Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0005329

Physical Location & Seq

Genomic Coordinates Reverse (-)

3469949 .. 3471684

Gene Structure 1736 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG026100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 831 bp

ATGGCCATCACCACTGGCATATGTTCATCACCAAACCAACCTCCAACTCTCCCCACACTTTCACTCTCAAACATCTCACCACTCAAAACCCACTTGCCTTTTCCCTCCTCCAAATTTGGCGCCAACTTCGTCTCCAACGATGCATTGGTCAATGGAGCTGCAGCGGAGGCAGTGGCGCTGGCACGCGCTGTGGCAGAGGTGACCAGAGATGCCGCGGCAGTGAGGGAAGGTATTAGTGAGGTTTGGAGTTGCAATGAGAGTGGAAATGAGAGTGGTGGTGGATTGATGGCGAGGAGGAAGAAGAGGAGGAGAAGGCGGAAAGGGTTGGAGTGTTTTGATGATGAGGAGAGGAAGAGGGAGTTTGAAGATGAGAGGGTTTCATTTGGGGTTGTGAGATATGGTTATCTGAGCCCAAGAGAGGAGGCAGAGTGCTGTCAGAGTATCAAGGAGGGAGCAAAACTAGAATCTGAAAGAACAAGAGTCACAGAAGCTCAAGAGCATGAGCCAACTTCAAAACAGCTGGCAAATGTGATGAGGGTAAAGATGAGAAGTATAGATAAGGTTATCCGTAACAGAAGAGAGTCTCAAGAAAGGATCATCAAGAGCTATCGAGGACTTGTTGTCTCTGTTGCCAGCAGTTATCAAGGGAAAGGATTAAGCTTGGAGGACCTCATTCAGGAAGGGAGCATTGGACTTCTTCGAGGGGCAGAGAAGTTTGATCCTGAGAGAGGATTTAAATTATCAACATATGTGTATTGGTGGATTAGACAAGCTATCATCAGAGCCATAGAAAAGAAGTCTAGAATAATCAGATTACCAGTGAGTAGCTGA

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

276

Amino Acids

30.89

Weight (kDa)

9.55

Isoelectric Point (pI)

56.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sigma70_r2	PF04542	200 - 268	1.4e-23	Sigma-70 region 2

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

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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	1 cut(s)	119
AccII	CGCG	2 cut(s)	186, 215
AciI	CCGC	4 cut(s)	164, 213, 215, 316
AclWI	GGATC	2 cut(s)	602, 713
AcoI	YGGCCR	1 cut(s)	3
AcsI	RAATTY	1 cut(s)	113
AcyI	GRCGYC	1 cut(s)	120
AfiI	CCNNNNNNNGG	3 cut(s)	418, 676, 728
AgsI	TTSAA	2 cut(s)	365, 513
AhdI	GACNNNNNGTC	1 cut(s)	620
AjuI	GAANNNNNNNTTGG	2 cut(s)	672, 704
AluBI	AGCT	7 cut(s)	158, 491, 520, 606, 660, 773, 828
AluI	AGCT	7 cut(s)	158, 491, 520, 606, 660, 773, 828
Alw26I	GTCTC	3 cut(s)	136, 588, 628
AlwI	GGATC	2 cut(s)	602, 713
AoxI	GGCC	1 cut(s)	3
ApeKI	GCWGC	2 cut(s)	158, 161
ApoI	RAATTY	1 cut(s)	113
AspLEI	GCGC	3 cut(s)	122, 178, 188
AspS9I	GGNCC	1 cut(s)	667
AsuHPI	GGTGA	3 cut(s)	21, 69, 211
AvaII	GGWCC	1 cut(s)	667
BalI	TGGCCA	1 cut(s)	5
BanI	GGYRCC	1 cut(s)	119
BanII	GRGCYC	1 cut(s)	413
BbvI	GCAGC	2 cut(s)	145, 173
BccI	CCATC	2 cut(s)	14, 280
BcoDI	GTCTC	3 cut(s)	136, 588, 628
BfaI	CTAG	2 cut(s)	461, 801
BfmI	CTRYAG	1 cut(s)	159
BfoI	RGCGCY	2 cut(s)	123, 179
BisI	GCNGC	4 cut(s)	159, 162, 213, 216
BlsI	GCNGC	4 cut(s)	160, 163, 214, 217
Bme18I	GGWCC	1 cut(s)	667
BmeRI	GACNNNNNGTC	1 cut(s)	620
BmgT120I	GGNCC	1 cut(s)	667
BmiI	GGNNCC	1 cut(s)	121
BmsI	GCATC	2 cut(s)	130, 199
BpuEI	CTTGAG	2 cut(s)	477, 570
BsaHI	GRCGYC	1 cut(s)	120
BsaJI	CCNNGG	1 cut(s)	213
BsaXI	ACNNNNNCTCC	4 cut(s)	116, 146, 413, 443
Bsc4I	CCNNNNNNNGG	3 cut(s)	418, 676, 728
Bse1I	ACTGG	2 cut(s)	19, 818
Bse3DI	GCAATG	1 cut(s)	259
BseDI	CCNNGG	1 cut(s)	213
BseLI	CCNNNNNNNGG	3 cut(s)	418, 676, 728
BseMI	GCAATG	1 cut(s)	259
BseMII	CTCAG	2 cut(s)	398, 714
BseNI	ACTGG	2 cut(s)	19, 818
BseRI	GAGGAG	6 cut(s)	97, 307, 319, 322, 359, 434
BseXI	GCAGC	2 cut(s)	145, 173
Bsh1236I	CGCG	2 cut(s)	186, 215
BshFI	GGCC	1 cut(s)	5
BshNI	GGYRCC	1 cut(s)	119
BslI	CCNNNNNNNGG	3 cut(s)	418, 676, 728
BsmAI	GTCTC	3 cut(s)	136, 588, 628
BsmBI	CGTCTC	1 cut(s)	136
BsnI	GGCC	1 cut(s)	5
Bsp1286I	GDGCHC	1 cut(s)	413
Bsp143I	GATC	2 cut(s)	594, 718
BspACI	CCGC	4 cut(s)	164, 213, 215, 316
BspANI	GGCC	1 cut(s)	5
BspCNI	CTCAG	2 cut(s)	399, 715
BspFNI	CGCG	2 cut(s)	186, 215
BspLI	GGNNCC	1 cut(s)	121
BspMAI	CTGCAG	1 cut(s)	163
BspPI	GGATC	2 cut(s)	602, 713
BspT107I	GGYRCC	1 cut(s)	119
BsrDI	GCAATG	1 cut(s)	259
BsrI	ACTGG	2 cut(s)	19, 818
BssECI	CCNNGG	1 cut(s)	213
BssMI	GATC	2 cut(s)	594, 718
BssNI	GRCGYC	1 cut(s)	120
Bst6I	CTCTTC	3 cut(s)	296, 347, 571
BstACI	GRCGYC	1 cut(s)	120
BstC8I	GCNNGC	4 cut(s)	180, 184, 522, 634
BstDEI	CTNAG	2 cut(s)	407, 723
BstDSI	CCRYGG	1 cut(s)	213
BstEII	GGTNACC	1 cut(s)	199
BstENI	CCTNNNNNAGG	2 cut(s)	674, 726
BstFNI	CGCG	2 cut(s)	186, 215
BstH2I	RGCGCY	2 cut(s)	123, 179
BstHHI	GCGC	3 cut(s)	122, 178, 188
BstKTI	GATC	2 cut(s)	597, 721
BstMAI	GTCTC	3 cut(s)	136, 588, 628
BstMBI	GATC	2 cut(s)	594, 718
BstMWI	GCNNNNNNNGC	1 cut(s)	167
BstPI	GGTNACC	1 cut(s)	199
BstSFI	CTRYAG	1 cut(s)	159
BstUI	CGCG	2 cut(s)	186, 215
BstV1I	GCAGC	2 cut(s)	145, 173
BsuRI	GGCC	1 cut(s)	5
BtgI	CCRYGG	1 cut(s)	213
BtsI	GCAGTG	2 cut(s)	177, 225
BtsIMutI	CAGTG	4 cut(s)	12, 177, 225, 825
Cac8I	GCNNGC	4 cut(s)	180, 184, 522, 634
CfoI	GCGC	3 cut(s)	122, 178, 188
Cfr13I	GGNCC	1 cut(s)	667
Cfr42I	CCGCGG	1 cut(s)	216
CspCI	CAANNNNNGTGG	2 cut(s)	241, 276
CviAII	CATG	1 cut(s)	500
DdeI	CTNAG	2 cut(s)	407, 723
DinI	GGCGCC	1 cut(s)	121
DpnI	GATC	2 cut(s)	596, 720
DpnII	GATC	2 cut(s)	594, 718
DraI	TTTAAA	1 cut(s)	736
DriI	GACNNNNNGTC	1 cut(s)	620
EaeI	YGGCCR	1 cut(s)	3
Eam1104I	CTCTTC	3 cut(s)	296, 347, 571
Eam1105I	GACNNNNNGTC	1 cut(s)	620
EarI	CTCTTC	3 cut(s)	296, 347, 571
EciI	GGCGGA	1 cut(s)	331
Eco24I	GRGCYC	1 cut(s)	413
Eco47I	GGWCC	1 cut(s)	667
Eco91I	GGTNACC	1 cut(s)	199
EcoNI	CCTNNNNNAGG	2 cut(s)	674, 726
EcoO109I	RGGNCCY	1 cut(s)	667
EcoO65I	GGTNACC	1 cut(s)	199
EcoT22I	ATGCAT	1 cut(s)	145
EcoT38I	GRGCYC	1 cut(s)	413
EgeI	GGCGCC	1 cut(s)	121
EheI	GGCGCC	1 cut(s)	121
Esp3I	CGTCTC	1 cut(s)	136
FaeI	CATG	1 cut(s)	503
FaiI	YATR	8 cut(s)	20, 22, 399, 501, 554, 748, 750, 788
FatI	CATG	1 cut(s)	499
FauNDI	CATATG	2 cut(s)	20, 748
Fnu4HI	GCNGC	4 cut(s)	159, 162, 213, 216
FriOI	GRGCYC	1 cut(s)	413
Fsp4HI	GCNGC	4 cut(s)	159, 162, 213, 216
FspBI	CTAG	2 cut(s)	461, 801
GlaI	GCGC	3 cut(s)	121, 177, 187
GluI	GCNGC	4 cut(s)	159, 162, 213, 216
HaeII	RGCGCY	2 cut(s)	123, 179
HaeIII	GGCC	1 cut(s)	5
HhaI	GCGC	3 cut(s)	122, 178, 188
Hin1I	GRCGYC	1 cut(s)	120
Hin1II	CATG	1 cut(s)	503
Hin6I	GCGC	3 cut(s)	120, 176, 186
HinP1I	GCGC	3 cut(s)	120, 176, 186
HindIII	AAGCTT	1 cut(s)	658
HinfI	GANTC	3 cut(s)	464, 480, 581
HphI	GGTGA	3 cut(s)	21, 69, 211
Hpy188I	TCNGA	5 cut(s)	408, 438, 469, 782, 812
Hpy188III	TCNNGA	6 cut(s)	494, 587, 601, 677, 722, 801
HpyAV	CCTTC	3 cut(s)	221, 306, 674
HpyCH4V	TGCA	3 cut(s)	143, 161, 252
HpyF10VI	GCNNNNNNNGC	1 cut(s)	167
HpyF3I	CTNAG	2 cut(s)	407, 723
Hsp92I	GRCGYC	1 cut(s)	120
Hsp92II	CATG	1 cut(s)	503
HspAI	GCGC	3 cut(s)	120, 176, 186
KasI	GGCGCC	1 cut(s)	119
KspI	CCGCGG	1 cut(s)	216
Kzo9I	GATC	2 cut(s)	594, 718
LmnI	GCTCC	3 cut(s)	155, 452, 684
LpnPI	CCDG	6 cut(s)	164, 217, 506, 646, 662, 735
Lsp1109I	GCAGC	2 cut(s)	145, 173
LweI	GCATC	2 cut(s)	130, 199
MaeI	CTAG	2 cut(s)	461, 801
MaeIII	GTNAC	3 cut(s)	199, 481, 569
MalI	GATC	2 cut(s)	596, 720
MboI	GATC	2 cut(s)	594, 718
MboII	GAAGA	6 cut(s)	310, 313, 364, 377, 588, 689
MhlI	GDGCHC	1 cut(s)	413
MlsI	TGGCCA	1 cut(s)	5
MluCI	AATT	2 cut(s)	113, 737
MluNI	TGGCCA	1 cut(s)	5
Mly113I	GGCGCC	1 cut(s)	120
MlyI	GAGTC	2 cut(s)	489, 590
MmeI	TCCRAC	3 cut(s)	68, 159, 306
Mox20I	TGGCCA	1 cut(s)	5
Mph1103I	ATGCAT	1 cut(s)	145
MscI	TGGCCA	1 cut(s)	5
MseI	TTAA	2 cut(s)	656, 735
Msp20I	TGGCCA	1 cut(s)	5
MspA1I	CMGCKG	3 cut(s)	164, 215, 520
MvnI	CGCG	2 cut(s)	186, 215
MwoI	GCNNNNNNNGC	1 cut(s)	167
NarI	GGCGCC	1 cut(s)	120
NdeI	CATATG	2 cut(s)	20, 748
NdeII	GATC	2 cut(s)	594, 718
NlaIII	CATG	1 cut(s)	503
NlaIV	GGNNCC	1 cut(s)	121
NmuCI	GTSAC	2 cut(s)	199, 481
NsiI	ATGCAT	1 cut(s)	145
PcsI	WCGNNNNNNNCGW	1 cut(s)	135
PfeI	GAWTC	1 cut(s)	464
PkrI	GCNGC	4 cut(s)	160, 163, 214, 217
PleI	GAGTC	2 cut(s)	488, 589
PluTI	GGCGCC	1 cut(s)	123
PpsI	GAGTC	2 cut(s)	488, 589
PpuMI	RGGWCCY	1 cut(s)	667
Psp5II	RGGWCCY	1 cut(s)	667
PspEI	GGTNACC	1 cut(s)	199
PspN4I	GGNNCC	1 cut(s)	121
PspPI	GGNCC	1 cut(s)	667
PspPPI	RGGWCCY	1 cut(s)	667
PstI	CTGCAG	1 cut(s)	163
PvuII	CAGCTG	1 cut(s)	520
SacII	CCGCGG	1 cut(s)	216
SaqAI	TTAA	2 cut(s)	656, 735
SatI	GCNGC	4 cut(s)	159, 162, 213, 216
Sau3AI	GATC	2 cut(s)	594, 718
Sau96I	GGNCC	1 cut(s)	667
SchI	GAGTC	2 cut(s)	489, 590
SduI	GDGCHC	1 cut(s)	413
SfaNI	GCATC	2 cut(s)	130, 199
SfcI	CTRYAG	1 cut(s)	159
SfoI	GGCGCC	1 cut(s)	121
Sfr303I	CCGCGG	1 cut(s)	216
SgrBI	CCGCGG	1 cut(s)	216
SinI	GGWCC	1 cut(s)	667
SmiI	ATTTAAAT	1 cut(s)	736
SmlI	CTYRAG	2 cut(s)	492, 585
SmoI	CTYRAG	2 cut(s)	492, 585
Sse9I	AATT	2 cut(s)	113, 737
SsiI	CCGC	4 cut(s)	164, 213, 215, 316
SspDI	GGCGCC	1 cut(s)	119
SspMI	CTAG	2 cut(s)	461, 801
SwaI	ATTTAAAT	1 cut(s)	736
TaqI	TCGA	2 cut(s)	610, 700
TasI	AATT	2 cut(s)	113, 737
TauI	GCSGC	2 cut(s)	215, 218
TfiI	GAWTC	1 cut(s)	464
Tru1I	TTAA	2 cut(s)	656, 735
Tru9I	TTAA	2 cut(s)	656, 735
TscAI	CASTG	4 cut(s)	19, 177, 225, 825
TseFI	GTSAC	2 cut(s)	199, 481
TseI	GCWGC	2 cut(s)	158, 161
Tsp45I	GTSAC	2 cut(s)	199, 481
TspDTI	ATGAA	2 cut(s)	15, 369
TspGWI	ACGGA	1 cut(s)	557
TspRI	CASTG	4 cut(s)	19, 177, 225, 825
VpaK11BI	GGWCC	1 cut(s)	667
XagI	CCTNNNNNAGG	2 cut(s)	674, 726
XapI	RAATTY	1 cut(s)	113
XbaI	TCTAGA	1 cut(s)	800
XcmI	CCANNNNNNNNNTGG	1 cut(s)	142
XspI	CTAG	2 cut(s)	461, 801
Zsp2I	ATGCAT	1 cut(s)	145

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