Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0003580

Physical Location & Seq

Genomic Coordinates Reverse (-)

84895221 .. 84895867

Gene Structure 647 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG551400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 624 bp

ATGTCGGATTATCTTCACCCTCCGGCTGTAGCGCCGTTAAACCAGCAGCTGCTGGAGCAGCGGCTCCAGGCGCTGATCGAGGGCGCAAGGGAGAGCTGGACCTATGCCTTCTTCTGGCAGTACGACACGTCGGGAGATTCCGTTCTCTTTTGGGGCGAAGGGTTCTACAAGGCCGAGCGTGACGATCGGAAAGCGAGGCCCACAAAGATGTCATTGGTCGACCAGGAGTACCGGAAGGAAGTGCTCAGGGACCTCAACTCTTTGATTTCCGGGGCCGACACTACCGCCGACGACGCGTTCGTAGATCCAGTCACTGATACAGAATGGTTCTTCCTTACTTCCATGACCGATAGTTTCATCAACGGCGGCGAGTTGCCGGGTCAGGCCTTTTTCTATTCCCACCCGGTCTGGGTCAACGGGCCGGACCGCCTTGCGGCGTCCTCCTGCGAGCGGGCCCGCCAAGCTCAGGTCTTCGGCCTACAGACTATGGTCTGCGTCCCGACGGCGAATGGGGTGGTCGAATTGGGCTCGACGGAGTTGATATTCCTGAGCTCAGATGTGATGAACGAGGCCCGATTATTTCGGTTCTTGGCCTGTAGCTCCGGCCACTTCAGGACCGAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005509 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006950 GO:0006952 GO:0006970 GO:0006972 GO:0008134 GO:0008150 GO:0008152 GO:0009058 GO:0009628 GO:0009651 GO:0009718 GO:0009719 GO:0009725 GO:0009753 GO:0009812 GO:0009813 GO:0009889 GO:0009891 GO:0009893 GO:0010033 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0019219 GO:0019222 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0042221 GO:0042440 GO:0042538 GO:0043167 GO:0043169 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043425 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0046148 GO:0046283 GO:0046872 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1901576 GO:1901700 GO:1902680 GO:1903506 GO:1903508 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04016 ko04075 map04016 map04075

Pfam Domains

Protein Families

HLH bHLH-MYC_N

Protein Analysis

207

Amino Acids

23.35

Weight (kDa)

4.64

Isoelectric Point (pI)

36.01

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
bHLH-MYC_N	PF14215	18 - 192	2.7e-47	bHLH-MYC and R2R3-MYB transcription factors N-terminal

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: OG0003580)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G32640
fragaria_vesca	FvH4_1g13600 FvH4_1g13601 FvH4_4g17280 FvH4_5g22100 FvH4_6g24370 FvH4_6g25910
prunus_persica	Prupe.5G035400_v2.0.a1
pyrus_communis	pycom06g02850 pycom16g24430
rosa_chinensis	RchiOBHm_Chr7g0209751
rosa_laevigata	RLG00000003096 RLG00000008856 RLG00000036489 RLG00000036838
rosa_multiflora	Rmu_sc0000161.1_g000024 Rmu_sc0002616.1_g000020
rosa_roxburghii	Rroxscaffold_1G00006980
rosa_rugosa	Rorug05G0432900 Rorug07G0116000
rosa_samantha	Rh4DG124100 Rh5AG516700 Rh5AG518900 Rh5AG519400 Rh5BG540600 Rh5CG563400 Rh5DG551100 Rh5DG551400 Rh5DG551800 Rh7AG249600 Rh7BG243500 Rh7CG265600 Rh7DG255400
rosa_wichuraiana	Rw0G022750 Rw7G021160

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	451
AccI	GTMKAC	1 cut(s)	219
AccII	CGCG	1 cut(s)	296
AciI	CCGC	7 cut(s)	61, 285, 366, 427, 434, 451, 457
AclWI	GGATC	1 cut(s)	299
AcoI	YGGCCR	1 cut(s)	604
AcuI	CTGAAG	1 cut(s)	595
AcyI	GRCGYC	1 cut(s)	437
AfaI	GTAC	2 cut(s)	122, 230
AfiI	CCNNNNNNNGG	5 cut(s)	114, 409, 433, 450, 466
AflIII	ACRYGT	2 cut(s)	126, 294
AjiI	CACGTC	1 cut(s)	129
AjnI	CCWGG	2 cut(s)	66, 222
AloI	GAACNNNNNNTCC	2 cut(s)	126, 158
AluBI	AGCT	5 cut(s)	49, 96, 464, 552, 600
AluI	AGCT	5 cut(s)	49, 96, 464, 552, 600
Alw21I	GWGCWC	2 cut(s)	246, 554
AlwI	GGATC	1 cut(s)	299
AlwNI	CAGNNNCTG	4 cut(s)	49, 52, 73, 314
ApaI	GGGCCC	1 cut(s)	457
ApeKI	GCWGC	3 cut(s)	46, 49, 58
ArsI	GACNNNNNNTTYG	2 cut(s)	281, 313
AspLEI	GCGC	3 cut(s)	34, 73, 86
AsuC2I	CCSGG	3 cut(s)	271, 378, 404
AsuHPI	GGTGA	1 cut(s)	8
AvaII	GGWCC	4 cut(s)	99, 250, 424, 615
BaeGI	GKGCMC	1 cut(s)	457
BanII	GRGCYC	3 cut(s)	457, 530, 554
BbsI	GAAGAC	1 cut(s)	463
Bbv12I	GWGCWC	2 cut(s)	246, 554
BbvI	GCAGC	3 cut(s)	36, 58, 70
BceAI	ACGGC	3 cut(s)	19, 379, 519
BciT130I	CCWGG	2 cut(s)	68, 224
BcnI	CCSGG	3 cut(s)	271, 378, 404
BfmI	CTRYAG	3 cut(s)	27, 479, 595
BfoI	RGCGCY	2 cut(s)	35, 74
BisI	GCNGC	6 cut(s)	47, 50, 59, 62, 367, 435
BlsI	GCNGC	6 cut(s)	48, 51, 60, 63, 368, 436
Bme1390I	CCNGG	5 cut(s)	68, 224, 271, 378, 404
Bme18I	GGWCC	4 cut(s)	99, 250, 424, 615
BmgBI	CACGTC	1 cut(s)	129
BmiI	GGNNCC	4 cut(s)	65, 251, 274, 455
BmrFI	CCNGG	5 cut(s)	68, 224, 271, 378, 404
BoxI	GACNNNNGTC	1 cut(s)	488
BpiI	GAAGAC	1 cut(s)	463
BpmI	CTGGAG	2 cut(s)	50, 74
Bpu10I	CCTNAGC	3 cut(s)	245, 465, 548
BpuMI	CCSGG	3 cut(s)	271, 378, 404
BsaHI	GRCGYC	1 cut(s)	437
BsaJI	CCNNGG	1 cut(s)	270
BsaWI	WCCGGW	1 cut(s)	231
BsaXI	ACNNNNNCTCC	2 cut(s)	126, 156
Bsc4I	CCNNNNNNNGG	5 cut(s)	114, 409, 433, 450, 466
Bse1I	ACTGG	1 cut(s)	308
BseBI	CCWGG	2 cut(s)	68, 224
BseDI	CCNNGG	1 cut(s)	270
BseLI	CCNNNNNNNGG	5 cut(s)	114, 409, 433, 450, 466
BseMII	CTCAG	4 cut(s)	259, 479, 539, 567
BseNI	ACTGG	1 cut(s)	308
BseSI	GKGCMC	1 cut(s)	457
BseXI	GCAGC	3 cut(s)	36, 58, 70
Bsh1236I	CGCG	1 cut(s)	296
Bsh1285I	CGRYCG	1 cut(s)	187
BsiEI	CGRYCG	1 cut(s)	187
BsiHKAI	GWGCWC	2 cut(s)	246, 554
BsiSI	CCGG	7 cut(s)	23, 232, 270, 377, 404, 422, 603
BslFI	GGGAC	2 cut(s)	263, 482
BslI	CCNNNNNNNGG	5 cut(s)	114, 409, 433, 450, 466
BsmFI	GGGAC	2 cut(s)	263, 482
Bsp120I	GGGCCC	1 cut(s)	453
Bsp1286I	GDGCHC	4 cut(s)	246, 457, 530, 554
Bsp143I	GATC	3 cut(s)	75, 184, 304
BspACI	CCGC	7 cut(s)	61, 285, 366, 427, 434, 451, 457
BspCNI	CTCAG	4 cut(s)	258, 478, 540, 566
BspFNI	CGCG	1 cut(s)	296
BspLI	GGNNCC	4 cut(s)	65, 251, 274, 455
BspPI	GGATC	1 cut(s)	299
BsrBI	CCGCTC	1 cut(s)	451
BsrI	ACTGG	1 cut(s)	308
BssECI	CCNNGG	1 cut(s)	270
BssMI	GATC	3 cut(s)	75, 184, 304
BssNI	GRCGYC	1 cut(s)	437
Bst2UI	CCWGG	2 cut(s)	68, 224
BstACI	GRCGYC	1 cut(s)	437
BstC8I	GCNNGC	3 cut(s)	449, 453, 457
BstDEI	CTNAG	4 cut(s)	245, 465, 548, 553
BstFNI	CGCG	1 cut(s)	296
BstH2I	RGCGCY	2 cut(s)	35, 74
BstHHI	GCGC	3 cut(s)	34, 73, 86
BstKTI	GATC	3 cut(s)	78, 187, 307
BstMBI	GATC	3 cut(s)	75, 184, 304
BstMCI	CGRYCG	1 cut(s)	187
BstMWI	GCNNNNNNNGC	5 cut(s)	55, 58, 70, 293, 461
BstNI	CCWGG	2 cut(s)	68, 224
BstPAI	GACNNNNGTC	1 cut(s)	488
BstSCI	CCNGG	5 cut(s)	66, 222, 269, 376, 402
BstSFI	CTRYAG	3 cut(s)	27, 479, 595
BstSLI	GKGCMC	1 cut(s)	457
BstUI	CGCG	1 cut(s)	296
BstV1I	GCAGC	3 cut(s)	36, 58, 70
BstV2I	GAAGAC	1 cut(s)	463
BstX2I	RGATCY	1 cut(s)	304
BstYI	RGATCY	1 cut(s)	304
BtrI	CACGTC	1 cut(s)	129
BtsIMutI	CAGTG	1 cut(s)	312
Cac8I	GCNNGC	3 cut(s)	449, 453, 457
CaiI	CAGNNNCTG	4 cut(s)	49, 52, 73, 314
CfoI	GCGC	3 cut(s)	34, 73, 86
CpoI	CGGWCCG	1 cut(s)	424
CseI	GACGC	3 cut(s)	302, 426, 484
Csp6I	GTAC	2 cut(s)	121, 229
CspI	CGGWCCG	1 cut(s)	424
CviAII	CATG	1 cut(s)	343
CviQI	GTAC	2 cut(s)	121, 229
DdeI	CTNAG	4 cut(s)	245, 465, 548, 553
DpnI	GATC	3 cut(s)	77, 186, 306
DpnII	GATC	3 cut(s)	75, 184, 304
EaeI	YGGCCR	1 cut(s)	604
Ecl136II	GAGCTC	1 cut(s)	552
Eco147I	AGGCCT	1 cut(s)	386
Eco24I	GRGCYC	3 cut(s)	457, 530, 554
Eco47I	GGWCC	4 cut(s)	99, 250, 424, 615
Eco53kI	GAGCTC	1 cut(s)	552
Eco57I	CTGAAG	1 cut(s)	595
EcoICRI	GAGCTC	1 cut(s)	552
EcoO109I	RGGNCCY	1 cut(s)	250
EcoRII	CCWGG	2 cut(s)	66, 222
EcoT38I	GRGCYC	3 cut(s)	457, 530, 554
FaeI	CATG	1 cut(s)	346
FaiI	YATR	3 cut(s)	105, 344, 488
FaqI	GGGAC	2 cut(s)	263, 482
FatI	CATG	1 cut(s)	342
FauI	CCCGC	2 cut(s)	444, 464
FblI	GTMKAC	1 cut(s)	219
Fnu4HI	GCNGC	6 cut(s)	47, 50, 59, 62, 367, 435
FriOI	GRGCYC	3 cut(s)	457, 530, 554
Fsp4HI	GCNGC	6 cut(s)	47, 50, 59, 62, 367, 435
GlaI	GCGC	3 cut(s)	33, 72, 85
GluI	GCNGC	6 cut(s)	47, 50, 59, 62, 367, 435
GsuI	CTGGAG	2 cut(s)	50, 74
HaeII	RGCGCY	2 cut(s)	35, 74
HapII	CCGG	7 cut(s)	23, 232, 270, 377, 404, 422, 603
HgaI	GACGC	3 cut(s)	302, 426, 484
HhaI	GCGC	3 cut(s)	34, 73, 86
Hin1I	GRCGYC	1 cut(s)	437
Hin1II	CATG	1 cut(s)	346
Hin6I	GCGC	3 cut(s)	32, 71, 84
HinP1I	GCGC	3 cut(s)	32, 71, 84
HincII	GTYRAC	2 cut(s)	220, 415
HindII	GTYRAC	2 cut(s)	220, 415
HinfI	GANTC	1 cut(s)	137
HpaII	CCGG	7 cut(s)	23, 232, 270, 377, 404, 422, 603
HphI	GGTGA	1 cut(s)	8
Hpy166II	GTNNAC	2 cut(s)	220, 415
Hpy188I	TCNGA	3 cut(s)	7, 189, 556
Hpy188III	TCNNGA	4 cut(s)	132, 499, 547, 613
Hpy8I	GTNNAC	2 cut(s)	220, 415
Hpy99I	CGWCG	5 cut(s)	133, 293, 296, 505, 535
HpyAV	CCTTC	3 cut(s)	118, 152, 229
HpyCH4IV	ACGT	1 cut(s)	128
HpyF10VI	GCNNNNNNNGC	5 cut(s)	55, 58, 70, 293, 461
HpyF3I	CTNAG	4 cut(s)	245, 465, 548, 553
HpySE526I	ACGT	1 cut(s)	128
Hsp92I	GRCGYC	1 cut(s)	437
Hsp92II	CATG	1 cut(s)	346
HspAI	GCGC	3 cut(s)	32, 71, 84
Kzo9I	GATC	3 cut(s)	75, 184, 304
LmnI	GCTCC	3 cut(s)	55, 69, 605
Lsp1109I	GCAGC	3 cut(s)	36, 58, 70
MaeII	ACGT	1 cut(s)	128
MaeIII	GTNAC	2 cut(s)	179, 310
MalI	GATC	3 cut(s)	77, 186, 306
MbiI	CCGCTC	1 cut(s)	451
MboI	GATC	3 cut(s)	75, 184, 304
MboII	GAAGA	4 cut(s)	5, 103, 322, 463
MflI	RGATCY	1 cut(s)	304
MhlI	GDGCHC	4 cut(s)	246, 457, 530, 554
MluCI	AATT	1 cut(s)	521
MluI	ACGCGT	1 cut(s)	294
MnlI	CCTC	6 cut(s)	30, 73, 189, 263, 451, 562
MseI	TTAA	1 cut(s)	38
MslI	CAYNNNNRTG	1 cut(s)	206
MspA1I	CMGCKG	2 cut(s)	49, 61
MspI	CCGG	7 cut(s)	23, 232, 270, 377, 404, 422, 603
MspR9I	CCNGG	5 cut(s)	68, 224, 271, 378, 404
MvaI	CCWGG	2 cut(s)	68, 224
MvnI	CGCG	1 cut(s)	296
MwoI	GCNNNNNNNGC	5 cut(s)	55, 58, 70, 293, 461
NciI	CCSGG	3 cut(s)	271, 378, 404
NdeII	GATC	3 cut(s)	75, 184, 304
NlaIII	CATG	1 cut(s)	346
NlaIV	GGNNCC	4 cut(s)	65, 251, 274, 455
NmeAIII	GCCGAG	1 cut(s)	199
NmuCI	GTSAC	2 cut(s)	179, 310
PceI	AGGCCT	1 cut(s)	386
PcsI	WCGNNNNNNNCGW	1 cut(s)	297
PfeI	GAWTC	1 cut(s)	137
PkrI	GCNGC	6 cut(s)	48, 51, 60, 63, 368, 436
Ple19I	CGATCG	1 cut(s)	187
PpuMI	RGGWCCY	1 cut(s)	250
PshAI	GACNNNNGTC	1 cut(s)	488
Psp124BI	GAGCTC	1 cut(s)	554
Psp5II	RGGWCCY	1 cut(s)	250
Psp6I	CCWGG	2 cut(s)	66, 222
PspGI	CCWGG	2 cut(s)	66, 222
PspN4I	GGNNCC	4 cut(s)	65, 251, 274, 455
PspOMI	GGGCCC	1 cut(s)	453
PspPPI	RGGWCCY	1 cut(s)	250
PstNI	CAGNNNCTG	4 cut(s)	49, 52, 73, 314
PsuI	RGATCY	1 cut(s)	304
PvuI	CGATCG	1 cut(s)	187
PvuII	CAGCTG	1 cut(s)	49
RsaI	GTAC	2 cut(s)	122, 230
RsaNI	GTAC	2 cut(s)	121, 229
RseI	CAYNNNNRTG	1 cut(s)	206
Rsr2I	CGGWCCG	1 cut(s)	424
RsrII	CGGWCCG	1 cut(s)	424
SacI	GAGCTC	1 cut(s)	554
SalI	GTCGAC	1 cut(s)	218
SaqAI	TTAA	1 cut(s)	38
SatI	GCNGC	6 cut(s)	47, 50, 59, 62, 367, 435
Sau3AI	GATC	3 cut(s)	75, 184, 304
ScrFI	CCNGG	5 cut(s)	68, 224, 271, 378, 404
SduI	GDGCHC	4 cut(s)	246, 457, 530, 554
SetI	ASST	9 cut(s)	51, 98, 104, 131, 255, 466, 471, 554, 602
SfcI	CTRYAG	3 cut(s)	27, 479, 595
SinI	GGWCC	4 cut(s)	99, 250, 424, 615
SmiMI	CAYNNNNRTG	1 cut(s)	206
Sse9I	AATT	1 cut(s)	521
SseBI	AGGCCT	1 cut(s)	386
SsiI	CCGC	7 cut(s)	61, 285, 366, 427, 434, 451, 457
SstI	GAGCTC	1 cut(s)	554
StuI	AGGCCT	1 cut(s)	386
StyD4I	CCNGG	5 cut(s)	66, 222, 269, 376, 402
TaiI	ACGT	1 cut(s)	131
TaqI	TCGA	4 cut(s)	78, 219, 519, 530
TaqII	GACCGA	1 cut(s)	362
TasI	AATT	1 cut(s)	521
TauI	GCSGC	3 cut(s)	64, 369, 437
TfiI	GAWTC	1 cut(s)	137
Tru1I	TTAA	1 cut(s)	38
Tru9I	TTAA	1 cut(s)	38
TscAI	CASTG	1 cut(s)	319
TseFI	GTSAC	2 cut(s)	179, 310
TseI	GCWGC	3 cut(s)	46, 49, 58
Tsp45I	GTSAC	2 cut(s)	179, 310
TspDTI	ATGAA	2 cut(s)	346, 578
TspGWI	ACGGA	2 cut(s)	130, 548
TspRI	CASTG	1 cut(s)	319
VpaK11BI	GGWCC	4 cut(s)	99, 250, 424, 615
XmiI	GTMKAC	1 cut(s)	219

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