Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0003580

Physical Location & Seq

Genomic Coordinates Reverse (-)

85546552 .. 85554615

Gene Structure 8064 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG540600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 735 bp

ATGTCGGACTATCTTCACTCTCCGGCTGTAGAGCCGTTTAGCCTGCAGCTGCGGCTCCAGGCGCTGATCGAGGGCGCCAGGGAGAACTGGACCTATGCCATCTTCTGGCAGTCGTCGTACGACATGTCGGGAGATTCCGTTCTCGGGTGGGGCGACGGGTTCTACAAGGACGAGAGTGATGAATGGAAAGCGAGGCCCAAAAAGATGACGTCATTAGTCGAGCAGGAGCACCGGAAGAAAGTGCTCAGGGAACTCAACTCTTTGATTTCTGGGGCCGACACCACCGCCGACGACGAGGTCGTAGATCAAGTCACTGGTACAGAATGGTTCTTCCTTGTTTCCATGACCCATAGTTTCCTCAACGGCGGCGGGTTGCCGGGTCAGGCCTTTTTCTATTCCAACCCGGTCTGGGTCACCGGGCCGGACCGCCTAGCGGCGTCCTCCTGCGAGCGGGCCCGCCAAGCTCAGGTCTCCGGCCTACAGACTATGGTCTGCGTCCCGACGGCGAATGGGGTGGTCGAATTGGGCTCGACGGAGCTGATATTCCAGAGCTCGGATGTGATGAACGAGGCCCGAGTATTGTTTGATTTCAATAATCTTGAAGTCGGCTCTTGGCCTGTAGCTCCGGCCACTTCAGGACCGAGTAGCAGTAACCATCACATCTCTAAGCCGATTCAGTTTGACAACTACCCTAGTTCCACAACCGAAGATTGGCTCGAAGTAACAGAGAGATAA

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

244

Amino Acids

27.14

Weight (kDa)

4.58

Isoelectric Point (pI)

48.26

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
bHLH-MYC_N	PF14215	15 - 195	4.6e-55	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)	296
AatII	GACGTC	1 cut(s)	212
AccB1I	GGYRCC	1 cut(s)	74
AccB7I	CCANNNNNTGG	1 cut(s)	105
AccBSI	CCGCTC	1 cut(s)	451
AciI	CCGC	8 cut(s)	52, 285, 366, 369, 427, 434, 451, 457
AcoI	YGGCCR	1 cut(s)	627
AcuI	CTGAAG	1 cut(s)	618
AcyI	GRCGYC	3 cut(s)	75, 209, 437
AfaI	GTAC	2 cut(s)	119, 319
AfiI	CCNNNNNNNGG	8 cut(s)	105, 144, 409, 433, 450, 466, 553, 711
AflIII	ACRYGT	1 cut(s)	123
AgsI	TTSAA	2 cut(s)	592, 602
AjnI	CCWGG	2 cut(s)	57, 77
AloI	GAACNNNNNNTCC	2 cut(s)	123, 155
AluBI	AGCT	5 cut(s)	49, 464, 538, 552, 623
AluI	AGCT	5 cut(s)	49, 464, 538, 552, 623
Alw21I	GWGCWC	3 cut(s)	231, 246, 554
Alw26I	GTCTC	1 cut(s)	475
AlwNI	CAGNNNCTG	1 cut(s)	64
Ama87I	CYCGRG	2 cut(s)	143, 573
AoxI	GGCC	9 cut(s)	194, 273, 384, 419, 453, 475, 570, 614, 627
ApaI	GGGCCC	1 cut(s)	457
ApeKI	GCWGC	2 cut(s)	46, 49
AspLEI	GCGC	2 cut(s)	64, 77
AspS9I	GGNCC	9 cut(s)	90, 195, 273, 419, 424, 453, 454, 571, 638
AsuC2I	CCSGG	3 cut(s)	378, 404, 418
AsuHPI	GGTGA	1 cut(s)	406
AvaI	CYCGRG	2 cut(s)	143, 573
AvaII	GGWCC	3 cut(s)	90, 424, 638
BaeGI	GKGCMC	1 cut(s)	457
BanI	GGYRCC	1 cut(s)	74
BanII	GRGCYC	3 cut(s)	457, 530, 554
Bbv12I	GWGCWC	3 cut(s)	231, 246, 554
BbvI	GCAGC	2 cut(s)	36, 58
BccI	CCATC	2 cut(s)	107, 663
BceAI	ACGGC	3 cut(s)	19, 379, 519
BciT130I	CCWGG	2 cut(s)	59, 79
BcnI	CCSGG	3 cut(s)	378, 404, 418
BcoDI	GTCTC	1 cut(s)	475
BfaI	CTAG	2 cut(s)	431, 693
BfmI	CTRYAG	4 cut(s)	27, 44, 479, 618
BfoI	RGCGCY	2 cut(s)	65, 78
BisI	GCNGC	5 cut(s)	47, 50, 53, 367, 435
BlsI	GCNGC	5 cut(s)	48, 51, 54, 368, 436
Bme1390I	CCNGG	5 cut(s)	59, 79, 378, 404, 418
Bme18I	GGWCC	3 cut(s)	90, 424, 638
BmeT110I	CYCGRG	2 cut(s)	143, 573
BmgT120I	GGNCC	9 cut(s)	90, 195, 273, 419, 424, 453, 454, 571, 638
BmiI	GGNNCC	4 cut(s)	56, 76, 274, 455
BmrFI	CCNGG	5 cut(s)	59, 79, 378, 404, 418
BoxI	GACNNNNGTC	1 cut(s)	488
BpmI	CTGGAG	1 cut(s)	41
Bpu10I	CCTNAGC	2 cut(s)	245, 465
BpuMI	CCSGG	3 cut(s)	378, 404, 418
BsaHI	GRCGYC	3 cut(s)	75, 209, 437
BsaI	GGTCTC	1 cut(s)	475
BsaJI	CCNNGG	1 cut(s)	78
BsaWI	WCCGGW	1 cut(s)	231
BsaXI	ACNNNNNCTCC	2 cut(s)	123, 153
Bsc4I	CCNNNNNNNGG	8 cut(s)	105, 144, 409, 433, 450, 466, 553, 711
Bse1I	ACTGG	2 cut(s)	92, 319
BseBI	CCWGG	2 cut(s)	59, 79
BseDI	CCNNGG	1 cut(s)	78
BseGI	GGATG	1 cut(s)	562
BseLI	CCNNNNNNNGG	8 cut(s)	105, 144, 409, 433, 450, 466, 553, 711
BseMII	CTCAG	2 cut(s)	259, 479
BseNI	ACTGG	2 cut(s)	92, 319
BseSI	GKGCMC	1 cut(s)	457
BseXI	GCAGC	2 cut(s)	36, 58
BshFI	GGCC	9 cut(s)	196, 275, 386, 421, 455, 477, 572, 616, 629
BshNI	GGYRCC	1 cut(s)	74
BsiHKAI	GWGCWC	3 cut(s)	231, 246, 554
BsiHKCI	CYCGRG	2 cut(s)	143, 573
BsiSI	CCGG	8 cut(s)	23, 232, 377, 404, 417, 422, 474, 626
BsiWI	CGTACG	1 cut(s)	117
BslFI	GGGAC	1 cut(s)	482
BslI	CCNNNNNNNGG	8 cut(s)	105, 144, 409, 433, 450, 466, 553, 711
BsmAI	GTCTC	1 cut(s)	475
BsmFI	GGGAC	1 cut(s)	482
BsnI	GGCC	9 cut(s)	196, 275, 386, 421, 455, 477, 572, 616, 629
Bso31I	GGTCTC	1 cut(s)	475
BsoBI	CYCGRG	2 cut(s)	143, 573
Bsp120I	GGGCCC	1 cut(s)	453
Bsp1286I	GDGCHC	5 cut(s)	231, 246, 457, 530, 554
Bsp143I	GATC	2 cut(s)	66, 304
BspACI	CCGC	8 cut(s)	52, 285, 366, 369, 427, 434, 451, 457
BspANI	GGCC	9 cut(s)	196, 275, 386, 421, 455, 477, 572, 616, 629
BspCNI	CTCAG	2 cut(s)	258, 478
BspLI	GGNNCC	4 cut(s)	56, 76, 274, 455
BspMAI	CTGCAG	1 cut(s)	48
BspT107I	GGYRCC	1 cut(s)	74
BspTNI	GGTCTC	1 cut(s)	475
BsrBI	CCGCTC	1 cut(s)	451
BsrI	ACTGG	2 cut(s)	92, 319
BssECI	CCNNGG	1 cut(s)	78
BssMI	GATC	2 cut(s)	66, 304
BssNI	GRCGYC	3 cut(s)	75, 209, 437
Bst2UI	CCWGG	2 cut(s)	59, 79
BstACI	GRCGYC	3 cut(s)	75, 209, 437
BstC8I	GCNNGC	4 cut(s)	44, 449, 453, 457
BstDEI	CTNAG	3 cut(s)	245, 465, 666
BstEII	GGTNACC	1 cut(s)	412
BstF5I	GGATG	1 cut(s)	562
BstH2I	RGCGCY	2 cut(s)	65, 78
BstHHI	GCGC	2 cut(s)	64, 77
BstKTI	GATC	2 cut(s)	69, 307
BstMAI	GTCTC	1 cut(s)	475
BstMBI	GATC	2 cut(s)	66, 304
BstMWI	GCNNNNNNNGC	3 cut(s)	52, 61, 461
BstNI	CCWGG	2 cut(s)	59, 79
BstNSI	RCATGY	1 cut(s)	127
BstPAI	GACNNNNGTC	1 cut(s)	488
BstPI	GGTNACC	1 cut(s)	412
BstSCI	CCNGG	5 cut(s)	57, 77, 376, 402, 416
BstSFI	CTRYAG	4 cut(s)	27, 44, 479, 618
BstSLI	GKGCMC	1 cut(s)	457
BstV1I	GCAGC	2 cut(s)	36, 58
BsuRI	GGCC	9 cut(s)	196, 275, 386, 421, 455, 477, 572, 616, 629
BtsCI	GGATG	1 cut(s)	562
BtsIMutI	CAGTG	1 cut(s)	312
Cac8I	GCNNGC	4 cut(s)	44, 449, 453, 457
CaiI	CAGNNNCTG	1 cut(s)	64
CfoI	GCGC	2 cut(s)	64, 77
Cfr13I	GGNCC	9 cut(s)	90, 195, 273, 419, 424, 453, 454, 571, 638
CpoI	CGGWCCG	1 cut(s)	424
CseI	GACGC	2 cut(s)	426, 484
Csp6I	GTAC	2 cut(s)	118, 318
CspI	CGGWCCG	1 cut(s)	424
CviAII	CATG	2 cut(s)	124, 343
CviQI	GTAC	2 cut(s)	118, 318
DdeI	CTNAG	3 cut(s)	245, 465, 666
DinI	GGCGCC	1 cut(s)	76
DpnI	GATC	2 cut(s)	68, 306
DpnII	GATC	2 cut(s)	66, 304
DrdI	GACNNNNNNGTC	1 cut(s)	296
DseDI	GACNNNNNNGTC	1 cut(s)	296
EaeI	YGGCCR	1 cut(s)	627
Ecl136II	GAGCTC	1 cut(s)	552
Eco147I	AGGCCT	1 cut(s)	386
Eco24I	GRGCYC	3 cut(s)	457, 530, 554
Eco31I	GGTCTC	1 cut(s)	475
Eco47I	GGWCC	3 cut(s)	90, 424, 638
Eco53kI	GAGCTC	1 cut(s)	552
Eco57I	CTGAAG	1 cut(s)	618
Eco88I	CYCGRG	2 cut(s)	143, 573
Eco91I	GGTNACC	1 cut(s)	412
EcoICRI	GAGCTC	1 cut(s)	552
EcoO65I	GGTNACC	1 cut(s)	412
EcoRII	CCWGG	2 cut(s)	57, 77
EcoT38I	GRGCYC	3 cut(s)	457, 530, 554
EgeI	GGCGCC	1 cut(s)	76
EheI	GGCGCC	1 cut(s)	76
FaeI	CATG	2 cut(s)	127, 346
FaiI	YATR	5 cut(s)	96, 125, 344, 351, 488
FaqI	GGGAC	1 cut(s)	482
FatI	CATG	2 cut(s)	123, 342
FauI	CCCGC	3 cut(s)	362, 444, 464
Fnu4HI	GCNGC	5 cut(s)	47, 50, 53, 367, 435
FokI	GGATG	1 cut(s)	569
FriOI	GRGCYC	3 cut(s)	457, 530, 554
Fsp4HI	GCNGC	5 cut(s)	47, 50, 53, 367, 435
FspBI	CTAG	2 cut(s)	431, 693
GlaI	GCGC	2 cut(s)	63, 76
GluI	GCNGC	5 cut(s)	47, 50, 53, 367, 435
GsuI	CTGGAG	1 cut(s)	41
HaeII	RGCGCY	2 cut(s)	65, 78
HaeIII	GGCC	9 cut(s)	196, 275, 386, 421, 455, 477, 572, 616, 629
HapII	CCGG	8 cut(s)	23, 232, 377, 404, 417, 422, 474, 626
HgaI	GACGC	2 cut(s)	426, 484
HhaI	GCGC	2 cut(s)	64, 77
Hin1I	GRCGYC	3 cut(s)	75, 209, 437
Hin1II	CATG	2 cut(s)	127, 346
Hin6I	GCGC	2 cut(s)	62, 75
HinP1I	GCGC	2 cut(s)	62, 75
HinfI	GANTC	2 cut(s)	134, 673
HpaII	CCGG	8 cut(s)	23, 232, 377, 404, 417, 422, 474, 626
HphI	GGTGA	1 cut(s)	406
Hpy188I	TCNGA	2 cut(s)	7, 556
Hpy188III	TCNNGA	5 cut(s)	129, 499, 547, 599, 636
Hpy99I	CGWCG	6 cut(s)	118, 158, 293, 296, 505, 535
HpyCH4IV	ACGT	1 cut(s)	209
HpyCH4V	TGCA	1 cut(s)	46
HpyF10VI	GCNNNNNNNGC	3 cut(s)	52, 61, 461
HpyF3I	CTNAG	3 cut(s)	245, 465, 666
HpySE526I	ACGT	1 cut(s)	209
Hsp92I	GRCGYC	3 cut(s)	75, 209, 437
Hsp92II	CATG	2 cut(s)	127, 346
HspAI	GCGC	2 cut(s)	62, 75
KasI	GGCGCC	1 cut(s)	74
Kzo9I	GATC	2 cut(s)	66, 304
LmnI	GCTCC	4 cut(s)	60, 226, 535, 628
Lsp1109I	GCAGC	2 cut(s)	36, 58
MaeI	CTAG	2 cut(s)	431, 693
MaeII	ACGT	1 cut(s)	209
MaeIII	GTNAC	4 cut(s)	310, 412, 650, 721
MalI	GATC	2 cut(s)	68, 306
MbiI	CCGCTC	1 cut(s)	451
MboI	GATC	2 cut(s)	66, 304
MboII	GAAGA	5 cut(s)	5, 94, 247, 322, 719
MhlI	GDGCHC	5 cut(s)	231, 246, 457, 530, 554
MluCI	AATT	1 cut(s)	521
Mly113I	GGCGCC	1 cut(s)	75
MmeI	TCCRAC	1 cut(s)	423
MnlI	CCTC	6 cut(s)	64, 186, 289, 368, 451, 562
MspA1I	CMGCKG	1 cut(s)	49
MspI	CCGG	8 cut(s)	23, 232, 377, 404, 417, 422, 474, 626
MspR9I	CCNGG	5 cut(s)	59, 79, 378, 404, 418
MvaI	CCWGG	2 cut(s)	59, 79
MwoI	GCNNNNNNNGC	3 cut(s)	52, 61, 461
NarI	GGCGCC	1 cut(s)	75
NciI	CCSGG	3 cut(s)	378, 404, 418
NdeII	GATC	2 cut(s)	66, 304
NlaIII	CATG	2 cut(s)	127, 346
NlaIV	GGNNCC	4 cut(s)	56, 76, 274, 455
NmuCI	GTSAC	2 cut(s)	310, 412
NspI	RCATGY	1 cut(s)	127
PceI	AGGCCT	1 cut(s)	386
PciI	ACATGT	1 cut(s)	123
PcsI	WCGNNNNNNNCGW	2 cut(s)	150, 297
PfeI	GAWTC	2 cut(s)	134, 673
Pfl23II	CGTACG	1 cut(s)	117
PflFI	GACNNNGTC	1 cut(s)	296
PflMI	CCANNNNNTGG	1 cut(s)	105
PkrI	GCNGC	5 cut(s)	48, 51, 54, 368, 436
PluTI	GGCGCC	1 cut(s)	78
PscI	ACATGT	1 cut(s)	123
PshAI	GACNNNNGTC	1 cut(s)	488
Psp124BI	GAGCTC	1 cut(s)	554
Psp6I	CCWGG	2 cut(s)	57, 77
PspEI	GGTNACC	1 cut(s)	412
PspGI	CCWGG	2 cut(s)	57, 77
PspLI	CGTACG	1 cut(s)	117
PspN4I	GGNNCC	4 cut(s)	56, 76, 274, 455
PspOMI	GGGCCC	1 cut(s)	453
PspPI	GGNCC	9 cut(s)	90, 195, 273, 419, 424, 453, 454, 571, 638
PstI	CTGCAG	1 cut(s)	48
PstNI	CAGNNNCTG	1 cut(s)	64
PsyI	GACNNNGTC	1 cut(s)	296
PvuII	CAGCTG	1 cut(s)	49
RsaI	GTAC	2 cut(s)	119, 319
RsaNI	GTAC	2 cut(s)	118, 318
Rsr2I	CGGWCCG	1 cut(s)	424
RsrII	CGGWCCG	1 cut(s)	424
SacI	GAGCTC	1 cut(s)	554
SatI	GCNGC	5 cut(s)	47, 50, 53, 367, 435
Sau3AI	GATC	2 cut(s)	66, 304
Sau96I	GGNCC	9 cut(s)	90, 195, 273, 419, 424, 453, 454, 571, 638
ScrFI	CCNGG	5 cut(s)	59, 79, 378, 404, 418
SduI	GDGCHC	5 cut(s)	231, 246, 457, 530, 554
SetI	ASST	9 cut(s)	51, 95, 212, 300, 466, 471, 540, 554, 625
SfcI	CTRYAG	4 cut(s)	27, 44, 479, 618
SfoI	GGCGCC	1 cut(s)	76
SinI	GGWCC	3 cut(s)	90, 424, 638
Sse9I	AATT	1 cut(s)	521
SseBI	AGGCCT	1 cut(s)	386
SsiI	CCGC	8 cut(s)	52, 285, 366, 369, 427, 434, 451, 457
SspDI	GGCGCC	1 cut(s)	74
SspMI	CTAG	2 cut(s)	431, 693
SstI	GAGCTC	1 cut(s)	554
StuI	AGGCCT	1 cut(s)	386
StyD4I	CCNGG	5 cut(s)	57, 77, 376, 402, 416
TaiI	ACGT	1 cut(s)	212
TaqI	TCGA	5 cut(s)	69, 219, 519, 530, 717
TaqII	GACCGA	1 cut(s)	655
TasI	AATT	1 cut(s)	521
TauI	GCSGC	3 cut(s)	55, 369, 437
TfiI	GAWTC	2 cut(s)	134, 673
TscAI	CASTG	1 cut(s)	319
TseFI	GTSAC	2 cut(s)	310, 412
TseI	GCWGC	2 cut(s)	46, 49
Tsp45I	GTSAC	2 cut(s)	310, 412
TspDTI	ATGAA	2 cut(s)	195, 578
TspGWI	ACGGA	2 cut(s)	127, 548
TspRI	CASTG	1 cut(s)	319
Tth111I	GACNNNGTC	1 cut(s)	296
Van91I	CCANNNNNTGG	1 cut(s)	105
VpaK11BI	GGWCC	3 cut(s)	90, 424, 638
XceI	RCATGY	1 cut(s)	127
XspI	CTAG	2 cut(s)	431, 693
ZraI	GACGTC	1 cut(s)	210

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