Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0005329

Physical Location & Seq

Genomic Coordinates Reverse (-)

40820771 .. 40834114

Gene Structure 13344 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000029590

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1140 bp

ATGGCACCAAACACAAAATATCTCCAAAACGCAACTTCCTTGGGACACAGTTCACTCATCACTCTTCTACTCTGCTGTATGGCCATCACCACTGGCATATGTTCATCACCAAACCAACCTCCAACTCTCCCCACACTTTCACTCTCAACCATCTCACCACTCAAAACCCACTTGCCTTTTCCCTCCTCCAAATTTGGCGCCAACTTAGTCTCCAACGATGCATTGGTCAATGGAGCTGCAGCGGAGGCAGTGGCGCTGGCACGCGCTGTGGCAGAGGTGACCAGAGATGCCGCGGCGGTGAGGGAAGGTATTAGTGAGGTTTGGAGTTGCAATGAGAGTGGGAATGAGAGTGGTGGTGGATTGATGGCGAGGAGGAAGAAGAGGAGGAGAAGGCGGAAAGGGTTGGAGTGTTTTGATGATGAGGAGAGGAAAAGGGAGTTTGAAGATGAGAGGGTTTCATTTGGGGTTGTGAGATATGGTTATCTGAGCCCAAGAGAGGAGGCAGAGTGCTGTCAGAGTCTCAAGGAGGGAGCAAAACTAGAATCTGAAAGAACAAGAGTCACAGAAGCTCAAGAGCATGAGCCAACTTCAAAACAGCTGGCAAATGTGATGAGGGTGAAGATGAGAAGTATAGATAAGGTTATCCGTAACAGAAGAGAGTCACAAGAAAGGATCATCAAGAGCTATCGAGGACTTGTTGTCTCTGTTGCCAGCAGTTATCAAGGGAAAGGATTAAGCTTGGAGGACCTCATTCAGGAAGGGAGCATTGGACTTCTTCGAGGGGCAGAGAAGTTTGATCCTGAGAGAGGATTTAAATTATCAACATATGTGTATTGGTGGATTAGACAAGCTATCATCAGAGCCATAGAAAAGAAGTCTAGAATAATCAGATTACCAGGACACATTTGTGGAGTGATGGCAAAAATCACAAAAGCTAAAAATTCCTTCAACCAAAGATTTCACCGGCTGCCTAGTCACGAAGAAATTGCTGAAATGGTAAATATGCAAGCCTCAACTGTAAGACTTGTTTGTGAGAGGAGCAGACTCCCTCTTTCATTGGATCGAGTGGTGACTGATCAAGGTTGCATGGCACTCCAGGTTCCTCTCTTGAATCTTATTTCTACTTTACTGAATGTATAG

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: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:0060255 GO:0065007 GO:0071214 GO:0071478 GO:0071482 GO:0071704 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

380

Amino Acids

42.28

Weight (kDa)

9.47

Isoelectric Point (pI)

52.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sigma70_r2	PF04542	226 - 294	2.5e-23	Sigma-70 region 2
Sigma70_r3	PF04539	307 - 361	4.2e-09	Sigma-70 region 3

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: OG0005329)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G13730
fragaria_vesca	FvH4_7g01630
malus_domestica	MD02G1302300.v1.1 MD07G1021800.v1.1
prunus_persica	Prupe.2G021900_v2.0.a1 Prupe.2G021900_v2.0.a1 Prupe.2G021900_v2.0.a1 Prupe.2G021900_v2.0.a1 Prupe.2G021900_v2.0.a1 Prupe.2G021900_v2.0.a1 Prupe.2G021900_v2.0.a1 Prupe.2G021900_v2.0.a1 Prupe.2G021900_v2.0.a1 Prupe.2G021900_v2.0.a1
pyrus_communis	pycom02g25460 pycom07g01650
rosa_chinensis	RchiOBHm_Chr1g0317901
rosa_laevigata	RLG00000029590 RLG00000030578
rosa_multiflora	Rmu_sc0000654.1_g000054 Rmu_ssc0000008.1_g000049
rosa_roxburghii	Rroxscaffold_4G00330140
rosa_rugosa	Rorug01G0018500
rosa_samantha	Rh1AG030000 Rh1BG026000 Rh1BG026100 Rh1CG028600 Rh1DG041500
rosa_wichuraiana	Rw1G002260

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	4, 197
AccII	CGCG	2 cut(s)	264, 293
AciI	CCGC	5 cut(s)	242, 291, 293, 296, 394
AclWI	GGATC	3 cut(s)	680, 791, 1068
AcoI	YGGCCR	1 cut(s)	81
AcsI	RAATTY	2 cut(s)	191, 940
AcyI	GRCGYC	1 cut(s)	198
AfiI	CCNNNNNNNGG	3 cut(s)	496, 754, 806
AgsI	TTSAA	4 cut(s)	443, 591, 949, 1111
AhdI	GACNNNNNGTC	1 cut(s)	698
AjnI	CCWGG	2 cut(s)	895, 1095
AjuI	GAANNNNNNNTTGG	2 cut(s)	750, 782
AleI	CACNNNNGTG	1 cut(s)	906
AluBI	AGCT	7 cut(s)	236, 569, 598, 684, 738, 851, 935
AluI	AGCT	7 cut(s)	236, 569, 598, 684, 738, 851, 935
Alw26I	GTCTC	3 cut(s)	214, 524, 706
AlwI	GGATC	3 cut(s)	680, 791, 1068
AoxI	GGCC	1 cut(s)	81
ApeKI	GCWGC	3 cut(s)	236, 239, 967
ApoI	RAATTY	2 cut(s)	191, 940
AspLEI	GCGC	3 cut(s)	200, 256, 266
AspS9I	GGNCC	1 cut(s)	745
AsuHPI	GGTGA	8 cut(s)	79, 99, 147, 289, 310, 628, 953, 1081
AvaII	GGWCC	1 cut(s)	745
BalI	TGGCCA	1 cut(s)	83
BanI	GGYRCC	2 cut(s)	4, 197
BanII	GRGCYC	1 cut(s)	491
BbvI	GCAGC	3 cut(s)	223, 251, 954
BccI	CCATC	4 cut(s)	92, 158, 358, 910
BcgI	CGANNNNNNTGC	2 cut(s)	968, 1002
BciT130I	CCWGG	2 cut(s)	897, 1097
BclI	TGATCA	1 cut(s)	1075
BcoDI	GTCTC	3 cut(s)	214, 524, 706
BfaI	CTAG	3 cut(s)	539, 879, 972
BfmI	CTRYAG	1 cut(s)	237
BfoI	RGCGCY	2 cut(s)	201, 257
BisI	GCNGC	5 cut(s)	237, 240, 291, 294, 968
BlsI	GCNGC	5 cut(s)	238, 241, 292, 295, 969
Bme1390I	CCNGG	2 cut(s)	897, 1097
Bme18I	GGWCC	1 cut(s)	745
BmeRI	GACNNNNNGTC	1 cut(s)	698
BmgT120I	GGNCC	1 cut(s)	745
BmiI	GGNNCC	3 cut(s)	6, 199, 1101
BmrFI	CCNGG	2 cut(s)	897, 1097
BmsI	GCATC	2 cut(s)	208, 277
BpmI	CTGGAG	1 cut(s)	1079
BpuEI	CTTGAG	2 cut(s)	506, 555
BsaHI	GRCGYC	1 cut(s)	198
BsaJI	CCNNGG	2 cut(s)	39, 291
BsaXI	ACNNNNNCTCC	4 cut(s)	194, 224, 491, 521
Bsc4I	CCNNNNNNNGG	3 cut(s)	496, 754, 806
Bse118I	RCCGGY	1 cut(s)	963
Bse1I	ACTGG	1 cut(s)	97
Bse3DI	GCAATG	1 cut(s)	337
BseBI	CCWGG	2 cut(s)	897, 1097
BseDI	CCNNGG	2 cut(s)	39, 291
BseLI	CCNNNNNNNGG	3 cut(s)	496, 754, 806
BseMI	GCAATG	1 cut(s)	337
BseMII	CTCAG	2 cut(s)	476, 792
BseNI	ACTGG	1 cut(s)	97
BseRI	GAGGAG	7 cut(s)	175, 385, 397, 400, 437, 512, 1051
BseXI	GCAGC	3 cut(s)	223, 251, 954
Bsh1236I	CGCG	2 cut(s)	264, 293
BshFI	GGCC	1 cut(s)	83
BshNI	GGYRCC	2 cut(s)	4, 197
BsiSI	CCGG	1 cut(s)	964
BslFI	GGGAC	1 cut(s)	57
BslI	CCNNNNNNNGG	3 cut(s)	496, 754, 806
BsmAI	GTCTC	3 cut(s)	214, 524, 706
BsmFI	GGGAC	1 cut(s)	57
BsnI	GGCC	1 cut(s)	83
Bsp1286I	GDGCHC	1 cut(s)	491
Bsp143I	GATC	4 cut(s)	672, 796, 1060, 1075
BspACI	CCGC	5 cut(s)	242, 291, 293, 296, 394
BspANI	GGCC	1 cut(s)	83
BspCNI	CTCAG	2 cut(s)	477, 793
BspFNI	CGCG	2 cut(s)	264, 293
BspLI	GGNNCC	3 cut(s)	6, 199, 1101
BspMAI	CTGCAG	1 cut(s)	241
BspPI	GGATC	3 cut(s)	680, 791, 1068
BspT107I	GGYRCC	2 cut(s)	4, 197
BsrDI	GCAATG	1 cut(s)	337
BsrFI	RCCGGY	1 cut(s)	963
BsrI	ACTGG	1 cut(s)	97
BssAI	RCCGGY	1 cut(s)	963
BssECI	CCNNGG	2 cut(s)	39, 291
BssMI	GATC	4 cut(s)	672, 796, 1060, 1075
BssNI	GRCGYC	1 cut(s)	198
BssT1I	CCWWGG	1 cut(s)	39
Bst2UI	CCWGG	2 cut(s)	897, 1097
Bst4CI	ACNGT	2 cut(s)	50, 1018
Bst6I	CTCTTC	3 cut(s)	69, 374, 649
BstACI	GRCGYC	1 cut(s)	198
BstC8I	GCNNGC	5 cut(s)	258, 262, 600, 712, 1008
BstDEI	CTNAG	3 cut(s)	205, 485, 801
BstDSI	CCRYGG	1 cut(s)	291
BstEII	GGTNACC	1 cut(s)	277
BstENI	CCTNNNNNAGG	2 cut(s)	752, 804
BstFNI	CGCG	2 cut(s)	264, 293
BstH2I	RGCGCY	2 cut(s)	201, 257
BstHHI	GCGC	3 cut(s)	200, 256, 266
BstKTI	GATC	4 cut(s)	675, 799, 1063, 1078
BstMAI	GTCTC	3 cut(s)	214, 524, 706
BstMBI	GATC	4 cut(s)	672, 796, 1060, 1075
BstMWI	GCNNNNNNNGC	1 cut(s)	245
BstNI	CCWGG	2 cut(s)	897, 1097
BstPI	GGTNACC	1 cut(s)	277
BstSCI	CCNGG	2 cut(s)	895, 1095
BstSFI	CTRYAG	1 cut(s)	237
BstUI	CGCG	2 cut(s)	264, 293
BstV1I	GCAGC	3 cut(s)	223, 251, 954
BsuRI	GGCC	1 cut(s)	83
BtgI	CCRYGG	1 cut(s)	291
BtsI	GCAGTG	1 cut(s)	255
BtsIMutI	CAGTG	2 cut(s)	90, 255
Cac8I	GCNNGC	5 cut(s)	258, 262, 600, 712, 1008
CfoI	GCGC	3 cut(s)	200, 256, 266
Cfr10I	RCCGGY	1 cut(s)	963
Cfr13I	GGNCC	1 cut(s)	745
Cfr42I	CCGCGG	1 cut(s)	294
CspCI	CAANNNNNGTGG	2 cut(s)	319, 354
CviAII	CATG	2 cut(s)	578, 1087
DdeI	CTNAG	3 cut(s)	205, 485, 801
DinI	GGCGCC	1 cut(s)	199
DpnI	GATC	4 cut(s)	674, 798, 1062, 1077
DpnII	GATC	4 cut(s)	672, 796, 1060, 1075
DraI	TTTAAA	1 cut(s)	814
DriI	GACNNNNNGTC	1 cut(s)	698
EaeI	YGGCCR	1 cut(s)	81
Eam1104I	CTCTTC	3 cut(s)	69, 374, 649
Eam1105I	GACNNNNNGTC	1 cut(s)	698
EarI	CTCTTC	3 cut(s)	69, 374, 649
EciI	GGCGGA	1 cut(s)	409
Eco130I	CCWWGG	1 cut(s)	39
Eco24I	GRGCYC	1 cut(s)	491
Eco47I	GGWCC	1 cut(s)	745
Eco91I	GGTNACC	1 cut(s)	277
EcoNI	CCTNNNNNAGG	2 cut(s)	752, 804
EcoO109I	RGGNCCY	1 cut(s)	745
EcoO65I	GGTNACC	1 cut(s)	277
EcoRII	CCWGG	2 cut(s)	895, 1095
EcoT14I	CCWWGG	1 cut(s)	39
EcoT22I	ATGCAT	1 cut(s)	223
EcoT38I	GRGCYC	1 cut(s)	491
EgeI	GGCGCC	1 cut(s)	199
EheI	GGCGCC	1 cut(s)	199
ErhI	CCWWGG	1 cut(s)	39
FaeI	CATG	2 cut(s)	581, 1090
FaqI	GGGAC	1 cut(s)	57
FatI	CATG	2 cut(s)	577, 1086
FauNDI	CATATG	2 cut(s)	98, 826
FbaI	TGATCA	1 cut(s)	1075
Fnu4HI	GCNGC	5 cut(s)	237, 240, 291, 294, 968
FriOI	GRGCYC	1 cut(s)	491
Fsp4HI	GCNGC	5 cut(s)	237, 240, 291, 294, 968
FspBI	CTAG	3 cut(s)	539, 879, 972
GlaI	GCGC	3 cut(s)	199, 255, 265
GluI	GCNGC	5 cut(s)	237, 240, 291, 294, 968
GsuI	CTGGAG	1 cut(s)	1079
HaeII	RGCGCY	2 cut(s)	201, 257
HaeIII	GGCC	1 cut(s)	83
HapII	CCGG	1 cut(s)	964
HhaI	GCGC	3 cut(s)	200, 256, 266
Hin1I	GRCGYC	1 cut(s)	198
Hin1II	CATG	2 cut(s)	581, 1090
Hin6I	GCGC	3 cut(s)	198, 254, 264
HinP1I	GCGC	3 cut(s)	198, 254, 264
HindIII	AAGCTT	1 cut(s)	736
HinfI	GANTC	6 cut(s)	517, 542, 558, 659, 1044, 1111
HpaII	CCGG	1 cut(s)	964
HphI	GGTGA	8 cut(s)	79, 99, 147, 289, 310, 628, 953, 1081
Hpy166II	GTNNAC	1 cut(s)	53
Hpy188I	TCNGA	5 cut(s)	486, 516, 547, 860, 890
Hpy188III	TCNNGA	7 cut(s)	572, 679, 755, 800, 879, 977, 1108
Hpy8I	GTNNAC	1 cut(s)	53
HpyAV	CCTTC	4 cut(s)	299, 384, 752, 955
HpyCH4III	ACNGT	2 cut(s)	50, 1018
HpyCH4V	TGCA	5 cut(s)	221, 239, 330, 1006, 1086
HpyF10VI	GCNNNNNNNGC	1 cut(s)	245
HpyF3I	CTNAG	3 cut(s)	205, 485, 801
Hsp92I	GRCGYC	1 cut(s)	198
Hsp92II	CATG	2 cut(s)	581, 1090
HspAI	GCGC	3 cut(s)	198, 254, 264
KasI	GGCGCC	1 cut(s)	197
Ksp22I	TGATCA	1 cut(s)	1075
KspI	CCGCGG	1 cut(s)	294
Kzo9I	GATC	4 cut(s)	672, 796, 1060, 1075
LmnI	GCTCC	4 cut(s)	233, 530, 762, 1038
Lsp1109I	GCAGC	3 cut(s)	223, 251, 954
LweI	GCATC	2 cut(s)	208, 277
MaeI	CTAG	3 cut(s)	539, 879, 972
MaeIII	GTNAC	6 cut(s)	277, 559, 647, 660, 974, 1069
MalI	GATC	4 cut(s)	674, 798, 1062, 1077
MboI	GATC	4 cut(s)	672, 796, 1060, 1075
MboII	GAAGA	8 cut(s)	56, 388, 391, 455, 631, 666, 767, 992
MhlI	GDGCHC	1 cut(s)	491
MlsI	TGGCCA	1 cut(s)	83
MluCI	AATT	4 cut(s)	191, 815, 940, 984
MluNI	TGGCCA	1 cut(s)	83
Mly113I	GGCGCC	1 cut(s)	198
MlyI	GAGTC	4 cut(s)	526, 567, 668, 1038
MmeI	TCCRAC	3 cut(s)	146, 237, 384
Mox20I	TGGCCA	1 cut(s)	83
Mph1103I	ATGCAT	1 cut(s)	223
MscI	TGGCCA	1 cut(s)	83
MseI	TTAA	2 cut(s)	734, 813
MslI	CAYNNNNRTG	1 cut(s)	906
Msp20I	TGGCCA	1 cut(s)	83
MspA1I	CMGCKG	3 cut(s)	242, 293, 598
MspI	CCGG	1 cut(s)	964
MspR9I	CCNGG	2 cut(s)	897, 1097
MvaI	CCWGG	2 cut(s)	897, 1097
MvnI	CGCG	2 cut(s)	264, 293
MwoI	GCNNNNNNNGC	1 cut(s)	245
NarI	GGCGCC	1 cut(s)	198
NdeI	CATATG	2 cut(s)	98, 826
NdeII	GATC	4 cut(s)	672, 796, 1060, 1075
NlaIII	CATG	2 cut(s)	581, 1090
NlaIV	GGNNCC	3 cut(s)	6, 199, 1101
NmuCI	GTSAC	5 cut(s)	277, 559, 660, 974, 1069
NsiI	ATGCAT	1 cut(s)	223
OliI	CACNNNNGTG	1 cut(s)	906
PfeI	GAWTC	2 cut(s)	542, 1111
PkrI	GCNGC	5 cut(s)	238, 241, 292, 295, 969
PleI	GAGTC	4 cut(s)	525, 566, 667, 1038
PluTI	GGCGCC	1 cut(s)	201
PpsI	GAGTC	4 cut(s)	525, 566, 667, 1038
PpuMI	RGGWCCY	1 cut(s)	745
Psp5II	RGGWCCY	1 cut(s)	745
Psp6I	CCWGG	2 cut(s)	895, 1095
PspEI	GGTNACC	1 cut(s)	277
PspGI	CCWGG	2 cut(s)	895, 1095
PspN4I	GGNNCC	3 cut(s)	6, 199, 1101
PspPI	GGNCC	1 cut(s)	745
PspPPI	RGGWCCY	1 cut(s)	745
PstI	CTGCAG	1 cut(s)	241
PvuII	CAGCTG	1 cut(s)	598
RseI	CAYNNNNRTG	1 cut(s)	906
SacII	CCGCGG	1 cut(s)	294
SaqAI	TTAA	2 cut(s)	734, 813
SatI	GCNGC	5 cut(s)	237, 240, 291, 294, 968
Sau3AI	GATC	4 cut(s)	672, 796, 1060, 1075
Sau96I	GGNCC	1 cut(s)	745
SchI	GAGTC	4 cut(s)	526, 567, 668, 1038
ScrFI	CCNGG	2 cut(s)	897, 1097
SduI	GDGCHC	1 cut(s)	491
SfaNI	GCATC	2 cut(s)	208, 277
SfcI	CTRYAG	1 cut(s)	237
SfoI	GGCGCC	1 cut(s)	199
Sfr303I	CCGCGG	1 cut(s)	294
SgrBI	CCGCGG	1 cut(s)	294
SinI	GGWCC	1 cut(s)	745
SmiI	ATTTAAAT	1 cut(s)	814
SmiMI	CAYNNNNRTG	1 cut(s)	906
SmlI	CTYRAG	2 cut(s)	521, 570
SmoI	CTYRAG	2 cut(s)	521, 570
Sse9I	AATT	4 cut(s)	191, 815, 940, 984
SsiI	CCGC	5 cut(s)	242, 291, 293, 296, 394
SspDI	GGCGCC	1 cut(s)	197
SspMI	CTAG	3 cut(s)	539, 879, 972
StyD4I	CCNGG	2 cut(s)	895, 1095
StyI	CCWWGG	1 cut(s)	39
SwaI	ATTTAAAT	1 cut(s)	814
TaaI	ACNGT	2 cut(s)	50, 1018
TaqI	TCGA	3 cut(s)	688, 778, 1063
TasI	AATT	4 cut(s)	191, 815, 940, 984
TauI	GCSGC	2 cut(s)	293, 296
TfiI	GAWTC	2 cut(s)	542, 1111
Tru1I	TTAA	2 cut(s)	734, 813
Tru9I	TTAA	2 cut(s)	734, 813
TscAI	CASTG	2 cut(s)	97, 255
TseFI	GTSAC	5 cut(s)	277, 559, 660, 974, 1069
TseI	GCWGC	3 cut(s)	236, 239, 967
Tsp45I	GTSAC	5 cut(s)	277, 559, 660, 974, 1069
TspDTI	ATGAA	3 cut(s)	93, 447, 1044
TspGWI	ACGGA	1 cut(s)	635
TspRI	CASTG	2 cut(s)	97, 255
VpaK11BI	GGWCC	1 cut(s)	745
XagI	CCTNNNNNAGG	2 cut(s)	752, 804
XapI	RAATTY	2 cut(s)	191, 940
XbaI	TCTAGA	1 cut(s)	878
XcmI	CCANNNNNNNNNTGG	1 cut(s)	220
XspI	CTAG	3 cut(s)	539, 879, 972
Zsp2I	ATGCAT	1 cut(s)	223

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