Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0013559

Physical Location & Seq

Genomic Coordinates Forward (+)

68571550 .. 68575991

Gene Structure 4442 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG474800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1548 bp

ATGATGGCCACAGCTGCTGCTGCTGCTGCTGTTGGGCTTAGTAGTACGGGGAAGAGGCTCTTTAGTTCTTCCTTGTATTATTCAGATATCACAGATAAGCTCTTTTATCTCAATGATCACGGCTTTGTAAATTGTCAATTATCTTCAACAAAGAATGTTGTCACTGCCAGAAAGTCGTCTTCCAATTACAGTAATTCCAGATTTCCATCTTCCAATAGACATCAAGATCAGTCCATCAGGGCTTTAAAAGAGCATGCAGATACCGCATCTGCTCCTTCATCAACCACACATCAATTGCTAGAAGATTACAACAACGACTTGGAGGAGGAAAGCTCCGATCTTGAATATTCAGTGGAGGCGCTTCTTCTGCTACAGAAGTCTATGCTGGAAAAGCAGTGGAATCTTTCCTTTGAGAAAAAACTGTCAAGAAGAAAAATAACTGATAAGAAGATACCTGTCACTTGTTCTGGGGTATCTGCTCGGCAGAGGAGGATGAGTACTAAGAGGAAAACTTTCAGCAAAAATACTTTAGAAATGCAACCCAGCATCAACAAGCATCTCAGAGCAAGTATCAGTCCGAGGCTGCTGCAGAATCGTATAAAGGGTTATGTGAAGGGCGTTACGTGTGAGCATTTGCTGACTCACACTGAGGTCGTCCGCCTGTCAAAGAAAATTAAGATCGGGCTTTCAGTGGAGGAGCATAAATCAAGACTGAAGGAGAAACTGGGTTGTGAGCCCTCTGACGAACAACTCGCAACTTCATTGAGGATTTCCCGCACTGAACTACAGTCAAAGTTAATCCAATGTTCTTTGGCAAGAGAGAAGCTGACAATGAGCAATGTTCGTCTGGTCATGTCCATTGCCCAAAGATATGATAACATGGGTGCTGAAATGGCTGACCTTGTCCAGGGTGGCTTAATTGGACTACTACGCGGGATTGAAAAATTTGATTCATCAAAGGGGTTCAAAATTTCTACTTATGTTTACTGGTGGATACGTCAGGGTGTTTCAAGAGCACTGGTTGAAAATTCAAGAACCTTAAGACTGCCTACACATTTGCATGAGAGGTTAGGGTTAATCAGAAATGCAAAAGTTAGATTGGAAGAGAAAGGAATAACTCCATCTATTGATAGGATTGCAGAAAGCCTGAATATGTCCAAAAAGAAAGTTAGGAATGCTACTGAGGCAATCAGTAAGGTTTTTTCGCTTGATAGAGATGCATTCCCCTCTTTGAATGGCCTTCCAGGAGAAACTCATCATAGTTACATTGCTGATAATCGCCATGAGAACATCCCATGGCATGGGGTGGATGAGTTGGCACTCAAGGATGAAGTAAACAAGCTCATAAATATGATGCTTGTGGAGCGTGAGCGAGAGATCATACGGCTTTACTATGGTCTGGATAATGAATGTCTTACATGGGAGGACATTAGTAAACGTATAGGATTGTCCAGAGAAAGAGTTAGGCAAGTCGGACTGGTTGCTCTAGAGAAACTGAAACATGGTGCGAGGAAAAAAGAGATGGAGGCCATGCTAGTCCAACATTAA

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

515

Amino Acids

58.58

Weight (kDa)

9.61

Isoelectric Point (pI)

40.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sigma70_r2	PF04542	278 - 345	2.8e-17	Sigma-70 region 2
Sigma70_r3	PF04539	355 - 426	4.6e-13	Sigma-70 region 3
Sigma70_r4	PF04545	453 - 501	4e-10	Sigma-70, region 4

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: 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)	1301
AccII	CGCG	1 cut(s)	933
AciI	CCGC	4 cut(s)	264, 658, 775, 933
AcoI	YGGCCR	1 cut(s)	6
AcsI	RAATTY	3 cut(s)	944, 969, 1027
AcuI	CTGAAG	1 cut(s)	734
AfaI	GTAC	2 cut(s)	46, 499
AfiI	CCNNNNNNNGG	2 cut(s)	907, 1301
AflII	CTTAAG	1 cut(s)	1039
AflIII	ACRYGT	1 cut(s)	623
AgsI	TTSAA	8 cut(s)	147, 344, 941, 967, 1011, 1025, 1032, 1234
AjnI	CCWGG	2 cut(s)	906, 1243
AluBI	AGCT	5 cut(s)	14, 100, 333, 826, 1342
AluI	AGCT	5 cut(s)	14, 100, 333, 826, 1342
Alw21I	GWGCWC	1 cut(s)	1018
AlwNI	CAGNNNCTG	1 cut(s)	17
AoxI	GGCC	3 cut(s)	6, 1237, 1527
ApeKI	GCWGC	7 cut(s)	14, 17, 20, 23, 26, 583, 586
ApoI	RAATTY	3 cut(s)	944, 969, 1027
Asp700I	GAANNNNTTC	1 cut(s)	512
AspLEI	GCGC	1 cut(s)	361
BalI	TGGCCA	1 cut(s)	8
BanII	GRGCYC	1 cut(s)	738
BbsI	GAAGAC	1 cut(s)	171
Bbv12I	GWGCWC	1 cut(s)	1018
BbvI	GCAGC	6 cut(s)	4, 7, 10, 13, 570, 573
BccI	CCATC	4 cut(s)	214, 242, 1129, 1516
BceAI	ACGGC	2 cut(s)	136, 1400
BcgI	CGANNNNNNTGC	2 cut(s)	568, 602
BciT130I	CCWGG	2 cut(s)	908, 1245
BciVI	GTATCC	1 cut(s)	987
BclI	TGATCA	1 cut(s)	115
BfaI	CTAG	3 cut(s)	299, 1487, 1535
BfmI	CTRYAG	3 cut(s)	371, 587, 785
BfoI	RGCGCY	1 cut(s)	362
BfrI	CTTAAG	1 cut(s)	1039
BfuI	GTATCC	1 cut(s)	987
BisI	GCNGC	7 cut(s)	15, 18, 21, 24, 27, 584, 587
BlsI	GCNGC	7 cut(s)	16, 19, 22, 25, 28, 585, 588
BmcAI	AGTACT	1 cut(s)	499
Bme1390I	CCNGG	2 cut(s)	908, 1245
BmrFI	CCNGG	2 cut(s)	908, 1245
BmrI	ACTGGG	1 cut(s)	734
BmsI	GCATC	5 cut(s)	275, 555, 565, 1207, 1344
BmuI	ACTGGG	1 cut(s)	734
BpiI	GAAGAC	1 cut(s)	171
BplI	GAGNNNNNCTC	2 cut(s)	317, 349
BpuEI	CTTGAG	1 cut(s)	1307
BsaAI	YACGTR	1 cut(s)	624
BsaBI	GATNNNNATC	1 cut(s)	205
BsaJI	CCNNGG	3 cut(s)	578, 907, 1295
BsaXI	ACNNNNNCTCC	2 cut(s)	481, 511
Bsc4I	CCNNNNNNNGG	2 cut(s)	907, 1301
Bse1I	ACTGG	4 cut(s)	729, 992, 1023, 1482
Bse3DI	GCAATG	3 cut(s)	844, 858, 1266
Bse8I	GATNNNNATC	1 cut(s)	205
BseBI	CCWGG	2 cut(s)	908, 1245
BseDI	CCNNGG	3 cut(s)	578, 907, 1295
BseGI	GGATG	4 cut(s)	498, 1290, 1315, 1333
BseJI	GATNNNNATC	1 cut(s)	205
BseLI	CCNNNNNNNGG	2 cut(s)	907, 1301
BseMI	GCAATG	3 cut(s)	844, 858, 1266
BseMII	CTCAG	3 cut(s)	574, 639, 1173
BseNI	ACTGG	4 cut(s)	729, 992, 1023, 1482
BseRI	GAGGAG	3 cut(s)	338, 502, 710
BseXI	GCAGC	6 cut(s)	4, 7, 10, 13, 570, 573
BseYI	CCCAGC	1 cut(s)	542
Bsh1236I	CGCG	1 cut(s)	933
BshFI	GGCC	3 cut(s)	8, 1239, 1529
BsiHKAI	GWGCWC	1 cut(s)	1018
BslI	CCNNNNNNNGG	2 cut(s)	907, 1301
BsmI	GAATGC	2 cut(s)	1180, 1220
BsnI	GGCC	3 cut(s)	8, 1239, 1529
Bsp1286I	GDGCHC	2 cut(s)	738, 1018
Bsp143I	GATC	5 cut(s)	115, 226, 337, 678, 1377
Bsp19I	CCATGG	1 cut(s)	1295
BspACI	CCGC	4 cut(s)	264, 658, 775, 933
BspANI	GGCC	3 cut(s)	8, 1239, 1529
BspCNI	CTCAG	3 cut(s)	573, 640, 1174
BspFNI	CGCG	1 cut(s)	933
BspMAI	CTGCAG	1 cut(s)	591
BspTI	CTTAAG	1 cut(s)	1039
BsrDI	GCAATG	3 cut(s)	844, 858, 1266
BsrI	ACTGG	4 cut(s)	729, 992, 1023, 1482
BssECI	CCNNGG	3 cut(s)	578, 907, 1295
BssMI	GATC	5 cut(s)	115, 226, 337, 678, 1377
BssT1I	CCWWGG	1 cut(s)	1295
Bst2UI	CCWGG	2 cut(s)	908, 1245
Bst4CI	ACNGT	3 cut(s)	191, 423, 789
Bst6I	CTCTTC	2 cut(s)	47, 1098
BstAFI	CTTAAG	1 cut(s)	1039
BstBAI	YACGTR	1 cut(s)	624
BstC8I	GCNNGC	1 cut(s)	255
BstDEI	CTNAG	5 cut(s)	38, 501, 560, 648, 1182
BstDSI	CCRYGG	1 cut(s)	1295
BstENI	CCTNNNNNAGG	1 cut(s)	905
BstF5I	GGATG	4 cut(s)	498, 1290, 1315, 1333
BstFNI	CGCG	1 cut(s)	933
BstH2I	RGCGCY	1 cut(s)	362
BstHHI	GCGC	1 cut(s)	361
BstKTI	GATC	5 cut(s)	118, 229, 340, 681, 1380
BstMBI	GATC	5 cut(s)	115, 226, 337, 678, 1377
BstNI	CCWGG	2 cut(s)	908, 1245
BstNSI	RCATGY	1 cut(s)	257
BstSCI	CCNGG	2 cut(s)	906, 1243
BstSFI	CTRYAG	3 cut(s)	371, 587, 785
BstUI	CGCG	1 cut(s)	933
BstV1I	GCAGC	6 cut(s)	4, 7, 10, 13, 570, 573
BstV2I	GAAGAC	1 cut(s)	171
BsuI	GTATCC	1 cut(s)	987
BsuRI	GGCC	3 cut(s)	8, 1239, 1529
BtgI	CCRYGG	1 cut(s)	1295
BtsCI	GGATG	4 cut(s)	498, 1290, 1315, 1333
BtsI	GCAGTG	2 cut(s)	162, 401
BtsIMutI	CAGTG	7 cut(s)	162, 357, 401, 645, 696, 777, 1016
Cac8I	GCNNGC	1 cut(s)	255
CaiI	CAGNNNCTG	1 cut(s)	17
CfoI	GCGC	1 cut(s)	361
Csp6I	GTAC	2 cut(s)	45, 498
CviQI	GTAC	2 cut(s)	45, 498
DdeI	CTNAG	5 cut(s)	38, 501, 560, 648, 1182
DpnI	GATC	5 cut(s)	117, 228, 339, 680, 1379
DpnII	GATC	5 cut(s)	115, 226, 337, 678, 1377
DraI	TTTAAA	1 cut(s)	246
EaeI	YGGCCR	1 cut(s)	6
Eam1104I	CTCTTC	2 cut(s)	47, 1098
EarI	CTCTTC	2 cut(s)	47, 1098
EciI	GGCGGA	1 cut(s)	647
Eco130I	CCWWGG	1 cut(s)	1295
Eco24I	GRGCYC	1 cut(s)	738
Eco32I	GATATC	1 cut(s)	88
Eco57I	CTGAAG	1 cut(s)	734
EcoNI	CCTNNNNNAGG	1 cut(s)	905
EcoRII	CCWGG	2 cut(s)	906, 1243
EcoRV	GATATC	1 cut(s)	88
EcoT14I	CCWWGG	1 cut(s)	1295
EcoT22I	ATGCAT	1 cut(s)	1222
EcoT38I	GRGCYC	1 cut(s)	738
ErhI	CCWWGG	1 cut(s)	1295
FalI	AAGNNNNNCTT	2 cut(s)	44, 76
FauI	CCCGC	2 cut(s)	782, 926
FbaI	TGATCA	1 cut(s)	115
Fnu4HI	GCNGC	7 cut(s)	15, 18, 21, 24, 27, 584, 587
FokI	GGATG	4 cut(s)	505, 1277, 1322, 1340
FriOI	GRGCYC	1 cut(s)	738
Fsp4HI	GCNGC	7 cut(s)	15, 18, 21, 24, 27, 584, 587
FspBI	CTAG	3 cut(s)	299, 1487, 1535
GlaI	GCGC	1 cut(s)	360
GluI	GCNGC	7 cut(s)	15, 18, 21, 24, 27, 584, 587
GsaI	CCCAGC	1 cut(s)	546
HaeII	RGCGCY	1 cut(s)	362
HaeIII	GGCC	3 cut(s)	8, 1239, 1529
HhaI	GCGC	1 cut(s)	361
Hin6I	GCGC	1 cut(s)	359
HinP1I	GCGC	1 cut(s)	359
HinfI	GANTC	4 cut(s)	400, 592, 640, 950
Hpy166II	GTNNAC	3 cut(s)	985, 1336, 1436
Hpy188I	TCNGA	7 cut(s)	85, 337, 563, 579, 742, 1082, 1475
Hpy8I	GTNNAC	3 cut(s)	985, 1336, 1436
HpyAV	CCTTC	4 cut(s)	285, 607, 709, 1250
HpyCH4III	ACNGT	3 cut(s)	191, 423, 789
HpyCH4IV	ACGT	3 cut(s)	623, 997, 1438
HpyCH4V	TGCA	7 cut(s)	257, 538, 589, 1060, 1088, 1139, 1220
HpyF3I	CTNAG	5 cut(s)	38, 501, 560, 648, 1182
HpySE526I	ACGT	3 cut(s)	623, 997, 1438
HspAI	GCGC	1 cut(s)	359
Ksp22I	TGATCA	1 cut(s)	115
Kzo9I	GATC	5 cut(s)	115, 226, 337, 678, 1377
LmnI	GCTCC	4 cut(s)	277, 338, 697, 1363
Lsp1109I	GCAGC	6 cut(s)	4, 7, 10, 13, 570, 573
LweI	GCATC	5 cut(s)	275, 555, 565, 1207, 1344
MaeI	CTAG	3 cut(s)	299, 1487, 1535
MaeII	ACGT	3 cut(s)	623, 997, 1438
MaeIII	GTNAC	4 cut(s)	160, 457, 619, 1262
MalI	GATC	5 cut(s)	117, 228, 339, 680, 1379
MboI	GATC	5 cut(s)	115, 226, 337, 678, 1377
MfeI	CAATTG	1 cut(s)	293
MhlI	GDGCHC	2 cut(s)	738, 1018
MlsI	TGGCCA	1 cut(s)	8
MluNI	TGGCCA	1 cut(s)	8
MlyI	GAGTC	1 cut(s)	634
MmeI	TCCRAC	1 cut(s)	1453
Mox20I	TGGCCA	1 cut(s)	8
Mph1103I	ATGCAT	1 cut(s)	1222
MroXI	GAANNNNTTC	1 cut(s)	512
MscI	TGGCCA	1 cut(s)	8
MseI	TTAA	7 cut(s)	245, 675, 797, 917, 1040, 1076, 1546
MslI	CAYNNNNRTG	2 cut(s)	1059, 1349
Msp20I	TGGCCA	1 cut(s)	8
MspA1I	CMGCKG	1 cut(s)	14
MspCI	CTTAAG	1 cut(s)	1039
MspR9I	CCNGG	2 cut(s)	908, 1245
MunI	CAATTG	1 cut(s)	293
Mva1269I	GAATGC	2 cut(s)	1180, 1220
MvaI	CCWGG	2 cut(s)	908, 1245
MvnI	CGCG	1 cut(s)	933
NcoI	CCATGG	1 cut(s)	1295
NdeII	GATC	5 cut(s)	115, 226, 337, 678, 1377
NmeAIII	GCCGAG	1 cut(s)	460
NmuCI	GTSAC	2 cut(s)	160, 457
NsiI	ATGCAT	1 cut(s)	1222
NspI	RCATGY	1 cut(s)	257
PaeI	GCATGC	1 cut(s)	257
PctI	GAATGC	2 cut(s)	1180, 1220
PdmI	GAANNNNTTC	1 cut(s)	512
PfeI	GAWTC	3 cut(s)	400, 592, 950
PflFI	GACNNNGTC	1 cut(s)	902
PflMI	CCANNNNNTGG	1 cut(s)	1301
PfoI	TCCNGGA	1 cut(s)	1243
PkrI	GCNGC	7 cut(s)	16, 19, 22, 25, 28, 585, 588
PleI	GAGTC	1 cut(s)	634
PpsI	GAGTC	1 cut(s)	634
Ppu21I	YACGTR	1 cut(s)	624
Psp6I	CCWGG	2 cut(s)	906, 1243
PspFI	CCCAGC	1 cut(s)	542
PspGI	CCWGG	2 cut(s)	906, 1243
PstI	CTGCAG	1 cut(s)	591
PstNI	CAGNNNCTG	1 cut(s)	17
PsyI	GACNNNGTC	1 cut(s)	902
PvuII	CAGCTG	1 cut(s)	14
RsaI	GTAC	2 cut(s)	46, 499
RsaNI	GTAC	2 cut(s)	45, 498
RseI	CAYNNNNRTG	2 cut(s)	1059, 1349
SaqAI	TTAA	7 cut(s)	245, 675, 797, 917, 1040, 1076, 1546
SatI	GCNGC	7 cut(s)	15, 18, 21, 24, 27, 584, 587
Sau3AI	GATC	5 cut(s)	115, 226, 337, 678, 1377
ScaI	AGTACT	1 cut(s)	499
SchI	GAGTC	1 cut(s)	634
ScrFI	CCNGG	2 cut(s)	908, 1245
SduI	GDGCHC	2 cut(s)	738, 1018
SfaNI	GCATC	5 cut(s)	275, 555, 565, 1207, 1344
SfcI	CTRYAG	3 cut(s)	371, 587, 785
SmiMI	CAYNNNNRTG	2 cut(s)	1059, 1349
SmlI	CTYRAG	2 cut(s)	1039, 1322
SmoI	CTYRAG	2 cut(s)	1039, 1322
SphI	GCATGC	1 cut(s)	257
SsiI	CCGC	4 cut(s)	264, 658, 775, 933
SspI	AATATT	1 cut(s)	347
SspMI	CTAG	3 cut(s)	299, 1487, 1535
StyD4I	CCNGG	2 cut(s)	906, 1243
StyI	CCWWGG	1 cut(s)	1295
TaaI	ACNGT	3 cut(s)	191, 423, 789
TaiI	ACGT	3 cut(s)	626, 1000, 1441
TatI	WGTACW	1 cut(s)	497
TfiI	GAWTC	3 cut(s)	400, 592, 950
Tru1I	TTAA	7 cut(s)	245, 675, 797, 917, 1040, 1076, 1546
Tru9I	TTAA	7 cut(s)	245, 675, 797, 917, 1040, 1076, 1546
TscAI	CASTG	7 cut(s)	169, 357, 401, 652, 696, 784, 1023
TseFI	GTSAC	2 cut(s)	160, 457
TseI	GCWGC	7 cut(s)	14, 17, 20, 23, 26, 583, 586
Tsp45I	GTSAC	2 cut(s)	160, 457
TspDTI	ATGAA	5 cut(s)	267, 750, 942, 1344, 1422
TspRI	CASTG	7 cut(s)	169, 357, 401, 652, 696, 784, 1023
Tth111I	GACNNNGTC	1 cut(s)	902
Van91I	CCANNNNNTGG	1 cut(s)	1301
Vha464I	CTTAAG	1 cut(s)	1039
XagI	CCTNNNNNAGG	1 cut(s)	905
XapI	RAATTY	3 cut(s)	944, 969, 1027
XbaI	TCTAGA	1 cut(s)	1486
XceI	RCATGY	1 cut(s)	257
XmnI	GAANNNNTTC	1 cut(s)	512
XspI	CTAG	3 cut(s)	299, 1487, 1535
ZrmI	AGTACT	1 cut(s)	499
Zsp2I	ATGCAT	1 cut(s)	1222

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