Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0000749

Physical Location & Seq

Genomic Coordinates Forward (+)

47883709 .. 47895622

Gene Structure 11914 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00319730.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1179 bp

ATGGAGAAGATGAAGGGGAGCGTAGAAACAGATGACATGGAAAACTCGGAGGAACAACGGGGAAATAGGGAGATTGAGAGTGATAGACGGGATTCCGAGATCAATTTTGAGGAGAAGGTTCTTAGAGCAAGTTCACATGCTTTTCAACCTAAATCTGATTCTCAAAGTCTTGATCTTTTGTTGCTTTTGGTTTACTTGCAGCAGATGTGTACTCAATTGGTCAACAATATAGTTGAATTATGGAATGGGAGGTCGAAGATGATCAAGATTAGATTGGAGGCTTCTCGCTCCTTTTCCTCAAAAGCCGGAGACAACCGCCTCTACGCTCGGAACCCATTCGGCATCGCTTCTCTTCGTCCCTCCCAACTCGAAGAGTTCGTCAAAGAAGAAACCATTACTGTGTCTGAGAGTGACGCAGCTTGGCTGCCAGAAAAGTTTCTCAATCAGAAGCTAGTTTACTTGGATCAAGAAGCTTCCAACAGCCAAGAAGTTTCGCAGCAGGAGATAGTTTCTCTGTACGAGAGGTTCTGTCAGCTCGATCGCAGCGGTGGAGGTTTCATCTTCGCCGACGAGTTTTCTGAACTTACTGATTCGGCGAAGCACAAGAGAACGGCTTTGAGTCTGAGTTTATTTGAGGGTCTTTACTTACAGAGGTTGCTCTCTAGTAGAAGGGACTGTGGTGTTCTGATTTCTGCTTTTGATGGATTTGGCGAGAGTGAGGATCGCAGTTTCTTAGCTCAAAGTCTAGACGGGCTTGAAGTTGAACAAGACAATATAACCAAAAATATCCATGTTGTTTATTGTAATATTCAGAAAAATGTGAGACCACTCTTTTCAATTCAAATGGTCAACAACTTGGGTGTTTCAAGAGCACTGGTTGAAAATTCCAGAACCTTACTACTGCCTACACATTTGCATGAGAGGTTAGGGTTAATCAAAAATGCAAAAGTTAGATTGGAAGAGAAACGAATAACTCCATCTATCGATAGGATTGCAGAAAGCCTGAATGTGTCCAAAAACAAAGTTAGGAAGTTACTCAGAGTCAAAAAATGGGACAGTGCCTTGGTTGTATCTGAGCAGACCAGTCTACTATTGCAATCAGAAAAACTTTTGGAAAGTTTGATGATGTGCTTGAATCTGGTTGTCATTGTTTGCCTTGCTGTTGAGGTAGTGCAGTAG

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

392

Amino Acids

44.64

Weight (kDa)

5.55

Isoelectric Point (pI)

61.21

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000749)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G13930 AT1G13930 AT1G13930 AT2G03440
fragaria_vesca	FvH4_4g30460
malus_domestica	MD13G1065600.v1.1 MD13G1065700.v1.1 MD16G1064100.v1.1 MD16G1064200.v1.1
prunus_persica	Prupe.1G282500_v2.0.a1
pyrus_communis	pycom13g05780 pycom13g05790
rosa_chinensis	RchiOBHm_Chr1g0320671 RchiOBHm_Chr2g0084691 RchiOBHm_Chr4g0391511 RchiOBHm_Chr4g0397231 RchiOBHm_Chr5g0038511 RchiOBHm_Chr7g0218611 RchiOBHm_Chr7g0243091
rosa_laevigata	RLG00000001214 RLG00000003134 RLG00000005591 RLG00000006330 RLG00000008137 RLG00000020620 RLG00000024858 RLG00000027359
rosa_multiflora	Rmu_co8437595.1_g000001 Rmu_sc0001781.1_g000012 Rmu_sc0001796.1_g000001 Rmu_sc0002245.1_g000048 Rmu_sc0002312.1_g000067 Rmu_sc0006553.1_g000012 Rmu_sc0007391.1_g000013 Rmu_ssc0000436.1_g000004
rosa_roxburghii	Rroxscaffold_1G00072700 Rroxscaffold_3G00245360 Rroxscaffold_3G00267980 Rroxscaffold_4G00319730 Rroxscaffold_5G00374780 Rroxscaffold_7G00197900
rosa_rugosa	Rorug01G0161500.1 Rorug04G0313200 Rorug04G0313200 Rorug07G0153800
rosa_samantha	Rh1BG233900 Rh1DG068600 Rh1DG091400 Rh1DG261300 Rh2AG113800 Rh2AG464700 Rh4AG364000 Rh4BG288300 Rh4BG375300 Rh4CG180100 Rh4CG389400 Rh4DG224500 Rh4DG369700 Rh5AG078000 Rh5CG365500 Rh5DG489000 Rh5DG546500 Rh6BG092900 Rh7BG230100 Rh7BG332300 Rh7DG399200
rosa_wichuraiana	Rw0G007230 Rw0G016780 Rw2G045830 Rw4G006320 Rw5G027470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	1087
AciI	CCGC	2 cut(s)	316, 546
AclWI	GGATC	2 cut(s)	471, 729
AcsI	RAATTY	1 cut(s)	883
AfaI	GTAC	2 cut(s)	211, 518
AgsI	TTSAA	9 cut(s)	146, 236, 758, 764, 837, 842, 867, 881, 1135
AluBI	AGCT	5 cut(s)	419, 451, 473, 535, 737
AluI	AGCT	5 cut(s)	419, 451, 473, 535, 737
Alw21I	GWGCWC	1 cut(s)	874
Alw26I	GTCTC	2 cut(s)	303, 817
AlwI	GGATC	2 cut(s)	471, 729
ApeKI	GCWGC	5 cut(s)	199, 416, 424, 496, 543
ApoI	RAATTY	1 cut(s)	883
ArsI	GACNNNNNNTTYG	2 cut(s)	363, 395
Asp700I	GAANNNNTTC	2 cut(s)	335, 435
BarI	GAAGNNNNNNTAC	2 cut(s)	440, 472
Bbv12I	GWGCWC	1 cut(s)	874
BbvI	GCAGC	5 cut(s)	211, 411, 428, 508, 555
BccI	CCATC	2 cut(s)	695, 985
BceAI	ACGGC	1 cut(s)	627
BcgI	CGANNNNNNTGC	2 cut(s)	974, 1008
BclI	TGATCA	1 cut(s)	261
BcoDI	GTCTC	2 cut(s)	303, 817
BfaI	CTAG	3 cut(s)	452, 663, 746
BisI	GCNGC	5 cut(s)	200, 417, 425, 497, 544
BlsI	GCNGC	5 cut(s)	201, 418, 426, 498, 545
BmiI	GGNNCC	1 cut(s)	332
BmsI	GCATC	1 cut(s)	351
Bsa29I	ATCGAT	1 cut(s)	984
BsaI	GGTCTC	1 cut(s)	817
BsaJI	CCNNGG	1 cut(s)	1062
Bse1I	ACTGG	2 cut(s)	879, 1083
BseCI	ATCGAT	1 cut(s)	984
BseDI	CCNNGG	1 cut(s)	1062
BseMII	CTCAG	4 cut(s)	396, 614, 1051, 1065
BseNI	ACTGG	2 cut(s)	879, 1083
BseRI	GAGGAG	1 cut(s)	125
BseXI	GCAGC	5 cut(s)	211, 411, 428, 508, 555
Bsh1285I	CGRYCG	1 cut(s)	541
BshVI	ATCGAT	1 cut(s)	984
BsiEI	CGRYCG	1 cut(s)	541
BsiHKAI	GWGCWC	1 cut(s)	874
BsiSI	CCGG	1 cut(s)	306
BslFI	GGGAC	3 cut(s)	342, 686, 1067
BsmAI	GTCTC	2 cut(s)	303, 817
BsmFI	GGGAC	3 cut(s)	342, 686, 1067
Bso31I	GGTCTC	1 cut(s)	817
Bsp1286I	GDGCHC	1 cut(s)	874
Bsp143I	GATC	6 cut(s)	99, 172, 261, 463, 538, 721
BspACI	CCGC	2 cut(s)	316, 546
BspCNI	CTCAG	4 cut(s)	397, 615, 1050, 1066
BspDI	ATCGAT	1 cut(s)	984
BspLI	GGNNCC	1 cut(s)	332
BspPI	GGATC	2 cut(s)	471, 729
BspTNI	GGTCTC	1 cut(s)	817
BsrI	ACTGG	2 cut(s)	879, 1083
BssECI	CCNNGG	1 cut(s)	1062
BssMI	GATC	6 cut(s)	99, 172, 261, 463, 538, 721
BssT1I	CCWWGG	1 cut(s)	1062
Bst4CI	ACNGT	3 cut(s)	400, 677, 1058
Bst6I	CTCTTC	3 cut(s)	357, 366, 954
BstDEI	CTNAG	6 cut(s)	122, 405, 623, 733, 1037, 1074
BstKTI	GATC	6 cut(s)	102, 175, 264, 466, 541, 724
BstMAI	GTCTC	2 cut(s)	303, 817
BstMBI	GATC	6 cut(s)	99, 172, 261, 463, 538, 721
BstMCI	CGRYCG	1 cut(s)	541
BstNSI	RCATGY	1 cut(s)	140
BstV1I	GCAGC	5 cut(s)	211, 411, 428, 508, 555
Bsu15I	ATCGAT	1 cut(s)	984
BsuTUI	ATCGAT	1 cut(s)	984
BtgZI	GCGATG	1 cut(s)	328
BtsIMutI	CAGTG	2 cut(s)	872, 1063
ClaI	ATCGAT	1 cut(s)	984
CseI	GACGC	1 cut(s)	422
Csp6I	GTAC	2 cut(s)	210, 517
CviAII	CATG	4 cut(s)	37, 137, 791, 917
CviQI	GTAC	2 cut(s)	210, 517
DdeI	CTNAG	6 cut(s)	122, 405, 623, 733, 1037, 1074
DpnI	GATC	6 cut(s)	101, 174, 263, 465, 540, 723
DpnII	GATC	6 cut(s)	99, 172, 261, 463, 538, 721
Eam1104I	CTCTTC	3 cut(s)	357, 366, 954
EarI	CTCTTC	3 cut(s)	357, 366, 954
Eco130I	CCWWGG	1 cut(s)	1062
Eco31I	GGTCTC	1 cut(s)	817
EcoT14I	CCWWGG	1 cut(s)	1062
ErhI	CCWWGG	1 cut(s)	1062
FaeI	CATG	4 cut(s)	40, 140, 794, 920
FaiI	YATR	7 cut(s)	38, 138, 230, 241, 776, 792, 918
FaqI	GGGAC	3 cut(s)	342, 686, 1067
FatI	CATG	4 cut(s)	36, 136, 790, 916
FbaI	TGATCA	1 cut(s)	261
FblI	GTMKAC	1 cut(s)	1087
Fnu4HI	GCNGC	5 cut(s)	200, 417, 425, 497, 544
Fsp4HI	GCNGC	5 cut(s)	200, 417, 425, 497, 544
FspBI	CTAG	3 cut(s)	452, 663, 746
GluI	GCNGC	5 cut(s)	200, 417, 425, 497, 544
HapII	CCGG	1 cut(s)	306
HgaI	GACGC	1 cut(s)	422
Hin1II	CATG	4 cut(s)	40, 140, 794, 920
HincII	GTYRAC	2 cut(s)	223, 850
HindII	GTYRAC	2 cut(s)	223, 850
HindIII	AAGCTT	1 cut(s)	471
HinfI	GANTC	6 cut(s)	92, 158, 590, 619, 1041, 1135
HpaII	CCGG	1 cut(s)	306
Hpy166II	GTNNAC	7 cut(s)	134, 193, 210, 223, 457, 850, 1088
Hpy188III	TCNNGA	6 cut(s)	170, 265, 467, 746, 867, 888
Hpy8I	GTNNAC	7 cut(s)	134, 193, 210, 223, 457, 850, 1088
Hpy99I	CGWCG	1 cut(s)	572
HpyAV	CCTTC	3 cut(s)	7, 109, 663
HpyCH4III	ACNGT	3 cut(s)	400, 677, 1058
HpyCH4V	TGCA	6 cut(s)	199, 916, 944, 995, 1096, 1174
HpyF3I	CTNAG	6 cut(s)	122, 405, 623, 733, 1037, 1074
Hsp92II	CATG	4 cut(s)	40, 140, 794, 920
Ksp22I	TGATCA	1 cut(s)	261
Kzo9I	GATC	6 cut(s)	99, 172, 261, 463, 538, 721
LmnI	GCTCC	2 cut(s)	18, 293
LpnPI	CCDG	8 cut(s)	319, 441, 485, 860, 901, 1016, 1096, 1124
Lsp1109I	GCAGC	5 cut(s)	211, 411, 428, 508, 555
LweI	GCATC	1 cut(s)	351
MaeI	CTAG	3 cut(s)	452, 663, 746
MaeIII	GTNAC	2 cut(s)	410, 1032
MalI	GATC	6 cut(s)	101, 174, 263, 465, 540, 723
MboI	GATC	6 cut(s)	99, 172, 261, 463, 538, 721
MboII	GAAGA	7 cut(s)	19, 268, 344, 383, 398, 553, 971
MfeI	CAATTG	1 cut(s)	215
MhlI	GDGCHC	1 cut(s)	874
MluCI	AATT	5 cut(s)	103, 215, 236, 837, 883
MlyI	GAGTC	2 cut(s)	628, 1050
MmeI	TCCRAC	1 cut(s)	501
MroXI	GAANNNNTTC	2 cut(s)	335, 435
MseI	TTAA	1 cut(s)	932
MslI	CAYNNNNRTG	2 cut(s)	398, 915
MspA1I	CMGCKG	1 cut(s)	546
MspI	CCGG	1 cut(s)	306
MunI	CAATTG	1 cut(s)	215
NdeII	GATC	6 cut(s)	99, 172, 261, 463, 538, 721
NlaIII	CATG	4 cut(s)	40, 140, 794, 920
NlaIV	GGNNCC	1 cut(s)	332
NmuCI	GTSAC	1 cut(s)	410
NspI	RCATGY	1 cut(s)	140
PcsI	WCGNNNNNNNCGW	1 cut(s)	375
PdmI	GAANNNNTTC	2 cut(s)	335, 435
PfeI	GAWTC	4 cut(s)	92, 158, 590, 1135
PkrI	GCNGC	5 cut(s)	201, 418, 426, 498, 545
Ple19I	CGATCG	1 cut(s)	541
PleI	GAGTC	2 cut(s)	627, 1049
PpsI	GAGTC	2 cut(s)	627, 1049
PspN4I	GGNNCC	1 cut(s)	332
PsrI	GAACNNNNNNTAC	2 cut(s)	509, 541
PvuI	CGATCG	1 cut(s)	541
RsaI	GTAC	2 cut(s)	211, 518
RsaNI	GTAC	2 cut(s)	210, 517
RseI	CAYNNNNRTG	2 cut(s)	398, 915
SaqAI	TTAA	1 cut(s)	932
SatI	GCNGC	5 cut(s)	200, 417, 425, 497, 544
Sau3AI	GATC	6 cut(s)	99, 172, 261, 463, 538, 721
SchI	GAGTC	2 cut(s)	628, 1050
SduI	GDGCHC	1 cut(s)	874
SfaNI	GCATC	1 cut(s)	351
SmiMI	CAYNNNNRTG	2 cut(s)	398, 915
Sse9I	AATT	5 cut(s)	103, 215, 236, 837, 883
SsiI	CCGC	2 cut(s)	316, 546
SspI	AATATT	1 cut(s)	808
SspMI	CTAG	3 cut(s)	452, 663, 746
StyI	CCWWGG	1 cut(s)	1062
TaaI	ACNGT	3 cut(s)	400, 677, 1058
TaqI	TCGA	4 cut(s)	254, 369, 537, 984
TasI	AATT	5 cut(s)	103, 215, 236, 837, 883
TatI	WGTACW	1 cut(s)	209
TfiI	GAWTC	4 cut(s)	92, 158, 590, 1135
Tru1I	TTAA	1 cut(s)	932
Tru9I	TTAA	1 cut(s)	932
TscAI	CASTG	2 cut(s)	879, 1063
TseFI	GTSAC	1 cut(s)	410
TseI	GCWGC	5 cut(s)	199, 416, 424, 496, 543
Tsp45I	GTSAC	1 cut(s)	410
TspDTI	ATGAA	2 cut(s)	26, 547
TspRI	CASTG	2 cut(s)	879, 1063
XapI	RAATTY	1 cut(s)	883
XbaI	TCTAGA	1 cut(s)	745
XceI	RCATGY	1 cut(s)	140
XmiI	GTMKAC	1 cut(s)	1087
XmnI	GAANNNNTTC	2 cut(s)	335, 435
XspI	CTAG	3 cut(s)	452, 663, 746

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