Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0000543

Physical Location & Seq

Genomic Coordinates Reverse (-)

15814918 .. 15820518

Gene Structure 5601 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00230860.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 894 bp

ATGCGAGAGGGTTCTGACTTGAATGGACTAGTACCAGGTGGGAGACCTCCTGTGAAGCTCCATCAAGTGAACCTCAGTCACGCGAGACCATATGTTTGTTCAGTGGATGATTGTCATTCCAGCTACAGAAGAAAAGACCACTTGACTCGCCATCTATTTCATCACCAAGGAAAACTCTTTAAGTGTCCAATTGAGAACTGCAATCGTGAATTTGCCTTCCAAGGTAACATGACTAGGCATGTCAGTGAACTTCATAGTGAGGATTGCCCTTCGGCCAATGATGGATGTCAGAAGCAGCATGTGTGCCAAGAAAAAGGTTGCGGAAAGGTATTCAGATTTGCTTCCCAGCTGCGGAAGCATGAGGATTCCCATGTAAAGTTAGATAGAGTGGAGGCATTTTGTTCTGAACCAGGTTGTATGAAACCATTTTCGAATGAGCAATGCCTTAAAGCTCATATTCAGTCCTGCCACCAACATATTACCTGCGAGATATGTGGGACCAAACAGCTGAAAAAGAATATCAAAAGTCATCTGCGCACACATGAAGAGGGAGGTTCAATGGAGAGAATTAAATGTGATTATGAGGGCTGTCTTCAGACGTTTACTAAAAAATCGAATCTCCGTCAACATGTGAAGGCTGTTCACCTTGAAAATAAACCATTTGTCTGTTGCTTTCCGGGTTGTGGCAAAAGATTTGCCTACAAGCATGTGAAAGACAACCATGAAAAGAGTGGATGCCATGTCCATGCACACGGGGACTTTGAAGAGGCTGATGAAAAATTCCGGTCCAGGCCAAGGGGAGGGCGTAAGAGGCAGTGCCCCACTGTAGAAATGTTGGTTCGGAAAAGGGTGAGTCCTTCAAAACAATCGGGGCAGGACTCTGAGAACTTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000182 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003700 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0006355 GO:0008097 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0019843 GO:0022613 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0042254 GO:0042273 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043565 GO:0044085 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0070013 GO:0071840 GO:0080084 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903506 GO:1990837 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR zf-C2H2

Protein Analysis

297

Amino Acids

34.06

Weight (kDa)

9.03

Isoelectric Point (pI)

54.87

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: OG0000543)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G72050 AT1G72050 AT1G72050 AT1G72050
fragaria_vesca	FvH4_1g04960 FvH4_1g04960 FvH4_1g04960 FvH4_1g04960 FvH4_1g04960 FvH4_1g04960 FvH4_1g04960 FvH4_1g04960 FvH4_1g04960 FvH4_1g04960 FvH4_1g04960 FvH4_1g27520 FvH4_1g27520 FvH4_4g26190 FvH4_4g26190 FvH4_4g26190 FvH4_4g26190 FvH4_4g26190 FvH4_4g26190 FvH4_4g26190 FvH4_4g26190 FvH4_4g26190 FvH4_4g26190 FvH4_4g26190 FvH4_4g26190
malus_domestica	MD02G1048300.v1.1 MD15G1186600.v1.1 MD15G1411000.v1.1
prunus_persica	Prupe.1G551600_v2.0.a1 Prupe.1G551600_v2.0.a1 Prupe.1G551600_v2.0.a1 Prupe.1G551600_v2.0.a1 Prupe.7G229900_v2.0.a1 Prupe.7G229900_v2.0.a1
pyrus_communis	pycom02g04050 pycom15g36580
rosa_chinensis	RchiOBHm_Chr2g0090581 RchiOBHm_Chr2g0090591 RchiOBHm_Chr2g0120581 RchiOBHm_Chr5g0055971 RchiOBHm_Chr7g0228681 RchiOBHm_Chr7g0228721 RchiOBHm_Chr7g0228771
rosa_laevigata	RLG00000001547 RLG00000016122 RLG00000035039
rosa_multiflora	Rmu_co8222532.1_g000001 Rmu_co8474195.1_g000001 Rmu_sc0001581.1_g000005 Rmu_sc0004514.1_g000033 Rmu_sc0015624.1_g000002
rosa_roxburghii	Rroxscaffold_1G00024300 Rroxscaffold_2G00151010 Rroxscaffold_3G00230860 Rroxscaffold_3G00230910
rosa_rugosa	Rorug02G0009300 Rorug02G0009300 Rorug05G0296700 Rorug07G0251500 Rorug07G0251600 Rorug07G0251700 Rorug07G0251800
rosa_samantha	Rh2AG054400 Rh2BG053700 Rh2CG055900 Rh2DG054800 Rh5BG378200 Rh5CG401600 Rh7AG403700 Rh7AG404000 Rh7AG404600 Rh7AG405100 Rh7BG384300 Rh7CG422800 Rh7DG399300
rosa_wichuraiana	Rw2G004740 Rw2G022930 Rw5G034520 Rw7G033550 Rw7G033570

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	536
Acc36I	ACCTGC	1 cut(s)	491
AccII	CGCG	1 cut(s)	83
AciI	CCGC	2 cut(s)	321, 352
AcoI	YGGCCR	1 cut(s)	273
AcsI	RAATTY	2 cut(s)	209, 779
AcuI	CTGAAG	1 cut(s)	578
AfaI	GTAC	1 cut(s)	33
AfiI	CCNNNNNNNGG	4 cut(s)	351, 683, 795, 800
AflIII	ACRYGT	1 cut(s)	628
AgsI	TTSAA	5 cut(s)	22, 558, 650, 764, 861
AhlI	ACTAGT	1 cut(s)	28
AjnI	CCWGG	3 cut(s)	34, 409, 788
AluBI	AGCT	5 cut(s)	58, 123, 349, 452, 508
AluI	AGCT	5 cut(s)	58, 123, 349, 452, 508
Alw26I	GTCTC	2 cut(s)	37, 79
AoxI	GGCC	2 cut(s)	273, 791
ApeKI	GCWGC	2 cut(s)	295, 349
ApoI	RAATTY	2 cut(s)	209, 779
ArsI	GACNNNNNNTTYG	2 cut(s)	78, 110
AspLEI	GCGC	1 cut(s)	537
AspS9I	GGNCC	2 cut(s)	498, 786
AsuC2I	CCSGG	1 cut(s)	678
AsuHPI	GGTGA	3 cut(s)	155, 635, 862
AsuII	TTCGAA	1 cut(s)	431
AvaII	GGWCC	2 cut(s)	498, 786
BaeGI	GKGCMC	1 cut(s)	821
BbsI	GAAGAC	1 cut(s)	584
BbvI	GCAGC	2 cut(s)	307, 336
BccI	CCATC	3 cut(s)	69, 159, 275
BciT130I	CCWGG	3 cut(s)	36, 411, 790
BcnI	CCSGG	1 cut(s)	678
BcoDI	GTCTC	2 cut(s)	37, 79
BcuI	ACTAGT	1 cut(s)	28
BfaI	CTAG	2 cut(s)	29, 234
BfmI	CTRYAG	2 cut(s)	124, 825
BfuAI	ACCTGC	1 cut(s)	491
BisI	GCNGC	2 cut(s)	296, 350
BlsI	GCNGC	2 cut(s)	297, 351
Bme1390I	CCNGG	4 cut(s)	36, 411, 678, 790
Bme18I	GGWCC	2 cut(s)	498, 786
BmgT120I	GGNCC	2 cut(s)	498, 786
BmiI	GGNNCC	1 cut(s)	499
BmrFI	CCNGG	4 cut(s)	36, 411, 678, 790
BmsI	GCATC	1 cut(s)	725
BpiI	GAAGAC	1 cut(s)	584
Bpu14I	TTCGAA	1 cut(s)	431
BpuMI	CCSGG	1 cut(s)	678
BsaI	GGTCTC	2 cut(s)	37, 79
BsaJI	CCNNGG	3 cut(s)	166, 220, 794
BsaWI	WCCGGW	1 cut(s)	783
Bsc4I	CCNNNNNNNGG	4 cut(s)	351, 683, 795, 800
Bse3DI	GCAATG	1 cut(s)	446
BseBI	CCWGG	3 cut(s)	36, 411, 790
BseDI	CCNNGG	3 cut(s)	166, 220, 794
BseGI	GGATG	3 cut(s)	112, 290, 740
BseLI	CCNNNNNNNGG	4 cut(s)	351, 683, 795, 800
BseMI	GCAATG	1 cut(s)	446
BseMII	CTCAG	2 cut(s)	88, 873
BseSI	GKGCMC	1 cut(s)	821
BseXI	GCAGC	2 cut(s)	307, 336
BseYI	CCCAGC	1 cut(s)	345
Bsh1236I	CGCG	1 cut(s)	83
BshFI	GGCC	2 cut(s)	275, 793
BsiSI	CCGG	2 cut(s)	677, 784
BslFI	GGGAC	2 cut(s)	511, 770
BslI	CCNNNNNNNGG	4 cut(s)	351, 683, 795, 800
BsmAI	GTCTC	2 cut(s)	37, 79
BsmFI	GGGAC	2 cut(s)	511, 770
BsnI	GGCC	2 cut(s)	275, 793
Bso31I	GGTCTC	2 cut(s)	37, 79
Bsp119I	TTCGAA	1 cut(s)	431
Bsp1286I	GDGCHC	1 cut(s)	821
BspACI	CCGC	2 cut(s)	321, 352
BspANI	GGCC	2 cut(s)	275, 793
BspCNI	CTCAG	2 cut(s)	87, 874
BspFNI	CGCG	1 cut(s)	83
BspLI	GGNNCC	1 cut(s)	499
BspMI	ACCTGC	1 cut(s)	491
BspT104I	TTCGAA	1 cut(s)	431
BspTNI	GGTCTC	2 cut(s)	37, 79
BsrDI	GCAATG	1 cut(s)	446
BssECI	CCNNGG	3 cut(s)	166, 220, 794
BssT1I	CCWWGG	3 cut(s)	166, 220, 794
Bst2UI	CCWGG	3 cut(s)	36, 411, 790
Bst4CI	ACNGT	1 cut(s)	826
Bst6I	CTCTTC	2 cut(s)	540, 759
BstBI	TTCGAA	1 cut(s)	431
BstDEI	CTNAG	2 cut(s)	74, 882
BstF5I	GGATG	3 cut(s)	112, 290, 740
BstFNI	CGCG	1 cut(s)	83
BstHHI	GCGC	1 cut(s)	537
BstMAI	GTCTC	2 cut(s)	37, 79
BstMWI	GCNNNNNNNGC	2 cut(s)	355, 811
BstNI	CCWGG	3 cut(s)	36, 411, 790
BstNSI	RCATGY	4 cut(s)	242, 302, 632, 710
BstSCI	CCNGG	4 cut(s)	34, 409, 676, 788
BstSFI	CTRYAG	2 cut(s)	124, 825
BstSLI	GKGCMC	1 cut(s)	821
BstUI	CGCG	1 cut(s)	83
BstV1I	GCAGC	2 cut(s)	307, 336
BstV2I	GAAGAC	1 cut(s)	584
BsuRI	GGCC	2 cut(s)	275, 793
BtsCI	GGATG	3 cut(s)	112, 290, 740
BtsI	GCAGTG	1 cut(s)	821
BtsIMutI	CAGTG	4 cut(s)	108, 250, 821, 822
BveI	ACCTGC	1 cut(s)	491
CfoI	GCGC	1 cut(s)	537
Cfr13I	GGNCC	2 cut(s)	498, 786
CsiI	ACCWGGT	2 cut(s)	34, 409
Csp6I	GTAC	1 cut(s)	32
CviQI	GTAC	1 cut(s)	32
DdeI	CTNAG	2 cut(s)	74, 882
EaeI	YGGCCR	1 cut(s)	273
Eam1104I	CTCTTC	2 cut(s)	540, 759
EarI	CTCTTC	2 cut(s)	540, 759
Eco130I	CCWWGG	3 cut(s)	166, 220, 794
Eco31I	GGTCTC	2 cut(s)	37, 79
Eco47I	GGWCC	2 cut(s)	498, 786
Eco57I	CTGAAG	1 cut(s)	578
EcoRII	CCWGG	3 cut(s)	34, 409, 788
EcoT14I	CCWWGG	3 cut(s)	166, 220, 794
ErhI	CCWWGG	3 cut(s)	166, 220, 794
FaqI	GGGAC	2 cut(s)	511, 770
FauNDI	CATATG	1 cut(s)	91
Fnu4HI	GCNGC	2 cut(s)	296, 350
FokI	GGATG	3 cut(s)	119, 297, 747
Fsp4HI	GCNGC	2 cut(s)	296, 350
FspBI	CTAG	2 cut(s)	29, 234
FspI	TGCGCA	1 cut(s)	536
GlaI	GCGC	1 cut(s)	536
GluI	GCNGC	2 cut(s)	296, 350
GsaI	CCCAGC	1 cut(s)	349
HaeIII	GGCC	2 cut(s)	275, 793
HapII	CCGG	2 cut(s)	677, 784
HhaI	GCGC	1 cut(s)	537
Hin6I	GCGC	1 cut(s)	535
HinP1I	GCGC	1 cut(s)	535
HincII	GTYRAC	1 cut(s)	626
HindII	GTYRAC	1 cut(s)	626
HinfI	GANTC	5 cut(s)	145, 365, 616, 853, 878
HpaII	CCGG	2 cut(s)	677, 784
HphI	GGTGA	3 cut(s)	155, 635, 862
Hpy166II	GTNNAC	5 cut(s)	70, 248, 603, 626, 643
Hpy188I	TCNGA	8 cut(s)	16, 291, 335, 406, 597, 843, 883, 893
Hpy188III	TCNNGA	1 cut(s)	206
Hpy8I	GTNNAC	5 cut(s)	70, 248, 603, 626, 643
HpyAV	CCTTC	4 cut(s)	226, 279, 628, 867
HpyCH4III	ACNGT	1 cut(s)	826
HpyCH4IV	ACGT	1 cut(s)	599
HpyCH4V	TGCA	2 cut(s)	201, 749
HpyF10VI	GCNNNNNNNGC	2 cut(s)	355, 811
HpyF3I	CTNAG	2 cut(s)	74, 882
HpySE526I	ACGT	1 cut(s)	599
HspAI	GCGC	1 cut(s)	535
LmnI	GCTCC	1 cut(s)	63
Lsp1109I	GCAGC	2 cut(s)	307, 336
LweI	GCATC	1 cut(s)	725
MabI	ACCWGGT	2 cut(s)	34, 409
MaeI	CTAG	2 cut(s)	29, 234
MaeII	ACGT	1 cut(s)	599
MaeIII	GTNAC	2 cut(s)	77, 224
MboII	GAAGA	4 cut(s)	141, 557, 584, 776
MfeI	CAATTG	1 cut(s)	189
MhlI	GDGCHC	1 cut(s)	821
MluCI	AATT	4 cut(s)	189, 209, 567, 779
MlyI	GAGTC	3 cut(s)	139, 862, 872
MseI	TTAA	3 cut(s)	180, 447, 570
MslI	CAYNNNNRTG	2 cut(s)	243, 744
MspA1I	CMGCKG	2 cut(s)	349, 508
MspI	CCGG	2 cut(s)	677, 784
MspR9I	CCNGG	4 cut(s)	36, 411, 678, 790
MunI	CAATTG	1 cut(s)	189
MvaI	CCWGG	3 cut(s)	36, 411, 790
MvnI	CGCG	1 cut(s)	83
MwoI	GCNNNNNNNGC	2 cut(s)	355, 811
NciI	CCSGG	1 cut(s)	678
NdeI	CATATG	1 cut(s)	91
NlaIV	GGNNCC	1 cut(s)	499
NmuCI	GTSAC	1 cut(s)	77
NsbI	TGCGCA	1 cut(s)	536
NspI	RCATGY	4 cut(s)	242, 302, 632, 710
NspV	TTCGAA	1 cut(s)	431
PciI	ACATGT	1 cut(s)	628
PfeI	GAWTC	2 cut(s)	365, 616
PkrI	GCNGC	2 cut(s)	297, 351
PleI	GAGTC	3 cut(s)	139, 861, 872
PpsI	GAGTC	3 cut(s)	139, 861, 872
PscI	ACATGT	1 cut(s)	628
Psp6I	CCWGG	3 cut(s)	34, 409, 788
PspFI	CCCAGC	1 cut(s)	345
PspGI	CCWGG	3 cut(s)	34, 409, 788
PspN4I	GGNNCC	1 cut(s)	499
PspPI	GGNCC	2 cut(s)	498, 786
PvuII	CAGCTG	2 cut(s)	349, 508
RsaI	GTAC	1 cut(s)	33
RsaNI	GTAC	1 cut(s)	32
RseI	CAYNNNNRTG	2 cut(s)	243, 744
SaqAI	TTAA	3 cut(s)	180, 447, 570
SatI	GCNGC	2 cut(s)	296, 350
Sau96I	GGNCC	2 cut(s)	498, 786
SchI	GAGTC	3 cut(s)	139, 862, 872
ScrFI	CCNGG	4 cut(s)	36, 411, 678, 790
SduI	GDGCHC	1 cut(s)	821
SexAI	ACCWGGT	2 cut(s)	34, 409
SfaNI	GCATC	1 cut(s)	725
SfcI	CTRYAG	2 cut(s)	124, 825
SfuI	TTCGAA	1 cut(s)	431
SinI	GGWCC	2 cut(s)	498, 786
SmiMI	CAYNNNNRTG	2 cut(s)	243, 744
SpeI	ACTAGT	1 cut(s)	28
Sse9I	AATT	4 cut(s)	189, 209, 567, 779
SsiI	CCGC	2 cut(s)	321, 352
SspMI	CTAG	2 cut(s)	29, 234
StyD4I	CCNGG	4 cut(s)	34, 409, 676, 788
StyI	CCWWGG	3 cut(s)	166, 220, 794
TaaI	ACNGT	1 cut(s)	826
TaiI	ACGT	1 cut(s)	602
TaqI	TCGA	2 cut(s)	431, 614
TasI	AATT	4 cut(s)	189, 209, 567, 779
TfiI	GAWTC	2 cut(s)	365, 616
Tru1I	TTAA	3 cut(s)	180, 447, 570
Tru9I	TTAA	3 cut(s)	180, 447, 570
TscAI	CASTG	4 cut(s)	108, 250, 821, 829
TseFI	GTSAC	1 cut(s)	77
TseI	GCWGC	2 cut(s)	295, 349
Tsp45I	GTSAC	1 cut(s)	77
TspDTI	ATGAA	6 cut(s)	149, 242, 434, 558, 738, 789
TspGWI	ACGGA	1 cut(s)	611
TspRI	CASTG	4 cut(s)	108, 250, 821, 829
VpaK11BI	GGWCC	2 cut(s)	498, 786
XapI	RAATTY	2 cut(s)	209, 779
XceI	RCATGY	4 cut(s)	242, 302, 632, 710
XcmI	CCANNNNNNNNNTGG	1 cut(s)	728
XspI	CTAG	2 cut(s)	29, 234

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