Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0013559

Physical Location & Seq

Genomic Coordinates Forward (+)

54818721 .. 54822005

Gene Structure 3285 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG432900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1545 bp

ATGATGGCCACAGCTGCTGCTGCTGCTGCTGTTGGGCTTAGTAGTACGGGGAAGAGGCTCTTTAGTTCTTCCTTGTATTATTCAGATATCACAGATAAGCTCTTTTATCTCAATGATCACGGCTTTGTAAATTGTCAATTTTCTTCAACAAAGAATGTTGTCACTGCCAGAAAGTCGTCTTCCAATTACAGTAATTCCAGATTTCCATCTTCAAATAGACATCAAGATCAGTCCATCAGGGCTTTAAAAGAGCATGCAGATACCGCATCTGCTCCTTCATCAACCACACATCAATTGCTAGAACATTACAACGACTTGGAGGAGGAAAGCTACGATCTTGAATATTCAGTGGAGGCGCTTCTTCTGCTACAGAAGTCTATGCTGGAAAAGCAGTGGAATCTTTCCTTTGAGAAAAAACTGTCAAGAAGAAAAATAACTGATAAGAAGATACCTGTCACTTGTTCTGGGGTATCTGCTCGGCAGAGGAGGATGAGTACTAGGAGGAAAATTTTCAGCAAAAATACCTTAGAAATGCAACCTAGCATCAACAAGCATCTCAGAGCAAGTATCAGTCCGAGGCTGCTGCAGAATCGTATAAAGGGTTATGTGAAGGGCGTTACGAGTGAGCATTTGCTGACTCACACTGAGGTCGTACGCCTGTCAAAGAAAATTAAGATCGGGCTTTCAGTGGAGGAGCATAAATCAAGACTGAAGGAGAAACTGGGTTGTGAGCCCTCTGACGAACAACTTGCAACTTCATTGAGGATTTCCCGCACTGAACTACATTCAAAGTTAATCCAATGTTCTTTGGCAAGAGAGAAGCTGACAATGAGCAATGTTCGTCTGGTCATGTCCATTGCCCAAAGATATGATAACATGGGTGCTGAAATGGCTGACCTTGTCCAGGGTGGCTTAATTGGACTACTACGCGGGATTGAGAAATTTGATTCATCAAAGGGGTTCAAAATTTCTACTTATGTTTACTGGTGGATACGTCAGGGTGTTTCAAGAGCACTGGTTGAAAATTCAAGAACCTTAAGACTGCCTACACATTTGCATGAGAGGTTAGGGTTAATCAGAAATGCAAAAGTTAGATTGGAAGAGAAAGGAATAACTCCATCTATTGATAGGATTGCAGAAAGCCTGAATATGTCCAAAAAGAAAGTTAGGAATGCTACTGAGGCAATCAGTAAGGTTTTTTCGCTTGATAGAGATGCATTCCCCTCTTTGAATGGCCTTCCAGGAGAAACTCATCATAGTTACATTGCTGATAATCGCCATGAGAACATCCCATGGCATGGGGTGGATGAGTTGGCACTCAAGGATGAAGTAAACAAGCTCATAAATATGATGCTTGTGGAGCGTGAGCGACAGATCATACGGCTTTACTATGGTCTGGATAATGAATGTCTTACATGGGAGGACATTAGTAAACGTATAGGATTGTCCAGAGAAAGAGTTAGGCAAGTCGGACTGGTTGCTCTAGAGAAACTGAAACATGGTGCGAGGAAAAAAGAGATGGAGGCCATGCTAGTCCAACATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000988 GO:0000990 GO:0003674 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006351 GO:0006352 GO:0006355 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009314 GO:0009416 GO:0009507 GO:0009536 GO:0009628 GO:0009889 GO:0009987 GO:0010109 GO:0010467 GO:0010468 GO:0010556 GO:0016070 GO:0016987 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0031323 GO:0031326 GO:0032774 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043254 GO:0044087 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0050789 GO:0050794 GO:0050896 GO:0051128 GO:0051171 GO:0051252 GO:0051716 GO:0051775 GO:0060255 GO:0065007 GO:0071214 GO:0071461 GO:0071478 GO:0071482 GO:0071704 GO:0080005 GO:0080090 GO:0090304 GO:0097659 GO:0104004 GO:0140110 GO:1901360 GO:1901362 GO:1901576 GO:1903506 GO:2000112 GO:2000142 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Sigma70_r2 Sigma70_r3 Sigma70_r4

Protein Analysis

514

Amino Acids

58.63

Weight (kDa)

9.71

Isoelectric Point (pI)

39.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sigma70_r2	PF04542	277 - 344	2.8e-17	Sigma-70 region 2
Sigma70_r3	PF04539	354 - 425	4.6e-13	Sigma-70 region 3
Sigma70_r4	PF04545	452 - 500	2.5e-10	Sigma-70, region 4

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0013559)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G64860 AT1G64860
fragaria_vesca	FvH4_7g34280
malus_domestica	MD01G1240100.v1.1 MD07G1311500.v1.1
prunus_persica	Prupe.2G329700_v2.0.a1 Prupe.2G329700_v2.0.a1
pyrus_communis	pycom01g24680 pycom07g28370
rosa_chinensis	RchiOBHm_Chr1g0384631
rosa_laevigata	RLG00000026025
rosa_multiflora	Rmu_sc0012136.1_g000027
rosa_roxburghii	Rroxscaffold_4G00276510
rosa_samantha	Rh1AG474800 Rh1BG432900 Rh1CG446100 Rh1DG465500
rosa_wichuraiana	Rw1G039780

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	1298
AccII	CGCG	1 cut(s)	930
AciI	CCGC	3 cut(s)	264, 772, 930
AcoI	YGGCCR	1 cut(s)	6
AcsI	RAATTY	4 cut(s)	507, 941, 966, 1024
AcuI	CTGAAG	1 cut(s)	731
AfaI	GTAC	3 cut(s)	46, 496, 654
AfiI	CCNNNNNNNGG	2 cut(s)	904, 1298
AflII	CTTAAG	1 cut(s)	1036
AgsI	TTSAA	9 cut(s)	147, 213, 341, 789, 964, 1008, 1022, 1029, 1231
AjnI	CCWGG	2 cut(s)	903, 1240
AluBI	AGCT	5 cut(s)	14, 100, 330, 823, 1339
AluI	AGCT	5 cut(s)	14, 100, 330, 823, 1339
Alw21I	GWGCWC	1 cut(s)	1015
AlwNI	CAGNNNCTG	1 cut(s)	17
AoxI	GGCC	3 cut(s)	6, 1234, 1524
ApeKI	GCWGC	7 cut(s)	14, 17, 20, 23, 26, 580, 583
ApoI	RAATTY	4 cut(s)	507, 941, 966, 1024
Asp700I	GAANNNNTTC	1 cut(s)	509
AspLEI	GCGC	1 cut(s)	358
BalI	TGGCCA	1 cut(s)	8
BanII	GRGCYC	1 cut(s)	735
BbsI	GAAGAC	1 cut(s)	171
Bbv12I	GWGCWC	1 cut(s)	1015
BbvI	GCAGC	6 cut(s)	4, 7, 10, 13, 567, 570
BccI	CCATC	4 cut(s)	214, 242, 1126, 1513
BceAI	ACGGC	2 cut(s)	136, 1397
BcgI	CGANNNNNNTGC	4 cut(s)	565, 599, 731, 765
BciT130I	CCWGG	2 cut(s)	905, 1242
BciVI	GTATCC	1 cut(s)	984
BclI	TGATCA	1 cut(s)	115
BfaI	CTAG	5 cut(s)	299, 498, 540, 1484, 1532
BfmI	CTRYAG	2 cut(s)	368, 584
BfoI	RGCGCY	1 cut(s)	359
BfrI	CTTAAG	1 cut(s)	1036
BfuI	GTATCC	1 cut(s)	984
BisI	GCNGC	7 cut(s)	15, 18, 21, 24, 27, 581, 584
BlsI	GCNGC	7 cut(s)	16, 19, 22, 25, 28, 582, 585
BmcAI	AGTACT	1 cut(s)	496
Bme1390I	CCNGG	2 cut(s)	905, 1242
BmrFI	CCNGG	2 cut(s)	905, 1242
BmrI	ACTGGG	1 cut(s)	731
BmsI	GCATC	5 cut(s)	275, 552, 562, 1204, 1341
BmuI	ACTGGG	1 cut(s)	731
BpiI	GAAGAC	1 cut(s)	171
BpuEI	CTTGAG	1 cut(s)	1304
BsaBI	GATNNNNATC	1 cut(s)	205
BsaJI	CCNNGG	3 cut(s)	575, 904, 1292
BsaXI	ACNNNNNCTCC	2 cut(s)	478, 508
Bsc4I	CCNNNNNNNGG	2 cut(s)	904, 1298
Bse1I	ACTGG	4 cut(s)	726, 989, 1020, 1479
Bse3DI	GCAATG	3 cut(s)	841, 855, 1263
Bse8I	GATNNNNATC	1 cut(s)	205
BseBI	CCWGG	2 cut(s)	905, 1242
BseDI	CCNNGG	3 cut(s)	575, 904, 1292
BseGI	GGATG	4 cut(s)	495, 1287, 1312, 1330
BseJI	GATNNNNATC	1 cut(s)	205
BseLI	CCNNNNNNNGG	2 cut(s)	904, 1298
BseMI	GCAATG	3 cut(s)	841, 855, 1263
BseMII	CTCAG	3 cut(s)	571, 636, 1170
BseNI	ACTGG	4 cut(s)	726, 989, 1020, 1479
BseRI	GAGGAG	3 cut(s)	335, 499, 707
BseXI	GCAGC	6 cut(s)	4, 7, 10, 13, 567, 570
Bsh1236I	CGCG	1 cut(s)	930
BshFI	GGCC	3 cut(s)	8, 1236, 1526
BsiHKAI	GWGCWC	1 cut(s)	1015
BsiWI	CGTACG	1 cut(s)	652
BslI	CCNNNNNNNGG	2 cut(s)	904, 1298
BsmI	GAATGC	2 cut(s)	1177, 1217
BsnI	GGCC	3 cut(s)	8, 1236, 1526
Bsp1286I	GDGCHC	2 cut(s)	735, 1015
Bsp143I	GATC	5 cut(s)	115, 226, 334, 675, 1374
Bsp19I	CCATGG	1 cut(s)	1292
BspACI	CCGC	3 cut(s)	264, 772, 930
BspANI	GGCC	3 cut(s)	8, 1236, 1526
BspCNI	CTCAG	3 cut(s)	570, 637, 1171
BspFNI	CGCG	1 cut(s)	930
BspMAI	CTGCAG	1 cut(s)	588
BspTI	CTTAAG	1 cut(s)	1036
BsrDI	GCAATG	3 cut(s)	841, 855, 1263
BsrI	ACTGG	4 cut(s)	726, 989, 1020, 1479
BssECI	CCNNGG	3 cut(s)	575, 904, 1292
BssMI	GATC	5 cut(s)	115, 226, 334, 675, 1374
BssT1I	CCWWGG	1 cut(s)	1292
Bst2UI	CCWGG	2 cut(s)	905, 1242
Bst4CI	ACNGT	2 cut(s)	191, 420
Bst6I	CTCTTC	2 cut(s)	47, 1095
BstAFI	CTTAAG	1 cut(s)	1036
BstC8I	GCNNGC	1 cut(s)	255
BstDEI	CTNAG	5 cut(s)	38, 526, 557, 645, 1179
BstDSI	CCRYGG	1 cut(s)	1292
BstENI	CCTNNNNNAGG	1 cut(s)	902
BstF5I	GGATG	4 cut(s)	495, 1287, 1312, 1330
BstFNI	CGCG	1 cut(s)	930
BstH2I	RGCGCY	1 cut(s)	359
BstHHI	GCGC	1 cut(s)	358
BstKTI	GATC	5 cut(s)	118, 229, 337, 678, 1377
BstMBI	GATC	5 cut(s)	115, 226, 334, 675, 1374
BstNI	CCWGG	2 cut(s)	905, 1242
BstNSI	RCATGY	1 cut(s)	257
BstSCI	CCNGG	2 cut(s)	903, 1240
BstSFI	CTRYAG	2 cut(s)	368, 584
BstUI	CGCG	1 cut(s)	930
BstV1I	GCAGC	6 cut(s)	4, 7, 10, 13, 567, 570
BstV2I	GAAGAC	1 cut(s)	171
BsuI	GTATCC	1 cut(s)	984
BsuRI	GGCC	3 cut(s)	8, 1236, 1526
BtgI	CCRYGG	1 cut(s)	1292
BtsCI	GGATG	4 cut(s)	495, 1287, 1312, 1330
BtsI	GCAGTG	2 cut(s)	162, 398
BtsIMutI	CAGTG	7 cut(s)	162, 354, 398, 642, 693, 774, 1013
Cac8I	GCNNGC	1 cut(s)	255
CaiI	CAGNNNCTG	1 cut(s)	17
CfoI	GCGC	1 cut(s)	358
Csp6I	GTAC	3 cut(s)	45, 495, 653
CviQI	GTAC	3 cut(s)	45, 495, 653
DdeI	CTNAG	5 cut(s)	38, 526, 557, 645, 1179
DpnI	GATC	5 cut(s)	117, 228, 336, 677, 1376
DpnII	GATC	5 cut(s)	115, 226, 334, 675, 1374
DraI	TTTAAA	1 cut(s)	246
EaeI	YGGCCR	1 cut(s)	6
Eam1104I	CTCTTC	2 cut(s)	47, 1095
EarI	CTCTTC	2 cut(s)	47, 1095
Eco130I	CCWWGG	1 cut(s)	1292
Eco24I	GRGCYC	1 cut(s)	735
Eco32I	GATATC	1 cut(s)	88
Eco57I	CTGAAG	1 cut(s)	731
EcoNI	CCTNNNNNAGG	1 cut(s)	902
EcoRII	CCWGG	2 cut(s)	903, 1240
EcoRV	GATATC	1 cut(s)	88
EcoT14I	CCWWGG	1 cut(s)	1292
EcoT22I	ATGCAT	1 cut(s)	1219
EcoT38I	GRGCYC	1 cut(s)	735
ErhI	CCWWGG	1 cut(s)	1292
FalI	AAGNNNNNCTT	2 cut(s)	44, 76
FauI	CCCGC	2 cut(s)	779, 923
FbaI	TGATCA	1 cut(s)	115
Fnu4HI	GCNGC	7 cut(s)	15, 18, 21, 24, 27, 581, 584
FokI	GGATG	4 cut(s)	502, 1274, 1319, 1337
FriOI	GRGCYC	1 cut(s)	735
Fsp4HI	GCNGC	7 cut(s)	15, 18, 21, 24, 27, 581, 584
FspBI	CTAG	5 cut(s)	299, 498, 540, 1484, 1532
GlaI	GCGC	1 cut(s)	357
GluI	GCNGC	7 cut(s)	15, 18, 21, 24, 27, 581, 584
HaeII	RGCGCY	1 cut(s)	359
HaeIII	GGCC	3 cut(s)	8, 1236, 1526
HhaI	GCGC	1 cut(s)	358
Hin6I	GCGC	1 cut(s)	356
HinP1I	GCGC	1 cut(s)	356
HinfI	GANTC	4 cut(s)	397, 589, 637, 947
Hpy166II	GTNNAC	3 cut(s)	982, 1333, 1433
Hpy188I	TCNGA	6 cut(s)	85, 560, 576, 739, 1079, 1472
Hpy8I	GTNNAC	3 cut(s)	982, 1333, 1433
HpyAV	CCTTC	4 cut(s)	285, 604, 706, 1247
HpyCH4III	ACNGT	2 cut(s)	191, 420
HpyCH4IV	ACGT	2 cut(s)	994, 1435
HpyCH4V	TGCA	8 cut(s)	257, 535, 586, 752, 1057, 1085, 1136, 1217
HpyF3I	CTNAG	5 cut(s)	38, 526, 557, 645, 1179
HpySE526I	ACGT	2 cut(s)	994, 1435
HspAI	GCGC	1 cut(s)	356
Ksp22I	TGATCA	1 cut(s)	115
Kzo9I	GATC	5 cut(s)	115, 226, 334, 675, 1374
LmnI	GCTCC	3 cut(s)	277, 694, 1360
Lsp1109I	GCAGC	6 cut(s)	4, 7, 10, 13, 567, 570
LweI	GCATC	5 cut(s)	275, 552, 562, 1204, 1341
MaeI	CTAG	5 cut(s)	299, 498, 540, 1484, 1532
MaeII	ACGT	2 cut(s)	994, 1435
MaeIII	GTNAC	4 cut(s)	160, 454, 616, 1259
MalI	GATC	5 cut(s)	117, 228, 336, 677, 1376
MboI	GATC	5 cut(s)	115, 226, 334, 675, 1374
MboII	GAAGA	9 cut(s)	60, 64, 135, 171, 201, 353, 438, 457, 1112
MfeI	CAATTG	1 cut(s)	293
MhlI	GDGCHC	2 cut(s)	735, 1015
MlsI	TGGCCA	1 cut(s)	8
MluNI	TGGCCA	1 cut(s)	8
MlyI	GAGTC	1 cut(s)	631
MmeI	TCCRAC	1 cut(s)	1450
Mox20I	TGGCCA	1 cut(s)	8
Mph1103I	ATGCAT	1 cut(s)	1219
MroXI	GAANNNNTTC	1 cut(s)	509
MscI	TGGCCA	1 cut(s)	8
MseI	TTAA	7 cut(s)	245, 672, 794, 914, 1037, 1073, 1543
MslI	CAYNNNNRTG	2 cut(s)	1056, 1346
Msp20I	TGGCCA	1 cut(s)	8
MspA1I	CMGCKG	1 cut(s)	14
MspCI	CTTAAG	1 cut(s)	1036
MspR9I	CCNGG	2 cut(s)	905, 1242
MunI	CAATTG	1 cut(s)	293
Mva1269I	GAATGC	2 cut(s)	1177, 1217
MvaI	CCWGG	2 cut(s)	905, 1242
MvnI	CGCG	1 cut(s)	930
NcoI	CCATGG	1 cut(s)	1292
NdeII	GATC	5 cut(s)	115, 226, 334, 675, 1374
NmeAIII	GCCGAG	1 cut(s)	457
NmuCI	GTSAC	2 cut(s)	160, 454
NsiI	ATGCAT	1 cut(s)	1219
NspI	RCATGY	1 cut(s)	257
PaeI	GCATGC	1 cut(s)	257
PctI	GAATGC	2 cut(s)	1177, 1217
PdmI	GAANNNNTTC	1 cut(s)	509
PfeI	GAWTC	3 cut(s)	397, 589, 947
Pfl23II	CGTACG	1 cut(s)	652
PflFI	GACNNNGTC	1 cut(s)	899
PflMI	CCANNNNNTGG	1 cut(s)	1298
PfoI	TCCNGGA	1 cut(s)	1240
PkrI	GCNGC	7 cut(s)	16, 19, 22, 25, 28, 582, 585
PleI	GAGTC	1 cut(s)	631
PpsI	GAGTC	1 cut(s)	631
Psp6I	CCWGG	2 cut(s)	903, 1240
PspGI	CCWGG	2 cut(s)	903, 1240
PspLI	CGTACG	1 cut(s)	652
PstI	CTGCAG	1 cut(s)	588
PstNI	CAGNNNCTG	1 cut(s)	17
PsyI	GACNNNGTC	1 cut(s)	899
PvuII	CAGCTG	1 cut(s)	14
RsaI	GTAC	3 cut(s)	46, 496, 654
RsaNI	GTAC	3 cut(s)	45, 495, 653
RseI	CAYNNNNRTG	2 cut(s)	1056, 1346
SaqAI	TTAA	7 cut(s)	245, 672, 794, 914, 1037, 1073, 1543
SatI	GCNGC	7 cut(s)	15, 18, 21, 24, 27, 581, 584
Sau3AI	GATC	5 cut(s)	115, 226, 334, 675, 1374
ScaI	AGTACT	1 cut(s)	496
SchI	GAGTC	1 cut(s)	631
ScrFI	CCNGG	2 cut(s)	905, 1242
SduI	GDGCHC	2 cut(s)	735, 1015
SfaNI	GCATC	5 cut(s)	275, 552, 562, 1204, 1341
SfcI	CTRYAG	2 cut(s)	368, 584
SmiMI	CAYNNNNRTG	2 cut(s)	1056, 1346
SmlI	CTYRAG	2 cut(s)	1036, 1319
SmoI	CTYRAG	2 cut(s)	1036, 1319
SphI	GCATGC	1 cut(s)	257
SsiI	CCGC	3 cut(s)	264, 772, 930
SspI	AATATT	1 cut(s)	344
SspMI	CTAG	5 cut(s)	299, 498, 540, 1484, 1532
StyD4I	CCNGG	2 cut(s)	903, 1240
StyI	CCWWGG	1 cut(s)	1292
TaaI	ACNGT	2 cut(s)	191, 420
TaiI	ACGT	2 cut(s)	997, 1438
TatI	WGTACW	1 cut(s)	494
TfiI	GAWTC	3 cut(s)	397, 589, 947
Tru1I	TTAA	7 cut(s)	245, 672, 794, 914, 1037, 1073, 1543
Tru9I	TTAA	7 cut(s)	245, 672, 794, 914, 1037, 1073, 1543
TscAI	CASTG	7 cut(s)	169, 354, 398, 649, 693, 781, 1020
TseFI	GTSAC	2 cut(s)	160, 454
TseI	GCWGC	7 cut(s)	14, 17, 20, 23, 26, 580, 583
Tsp45I	GTSAC	2 cut(s)	160, 454
TspDTI	ATGAA	5 cut(s)	267, 747, 939, 1341, 1419
TspRI	CASTG	7 cut(s)	169, 354, 398, 649, 693, 781, 1020
Tth111I	GACNNNGTC	1 cut(s)	899
Van91I	CCANNNNNTGG	1 cut(s)	1298
Vha464I	CTTAAG	1 cut(s)	1036
XagI	CCTNNNNNAGG	1 cut(s)	902
XapI	RAATTY	4 cut(s)	507, 941, 966, 1024
XbaI	TCTAGA	1 cut(s)	1483
XceI	RCATGY	1 cut(s)	257
XmnI	GAANNNNTTC	1 cut(s)	509
XspI	CTAG	5 cut(s)	299, 498, 540, 1484, 1532
ZrmI	AGTACT	1 cut(s)	496
Zsp2I	ATGCAT	1 cut(s)	1219

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