Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0004976

Physical Location & Seq

Genomic Coordinates Forward (+)

26136790 .. 26141996

Gene Structure 5207 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG263000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 795 bp

ATGGACCCAACCGCCGGAAACGTACCCGGATCCGCTGTAACCGGACCCGATCACGAAGAACCCGGACTCGAGACTCTCCAATTCCGCGAGGAAATCCAGCGGCTGATGACGGTGCCGCCGGACAACGCCAGCTCCTTCACGGCGCTTCTGGAACTTCCGCCGACCCAAGCCATGGAGCTCCTCCACCTCTCGCCGGAGTCCGAACCTAATCCGGCTCCGGCCGCGGTTTCCGGCAAGCCGCCGCCGCTGCTCGAGCCCCTCGCGCATCCTTTCAATTCCAGCCTCACGTTTCCCAGCAACGCCGCCCTAATCGAACGCGCCGCCAAGTTCTCGATCTTCGGCGGCGAGCAGTCGCCGGAGACGGGGGCCGTGCCGTCCAATCCCGGCGTCAACTTGGAGAAGGTGAAGAGCGAGCCTGCCGAGTCCGATTCGAACCCTAACTCGTCGCAGGAGACTAAGAACAACCAAAGGTCGTCGGCCAAGAGAAAGGAGCGAGAAAAGAAGGTCAAGGTATCAATGAAAAAGAGCAAAATTGAAGCTAAGGAAGATGCTGACAAGATTCCCTATGTTCACGTTCGAGCTCGCCGGGGTCAAGCTACAGATAGCCATAGCTTAGCAGAGCGAGCGAGGAGAGAGAAAATTAATGCGAGGATGAAGTTGCTACAGGAGCTGGTCCCAGGATGCAGTAAGATTTCAGGTACCGCCTTAGTTCTGGATGAAATCATCAATCATGTGCAGTCCTTACAACGTCAAGTTGAGGTCAGACCTGCTGCACAACTCATACATATCAAGTAA

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

HLH

Protein Analysis

264

Amino Acids

28.73

Weight (kDa)

7.08

Isoelectric Point (pI)

58.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	202 - 249	1.7e-06	Helix-loop-helix DNA-binding domain
bHLH_SAC51	PF23173	207 - 254	1.4e-07	Transcription factor SAC51 bHLH 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: OG0004976)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G42300 AT2G42300 AT2G42300 AT2G42300 AT2G42300 AT3G57800 AT3G57800
fragaria_vesca	FvH4_6g22930 FvH4_6g22930 FvH4_6g22930 FvH4_6g22930 FvH4_6g22930
malus_domestica	MD12G1063900.v1.1 MD12G1064000.v1.1 MD14G1064200.v1.1
prunus_persica	Prupe.7G070200_v2.0.a1
pyrus_communis	pycom12g05580 pycom14g05190
rosa_chinensis	RchiOBHm_Chr3g0480751
rosa_laevigata	RLG00000023457
rosa_multiflora	Rmu_sc0003902.1_g000017
rosa_roxburghii	Rroxscaffold_6G00401100
rosa_rugosa	Rorug03G0185300 Rorug03G0185300
rosa_samantha	Rh3AG237400 Rh3BG270900 Rh3CG267000 Rh3CG267100 Rh3DG263000
rosa_wichuraiana	Rw3G021270

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	775
Acc65I	GGTACC	1 cut(s)	698
AccB1I	GGYRCC	2 cut(s)	112, 698
AccB7I	CCANNNNNTGG	1 cut(s)	172
AccII	CGCG	4 cut(s)	87, 224, 263, 318
AclWI	GGATC	2 cut(s)	24, 37
AcoI	YGGCCR	2 cut(s)	219, 477
AcyI	GRCGYC	1 cut(s)	387
AfaI	GTAC	2 cut(s)	24, 700
AfiI	CCNNNNNNNGG	4 cut(s)	14, 172, 193, 362
AgsI	TTSAA	2 cut(s)	274, 536
AjnI	CCWGG	1 cut(s)	676
AluBI	AGCT	7 cut(s)	132, 178, 539, 581, 596, 612, 670
AluI	AGCT	7 cut(s)	132, 178, 539, 581, 596, 612, 670
Alw21I	GWGCWC	2 cut(s)	180, 583
Alw26I	GTCTC	3 cut(s)	65, 353, 446
AlwI	GGATC	2 cut(s)	24, 37
AlwNI	CAGNNNCTG	2 cut(s)	103, 670
Ama87I	CYCGRG	2 cut(s)	68, 251
AoxI	GGCC	3 cut(s)	219, 366, 477
ApeKI	GCWGC	2 cut(s)	247, 770
AseI	ATTAAT	1 cut(s)	642
Asp718I	GGTACC	1 cut(s)	698
AspLEI	GCGC	3 cut(s)	145, 265, 320
AspS9I	GGNCC	4 cut(s)	4, 44, 366, 673
AsuC2I	CCSGG	4 cut(s)	27, 63, 384, 587
AsuHPI	GGTGA	1 cut(s)	415
AsuII	TTCGAA	1 cut(s)	431
AvaI	CYCGRG	2 cut(s)	68, 251
AvaII	GGWCC	3 cut(s)	4, 44, 673
BamHI	GGATCC	1 cut(s)	29
BanI	GGYRCC	2 cut(s)	112, 698
BanII	GRGCYC	3 cut(s)	180, 258, 583
Bbv12I	GWGCWC	2 cut(s)	180, 583
BbvI	GCAGC	2 cut(s)	234, 757
BceAI	ACGGC	3 cut(s)	156, 353, 358
BciT130I	CCWGG	1 cut(s)	678
BcnI	CCSGG	4 cut(s)	27, 63, 384, 587
BcoDI	GTCTC	3 cut(s)	65, 353, 446
BfmI	CTRYAG	2 cut(s)	597, 662
BfoI	RGCGCY	1 cut(s)	146
BfuAI	ACCTGC	1 cut(s)	775
BlpI	GCTNAGC	1 cut(s)	613
Bme1390I	CCNGG	5 cut(s)	27, 63, 384, 587, 678
Bme18I	GGWCC	3 cut(s)	4, 44, 673
BmeT110I	CYCGRG	2 cut(s)	68, 251
BmgT120I	GGNCC	4 cut(s)	4, 44, 366, 673
BmiI	GGNNCC	8 cut(s)	6, 31, 46, 114, 216, 367, 675, 700
BmrFI	CCNGG	5 cut(s)	27, 63, 384, 587, 678
BmsI	GCATC	3 cut(s)	274, 538, 671
Bpu10I	CCTNAGC	1 cut(s)	540
Bpu1102I	GCTNAGC	1 cut(s)	613
Bpu14I	TTCGAA	1 cut(s)	431
BpuMI	CCSGG	4 cut(s)	27, 63, 384, 587
BsaHI	GRCGYC	1 cut(s)	387
BsaJI	CCNNGG	4 cut(s)	171, 222, 586, 676
BsaWI	WCCGGW	1 cut(s)	41
BsaXI	ACNNNNNCTCC	2 cut(s)	116, 146
Bsc4I	CCNNNNNNNGG	4 cut(s)	14, 172, 193, 362
BseBI	CCWGG	1 cut(s)	678
BseDI	CCNNGG	4 cut(s)	171, 222, 586, 676
BseGI	GGATG	4 cut(s)	265, 657, 686, 721
BseLI	CCNNNNNNNGG	4 cut(s)	14, 172, 193, 362
BseRI	GAGGAG	2 cut(s)	170, 643
BseX3I	CGGCCG	1 cut(s)	219
BseXI	GCAGC	2 cut(s)	234, 757
BseYI	CCCAGC	1 cut(s)	293
BsgI	GTGCAG	2 cut(s)	755, 756
Bsh1236I	CGCG	4 cut(s)	87, 224, 263, 318
Bsh1285I	CGRYCG	1 cut(s)	222
BshFI	GGCC	3 cut(s)	221, 368, 479
BshNI	GGYRCC	2 cut(s)	112, 698
BsiEI	CGRYCG	1 cut(s)	222
BsiHKAI	GWGCWC	2 cut(s)	180, 583
BsiHKCI	CYCGRG	2 cut(s)	68, 251
BslFI	GGGAC	1 cut(s)	659
BslI	CCNNNNNNNGG	4 cut(s)	14, 172, 193, 362
BsmAI	GTCTC	3 cut(s)	65, 353, 446
BsmBI	CGTCTC	1 cut(s)	353
BsmFI	GGGAC	1 cut(s)	659
BsnI	GGCC	3 cut(s)	221, 368, 479
BsoBI	CYCGRG	2 cut(s)	68, 251
Bsp119I	TTCGAA	1 cut(s)	431
Bsp1286I	GDGCHC	3 cut(s)	180, 258, 583
Bsp143I	GATC	3 cut(s)	29, 49, 333
Bsp1720I	GCTNAGC	1 cut(s)	613
Bsp19I	CCATGG	1 cut(s)	171
BspANI	GGCC	3 cut(s)	221, 368, 479
BspFNI	CGCG	4 cut(s)	87, 224, 263, 318
BspLI	GGNNCC	8 cut(s)	6, 31, 46, 114, 216, 367, 675, 700
BspMI	ACCTGC	1 cut(s)	775
BspPI	GGATC	2 cut(s)	24, 37
BspQI	GCTCTTC	1 cut(s)	401
BspT104I	TTCGAA	1 cut(s)	431
BspT107I	GGYRCC	2 cut(s)	112, 698
BssECI	CCNNGG	4 cut(s)	171, 222, 586, 676
BssMI	GATC	3 cut(s)	29, 49, 333
BssNI	GRCGYC	1 cut(s)	387
BssT1I	CCWWGG	1 cut(s)	171
Bst2UI	CCWGG	1 cut(s)	678
Bst4CI	ACNGT	1 cut(s)	112
Bst6I	CTCTTC	1 cut(s)	401
BstACI	GRCGYC	1 cut(s)	387
BstBI	TTCGAA	1 cut(s)	431
BstC8I	GCNNGC	7 cut(s)	130, 236, 347, 413, 417, 583, 624
BstDEI	CTNAG	4 cut(s)	456, 540, 613, 706
BstDSI	CCRYGG	2 cut(s)	171, 222
BstF5I	GGATG	4 cut(s)	265, 657, 686, 721
BstFNI	CGCG	4 cut(s)	87, 224, 263, 318
BstH2I	RGCGCY	1 cut(s)	146
BstHHI	GCGC	3 cut(s)	145, 265, 320
BstKTI	GATC	3 cut(s)	32, 52, 336
BstMAI	GTCTC	3 cut(s)	65, 353, 446
BstMBI	GATC	3 cut(s)	29, 49, 333
BstMCI	CGRYCG	1 cut(s)	222
BstMWI	GCNNNNNNNGC	7 cut(s)	221, 244, 247, 253, 262, 623, 667
BstNI	CCWGG	1 cut(s)	678
BstSCI	CCNGG	5 cut(s)	25, 61, 382, 585, 676
BstSFI	CTRYAG	2 cut(s)	597, 662
BstUI	CGCG	4 cut(s)	87, 224, 263, 318
BstV1I	GCAGC	2 cut(s)	234, 757
BstX2I	RGATCY	1 cut(s)	29
BstYI	RGATCY	1 cut(s)	29
BstZI	CGGCCG	1 cut(s)	219
BsuRI	GGCC	3 cut(s)	221, 368, 479
BtgI	CCRYGG	2 cut(s)	171, 222
BtsCI	GGATG	4 cut(s)	265, 657, 686, 721
BveI	ACCTGC	1 cut(s)	775
Cac8I	GCNNGC	7 cut(s)	130, 236, 347, 413, 417, 583, 624
CaiI	CAGNNNCTG	2 cut(s)	103, 670
CfoI	GCGC	3 cut(s)	145, 265, 320
Cfr13I	GGNCC	4 cut(s)	4, 44, 366, 673
Cfr42I	CCGCGG	1 cut(s)	225
CseI	GACGC	1 cut(s)	376
Csp6I	GTAC	2 cut(s)	23, 699
CviAII	CATG	2 cut(s)	172, 731
CviQI	GTAC	2 cut(s)	23, 699
DdeI	CTNAG	4 cut(s)	456, 540, 613, 706
DpnI	GATC	3 cut(s)	31, 51, 335
DpnII	GATC	3 cut(s)	29, 49, 333
EaeI	YGGCCR	2 cut(s)	219, 477
EagI	CGGCCG	1 cut(s)	219
Eam1104I	CTCTTC	1 cut(s)	401
EarI	CTCTTC	1 cut(s)	401
EciI	GGCGGA	1 cut(s)	147
Ecl136II	GAGCTC	2 cut(s)	178, 581
EclXI	CGGCCG	1 cut(s)	219
Eco130I	CCWWGG	1 cut(s)	171
Eco24I	GRGCYC	3 cut(s)	180, 258, 583
Eco47I	GGWCC	3 cut(s)	4, 44, 673
Eco52I	CGGCCG	1 cut(s)	219
Eco53kI	GAGCTC	2 cut(s)	178, 581
Eco88I	CYCGRG	2 cut(s)	68, 251
EcoICRI	GAGCTC	2 cut(s)	178, 581
EcoRII	CCWGG	1 cut(s)	676
EcoT14I	CCWWGG	1 cut(s)	171
EcoT38I	GRGCYC	3 cut(s)	180, 258, 583
ErhI	CCWWGG	1 cut(s)	171
Esp3I	CGTCTC	1 cut(s)	353
FaeI	CATG	2 cut(s)	175, 734
FaiI	YATR	6 cut(s)	173, 567, 609, 732, 782, 786
FaqI	GGGAC	1 cut(s)	659
FatI	CATG	2 cut(s)	171, 730
FokI	GGATG	4 cut(s)	252, 664, 693, 728
FriOI	GRGCYC	3 cut(s)	180, 258, 583
GlaI	GCGC	3 cut(s)	144, 264, 319
GsaI	CCCAGC	1 cut(s)	297
HaeII	RGCGCY	1 cut(s)	146
HaeIII	GGCC	3 cut(s)	221, 368, 479
HgaI	GACGC	1 cut(s)	376
HhaI	GCGC	3 cut(s)	145, 265, 320
Hin1I	GRCGYC	1 cut(s)	387
Hin1II	CATG	2 cut(s)	175, 734
Hin6I	GCGC	3 cut(s)	143, 263, 318
HinP1I	GCGC	3 cut(s)	143, 263, 318
HincII	GTYRAC	1 cut(s)	391
HindII	GTYRAC	1 cut(s)	391
HinfI	GANTC	6 cut(s)	66, 73, 197, 422, 428, 559
HphI	GGTGA	1 cut(s)	415
Hpy166II	GTNNAC	2 cut(s)	391, 571
Hpy188I	TCNGA	3 cut(s)	202, 427, 764
Hpy188III	TCNNGA	5 cut(s)	53, 70, 149, 331, 713
Hpy8I	GTNNAC	2 cut(s)	391, 571
Hpy99I	CGWCG	2 cut(s)	448, 478
HpyAV	CCTTC	3 cut(s)	145, 394, 496
HpyCH4III	ACNGT	1 cut(s)	112
HpyCH4IV	ACGT	4 cut(s)	21, 287, 573, 748
HpyCH4V	TGCA	3 cut(s)	684, 736, 773
HpyF10VI	GCNNNNNNNGC	7 cut(s)	221, 244, 247, 253, 262, 623, 667
HpyF3I	CTNAG	4 cut(s)	456, 540, 613, 706
HpySE526I	ACGT	4 cut(s)	21, 287, 573, 748
Hsp92I	GRCGYC	1 cut(s)	387
Hsp92II	CATG	2 cut(s)	175, 734
HspAI	GCGC	3 cut(s)	143, 263, 318
KpnI	GGTACC	1 cut(s)	702
KspI	CCGCGG	1 cut(s)	225
Kzo9I	GATC	3 cut(s)	29, 49, 333
LguI	GCTCTTC	1 cut(s)	401
LmnI	GCTCC	6 cut(s)	137, 175, 183, 220, 490, 667
Lsp1109I	GCAGC	2 cut(s)	234, 757
LweI	GCATC	3 cut(s)	274, 538, 671
MaeII	ACGT	4 cut(s)	21, 287, 573, 748
MaeIII	GTNAC	1 cut(s)	37
MalI	GATC	3 cut(s)	31, 51, 335
MboI	GATC	3 cut(s)	29, 49, 333
MboII	GAAGA	4 cut(s)	68, 328, 418, 557
MflI	RGATCY	1 cut(s)	29
MhlI	GDGCHC	3 cut(s)	180, 258, 583
MluCI	AATT	4 cut(s)	80, 274, 531, 639
MlyI	GAGTC	4 cut(s)	60, 67, 206, 431
MnlI	CCTC	8 cut(s)	82, 191, 197, 269, 293, 621, 642, 751
MseI	TTAA	1 cut(s)	642
MspA1I	CMGCKG	4 cut(s)	35, 100, 224, 247
MspR9I	CCNGG	5 cut(s)	27, 63, 384, 587, 678
MvaI	CCWGG	1 cut(s)	678
MvnI	CGCG	4 cut(s)	87, 224, 263, 318
MwoI	GCNNNNNNNGC	7 cut(s)	221, 244, 247, 253, 262, 623, 667
NciI	CCSGG	4 cut(s)	27, 63, 384, 587
NcoI	CCATGG	1 cut(s)	171
NdeII	GATC	3 cut(s)	29, 49, 333
NlaIII	CATG	2 cut(s)	175, 734
NlaIV	GGNNCC	8 cut(s)	6, 31, 46, 114, 216, 367, 675, 700
NmeAIII	GCCGAG	1 cut(s)	445
NspV	TTCGAA	1 cut(s)	431
PaeR7I	CTCGAG	2 cut(s)	68, 251
PciSI	GCTCTTC	1 cut(s)	401
PfeI	GAWTC	2 cut(s)	428, 559
PflMI	CCANNNNNTGG	1 cut(s)	172
PleI	GAGTC	4 cut(s)	60, 67, 205, 430
PpsI	GAGTC	4 cut(s)	60, 67, 205, 430
PshBI	ATTAAT	1 cut(s)	642
Psp124BI	GAGCTC	2 cut(s)	180, 583
Psp6I	CCWGG	1 cut(s)	676
PspFI	CCCAGC	1 cut(s)	293
PspGI	CCWGG	1 cut(s)	676
PspN4I	GGNNCC	8 cut(s)	6, 31, 46, 114, 216, 367, 675, 700
PspPI	GGNCC	4 cut(s)	4, 44, 366, 673
PspXI	VCTCGAGB	1 cut(s)	251
PstNI	CAGNNNCTG	2 cut(s)	103, 670
PsuI	RGATCY	1 cut(s)	29
RsaI	GTAC	2 cut(s)	24, 700
RsaNI	GTAC	2 cut(s)	23, 699
SacI	GAGCTC	2 cut(s)	180, 583
SacII	CCGCGG	1 cut(s)	225
SapI	GCTCTTC	1 cut(s)	401
SaqAI	TTAA	1 cut(s)	642
Sau3AI	GATC	3 cut(s)	29, 49, 333
Sau96I	GGNCC	4 cut(s)	4, 44, 366, 673
SchI	GAGTC	4 cut(s)	60, 67, 206, 431
ScrFI	CCNGG	5 cut(s)	27, 63, 384, 587, 678
SduI	GDGCHC	3 cut(s)	180, 258, 583
SfaNI	GCATC	3 cut(s)	274, 538, 671
SfcI	CTRYAG	2 cut(s)	597, 662
Sfr274I	CTCGAG	2 cut(s)	68, 251
Sfr303I	CCGCGG	1 cut(s)	225
SfuI	TTCGAA	1 cut(s)	431
SgrBI	CCGCGG	1 cut(s)	225
SinI	GGWCC	3 cut(s)	4, 44, 673
SlaI	CTCGAG	2 cut(s)	68, 251
SmlI	CTYRAG	2 cut(s)	68, 251
SmoI	CTYRAG	2 cut(s)	68, 251
Sse9I	AATT	4 cut(s)	80, 274, 531, 639
SstI	GAGCTC	2 cut(s)	180, 583
StyD4I	CCNGG	5 cut(s)	25, 61, 382, 585, 676
StyI	CCWWGG	1 cut(s)	171
TaaI	ACNGT	1 cut(s)	112
TaiI	ACGT	4 cut(s)	24, 290, 576, 751
TaqI	TCGA	6 cut(s)	69, 252, 312, 332, 431, 577
TasI	AATT	4 cut(s)	80, 274, 531, 639
TauI	GCSGC	9 cut(s)	103, 118, 224, 241, 244, 247, 305, 323, 345
TfiI	GAWTC	2 cut(s)	428, 559
Tru1I	TTAA	1 cut(s)	642
Tru9I	TTAA	1 cut(s)	642
TseI	GCWGC	2 cut(s)	247, 770
TspDTI	ATGAA	3 cut(s)	533, 668, 732
Van91I	CCANNNNNTGG	1 cut(s)	172
VpaK11BI	GGWCC	3 cut(s)	4, 44, 673
VspI	ATTAAT	1 cut(s)	642
XhoI	CTCGAG	2 cut(s)	68, 251

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