Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0013697

Physical Location & Seq

Genomic Coordinates Reverse (-)

10198587 .. 10203237

Gene Structure 4651 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG125300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 951 bp

ATGTATAATGACAGGAAACGACTTTTTAGCTTGATCAATGATCTGCCTACCGTCTTTGAAGTTGTGACGGATAGGAAACCCGCTAAAGACAAGCCTAGTGTGGATAGCGGAAGCAAATCCCGAGGCAGCACAAAGAGATCTGGTGATGGAATAATGAAAAGCAACCCTAAGCTAGCAGATGAGAGTTTTGAGGAGGAGGATGACGAACATAGGAACAAGGAACGGTTGCGTTGGACGCAGGAGCTACACGATATGTTCGTCGAGGCAGTTACCAAGCTTGGTGGCCCTGATAGGGCAACACCAAAGGGTATTCTGAAGGCTATGGGAGTTCCTGGACTGACCATCTACCATATCAAAAGCCATTTGCAGAAGTACAGGATCTCAAAATTTGTCCCAGAGACTACCAGTAAAGCAGGCAATCTTCAGAGGAAAAACATTTCAGAAATACTGCCTAACTTCGGCACAACATCTGCTGCTCAGCTCAATGAAGCGTTACATCTCATGCATATACAAGTACAAAGGAGATTGAGTGATCAACTTGAGGTGCACAAGAGCTTGAAGCAAAAATTTGAAGCCCAGGGAAGGTTCCTTGATACAATTTCAGCAGATCGGAGTCGCAATGATAACCGCCCGACCTTTACGAAACCTATCAAACCCATATCTAGAAAATCGCTGCCTTCTCTCTGTGAGGAATCCGAATCAAATGCTAAGGACTTCGGGACGTCTGACTCGGACGCTGAGAAGACCGAGATTCAATCCTCTGGAGAAGAATTCCAAGCTTTGAAGAAGCAAAGGGTACATAATCAAAACGACGACAACATGGCATGGAATTTTCCTATCATTGAGGATCAAACGGCCAATATATCATCATATCCTGCAGTGTGTGATCAGATCAGCTTTCCTTGGAACTTTGGAGCCTGCACATCGCCTTTAGTCCCCAGTTTCCTATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0008150 GO:0009888 GO:0009889 GO:0009891 GO:0009893 GO:0010087 GO:0010088 GO:0010089 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0019219 GO:0019222 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032502 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0048518 GO:0048522 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1902680 GO:1903506 GO:1903508 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Myb_CC_LHEQLE Myb_DNA-binding

Protein Analysis

316

Amino Acids

35.71

Weight (kDa)

8.29

Isoelectric Point (pI)

56.57

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Myb_DNA-binding	PF00249	75 - 126	1.2e-09	Myb-like DNA-binding domain
Myb_CC_LHEQLE	PF14379	160 - 200	1.2e-12	MYB-CC type transfactor, LHEQLE motif

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: OG0013697)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g11361
malus_domestica	MD04G1154300.v1.1 MD12G1167700.v1.1
prunus_persica	Prupe.6G278300_v2.0.a1
pyrus_communis	pycom04g13920 pycom12g15940
rosa_chinensis	RchiOBHm_Chr3g0462981 RchiOBHm_Chr3g0462991
rosa_laevigata	RLG00000024820
rosa_multiflora	Rmu_sc0000766.1_g000026
rosa_roxburghii	Rroxscaffold_2G00124310
rosa_rugosa	Rorug03G0060900
rosa_samantha	Rh3AG118600 Rh3BG123600 Rh3CG125300 Rh3DG124400 Rh5BG001800
rosa_wichuraiana	Rw3G010060

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	725
AciI	CCGC	3 cut(s)	81, 108, 628
AclWI	GGATC	2 cut(s)	386, 855
AcoI	YGGCCR	1 cut(s)	855
AcsI	RAATTY	4 cut(s)	386, 566, 770, 829
AcuI	CTGAAG	2 cut(s)	335, 407
AcyI	GRCGYC	1 cut(s)	722
AfaI	GTAC	3 cut(s)	374, 516, 798
AfiI	CCNNNNNNNGG	3 cut(s)	292, 458, 582
AgsI	TTSAA	5 cut(s)	59, 559, 572, 755, 784
AjnI	CCWGG	2 cut(s)	331, 576
AluBI	AGCT	8 cut(s)	30, 172, 244, 277, 481, 555, 779, 897
AluI	AGCT	8 cut(s)	30, 172, 244, 277, 481, 555, 779, 897
Alw21I	GWGCWC	1 cut(s)	549
Alw26I	GTCTC	1 cut(s)	392
Alw44I	GTGCAC	1 cut(s)	545
AlwI	GGATC	2 cut(s)	386, 855
Ama87I	CYCGRG	1 cut(s)	120
AoxI	GGCC	2 cut(s)	283, 855
ApaLI	GTGCAC	1 cut(s)	545
ApeKI	GCWGC	3 cut(s)	126, 473, 673
ApoI	RAATTY	4 cut(s)	386, 566, 770, 829
AspS9I	GGNCC	1 cut(s)	284
AsuHPI	GGTGA	1 cut(s)	155
AsuNHI	GCTAGC	1 cut(s)	172
AvaI	CYCGRG	1 cut(s)	120
BaeGI	GKGCMC	1 cut(s)	549
BbsI	GAAGAC	1 cut(s)	749
Bbv12I	GWGCWC	1 cut(s)	549
BbvI	GCAGC	3 cut(s)	138, 460, 660
BccI	CCATC	2 cut(s)	140, 350
BceAI	ACGGC	1 cut(s)	870
BcgI	CGANNNNNNTGC	2 cut(s)	686, 720
BciT130I	CCWGG	2 cut(s)	333, 578
BclI	TGATCA	3 cut(s)	33, 532, 886
BcoDI	GTCTC	1 cut(s)	392
BfaI	CTAG	3 cut(s)	96, 173, 663
BfmI	CTRYAG	1 cut(s)	876
BglII	AGATCT	1 cut(s)	137
BisI	GCNGC	3 cut(s)	127, 474, 674
BlpI	GCTNAGC	1 cut(s)	477
BlsI	GCNGC	3 cut(s)	128, 475, 675
Bme1390I	CCNGG	2 cut(s)	333, 578
BmeT110I	CYCGRG	1 cut(s)	120
BmgT120I	GGNCC	1 cut(s)	284
BmiI	GGNNCC	2 cut(s)	587, 916
BmrFI	CCNGG	2 cut(s)	333, 578
BmrI	ACTGGG	1 cut(s)	933
BmtI	GCTAGC	1 cut(s)	176
BmuI	ACTGGG	1 cut(s)	933
BpiI	GAAGAC	1 cut(s)	749
BpmI	CTGGAG	1 cut(s)	783
Bpu10I	CCTNAGC	2 cut(s)	168, 708
Bpu1102I	GCTNAGC	1 cut(s)	477
BpuEI	CTTGAG	1 cut(s)	560
BsaHI	GRCGYC	1 cut(s)	722
BsaJI	CCNNGG	4 cut(s)	121, 576, 577, 902
BsaXI	ACNNNNNCTCC	2 cut(s)	514, 544
Bsc4I	CCNNNNNNNGG	3 cut(s)	292, 458, 582
Bse1I	ACTGG	2 cut(s)	405, 939
Bse3DI	GCAATG	1 cut(s)	625
BseBI	CCWGG	2 cut(s)	333, 578
BseDI	CCNNGG	4 cut(s)	121, 576, 577, 902
BseGI	GGATG	1 cut(s)	205
BseLI	CCNNNNNNNGG	3 cut(s)	292, 458, 582
BseMI	GCAATG	1 cut(s)	625
BseMII	CTCAG	2 cut(s)	491, 729
BseNI	ACTGG	2 cut(s)	405, 939
BseRI	GAGGAG	2 cut(s)	206, 209
BseSI	GKGCMC	1 cut(s)	549
BseXI	GCAGC	3 cut(s)	138, 460, 660
BsgI	GTGCAG	1 cut(s)	904
BshFI	GGCC	2 cut(s)	285, 857
BsiHKAI	GWGCWC	1 cut(s)	549
BsiHKCI	CYCGRG	1 cut(s)	120
BslFI	GGGAC	3 cut(s)	377, 733, 920
BslI	CCNNNNNNNGG	3 cut(s)	292, 458, 582
BsmAI	GTCTC	1 cut(s)	392
BsmFI	GGGAC	3 cut(s)	377, 733, 920
BsnI	GGCC	2 cut(s)	285, 857
BsoBI	CYCGRG	1 cut(s)	120
Bsp1286I	GDGCHC	1 cut(s)	549
Bsp143I	GATC	9 cut(s)	33, 40, 137, 378, 532, 607, 847, 886, 891
Bsp1720I	GCTNAGC	1 cut(s)	477
BspACI	CCGC	3 cut(s)	81, 108, 628
BspANI	GGCC	2 cut(s)	285, 857
BspCNI	CTCAG	2 cut(s)	490, 730
BspLI	GGNNCC	2 cut(s)	587, 916
BspMAI	CTGCAG	1 cut(s)	880
BspOI	GCTAGC	1 cut(s)	176
BspPI	GGATC	2 cut(s)	386, 855
BsrDI	GCAATG	1 cut(s)	625
BsrI	ACTGG	2 cut(s)	405, 939
BssECI	CCNNGG	4 cut(s)	121, 576, 577, 902
BssMI	GATC	9 cut(s)	33, 40, 137, 378, 532, 607, 847, 886, 891
BssNI	GRCGYC	1 cut(s)	722
BssT1I	CCWWGG	1 cut(s)	902
Bst2UI	CCWGG	2 cut(s)	333, 578
Bst4CI	ACNGT	2 cut(s)	52, 225
BstACI	GRCGYC	1 cut(s)	722
BstC8I	GCNNGC	3 cut(s)	174, 415, 919
BstDEI	CTNAG	4 cut(s)	168, 477, 708, 738
BstF5I	GGATG	1 cut(s)	205
BstKTI	GATC	9 cut(s)	36, 43, 140, 381, 535, 610, 850, 889, 894
BstMAI	GTCTC	1 cut(s)	392
BstMBI	GATC	9 cut(s)	33, 40, 137, 378, 532, 607, 847, 886, 891
BstMWI	GCNNNNNNNGC	1 cut(s)	235
BstNI	CCWGG	2 cut(s)	333, 578
BstSCI	CCNGG	2 cut(s)	331, 576
BstSFI	CTRYAG	1 cut(s)	876
BstSLI	GKGCMC	1 cut(s)	549
BstV1I	GCAGC	3 cut(s)	138, 460, 660
BstV2I	GAAGAC	1 cut(s)	749
BstX2I	RGATCY	2 cut(s)	137, 378
BstYI	RGATCY	2 cut(s)	137, 378
BsuRI	GGCC	2 cut(s)	285, 857
BtgZI	GCGATG	1 cut(s)	909
BtsCI	GGATG	1 cut(s)	205
BtsI	GCAGTG	1 cut(s)	885
BtsIMutI	CAGTG	1 cut(s)	885
Cac8I	GCNNGC	3 cut(s)	174, 415, 919
Cfr13I	GGNCC	1 cut(s)	284
CseI	GACGC	2 cut(s)	244, 743
Csp6I	GTAC	3 cut(s)	373, 515, 797
CspCI	CAANNNNNGTGG	2 cut(s)	262, 297
CviAII	CATG	3 cut(s)	502, 820, 825
CviQI	GTAC	3 cut(s)	373, 515, 797
DdeI	CTNAG	4 cut(s)	168, 477, 708, 738
DpnI	GATC	9 cut(s)	35, 42, 139, 380, 534, 609, 849, 888, 893
DpnII	GATC	9 cut(s)	33, 40, 137, 378, 532, 607, 847, 886, 891
EaeI	YGGCCR	1 cut(s)	855
Eco130I	CCWWGG	1 cut(s)	902
Eco57I	CTGAAG	2 cut(s)	335, 407
Eco88I	CYCGRG	1 cut(s)	120
EcoRI	GAATTC	1 cut(s)	770
EcoRII	CCWGG	2 cut(s)	331, 576
EcoT14I	CCWWGG	1 cut(s)	902
EcoT22I	ATGCAT	1 cut(s)	507
ErhI	CCWWGG	1 cut(s)	902
FaeI	CATG	3 cut(s)	505, 823, 828
FaqI	GGGAC	3 cut(s)	377, 733, 920
FatI	CATG	3 cut(s)	501, 819, 824
FauI	CCCGC	1 cut(s)	88
FbaI	TGATCA	3 cut(s)	33, 532, 886
Fnu4HI	GCNGC	3 cut(s)	127, 474, 674
FokI	GGATG	1 cut(s)	212
Fsp4HI	GCNGC	3 cut(s)	127, 474, 674
FspBI	CTAG	3 cut(s)	96, 173, 663
GluI	GCNGC	3 cut(s)	127, 474, 674
GsuI	CTGGAG	1 cut(s)	783
HaeIII	GGCC	2 cut(s)	285, 857
HgaI	GACGC	2 cut(s)	244, 743
Hin1I	GRCGYC	1 cut(s)	722
Hin1II	CATG	3 cut(s)	505, 823, 828
HindIII	AAGCTT	2 cut(s)	275, 777
HinfI	GANTC	5 cut(s)	613, 692, 698, 728, 751
HphI	GGTGA	1 cut(s)	155
Hpy166II	GTNNAC	1 cut(s)	547
Hpy188I	TCNGA	8 cut(s)	315, 426, 442, 612, 697, 727, 733, 891
Hpy188III	TCNNGA	4 cut(s)	120, 663, 718, 762
Hpy8I	GTNNAC	1 cut(s)	547
Hpy99I	CGWCG	2 cut(s)	263, 815
HpyAV	CCTTC	3 cut(s)	310, 576, 687
HpyCH4III	ACNGT	2 cut(s)	52, 225
HpyCH4IV	ACGT	1 cut(s)	722
HpyCH4V	TGCA	5 cut(s)	367, 505, 547, 878, 921
HpyF10VI	GCNNNNNNNGC	1 cut(s)	235
HpyF3I	CTNAG	4 cut(s)	168, 477, 708, 738
HpySE526I	ACGT	1 cut(s)	722
Hsp92I	GRCGYC	1 cut(s)	722
Hsp92II	CATG	3 cut(s)	505, 823, 828
Ksp22I	TGATCA	3 cut(s)	33, 532, 886
Kzo9I	GATC	9 cut(s)	33, 40, 137, 378, 532, 607, 847, 886, 891
LmnI	GCTCC	2 cut(s)	241, 914
Lsp1109I	GCAGC	3 cut(s)	138, 460, 660
MaeI	CTAG	3 cut(s)	96, 173, 663
MaeII	ACGT	1 cut(s)	722
MaeIII	GTNAC	3 cut(s)	64, 268, 492
MalI	GATC	9 cut(s)	35, 42, 139, 380, 534, 609, 849, 888, 893
MboI	GATC	9 cut(s)	33, 40, 137, 378, 532, 607, 847, 886, 891
MboII	GAAGA	4 cut(s)	413, 754, 779, 796
MflI	RGATCY	2 cut(s)	137, 378
MhlI	GDGCHC	1 cut(s)	549
MluCI	AATT	5 cut(s)	386, 566, 597, 770, 829
MlyI	GAGTC	2 cut(s)	622, 722
MmeI	TCCRAC	1 cut(s)	212
Mph1103I	ATGCAT	1 cut(s)	507
MspR9I	CCNGG	2 cut(s)	333, 578
MvaI	CCWGG	2 cut(s)	333, 578
MwoI	GCNNNNNNNGC	1 cut(s)	235
NdeII	GATC	9 cut(s)	33, 40, 137, 378, 532, 607, 847, 886, 891
NheI	GCTAGC	1 cut(s)	172
NlaIII	CATG	3 cut(s)	505, 823, 828
NlaIV	GGNNCC	2 cut(s)	587, 916
NmuCI	GTSAC	1 cut(s)	64
NsiI	ATGCAT	1 cut(s)	507
PasI	CCCWGGG	1 cut(s)	577
PcsI	WCGNNNNNNNCGW	1 cut(s)	255
PfeI	GAWTC	3 cut(s)	692, 698, 751
PfoI	TCCNGGA	1 cut(s)	331
PkrI	GCNGC	3 cut(s)	128, 475, 675
PleI	GAGTC	2 cut(s)	621, 722
PpsI	GAGTC	2 cut(s)	621, 722
Psp6I	CCWGG	2 cut(s)	331, 576
PspGI	CCWGG	2 cut(s)	331, 576
PspN4I	GGNNCC	2 cut(s)	587, 916
PspPI	GGNCC	1 cut(s)	284
PstI	CTGCAG	1 cut(s)	880
PsuI	RGATCY	2 cut(s)	137, 378
RsaI	GTAC	3 cut(s)	374, 516, 798
RsaNI	GTAC	3 cut(s)	373, 515, 797
SatI	GCNGC	3 cut(s)	127, 474, 674
Sau3AI	GATC	9 cut(s)	33, 40, 137, 378, 532, 607, 847, 886, 891
Sau96I	GGNCC	1 cut(s)	284
SchI	GAGTC	2 cut(s)	622, 722
ScrFI	CCNGG	2 cut(s)	333, 578
SduI	GDGCHC	1 cut(s)	549
SfcI	CTRYAG	1 cut(s)	876
SmlI	CTYRAG	1 cut(s)	539
SmoI	CTYRAG	1 cut(s)	539
Sse9I	AATT	5 cut(s)	386, 566, 597, 770, 829
SsiI	CCGC	3 cut(s)	81, 108, 628
SspMI	CTAG	3 cut(s)	96, 173, 663
StyD4I	CCNGG	2 cut(s)	331, 576
StyI	CCWWGG	1 cut(s)	902
TaaI	ACNGT	2 cut(s)	52, 225
TaiI	ACGT	1 cut(s)	725
TaqI	TCGA	1 cut(s)	261
TaqII	GACCGA	1 cut(s)	761
TasI	AATT	5 cut(s)	386, 566, 597, 770, 829
TatI	WGTACW	2 cut(s)	372, 514
TfiI	GAWTC	3 cut(s)	692, 698, 751
TscAI	CASTG	1 cut(s)	885
TseFI	GTSAC	1 cut(s)	64
TseI	GCWGC	3 cut(s)	126, 473, 673
Tsp45I	GTSAC	1 cut(s)	64
TspDTI	ATGAA	2 cut(s)	170, 501
TspGWI	ACGGA	1 cut(s)	83
TspRI	CASTG	1 cut(s)	885
VneI	GTGCAC	1 cut(s)	545
XapI	RAATTY	4 cut(s)	386, 566, 770, 829
XbaI	TCTAGA	1 cut(s)	662
XspI	CTAG	3 cut(s)	96, 173, 663
ZraI	GACGTC	1 cut(s)	723
Zsp2I	ATGCAT	1 cut(s)	507

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