Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0003580

Physical Location & Seq

Genomic Coordinates Reverse (-)

84829512 .. 84837453

Gene Structure 7942 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG551100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 789 bp

ATGTCGGACTATCCCCGCCCTCCGGCTGTAGCGCCGTTAAACAAGGAGACGCTTTTGCAGCGGCTCCAGGCGCTGATTGAGGGCGTAAGGGAGAGCTGGACCTATGCCATCTTCTGGGAGTCGTCGTACGACACGTCGGGAGATTCCATTCTCGGATGGGGCGATGGGTTCTACAAGGGGCAGAGTGACAGATGGAAAGCGAGGCCCAGAAAGACGCCGTCATTGGTCGAGCAGGAGTTCCGGAAGAAAGTGCTCAGGGACCTCAACTCTTTGATTTCCGGGGCCGACACCACCGCCGACGACGCGGTCGAAGATGAAATCACTGGTACAGAATGGTTCTTCCTTGTTTCCATGACCCATAGTTTCGTCAACGGCGGCGGGTTGCCGGGTCAGGCCTTTTTCTATTCCAACCCGGTCTGGGTCACCGGGCCGGACCGCCTAGCGGCGTCCTCCTGCGAGCGGGCCCGCCAAGCTCAGGTCTCCGGCCTACAGACTATGGTCTGCGTCCCGACGGCGAATGGGGTGGTCGAATTGGGCTCGACGGAGCTGATATTCCAGAGCTCGGATGTGATGAACGAGGCCCGAGTATTGTTTGATTTCAATAATCTTGAAGTCGGCTCTTGGCCTGTAGCTCTGGCCACTTCAGGACCGAGTAGCAGTAACCATCACATCTCTAAGCCGATTCAGTTTGACAACCACCCTAGTTCCAGTAGCTCTTCTGCATCATCAGCTACTCCGTGGAAGCGTGGCATATCTGCTTTACAAAAGTATCCCTGTCAGACCAAGTGA

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

262

Amino Acids

28.75

Weight (kDa)

5.43

Isoelectric Point (pI)

50.28

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
bHLH-MYC_N	PF14215	19 - 198	1.1e-53	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)
AasI	GACNNNNNNGTC	1 cut(s)	305
AccB7I	CCANNNNNTGG	1 cut(s)	114
AccBSI	CCGCTC	1 cut(s)	460
AccII	CGCG	1 cut(s)	305
AccIII	TCCGGA	1 cut(s)	240
AcoI	YGGCCR	1 cut(s)	636
AcuI	CTGAAG	1 cut(s)	627
AcyI	GRCGYC	2 cut(s)	215, 446
AfaI	GTAC	2 cut(s)	128, 328
AfiI	CCNNNNNNNGG	7 cut(s)	22, 114, 418, 442, 459, 475, 562
AflIII	ACRYGT	1 cut(s)	132
AgsI	TTSAA	2 cut(s)	601, 611
AjiI	CACGTC	1 cut(s)	135
AjnI	CCWGG	1 cut(s)	66
AluBI	AGCT	7 cut(s)	96, 473, 547, 561, 632, 714, 731
AluI	AGCT	7 cut(s)	96, 473, 547, 561, 632, 714, 731
Alw21I	GWGCWC	2 cut(s)	255, 563
Alw26I	GTCTC	2 cut(s)	41, 484
AlwNI	CAGNNNCTG	1 cut(s)	73
Ama87I	CYCGRG	1 cut(s)	582
Aor13HI	TCCGGA	1 cut(s)	240
AoxI	GGCC	9 cut(s)	203, 282, 393, 428, 462, 484, 579, 623, 636
ApaI	GGGCCC	1 cut(s)	466
ApeKI	GCWGC	1 cut(s)	58
AspLEI	GCGC	2 cut(s)	34, 73
AsuC2I	CCSGG	4 cut(s)	280, 387, 413, 427
AsuHPI	GGTGA	1 cut(s)	415
AvaI	CYCGRG	1 cut(s)	582
AvaII	GGWCC	4 cut(s)	99, 259, 433, 647
BaeGI	GKGCMC	1 cut(s)	466
BaeI	ACNNNNGTAYC	2 cut(s)	752, 785
BalI	TGGCCA	1 cut(s)	638
BanII	GRGCYC	3 cut(s)	466, 539, 563
Bbv12I	GWGCWC	2 cut(s)	255, 563
BbvI	GCAGC	1 cut(s)	70
BccI	CCATC	5 cut(s)	116, 150, 158, 186, 672
BceAI	ACGGC	4 cut(s)	19, 202, 388, 528
BciT130I	CCWGG	1 cut(s)	68
BciVI	GTATCC	1 cut(s)	780
BcnI	CCSGG	4 cut(s)	280, 387, 413, 427
BcoDI	GTCTC	2 cut(s)	41, 484
BfaI	CTAG	2 cut(s)	440, 702
BfmI	CTRYAG	3 cut(s)	27, 488, 627
BfoI	RGCGCY	2 cut(s)	35, 74
BfuI	GTATCC	1 cut(s)	780
BisI	GCNGC	4 cut(s)	59, 62, 376, 444
BlsI	GCNGC	4 cut(s)	60, 63, 377, 445
Bme1390I	CCNGG	5 cut(s)	68, 280, 387, 413, 427
Bme18I	GGWCC	4 cut(s)	99, 259, 433, 647
BmeT110I	CYCGRG	1 cut(s)	582
BmgBI	CACGTC	1 cut(s)	135
BmiI	GGNNCC	4 cut(s)	65, 260, 283, 464
BmrFI	CCNGG	5 cut(s)	68, 280, 387, 413, 427
BmsI	GCATC	1 cut(s)	731
BoxI	GACNNNNGTC	1 cut(s)	497
BpmI	CTGGAG	1 cut(s)	50
Bpu10I	CCTNAGC	2 cut(s)	254, 474
BpuMI	CCSGG	4 cut(s)	280, 387, 413, 427
BsaHI	GRCGYC	2 cut(s)	215, 446
BsaI	GGTCTC	1 cut(s)	484
BsaJI	CCNNGG	2 cut(s)	279, 737
BsaWI	WCCGGW	1 cut(s)	240
BsaXI	ACNNNNNCTCC	2 cut(s)	110, 140
Bsc4I	CCNNNNNNNGG	7 cut(s)	22, 114, 418, 442, 459, 475, 562
Bse1I	ACTGG	2 cut(s)	328, 708
BseAI	TCCGGA	1 cut(s)	240
BseBI	CCWGG	1 cut(s)	68
BseDI	CCNNGG	2 cut(s)	279, 737
BseGI	GGATG	2 cut(s)	161, 571
BseLI	CCNNNNNNNGG	7 cut(s)	22, 114, 418, 442, 459, 475, 562
BseMII	CTCAG	2 cut(s)	268, 488
BseNI	ACTGG	2 cut(s)	328, 708
BseSI	GKGCMC	1 cut(s)	466
BseXI	GCAGC	1 cut(s)	70
Bsh1236I	CGCG	1 cut(s)	305
Bsh1285I	CGRYCG	1 cut(s)	309
BshFI	GGCC	9 cut(s)	205, 284, 395, 430, 464, 486, 581, 625, 638
BsiEI	CGRYCG	1 cut(s)	309
BsiHKAI	GWGCWC	2 cut(s)	255, 563
BsiHKCI	CYCGRG	1 cut(s)	582
BsiSI	CCGG	8 cut(s)	23, 241, 279, 386, 413, 426, 431, 483
BsiWI	CGTACG	1 cut(s)	126
BslFI	GGGAC	2 cut(s)	272, 491
BslI	CCNNNNNNNGG	7 cut(s)	22, 114, 418, 442, 459, 475, 562
BsmAI	GTCTC	2 cut(s)	41, 484
BsmBI	CGTCTC	1 cut(s)	41
BsmFI	GGGAC	2 cut(s)	272, 491
BsnI	GGCC	9 cut(s)	205, 284, 395, 430, 464, 486, 581, 625, 638
Bso31I	GGTCTC	1 cut(s)	484
BsoBI	CYCGRG	1 cut(s)	582
Bsp120I	GGGCCC	1 cut(s)	462
Bsp1286I	GDGCHC	4 cut(s)	255, 466, 539, 563
Bsp13I	TCCGGA	1 cut(s)	240
BspANI	GGCC	9 cut(s)	205, 284, 395, 430, 464, 486, 581, 625, 638
BspCNI	CTCAG	2 cut(s)	267, 487
BspEI	TCCGGA	1 cut(s)	240
BspFNI	CGCG	1 cut(s)	305
BspLI	GGNNCC	4 cut(s)	65, 260, 283, 464
BspQI	GCTCTTC	1 cut(s)	721
BspTNI	GGTCTC	1 cut(s)	484
BsrBI	CCGCTC	1 cut(s)	460
BsrI	ACTGG	2 cut(s)	328, 708
BssECI	CCNNGG	2 cut(s)	279, 737
BssNI	GRCGYC	2 cut(s)	215, 446
Bst2UI	CCWGG	1 cut(s)	68
Bst6I	CTCTTC	1 cut(s)	721
BstACI	GRCGYC	2 cut(s)	215, 446
BstC8I	GCNNGC	3 cut(s)	458, 462, 466
BstDEI	CTNAG	3 cut(s)	254, 474, 675
BstDSI	CCRYGG	1 cut(s)	737
BstEII	GGTNACC	1 cut(s)	421
BstF5I	GGATG	2 cut(s)	161, 571
BstFNI	CGCG	1 cut(s)	305
BstH2I	RGCGCY	2 cut(s)	35, 74
BstHHI	GCGC	2 cut(s)	34, 73
BstMAI	GTCTC	2 cut(s)	41, 484
BstMCI	CGRYCG	1 cut(s)	309
BstMWI	GCNNNNNNNGC	5 cut(s)	58, 70, 302, 470, 728
BstNI	CCWGG	1 cut(s)	68
BstPAI	GACNNNNGTC	1 cut(s)	497
BstPI	GGTNACC	1 cut(s)	421
BstSCI	CCNGG	5 cut(s)	66, 278, 385, 411, 425
BstSFI	CTRYAG	3 cut(s)	27, 488, 627
BstSLI	GKGCMC	1 cut(s)	466
BstUI	CGCG	1 cut(s)	305
BstV1I	GCAGC	1 cut(s)	70
BsuI	GTATCC	1 cut(s)	780
BsuRI	GGCC	9 cut(s)	205, 284, 395, 430, 464, 486, 581, 625, 638
BtgI	CCRYGG	1 cut(s)	737
BtgZI	GCGATG	1 cut(s)	177
BtrI	CACGTC	1 cut(s)	135
BtsCI	GGATG	2 cut(s)	161, 571
BtsIMutI	CAGTG	1 cut(s)	321
Cac8I	GCNNGC	3 cut(s)	458, 462, 466
CaiI	CAGNNNCTG	1 cut(s)	73
CfoI	GCGC	2 cut(s)	34, 73
CpoI	CGGWCCG	1 cut(s)	433
CseI	GACGC	5 cut(s)	58, 223, 311, 435, 493
Csp6I	GTAC	2 cut(s)	127, 327
CspI	CGGWCCG	1 cut(s)	433
CviAII	CATG	1 cut(s)	352
CviQI	GTAC	2 cut(s)	127, 327
DdeI	CTNAG	3 cut(s)	254, 474, 675
DrdI	GACNNNNNNGTC	1 cut(s)	305
DseDI	GACNNNNNNGTC	1 cut(s)	305
EaeI	YGGCCR	1 cut(s)	636
Eam1104I	CTCTTC	1 cut(s)	721
EarI	CTCTTC	1 cut(s)	721
Ecl136II	GAGCTC	1 cut(s)	561
Eco147I	AGGCCT	1 cut(s)	395
Eco24I	GRGCYC	3 cut(s)	466, 539, 563
Eco31I	GGTCTC	1 cut(s)	484
Eco47I	GGWCC	4 cut(s)	99, 259, 433, 647
Eco53kI	GAGCTC	1 cut(s)	561
Eco57I	CTGAAG	1 cut(s)	627
Eco88I	CYCGRG	1 cut(s)	582
Eco91I	GGTNACC	1 cut(s)	421
EcoICRI	GAGCTC	1 cut(s)	561
EcoO109I	RGGNCCY	1 cut(s)	259
EcoO65I	GGTNACC	1 cut(s)	421
EcoRII	CCWGG	1 cut(s)	66
EcoT38I	GRGCYC	3 cut(s)	466, 539, 563
Esp3I	CGTCTC	1 cut(s)	41
FaeI	CATG	1 cut(s)	355
FaiI	YATR	5 cut(s)	105, 353, 360, 497, 752
FaqI	GGGAC	2 cut(s)	272, 491
FatI	CATG	1 cut(s)	351
FauI	CCCGC	4 cut(s)	23, 371, 453, 473
Fnu4HI	GCNGC	4 cut(s)	59, 62, 376, 444
FokI	GGATG	2 cut(s)	168, 578
FriOI	GRGCYC	3 cut(s)	466, 539, 563
Fsp4HI	GCNGC	4 cut(s)	59, 62, 376, 444
FspBI	CTAG	2 cut(s)	440, 702
GlaI	GCGC	2 cut(s)	33, 72
GluI	GCNGC	4 cut(s)	59, 62, 376, 444
GsuI	CTGGAG	1 cut(s)	50
HaeII	RGCGCY	2 cut(s)	35, 74
HaeIII	GGCC	9 cut(s)	205, 284, 395, 430, 464, 486, 581, 625, 638
HapII	CCGG	8 cut(s)	23, 241, 279, 386, 413, 426, 431, 483
HgaI	GACGC	5 cut(s)	58, 223, 311, 435, 493
HhaI	GCGC	2 cut(s)	34, 73
Hin1I	GRCGYC	2 cut(s)	215, 446
Hin1II	CATG	1 cut(s)	355
Hin6I	GCGC	2 cut(s)	32, 71
HinP1I	GCGC	2 cut(s)	32, 71
HincII	GTYRAC	1 cut(s)	370
HindII	GTYRAC	1 cut(s)	370
HinfI	GANTC	3 cut(s)	119, 143, 682
HpaII	CCGG	8 cut(s)	23, 241, 279, 386, 413, 426, 431, 483
HphI	GGTGA	1 cut(s)	415
Hpy166II	GTNNAC	1 cut(s)	370
Hpy188I	TCNGA	4 cut(s)	7, 155, 565, 780
Hpy188III	TCNNGA	6 cut(s)	138, 241, 508, 556, 608, 645
Hpy8I	GTNNAC	1 cut(s)	370
Hpy99I	CGWCG	6 cut(s)	127, 139, 302, 305, 514, 544
HpyCH4IV	ACGT	1 cut(s)	134
HpyCH4V	TGCA	2 cut(s)	58, 722
HpyF10VI	GCNNNNNNNGC	5 cut(s)	58, 70, 302, 470, 728
HpyF3I	CTNAG	3 cut(s)	254, 474, 675
HpySE526I	ACGT	1 cut(s)	134
Hsp92I	GRCGYC	2 cut(s)	215, 446
Hsp92II	CATG	1 cut(s)	355
HspAI	GCGC	2 cut(s)	32, 71
Kpn2I	TCCGGA	1 cut(s)	240
LguI	GCTCTTC	1 cut(s)	721
LmnI	GCTCC	2 cut(s)	69, 544
Lsp1109I	GCAGC	1 cut(s)	70
LweI	GCATC	1 cut(s)	731
MaeI	CTAG	2 cut(s)	440, 702
MaeII	ACGT	1 cut(s)	134
MaeIII	GTNAC	3 cut(s)	185, 421, 659
MbiI	CCGCTC	1 cut(s)	460
MboII	GAAGA	5 cut(s)	103, 256, 323, 331, 708
MhlI	GDGCHC	4 cut(s)	255, 466, 539, 563
MlsI	TGGCCA	1 cut(s)	638
MluCI	AATT	1 cut(s)	530
MluNI	TGGCCA	1 cut(s)	638
MlyI	GAGTC	1 cut(s)	128
MmeI	TCCRAC	1 cut(s)	432
MnlI	CCTC	6 cut(s)	30, 73, 195, 272, 460, 571
Mox20I	TGGCCA	1 cut(s)	638
MroI	TCCGGA	1 cut(s)	240
MscI	TGGCCA	1 cut(s)	638
MseI	TTAA	1 cut(s)	38
Msp20I	TGGCCA	1 cut(s)	638
MspA1I	CMGCKG	1 cut(s)	61
MspI	CCGG	8 cut(s)	23, 241, 279, 386, 413, 426, 431, 483
MspR9I	CCNGG	5 cut(s)	68, 280, 387, 413, 427
MvaI	CCWGG	1 cut(s)	68
MvnI	CGCG	1 cut(s)	305
MwoI	GCNNNNNNNGC	5 cut(s)	58, 70, 302, 470, 728
NciI	CCSGG	4 cut(s)	280, 387, 413, 427
NlaIII	CATG	1 cut(s)	355
NlaIV	GGNNCC	4 cut(s)	65, 260, 283, 464
NmuCI	GTSAC	2 cut(s)	185, 421
PceI	AGGCCT	1 cut(s)	395
PciSI	GCTCTTC	1 cut(s)	721
PcsI	WCGNNNNNNNCGW	3 cut(s)	131, 159, 306
PfeI	GAWTC	2 cut(s)	143, 682
Pfl23II	CGTACG	1 cut(s)	126
PflFI	GACNNNGTC	2 cut(s)	217, 305
PflMI	CCANNNNNTGG	1 cut(s)	114
PkrI	GCNGC	4 cut(s)	60, 63, 377, 445
PleI	GAGTC	1 cut(s)	127
PpsI	GAGTC	1 cut(s)	127
PpuMI	RGGWCCY	1 cut(s)	259
PshAI	GACNNNNGTC	1 cut(s)	497
Psp124BI	GAGCTC	1 cut(s)	563
Psp5II	RGGWCCY	1 cut(s)	259
Psp6I	CCWGG	1 cut(s)	66
PspEI	GGTNACC	1 cut(s)	421
PspGI	CCWGG	1 cut(s)	66
PspLI	CGTACG	1 cut(s)	126
PspN4I	GGNNCC	4 cut(s)	65, 260, 283, 464
PspOMI	GGGCCC	1 cut(s)	462
PspPPI	RGGWCCY	1 cut(s)	259
PstNI	CAGNNNCTG	1 cut(s)	73
PsyI	GACNNNGTC	2 cut(s)	217, 305
RsaI	GTAC	2 cut(s)	128, 328
RsaNI	GTAC	2 cut(s)	127, 327
Rsr2I	CGGWCCG	1 cut(s)	433
RsrII	CGGWCCG	1 cut(s)	433
SacI	GAGCTC	1 cut(s)	563
SapI	GCTCTTC	1 cut(s)	721
SaqAI	TTAA	1 cut(s)	38
SatI	GCNGC	4 cut(s)	59, 62, 376, 444
SchI	GAGTC	1 cut(s)	128
ScrFI	CCNGG	5 cut(s)	68, 280, 387, 413, 427
SduI	GDGCHC	4 cut(s)	255, 466, 539, 563
SfaNI	GCATC	1 cut(s)	731
SfcI	CTRYAG	3 cut(s)	27, 488, 627
SinI	GGWCC	4 cut(s)	99, 259, 433, 647
Sse9I	AATT	1 cut(s)	530
SseBI	AGGCCT	1 cut(s)	395
SspMI	CTAG	2 cut(s)	440, 702
SstI	GAGCTC	1 cut(s)	563
StuI	AGGCCT	1 cut(s)	395
StyD4I	CCNGG	5 cut(s)	66, 278, 385, 411, 425
TaiI	ACGT	1 cut(s)	137
TaqI	TCGA	4 cut(s)	228, 309, 528, 539
TaqII	GACCGA	1 cut(s)	664
TasI	AATT	1 cut(s)	530
TauI	GCSGC	3 cut(s)	64, 378, 446
TfiI	GAWTC	2 cut(s)	143, 682
Tru1I	TTAA	1 cut(s)	38
Tru9I	TTAA	1 cut(s)	38
TscAI	CASTG	1 cut(s)	328
TseFI	GTSAC	2 cut(s)	185, 421
TseI	GCWGC	1 cut(s)	58
Tsp45I	GTSAC	2 cut(s)	185, 421
TspDTI	ATGAA	2 cut(s)	330, 587
TspGWI	ACGGA	2 cut(s)	557, 726
TspRI	CASTG	1 cut(s)	328
Tth111I	GACNNNGTC	2 cut(s)	217, 305
Van91I	CCANNNNNTGG	1 cut(s)	114
VpaK11BI	GGWCC	4 cut(s)	99, 259, 433, 647
XspI	CTAG	2 cut(s)	440, 702

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