Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0002935

Physical Location & Seq

Genomic Coordinates Forward (+)

64471795 .. 64472949

Gene Structure 1155 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000015315

Sequence Viewer

CDS Protein Promoter (2k)

Length: 942 bp

ATGTCTAGATCACTAGACCTTCTTCATGCTCCTCCAATGGCCGCGGCAGAGGGATCGGATCATATGAGCCACACAAGGGTTCTAATGGGCCAGCACCAAGCACTCTCACTGTCCCTTGGCTCACAGAATATGCTTCTTCTTCCTAGTTCTCATTCTGCTCATTATGTGACCGATGACTATTCGTTCATGGGGAATGCACTTACTTCTTCTTCAAGCTCACTGAATCAGCAGTCTTTGGCAGCAGTCATTGGGAATTCGAGATATCTAAAGCCAGCTCAGTCACTATTAGAAGAGATAGTTAGTGTTGGTGGAAAGGCAGTTGATATCAGCAGTGAAAAACATGTTGGGAAAATGTATGGTGGAGGTAGGAGAGGCTCAATGGGCCTTTCTTCTGAATTGAAAGCAGAGTTGTGCTGCAATGGCCTAATGTCAGCTGATAAACATGAATTTCAATCGAAAATCGCAAACCTCATCACCTTGCTGGAAGAGGTTGAGGACAGATGTGAGAAGTACTACCATCAAATGGAAGAAGTGATGTCATCATTTGAGATGGTAGTGGGTGCAGGAGCAGCAAAGTCTTACACAGCTCTGGCTCTCAAGGCCTTGTCCAGGCACTTTGGCAGCTTAAGGGATGCAATAATGTCATATATATCCAGAAAAGAGAAAGTTGATGCAAGATTGTCCGAAAGTGAGACAGTGTTAGACAGAAGGGAATGTCCCTTCAACAGCTTGGGATTATCCATGGCCAAAGGCAAGCAGCTTGGAGACCAATTAGAGGGCTGCCTGAGAACTTGGCTTTTCGAACACTTTCCTCATTCTTATCCTTATGACTCTGAGAAGCTAATGTTGGCATCACAAACAGGCCTGTCCAAGAACCAAGTAATACTTCCTAACAGTTTTGTCTACGTCCTGATTTCATCGTATGTCATCACTTTCTTATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 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

Homeobox_KN POX

Protein Analysis

314

Amino Acids

34.38

Weight (kDa)

6.31

Isoelectric Point (pI)

51.16

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
POX	PF07526	82 - 214	2.4e-38	Associated with HOX
Homeobox_KN	PF05920	265 - 294	4e-07	Homeobox KN 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: OG0002935)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G75430 AT1G75430
fragaria_vesca	FvH4_2g39270 FvH4_2g39270 FvH4_2g39270
malus_domestica	MD08G1024300.v1.1 MD15G1021900.v1.1
prunus_persica	Prupe.1G373700_v2.0.a1 Prupe.1G373700_v2.0.a1 Prupe.1G373700_v2.0.a1 Prupe.1G373700_v2.0.a1 Prupe.1G373700_v2.0.a1
pyrus_communis	pycom08g01910 pycom15g01820
rosa_chinensis	RchiOBHm_Chr6g0245211 RchiOBHm_Chr6g0301741
rosa_laevigata	RLG00000011226 RLG00000015315 RLG00000021395
rosa_multiflora	Rmu_sc0001288.1_g000006 Rmu_sc0005454.1_g000025
rosa_roxburghii	Rroxscaffold_3G00242160 Rroxscaffold_7G00166460 Rroxscaffold_7G00215350
rosa_rugosa	Rorug05G0512900 Rorug05G0512900 Rorug06G0308600 Rorug06G0308700.1 Rorug06G0308800.1 Rorug06G0308900.1
rosa_samantha	Rh6AG028000 Rh6AG028100 Rh6AG421100 Rh6BG024200 Rh6BG427800 Rh6CG434400 Rh6DG421300
rosa_wichuraiana	Rw6G036450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	940
AccB7I	CCANNNNNTGG	1 cut(s)	523
AccI	GTMKAC	1 cut(s)	903
AccII	CGCG	1 cut(s)	44
AciI	CCGC	2 cut(s)	42, 44
AclWI	GGATC	2 cut(s)	61, 66
AcoI	YGGCCR	2 cut(s)	39, 744
AcsI	RAATTY	2 cut(s)	253, 446
AfaI	GTAC	1 cut(s)	512
AfiI	CCNNNNNNNGG	4 cut(s)	76, 523, 609, 775
AflII	CTTAAG	1 cut(s)	625
AflIII	ACRYGT	1 cut(s)	340
AgsI	TTSAA	4 cut(s)	213, 400, 452, 724
AjnI	CCWGG	1 cut(s)	608
AjuI	GAANNNNNNNTTGG	6 cut(s)	327, 359, 830, 862, 870, 902
AluBI	AGCT	8 cut(s)	216, 275, 434, 587, 624, 729, 760, 841
AluI	AGCT	8 cut(s)	216, 275, 434, 587, 624, 729, 760, 841
Alw26I	GTCTC	2 cut(s)	686, 759
AlwI	GGATC	2 cut(s)	61, 66
AoxI	GGCC	7 cut(s)	39, 88, 382, 421, 600, 744, 862
ApeKI	GCWGC	6 cut(s)	239, 414, 569, 621, 757, 780
ApoI	RAATTY	2 cut(s)	253, 446
Asp700I	GAANNNNTTC	1 cut(s)	807
AspS9I	GGNCC	2 cut(s)	88, 382
AsuHPI	GGTGA	1 cut(s)	466
AsuII	TTCGAA	1 cut(s)	801
BalI	TGGCCA	1 cut(s)	746
BbvI	GCAGC	6 cut(s)	251, 401, 581, 633, 767, 769
BccI	CCATC	2 cut(s)	525, 544
BcgI	CGANNNNNNTGC	2 cut(s)	36, 70
BciT130I	CCWGG	1 cut(s)	610
BcoDI	GTCTC	2 cut(s)	686, 759
BfaI	CTAG	3 cut(s)	6, 14, 144
BfrI	CTTAAG	1 cut(s)	625
BisI	GCNGC	8 cut(s)	42, 45, 240, 415, 570, 622, 758, 781
BlsI	GCNGC	8 cut(s)	43, 46, 241, 416, 571, 623, 759, 782
BmcAI	AGTACT	1 cut(s)	512
Bme1390I	CCNGG	1 cut(s)	610
BmgT120I	GGNCC	2 cut(s)	88, 382
BmrFI	CCNGG	1 cut(s)	610
BmsI	GCATC	3 cut(s)	622, 661, 860
Bpu14I	TTCGAA	1 cut(s)	801
BpuEI	CTTGAG	1 cut(s)	581
BsaI	GGTCTC	1 cut(s)	759
BsaJI	CCNNGG	3 cut(s)	42, 115, 741
Bsc4I	CCNNNNNNNGG	4 cut(s)	76, 523, 609, 775
Bse3DI	GCAATG	1 cut(s)	424
BseBI	CCWGG	1 cut(s)	610
BseDI	CCNNGG	3 cut(s)	42, 115, 741
BseGI	GGATG	1 cut(s)	637
BseLI	CCNNNNNNNGG	4 cut(s)	76, 523, 609, 775
BseMI	GCAATG	1 cut(s)	424
BseMII	CTCAG	3 cut(s)	290, 776, 825
BseRI	GAGGAG	1 cut(s)	21
BseXI	GCAGC	6 cut(s)	251, 401, 581, 633, 767, 769
BsgI	GTGCAG	1 cut(s)	582
Bsh1236I	CGCG	1 cut(s)	44
BshFI	GGCC	7 cut(s)	41, 90, 384, 423, 602, 746, 864
BslFI	GGGAC	2 cut(s)	97, 702
BslI	CCNNNNNNNGG	4 cut(s)	76, 523, 609, 775
BsmAI	GTCTC	2 cut(s)	686, 759
BsmFI	GGGAC	2 cut(s)	97, 702
BsmI	GAATGC	1 cut(s)	199
BsnI	GGCC	7 cut(s)	41, 90, 384, 423, 602, 746, 864
Bso31I	GGTCTC	1 cut(s)	759
Bsp119I	TTCGAA	1 cut(s)	801
Bsp143I	GATC	3 cut(s)	8, 53, 58
Bsp19I	CCATGG	1 cut(s)	741
BspACI	CCGC	2 cut(s)	42, 44
BspANI	GGCC	7 cut(s)	41, 90, 384, 423, 602, 746, 864
BspCNI	CTCAG	3 cut(s)	289, 777, 826
BspFNI	CGCG	1 cut(s)	44
BspPI	GGATC	2 cut(s)	61, 66
BspT104I	TTCGAA	1 cut(s)	801
BspTI	CTTAAG	1 cut(s)	625
BspTNI	GGTCTC	1 cut(s)	759
BsrDI	GCAATG	1 cut(s)	424
BssECI	CCNNGG	3 cut(s)	42, 115, 741
BssMI	GATC	3 cut(s)	8, 53, 58
BssT1I	CCWWGG	2 cut(s)	115, 741
Bst2UI	CCWGG	1 cut(s)	610
Bst4CI	ACNGT	3 cut(s)	111, 697, 896
Bst6I	CTCTTC	2 cut(s)	285, 480
BstAFI	CTTAAG	1 cut(s)	625
BstBI	TTCGAA	1 cut(s)	801
BstC8I	GCNNGC	3 cut(s)	92, 273, 755
BstDEI	CTNAG	3 cut(s)	276, 785, 834
BstDSI	CCRYGG	2 cut(s)	42, 741
BstENI	CCTNNNNNAGG	1 cut(s)	607
BstF5I	GGATG	1 cut(s)	637
BstFNI	CGCG	1 cut(s)	44
BstKTI	GATC	3 cut(s)	11, 56, 61
BstMAI	GTCTC	2 cut(s)	686, 759
BstMBI	GATC	3 cut(s)	8, 53, 58
BstMWI	GCNNNNNNNGC	4 cut(s)	381, 420, 569, 599
BstNI	CCWGG	1 cut(s)	610
BstNSI	RCATGY	1 cut(s)	344
BstSCI	CCNGG	1 cut(s)	608
BstUI	CGCG	1 cut(s)	44
BstV1I	GCAGC	6 cut(s)	251, 401, 581, 633, 767, 769
BsuRI	GGCC	7 cut(s)	41, 90, 384, 423, 602, 746, 864
BtgI	CCRYGG	2 cut(s)	42, 741
BtsCI	GGATG	1 cut(s)	637
BtsI	GCAGTG	1 cut(s)	337
BtsIMutI	CAGTG	4 cut(s)	107, 218, 337, 702
Cac8I	GCNNGC	3 cut(s)	92, 273, 755
Cfr13I	GGNCC	2 cut(s)	88, 382
Cfr42I	CCGCGG	1 cut(s)	45
Csp6I	GTAC	1 cut(s)	511
CviAII	CATG	5 cut(s)	26, 187, 341, 443, 742
CviQI	GTAC	1 cut(s)	511
DdeI	CTNAG	3 cut(s)	276, 785, 834
DpnI	GATC	3 cut(s)	10, 55, 60
DpnII	GATC	3 cut(s)	8, 53, 58
EaeI	YGGCCR	2 cut(s)	39, 744
Eam1104I	CTCTTC	2 cut(s)	285, 480
EarI	CTCTTC	2 cut(s)	285, 480
Eco130I	CCWWGG	2 cut(s)	115, 741
Eco147I	AGGCCT	2 cut(s)	602, 864
Eco31I	GGTCTC	1 cut(s)	759
Eco32I	GATATC	2 cut(s)	263, 325
EcoNI	CCTNNNNNAGG	1 cut(s)	607
EcoRI	GAATTC	1 cut(s)	253
EcoRII	CCWGG	1 cut(s)	608
EcoRV	GATATC	2 cut(s)	263, 325
EcoT14I	CCWWGG	2 cut(s)	115, 741
ErhI	CCWWGG	2 cut(s)	115, 741
FaeI	CATG	5 cut(s)	29, 190, 344, 446, 745
FalI	AAGNNNNNCTT	2 cut(s)	870, 902
FaqI	GGGAC	2 cut(s)	97, 702
FatI	CATG	5 cut(s)	25, 186, 340, 442, 741
FauNDI	CATATG	1 cut(s)	63
FblI	GTMKAC	1 cut(s)	903
Fnu4HI	GCNGC	8 cut(s)	42, 45, 240, 415, 570, 622, 758, 781
FokI	GGATG	1 cut(s)	644
Fsp4HI	GCNGC	8 cut(s)	42, 45, 240, 415, 570, 622, 758, 781
FspBI	CTAG	3 cut(s)	6, 14, 144
GluI	GCNGC	8 cut(s)	42, 45, 240, 415, 570, 622, 758, 781
HaeIII	GGCC	7 cut(s)	41, 90, 384, 423, 602, 746, 864
Hin1II	CATG	5 cut(s)	29, 190, 344, 446, 745
HinfI	GANTC	2 cut(s)	223, 830
HphI	GGTGA	1 cut(s)	466
Hpy166II	GTNNAC	1 cut(s)	904
Hpy188I	TCNGA	4 cut(s)	58, 394, 685, 835
Hpy188III	TCNNGA	4 cut(s)	6, 258, 654, 910
Hpy8I	GTNNAC	1 cut(s)	904
HpyAV	CCTTC	3 cut(s)	29, 702, 730
HpyCH4III	ACNGT	3 cut(s)	111, 697, 896
HpyCH4IV	ACGT	1 cut(s)	906
HpyCH4V	TGCA	5 cut(s)	197, 417, 563, 635, 674
HpyF10VI	GCNNNNNNNGC	4 cut(s)	381, 420, 569, 599
HpyF3I	CTNAG	3 cut(s)	276, 785, 834
HpySE526I	ACGT	1 cut(s)	906
Hsp92II	CATG	5 cut(s)	29, 190, 344, 446, 745
KspI	CCGCGG	1 cut(s)	45
Kzo9I	GATC	3 cut(s)	8, 53, 58
LmnI	GCTCC	2 cut(s)	34, 566
Lsp1109I	GCAGC	6 cut(s)	251, 401, 581, 633, 767, 769
LweI	GCATC	3 cut(s)	622, 661, 860
MaeI	CTAG	3 cut(s)	6, 14, 144
MaeII	ACGT	1 cut(s)	906
MaeIII	GTNAC	2 cut(s)	166, 279
MalI	GATC	3 cut(s)	10, 55, 60
MboI	GATC	3 cut(s)	8, 53, 58
MboII	GAAGA	9 cut(s)	14, 128, 131, 198, 201, 302, 381, 497, 539
MlsI	TGGCCA	1 cut(s)	746
MluCI	AATT	4 cut(s)	253, 395, 446, 770
MluNI	TGGCCA	1 cut(s)	746
MlyI	GAGTC	1 cut(s)	824
MnlI	CCTC	9 cut(s)	42, 43, 356, 365, 479, 481, 487, 769, 822
Mox20I	TGGCCA	1 cut(s)	746
MroXI	GAANNNNTTC	1 cut(s)	807
MscI	TGGCCA	1 cut(s)	746
MseI	TTAA	1 cut(s)	626
Msp20I	TGGCCA	1 cut(s)	746
MspA1I	CMGCKG	2 cut(s)	44, 434
MspCI	CTTAAG	1 cut(s)	625
MspR9I	CCNGG	1 cut(s)	610
Mva1269I	GAATGC	1 cut(s)	199
MvaI	CCWGG	1 cut(s)	610
MvnI	CGCG	1 cut(s)	44
MwoI	GCNNNNNNNGC	4 cut(s)	381, 420, 569, 599
NcoI	CCATGG	1 cut(s)	741
NdeI	CATATG	1 cut(s)	63
NdeII	GATC	3 cut(s)	8, 53, 58
NlaIII	CATG	5 cut(s)	29, 190, 344, 446, 745
NmuCI	GTSAC	2 cut(s)	166, 279
NspI	RCATGY	1 cut(s)	344
NspV	TTCGAA	1 cut(s)	801
PceI	AGGCCT	2 cut(s)	602, 864
PciI	ACATGT	1 cut(s)	340
PctI	GAATGC	1 cut(s)	199
PdmI	GAANNNNTTC	1 cut(s)	807
PfeI	GAWTC	1 cut(s)	223
PflMI	CCANNNNNTGG	1 cut(s)	523
PkrI	GCNGC	8 cut(s)	43, 46, 241, 416, 571, 623, 759, 782
PleI	GAGTC	1 cut(s)	824
PpsI	GAGTC	1 cut(s)	824
PscI	ACATGT	1 cut(s)	340
PsiI	TTATAA	1 cut(s)	940
Psp6I	CCWGG	1 cut(s)	608
PspGI	CCWGG	1 cut(s)	608
PspPI	GGNCC	2 cut(s)	88, 382
PvuII	CAGCTG	1 cut(s)	434
RsaI	GTAC	1 cut(s)	512
RsaNI	GTAC	1 cut(s)	511
SacII	CCGCGG	1 cut(s)	45
SaqAI	TTAA	1 cut(s)	626
SatI	GCNGC	8 cut(s)	42, 45, 240, 415, 570, 622, 758, 781
Sau3AI	GATC	3 cut(s)	8, 53, 58
Sau96I	GGNCC	2 cut(s)	88, 382
ScaI	AGTACT	1 cut(s)	512
SchI	GAGTC	1 cut(s)	824
ScrFI	CCNGG	1 cut(s)	610
SfaNI	GCATC	3 cut(s)	622, 661, 860
Sfr303I	CCGCGG	1 cut(s)	45
SfuI	TTCGAA	1 cut(s)	801
SgrBI	CCGCGG	1 cut(s)	45
SmlI	CTYRAG	2 cut(s)	596, 625
SmoI	CTYRAG	2 cut(s)	596, 625
Sse9I	AATT	4 cut(s)	253, 395, 446, 770
SseBI	AGGCCT	2 cut(s)	602, 864
SsiI	CCGC	2 cut(s)	42, 44
SspMI	CTAG	3 cut(s)	6, 14, 144
StuI	AGGCCT	2 cut(s)	602, 864
StyD4I	CCNGG	1 cut(s)	608
StyI	CCWWGG	2 cut(s)	115, 741
TaaI	ACNGT	3 cut(s)	111, 697, 896
TaiI	ACGT	1 cut(s)	909
TaqI	TCGA	3 cut(s)	257, 455, 801
TaqII	GACCGA	1 cut(s)	185
TasI	AATT	4 cut(s)	253, 395, 446, 770
TatI	WGTACW	1 cut(s)	510
TauI	GCSGC	2 cut(s)	44, 47
TfiI	GAWTC	1 cut(s)	223
Tru1I	TTAA	1 cut(s)	626
Tru9I	TTAA	1 cut(s)	626
TscAI	CASTG	4 cut(s)	114, 225, 337, 702
TseFI	GTSAC	2 cut(s)	166, 279
TseI	GCWGC	6 cut(s)	239, 414, 569, 621, 757, 780
Tsp45I	GTSAC	2 cut(s)	166, 279
TspDTI	ATGAA	4 cut(s)	14, 175, 459, 906
TspRI	CASTG	4 cut(s)	114, 225, 337, 702
Van91I	CCANNNNNTGG	1 cut(s)	523
Vha464I	CTTAAG	1 cut(s)	625
XagI	CCTNNNNNAGG	1 cut(s)	607
XapI	RAATTY	2 cut(s)	253, 446
XbaI	TCTAGA	1 cut(s)	5
XceI	RCATGY	1 cut(s)	344
XmiI	GTMKAC	1 cut(s)	903
XmnI	GAANNNNTTC	1 cut(s)	807
XspI	CTAG	3 cut(s)	6, 14, 144
ZrmI	AGTACT	1 cut(s)	512

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