAI	TTAA	2 cut(s)	455, 750
SatI	GCNGC	4 cut(s)	81, 84, 87, 428
Sau3AI	GATC	3 cut(s)	155, 469, 563
Sau96I	GGNCC	1 cut(s)	178
ScaI	AGTACT	1 cut(s)	489
SchI	GAGTC	1 cut(s)	314
ScrFI	CCNGG	4 cut(s)	122, 140, 271, 561
SduI	GDGCHC	2 cut(s)	150, 726
SfcI	CTRYAG	3 cut(s)	84, 390, 591
Sfr274I	CTCGAG	1 cut(s)	734
SlaI	CTCGAG	1 cut(s)	734
SmiMI	CAYNNNNRTG	2 cut(s)	305, 630
SmlI	CTYRAG	2 cut(s)	734, 749
SmoI	CTYRAG	2 cut(s)	734, 749
Sse9I	AATT	4 cut(s)	363, 523, 680, 770
SsiI	CCGC	1 cut(s)	95
SspI	AATATT	2 cut(s)	670, 830
SstI	GAGCTC	2 cut(s)	150, 726
StyD4I	CCNGG	4 cut(s)	120, 138, 269, 559
TaaI	ACNGT	3 cut(s)	460, 595, 652
TaiI	ACGT	1 cut(s)	26
TaqI	TCGA	4 cut(s)	154, 378, 566, 735
TasI	AATT	4 cut(s)	363, 523, 680, 770
TatI	WGTACW	1 cut(s)	487
TfiI	GAWTC	4 cut(s)	112, 386, 476, 554
Tru1I	TTAA	2 cut(s)	455, 750
Tru9I	TTAA	2 cut(s)	455, 750
TscAI	CASTG	3 cut(s)	15, 24, 55
TseFI	GTSAC	2 cut(s)	19, 196
TseI	GCWGC	4 cut(s)	80, 83, 86, 427
Tsp45I	GTSAC	2 cut(s)	19, 196
TspDTI	ATGAA	2 cut(s)	398, 805
TspGWI	ACGGA	1 cut(s)	454
TspRI	CASTG	3 cut(s)	15, 24, 55
Vha464I	CTTAAG	1 cut(s)	749
XapI	RAATTY	1 cut(s)	680
XcmI	CCANNNNNNNNNTGG	1 cut(s)	538
XhoI	CTCGAG	1 cut(s)	734
XmnI	GAANNNNTTC	1 cut(s)	242
ZraI	GACGTC	1 cut(s)	24
ZrmI	AGTACT	1 cut(s)	489

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