Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0009990

Physical Location & Seq

Genomic Coordinates Reverse (-)

43049813 .. 43053385

Gene Structure 3573 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ45689

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1008 bp

ATGGCATCTGAAACTGCACTGATGGAGGATCATTTCATTCAAATTGCCATAAAAGAGTCTGAAGATCTGCGAGATCAAGGCGCCAAACGGAAAGGAAGGCAAGAAAAGGCTGCTGCCAGTGTTGTGTCCGTGAAGTCTGGTTCAACCAGCCGAAAAAAGCGTGCTTCTTTACAAGACGTAGACCATTCTGATCCATTGCGTTACTTGAGAACAACTACCCATACTTCTAGACTTCTTACTGCAACTGAAGAAATTGAACTATCAGAAGGAATACAGGAACTTCTAAAACTGGAAAAGCTCCAGGAGGATCTTGCACAAAGATGCGGCACTCAGCCCACCTTTGCACAATGGGCTGCAGCAGCAGGAGTTGATCAGAAGACATTAAGGAAGCGGGTAAACTATGGTATTATGTGCAAAGACAAAATGATTAAGAGCAACATACGGCTTGTTATATCAATTGCAAAAAATTATCAGGGAGCTGGGATGAATCTTCAAGATCTCGTGCAGGAAGGATGTCGTGGCCTTGTAAGAGGTGCAGAAAATTTGATGCTTCAAAGGGTTTTAAGTTCTCAACCTATGCTCACTGGTGGATTAAACAGGCTGTTCGAAAGTCTCTTTCTGATCAATCGAGGACAATTCGTTTACCAGGCTATCGATGAAAGGCTTGCTGCTGTCTTACTGACTCCAAAAGCTCCTAGATCGCTGGAGCAGAAAATTGGAATCAACCAGAATCTTAAACCTTCGGTCTGTCCTATTCTACTTCCAATAATTGGCAACTTTCATCCTACATGTTGTCACCTGGTTGATGTAATTGCAGATCCTGACGCAGAAACAGCCGAAGACCTGTTGATGAAAAAGTTCATGAGACAGGATTTGGAGAAGGTACTGGATAGTCTCAATCCAAGAGAGAAGCAGGTGATCAGATGGAGGTTTGGAATGGAGGATGGGAGGATGAAGACATTGCAAGAGATAGGGGAGCTGATGGGTGTTAGTAGAGAGAGAATTTGA

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:0006399 GO:0006725 GO:0006807 GO:0006996 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009314 GO:0009416 GO:0009507 GO:0009536 GO:0009628 GO:0009639 GO:0009657 GO:0009658 GO:0009889 GO:0009987 GO:0010114 GO:0010467 GO:0010468 GO:0010556 GO:0016043 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:0034660 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:0071840 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_r1_2 Sigma70_r2 Sigma70_r3 Sigma70_r4

Protein Analysis

335

Amino Acids

37.68

Weight (kDa)

8.94

Isoelectric Point (pI)

39.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sigma70_r2	PF04542	142 - 181	4.9e-07	Sigma-70 region 2
Sigma70_r4	PF04545	295 - 335	2.2e-12	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: OG0009990)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G08540
fragaria_vesca	FvH4_1g29160 FvH4_1g29160
malus_domestica	MD12G1111900.v1.1 MD14G1100900.v1.1
prunus_persica	Prupe.7G021900_v2.0.a1 Prupe.7G021900_v2.0.a1 Prupe.7G021900_v2.0.a1 Prupe.7G021900_v2.0.a1
pyrus_communis	pycom12g09170 pycom14g08810
rosa_chinensis	RchiOBHm_Chr3g0494351 RchiOBHm_Chr3g0494481
rosa_laevigata	RLG00000022672
rosa_multiflora	Rmu_sc0000152.1_g000008
rosa_roxburghii	Rroxscaffold_6G00391100
rosa_rugosa	Rorug03G0265600
rosa_samantha	Rh3BG350900 Rh3CG347600 Rh3DG350200
rosa_wichuraiana	Rw3G027560

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	904
Acc36I	ACCTGC	1 cut(s)	904
AccB1I	GGYRCC	1 cut(s)	80
AccB7I	CCANNNNNTGG	1 cut(s)	770
AccI	GTMKAC	1 cut(s)	180
AciI	CCGC	2 cut(s)	324, 391
AclWI	GGATC	4 cut(s)	36, 185, 315, 812
AcsI	RAATTY	2 cut(s)	541, 1002
AcuI	CTGAAG	2 cut(s)	81, 267
AcyI	GRCGYC	1 cut(s)	81
AfaI	GTAC	1 cut(s)	885
AfiI	CCNNNNNNNGG	1 cut(s)	770
AflIII	ACRYGT	1 cut(s)	788
AgsI	TTSAA	5 cut(s)	41, 144, 257, 494, 554
AjnI	CCWGG	3 cut(s)	300, 645, 798
AluBI	AGCT	4 cut(s)	298, 479, 692, 979
AluI	AGCT	4 cut(s)	298, 479, 692, 979
Alw26I	GTCTC	3 cut(s)	617, 859, 899
AlwI	GGATC	4 cut(s)	36, 185, 315, 812
AlwNI	CAGNNNCTG	1 cut(s)	821
AoxI	GGCC	1 cut(s)	520
ApeKI	GCWGC	6 cut(s)	110, 113, 353, 356, 359, 668
ApoI	RAATTY	2 cut(s)	541, 1002
Asp700I	GAANNNNTTC	1 cut(s)	857
AspLEI	GCGC	1 cut(s)	83
AsuHPI	GGTGA	2 cut(s)	788, 928
AsuII	TTCGAA	1 cut(s)	606
BanI	GGYRCC	1 cut(s)	80
BauI	CACGAG	1 cut(s)	500
BbsI	GAAGAC	3 cut(s)	383, 846, 962
BbvI	GCAGC	6 cut(s)	97, 100, 340, 368, 371, 655
BccI	CCATC	4 cut(s)	16, 918, 938, 976
BceAI	ACGGC	1 cut(s)	458
BciT130I	CCWGG	3 cut(s)	302, 647, 800
BclI	TGATCA	3 cut(s)	370, 621, 918
BcoDI	GTCTC	3 cut(s)	617, 859, 899
BfaI	CTAG	2 cut(s)	228, 696
BfmI	CTRYAG	1 cut(s)	354
BfoI	RGCGCY	1 cut(s)	84
BfuAI	ACCTGC	1 cut(s)	904
BglII	AGATCT	2 cut(s)	64, 496
BisI	GCNGC	7 cut(s)	111, 114, 325, 354, 357, 360, 669
BlsI	GCNGC	7 cut(s)	112, 115, 326, 355, 358, 361, 670
Bme1390I	CCNGG	3 cut(s)	302, 647, 800
BmiI	GGNNCC	1 cut(s)	82
BmrFI	CCNGG	3 cut(s)	302, 647, 800
BmsI	GCATC	3 cut(s)	14, 311, 537
BpiI	GAAGAC	3 cut(s)	383, 846, 962
BpmI	CTGGAG	2 cut(s)	284, 725
Bpu14I	TTCGAA	1 cut(s)	606
BpuEI	CTTGAG	1 cut(s)	226
Bsa29I	ATCGAT	1 cut(s)	654
BsaHI	GRCGYC	1 cut(s)	81
Bsc4I	CCNNNNNNNGG	1 cut(s)	770
Bse1I	ACTGG	4 cut(s)	117, 294, 589, 891
Bse3DI	GCAATG	2 cut(s)	194, 959
BseBI	CCWGG	3 cut(s)	302, 647, 800
BseCI	ATCGAT	1 cut(s)	654
BseGI	GGATG	5 cut(s)	489, 518, 781, 949, 957
BseLI	CCNNNNNNNGG	1 cut(s)	770
BseMI	GCAATG	2 cut(s)	194, 959
BseMII	CTCAG	1 cut(s)	344
BseNI	ACTGG	4 cut(s)	117, 294, 589, 891
BseXI	GCAGC	6 cut(s)	97, 100, 340, 368, 371, 655
BseYI	CCCAGC	1 cut(s)	479
BsgI	GTGCAG	2 cut(s)	524, 555
BshFI	GGCC	1 cut(s)	522
BshNI	GGYRCC	1 cut(s)	80
BshVI	ATCGAT	1 cut(s)	654
BslI	CCNNNNNNNGG	1 cut(s)	770
BsmAI	GTCTC	3 cut(s)	617, 859, 899
BsnI	GGCC	1 cut(s)	522
Bsp119I	TTCGAA	1 cut(s)	606
BspACI	CCGC	2 cut(s)	324, 391
BspANI	GGCC	1 cut(s)	522
BspCNI	CTCAG	1 cut(s)	343
BspDI	ATCGAT	1 cut(s)	654
BspHI	TCATGA	1 cut(s)	861
BspLI	GGNNCC	1 cut(s)	82
BspMAI	CTGCAG	1 cut(s)	358
BspMI	ACCTGC	1 cut(s)	904
BspPI	GGATC	4 cut(s)	36, 185, 315, 812
BspT104I	TTCGAA	1 cut(s)	606
BspT107I	GGYRCC	1 cut(s)	80
BsrDI	GCAATG	2 cut(s)	194, 959
BsrI	ACTGG	4 cut(s)	117, 294, 589, 891
BssNI	GRCGYC	1 cut(s)	81
BssSI	CACGAG	1 cut(s)	500
Bst2BI	CACGAG	1 cut(s)	500
Bst2UI	CCWGG	3 cut(s)	302, 647, 800
BstACI	GRCGYC	1 cut(s)	81
BstBI	TTCGAA	1 cut(s)	606
BstC8I	GCNNGC	2 cut(s)	162, 666
BstDEI	CTNAG	1 cut(s)	330
BstF5I	GGATG	5 cut(s)	489, 518, 781, 949, 957
BstH2I	RGCGCY	1 cut(s)	84
BstHHI	GCGC	1 cut(s)	83
BstMAI	GTCTC	3 cut(s)	617, 859, 899
BstMWI	GCNNNNNNNGC	3 cut(s)	350, 359, 833
BstNI	CCWGG	3 cut(s)	302, 647, 800
BstNSI	RCATGY	1 cut(s)	792
BstSCI	CCNGG	3 cut(s)	300, 645, 798
BstSFI	CTRYAG	1 cut(s)	354
BstV1I	GCAGC	6 cut(s)	97, 100, 340, 368, 371, 655
BstV2I	GAAGAC	3 cut(s)	383, 846, 962
BstX2I	RGATCY	4 cut(s)	64, 307, 496, 817
BstYI	RGATCY	4 cut(s)	64, 307, 496, 817
Bsu15I	ATCGAT	1 cut(s)	654
BsuRI	GGCC	1 cut(s)	522
BsuTUI	ATCGAT	1 cut(s)	654
BtsCI	GGATG	5 cut(s)	489, 518, 781, 949, 957
BtsIMutI	CAGTG	3 cut(s)	17, 124, 582
BveI	ACCTGC	1 cut(s)	904
Cac8I	GCNNGC	2 cut(s)	162, 666
CaiI	CAGNNNCTG	1 cut(s)	821
CciI	TCATGA	1 cut(s)	861
CfoI	GCGC	1 cut(s)	83
ClaI	ATCGAT	1 cut(s)	654
CseI	GACGC	1 cut(s)	833
CsiI	ACCWGGT	1 cut(s)	798
Csp6I	GTAC	1 cut(s)	884
CviAII	CATG	2 cut(s)	789, 862
CviQI	GTAC	1 cut(s)	884
DdeI	CTNAG	1 cut(s)	330
DinI	GGCGCC	1 cut(s)	82
Eco57I	CTGAAG	2 cut(s)	81, 267
EcoRII	CCWGG	3 cut(s)	300, 645, 798
EgeI	GGCGCC	1 cut(s)	82
EheI	GGCGCC	1 cut(s)	82
FaeI	CATG	2 cut(s)	792, 865
FaiI	YATR	9 cut(s)	50, 222, 402, 410, 440, 452, 578, 790, 863
FatI	CATG	2 cut(s)	788, 861
FauI	CCCGC	1 cut(s)	384
FbaI	TGATCA	3 cut(s)	370, 621, 918
FblI	GTMKAC	1 cut(s)	180
Fnu4HI	GCNGC	7 cut(s)	111, 114, 325, 354, 357, 360, 669
FokI	GGATG	5 cut(s)	496, 525, 768, 956, 964
Fsp4HI	GCNGC	7 cut(s)	111, 114, 325, 354, 357, 360, 669
FspBI	CTAG	2 cut(s)	228, 696
GlaI	GCGC	1 cut(s)	82
GluI	GCNGC	7 cut(s)	111, 114, 325, 354, 357, 360, 669
GsaI	CCCAGC	1 cut(s)	483
GsuI	CTGGAG	2 cut(s)	284, 725
HaeII	RGCGCY	1 cut(s)	84
HaeIII	GGCC	1 cut(s)	522
HgaI	GACGC	1 cut(s)	833
HhaI	GCGC	1 cut(s)	83
Hin1I	GRCGYC	1 cut(s)	81
Hin1II	CATG	2 cut(s)	792, 865
Hin6I	GCGC	1 cut(s)	81
HinP1I	GCGC	1 cut(s)	81
HinfI	GANTC	5 cut(s)	56, 487, 682, 720, 730
HphI	GGTGA	2 cut(s)	788, 928
Hpy166II	GTNNAC	3 cut(s)	181, 397, 643
Hpy188I	TCNGA	7 cut(s)	10, 61, 190, 265, 375, 621, 923
Hpy188III	TCNNGA	4 cut(s)	228, 494, 821, 862
Hpy8I	GTNNAC	3 cut(s)	181, 397, 643
HpyAV	CCTTC	5 cut(s)	90, 260, 503, 750, 874
HpyCH4IV	ACGT	1 cut(s)	177
HpyF10VI	GCNNNNNNNGC	3 cut(s)	350, 359, 833
HpyF3I	CTNAG	1 cut(s)	330
HpySE526I	ACGT	1 cut(s)	177
Hsp92I	GRCGYC	1 cut(s)	81
Hsp92II	CATG	2 cut(s)	792, 865
HspAI	GCGC	1 cut(s)	81
KasI	GGCGCC	1 cut(s)	80
Ksp22I	TGATCA	3 cut(s)	370, 621, 918
LmnI	GCTCC	5 cut(s)	303, 476, 697, 706, 976
Lsp1109I	GCAGC	6 cut(s)	97, 100, 340, 368, 371, 655
LweI	GCATC	3 cut(s)	14, 311, 537
MabI	ACCWGGT	1 cut(s)	798
MaeI	CTAG	2 cut(s)	228, 696
MaeII	ACGT	1 cut(s)	177
MaeIII	GTNAC	2 cut(s)	200, 794
MboII	GAAGA	6 cut(s)	74, 260, 388, 482, 851, 967
MfeI	CAATTG	1 cut(s)	456
MflI	RGATCY	4 cut(s)	64, 307, 496, 817
Mly113I	GGCGCC	1 cut(s)	81
MlyI	GAGTC	2 cut(s)	65, 676
MnlI	CCTC	7 cut(s)	19, 298, 524, 623, 921, 934, 942
MroXI	GAANNNNTTC	1 cut(s)	857
MseI	TTAA	5 cut(s)	383, 429, 563, 593, 735
MslI	CAYNNNNRTG	1 cut(s)	319
MspR9I	CCNGG	3 cut(s)	302, 647, 800
MunI	CAATTG	1 cut(s)	456
MvaI	CCWGG	3 cut(s)	302, 647, 800
MwoI	GCNNNNNNNGC	3 cut(s)	350, 359, 833
NarI	GGCGCC	1 cut(s)	81
NlaIII	CATG	2 cut(s)	792, 865
NlaIV	GGNNCC	1 cut(s)	82
NmuCI	GTSAC	1 cut(s)	794
NspI	RCATGY	1 cut(s)	792
NspV	TTCGAA	1 cut(s)	606
PagI	TCATGA	1 cut(s)	861
PaqCI	CACCTGC	1 cut(s)	904
PciI	ACATGT	1 cut(s)	788
PdmI	GAANNNNTTC	1 cut(s)	857
PfeI	GAWTC	3 cut(s)	487, 720, 730
PflMI	CCANNNNNTGG	1 cut(s)	770
PfoI	TCCNGGA	1 cut(s)	300
PkrI	GCNGC	7 cut(s)	112, 115, 326, 355, 358, 361, 670
PleI	GAGTC	2 cut(s)	64, 676
PluTI	GGCGCC	1 cut(s)	84
PpsI	GAGTC	2 cut(s)	64, 676
PscI	ACATGT	1 cut(s)	788
Psp6I	CCWGG	3 cut(s)	300, 645, 798
PspFI	CCCAGC	1 cut(s)	479
PspGI	CCWGG	3 cut(s)	300, 645, 798
PspN4I	GGNNCC	1 cut(s)	82
PstI	CTGCAG	1 cut(s)	358
PstNI	CAGNNNCTG	1 cut(s)	821
PsuI	RGATCY	4 cut(s)	64, 307, 496, 817
RsaI	GTAC	1 cut(s)	885
RsaNI	GTAC	1 cut(s)	884
RseI	CAYNNNNRTG	1 cut(s)	319
SaqAI	TTAA	5 cut(s)	383, 429, 563, 593, 735
SatI	GCNGC	7 cut(s)	111, 114, 325, 354, 357, 360, 669
SchI	GAGTC	2 cut(s)	65, 676
ScrFI	CCNGG	3 cut(s)	302, 647, 800
SexAI	ACCWGGT	1 cut(s)	798
SfaNI	GCATC	3 cut(s)	14, 311, 537
SfcI	CTRYAG	1 cut(s)	354
SfoI	GGCGCC	1 cut(s)	82
SfuI	TTCGAA	1 cut(s)	606
SmiMI	CAYNNNNRTG	1 cut(s)	319
SmlI	CTYRAG	1 cut(s)	205
SmoI	CTYRAG	1 cut(s)	205
SsiI	CCGC	2 cut(s)	324, 391
SspDI	GGCGCC	1 cut(s)	80
SspMI	CTAG	2 cut(s)	228, 696
StyD4I	CCNGG	3 cut(s)	300, 645, 798
TaiI	ACGT	1 cut(s)	180
TaqI	TCGA	3 cut(s)	606, 628, 654
TaqII	GACCGA	1 cut(s)	733
TauI	GCSGC	1 cut(s)	327
TfiI	GAWTC	3 cut(s)	487, 720, 730
Tru1I	TTAA	5 cut(s)	383, 429, 563, 593, 735
Tru9I	TTAA	5 cut(s)	383, 429, 563, 593, 735
TscAI	CASTG	3 cut(s)	24, 124, 589
TseFI	GTSAC	1 cut(s)	794
TseI	GCWGC	6 cut(s)	110, 113, 353, 356, 359, 668
Tsp45I	GTSAC	1 cut(s)	794
TspDTI	ATGAA	7 cut(s)	25, 500, 672, 770, 850, 866, 968
TspGWI	ACGGA	2 cut(s)	103, 118
TspRI	CASTG	3 cut(s)	24, 124, 589
Van91I	CCANNNNNTGG	1 cut(s)	770
XapI	RAATTY	2 cut(s)	541, 1002
XbaI	TCTAGA	1 cut(s)	227
XceI	RCATGY	1 cut(s)	792
XmiI	GTMKAC	1 cut(s)	180
XmnI	GAANNNNTTC	1 cut(s)	857
XspI	CTAG	2 cut(s)	228, 696

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