Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0013151

Physical Location & Seq

Genomic Coordinates Reverse (-)

21917173 .. 21922338

Gene Structure 5166 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG230900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1161 bp

ATGCGAAGCTCAACCTTCTTCCCCAAAAACATTTCTTTACCAATTCCTCTAGTAATGTCGACCTCTTCTCTATCCATGGCTTCCACAAGTACCACTTGCTCTTCTTCACTTTGCAACAAAATCTCTAACTTCTCACTCACCCCAATCCCCACCCACTTACAACCTCAATTTAAACCCCTTAAACCCCTGAAGCTGAAAGCCCATTTCTCCTACTTCTCTCGTCTCTCTTCTCTCCACCATTTCCGCCGCCCCTTTTCGGCCTTAGACGGCCTCGAAGTCGAAGAAGGCAATGAAAGCTCGGAAGAAGAAGGAGAAGAACAAAAGGACCCACAAGCAGAATTGCTTGAAGAAGAAGAAGAAGAAAAAGAAGAGCCAAAGGAAGCAGGGTCTGACAGAAGTGACGCTGGGAGGCTCTATGTGGGGAACTTGCCTTATTCTATGACTTCTACCCAGTTGTCTGAGATTTTCGGCGAGGCCGGTACTGTCACTTATTCAGAGATTATTTATGATAGAGTTACTGATAGGAGCAGGGGATTTGGGTTTGTTACAATGTCGAACGTTGAGGAAGCTCAAGAGGCCATTCGGATGTTCGATGGTTCTCAAGTAGGCGGCCGAACTGTGAGGGTAAACTTCCCAGAAGTGCCGAGAGGGGGTGAAAGGGAAATTTTGGGACCCAAGATAAGGAATCCTGGCTACAAGGTCTACATAGATAGCCCTAATAAGATCTATGCAGGAAACCTTGGTTGGGGCCTGACTTCCCAGGGTCTTAAAGATGCCTTTGAAGGCCAGCCAGGGCTATTGGGTGCCAAGGTCATTTATGAGAGGGGTTCAGGAAGATCCCGAGGTTTTGGATTCGTCACTTTCGACACTGCTGCCGCTGCAGAAGCTGCTGTGACTGCCATGAATGGAGTGGAGGTTGATGGGCGGGCTTTGCGACTAAACATGGCTTCAGAAAGAGCTAGGACTGTAACTGTTACTCCACCTCCAGCATCGGAAACTAGTACAGAAAACACAGAGGCCAGTGAATTGGCTTCTCCCTCAGCATCTGAAACTACTGCAGAAGACACTACAGACAGTGGTGAAGTGGTTTCTCCCCCAGCATCAGAAACAACTGCAGAAGATGCAGACAGCAGTGAATTGATTTCCAGCGTTAGCATCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009579 GO:0009987 GO:0010467 GO:0016070 GO:0016072 GO:0022613 GO:0031425 GO:0034470 GO:0034641 GO:0034660 GO:0042254 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0071704 GO:0071840 GO:0090304 GO:0097159 GO:1901259 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko05130 map05130

Pfam Domains

Protein Families

RRM_1

Protein Analysis

386

Amino Acids

41.7

Weight (kDa)

4.7

Isoelectric Point (pI)

52.53

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	138 - 208	3.8e-20	RNA recognition motif
RRM_1	PF00076	242 - 312	2.9e-15	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0013151)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G52380
fragaria_vesca	FvH4_6g20490 FvH4_6g20490
malus_domestica	MD12G1042000.v1.1 MD14G1041200.v1.1
prunus_persica	Prupe.7G093200_v2.0.a1
pyrus_communis	pycom12g03670 pycom14g03500
rosa_chinensis	RchiOBHm_Chr3g0476371
rosa_laevigata	RLG00000023776
rosa_multiflora	Rmu_sc0000114.1_g000008
rosa_roxburghii	Rroxscaffold_6G00405360
rosa_rugosa	Rorug03G0153800
rosa_samantha	Rh3AG205000 Rh3BG236600 Rh3CG231100 Rh3DG230900
rosa_wichuraiana	Rw3G018630

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	803
AccI	GTMKAC	2 cut(s)	59, 702
AciI	CCGC	5 cut(s)	244, 247, 609, 876, 925
AclI	AACGTT	1 cut(s)	558
AclWI	GGATC	1 cut(s)	831
AcoI	YGGCCR	1 cut(s)	610
AcsI	RAATTY	1 cut(s)	663
AcuI	CTGAAG	2 cut(s)	209, 933
AfaI	GTAC	3 cut(s)	91, 481, 1003
AfiI	CCNNNNNNNGG	4 cut(s)	256, 650, 681, 745
AgsI	TTSAA	2 cut(s)	347, 782
AhlI	ACTAGT	1 cut(s)	998
AjnI	CCWGG	3 cut(s)	688, 759, 790
AjuI	GAANNNNNNNTTGG	2 cut(s)	727, 759
AluBI	AGCT	6 cut(s)	9, 193, 297, 569, 887, 959
AluI	AGCT	6 cut(s)	9, 193, 297, 569, 887, 959
Alw26I	GTCTC	1 cut(s)	227
AlwI	GGATC	1 cut(s)	831
AlwNI	CAGNNNCTG	3 cut(s)	389, 887, 1046
Ama87I	CYCGRG	1 cut(s)	840
AoxI	GGCC	8 cut(s)	258, 268, 474, 576, 610, 748, 784, 1017
ApeKI	GCWGC	3 cut(s)	872, 878, 887
ApoI	RAATTY	1 cut(s)	663
AspS9I	GGNCC	3 cut(s)	325, 671, 748
AsuHPI	GGTGA	3 cut(s)	130, 665, 1091
AvaI	CYCGRG	1 cut(s)	840
AvaII	GGWCC	2 cut(s)	325, 671
BanI	GGYRCC	1 cut(s)	803
BbsI	GAAGAC	1 cut(s)	1068
BbvCI	CCTCAGC	1 cut(s)	1039
BbvI	GCAGC	3 cut(s)	859, 865, 874
BccI	CCATC	2 cut(s)	587, 914
BceAI	ACGGC	1 cut(s)	283
BcgI	CGANNNNNNTGC	2 cut(s)	854, 888
BciT130I	CCWGG	3 cut(s)	690, 761, 792
BcoDI	GTCTC	1 cut(s)	227
BcuI	ACTAGT	1 cut(s)	998
BfaI	CTAG	3 cut(s)	50, 960, 999
BfmI	CTRYAG	4 cut(s)	879, 1056, 1068, 1113
BglII	AGATCT	1 cut(s)	723
BisI	GCNGC	6 cut(s)	247, 610, 873, 876, 879, 888
BlsI	GCNGC	6 cut(s)	248, 611, 874, 877, 880, 889
Bme1390I	CCNGG	3 cut(s)	690, 761, 792
Bme18I	GGWCC	2 cut(s)	325, 671
BmeT110I	CYCGRG	1 cut(s)	840
BmgT120I	GGNCC	3 cut(s)	325, 671, 748
BmiI	GGNNCC	5 cut(s)	327, 672, 673, 749, 805
BmrFI	CCNGG	3 cut(s)	690, 761, 792
BmrI	ACTGGG	1 cut(s)	445
BmsI	GCATC	5 cut(s)	763, 998, 1052, 1109, 1111
BmuI	ACTGGG	1 cut(s)	445
BpiI	GAAGAC	1 cut(s)	1068
BpmI	CTGGAG	1 cut(s)	969
Bpu10I	CCTNAGC	1 cut(s)	1039
BpuEI	CTTGAG	2 cut(s)	555, 585
BsaJI	CCNNGG	7 cut(s)	75, 739, 759, 760, 791, 807, 841
BsaXI	ACNNNNNCTCC	6 cut(s)	900, 930, 961, 967, 991, 997
Bsc4I	CCNNNNNNNGG	4 cut(s)	256, 650, 681, 745
Bse118I	RCCGGY	1 cut(s)	476
Bse1I	ACTGG	2 cut(s)	451, 1020
Bse3DI	GCAATG	1 cut(s)	295
BseBI	CCWGG	3 cut(s)	690, 761, 792
BseDI	CCNNGG	7 cut(s)	75, 739, 759, 760, 791, 807, 841
BseGI	GGATG	1 cut(s)	591
BseLI	CCNNNNNNNGG	4 cut(s)	256, 650, 681, 745
BseMI	GCAATG	1 cut(s)	295
BseMII	CTCAG	2 cut(s)	450, 1053
BseNI	ACTGG	2 cut(s)	451, 1020
BseX3I	CGGCCG	1 cut(s)	610
BseXI	GCAGC	3 cut(s)	859, 865, 874
BseYI	CCCAGC	2 cut(s)	404, 1096
Bsh1285I	CGRYCG	1 cut(s)	613
BshFI	GGCC	8 cut(s)	260, 270, 476, 578, 612, 750, 786, 1019
BshNI	GGYRCC	1 cut(s)	803
BsiEI	CGRYCG	1 cut(s)	613
BsiHKCI	CYCGRG	1 cut(s)	840
BsiSI	CCGG	1 cut(s)	477
BslFI	GGGAC	1 cut(s)	684
BslI	CCNNNNNNNGG	4 cut(s)	256, 650, 681, 745
BsmAI	GTCTC	1 cut(s)	227
BsmBI	CGTCTC	1 cut(s)	227
BsmFI	GGGAC	1 cut(s)	684
BsnI	GGCC	8 cut(s)	260, 270, 476, 578, 612, 750, 786, 1019
BsoBI	CYCGRG	1 cut(s)	840
Bsp143I	GATC	2 cut(s)	723, 836
Bsp19I	CCATGG	1 cut(s)	75
BspACI	CCGC	5 cut(s)	244, 247, 609, 876, 925
BspANI	GGCC	8 cut(s)	260, 270, 476, 578, 612, 750, 786, 1019
BspCNI	CTCAG	2 cut(s)	451, 1052
BspLI	GGNNCC	5 cut(s)	327, 672, 673, 749, 805
BspMAI	CTGCAG	3 cut(s)	883, 1060, 1117
BspPI	GGATC	1 cut(s)	831
BspQI	GCTCTTC	2 cut(s)	106, 363
BspT107I	GGYRCC	1 cut(s)	803
BsrDI	GCAATG	1 cut(s)	295
BsrFI	RCCGGY	1 cut(s)	476
BsrI	ACTGG	2 cut(s)	451, 1020
BssAI	RCCGGY	1 cut(s)	476
BssECI	CCNNGG	7 cut(s)	75, 739, 759, 760, 791, 807, 841
BssMI	GATC	2 cut(s)	723, 836
BssT1I	CCWWGG	3 cut(s)	75, 739, 807
Bst2UI	CCWGG	3 cut(s)	690, 761, 792
Bst4CI	ACNGT	5 cut(s)	484, 619, 967, 973, 1076
Bst6I	CTCTTC	4 cut(s)	70, 106, 232, 363
BstAPI	GCANNNNNTGC	2 cut(s)	887, 1121
BstC8I	GCNNGC	2 cut(s)	788, 927
BstDEI	CTNAG	3 cut(s)	262, 459, 1039
BstDSI	CCRYGG	1 cut(s)	75
BstF5I	GGATG	1 cut(s)	591
BstKTI	GATC	2 cut(s)	726, 839
BstMAI	GTCTC	1 cut(s)	227
BstMBI	GATC	2 cut(s)	723, 836
BstMCI	CGRYCG	1 cut(s)	613
BstMWI	GCNNNNNNNGC	8 cut(s)	294, 575, 878, 884, 887, 896, 931, 1121
BstNI	CCWGG	3 cut(s)	690, 761, 792
BstSCI	CCNGG	3 cut(s)	688, 759, 790
BstSFI	CTRYAG	4 cut(s)	879, 1056, 1068, 1113
BstV1I	GCAGC	3 cut(s)	859, 865, 874
BstV2I	GAAGAC	1 cut(s)	1068
BstX2I	RGATCY	2 cut(s)	723, 836
BstXI	CCANNNNNNTGG	1 cut(s)	1027
BstYI	RGATCY	2 cut(s)	723, 836
BstZI	CGGCCG	1 cut(s)	610
BsuRI	GGCC	8 cut(s)	260, 270, 476, 578, 612, 750, 786, 1019
BtgI	CCRYGG	1 cut(s)	75
BtsCI	GGATG	1 cut(s)	591
BtsI	GCAGTG	2 cut(s)	867, 1138
BtsIMutI	CAGTG	4 cut(s)	867, 1027, 1081, 1138
Cac8I	GCNNGC	2 cut(s)	788, 927
CaiI	CAGNNNCTG	3 cut(s)	389, 887, 1046
Cfr10I	RCCGGY	1 cut(s)	476
Cfr13I	GGNCC	3 cut(s)	325, 671, 748
CseI	GACGC	1 cut(s)	410
Csp6I	GTAC	3 cut(s)	90, 480, 1002
CviAII	CATG	3 cut(s)	76, 901, 943
CviQI	GTAC	3 cut(s)	90, 480, 1002
DdeI	CTNAG	3 cut(s)	262, 459, 1039
DpnI	GATC	2 cut(s)	725, 838
DpnII	GATC	2 cut(s)	723, 836
DraI	TTTAAA	1 cut(s)	172
EaeI	YGGCCR	1 cut(s)	610
EagI	CGGCCG	1 cut(s)	610
Eam1104I	CTCTTC	4 cut(s)	70, 106, 232, 363
EarI	CTCTTC	4 cut(s)	70, 106, 232, 363
EciI	GGCGGA	1 cut(s)	233
EclXI	CGGCCG	1 cut(s)	610
Eco130I	CCWWGG	3 cut(s)	75, 739, 807
Eco47I	GGWCC	2 cut(s)	325, 671
Eco52I	CGGCCG	1 cut(s)	610
Eco57I	CTGAAG	2 cut(s)	209, 933
Eco88I	CYCGRG	1 cut(s)	840
EcoO109I	RGGNCCY	3 cut(s)	325, 671, 748
EcoRII	CCWGG	3 cut(s)	688, 759, 790
EcoT14I	CCWWGG	3 cut(s)	75, 739, 807
ErhI	CCWWGG	3 cut(s)	75, 739, 807
Esp3I	CGTCTC	1 cut(s)	227
FaeI	CATG	3 cut(s)	79, 904, 946
FaiI	YATR	9 cut(s)	77, 417, 440, 507, 707, 729, 819, 902, 944
FalI	AAGNNNNNCTT	2 cut(s)	79, 111
FaqI	GGGAC	1 cut(s)	684
FatI	CATG	3 cut(s)	75, 900, 942
FauI	CCCGC	1 cut(s)	918
FblI	GTMKAC	2 cut(s)	59, 702
Fnu4HI	GCNGC	6 cut(s)	247, 610, 873, 876, 879, 888
FokI	GGATG	1 cut(s)	598
Fsp4HI	GCNGC	6 cut(s)	247, 610, 873, 876, 879, 888
FspBI	CTAG	3 cut(s)	50, 960, 999
GluI	GCNGC	6 cut(s)	247, 610, 873, 876, 879, 888
GsaI	CCCAGC	2 cut(s)	408, 1100
GsuI	CTGGAG	1 cut(s)	969
HaeIII	GGCC	8 cut(s)	260, 270, 476, 578, 612, 750, 786, 1019
HapII	CCGG	1 cut(s)	477
HgaI	GACGC	1 cut(s)	410
Hin1II	CATG	3 cut(s)	79, 904, 946
HincII	GTYRAC	1 cut(s)	60
HindII	GTYRAC	1 cut(s)	60
HinfI	GANTC	2 cut(s)	685, 852
HpaII	CCGG	1 cut(s)	477
HphI	GGTGA	3 cut(s)	130, 665, 1091
Hpy166II	GTNNAC	3 cut(s)	60, 628, 703
Hpy188III	TCNNGA	3 cut(s)	572, 831, 840
Hpy8I	GTNNAC	3 cut(s)	60, 628, 703
HpyAV	CCTTC	4 cut(s)	25, 278, 302, 776
HpyCH4III	ACNGT	5 cut(s)	484, 619, 967, 973, 1076
HpyCH4IV	ACGT	1 cut(s)	558
HpyCH4V	TGCA	6 cut(s)	114, 731, 881, 1058, 1115, 1124
HpyF10VI	GCNNNNNNNGC	8 cut(s)	294, 575, 878, 884, 887, 896, 931, 1121
HpyF3I	CTNAG	3 cut(s)	262, 459, 1039
HpySE526I	ACGT	1 cut(s)	558
Hsp92II	CATG	3 cut(s)	79, 904, 946
KflI	GGGWCCC	1 cut(s)	671
Kzo9I	GATC	2 cut(s)	723, 836
LguI	GCTCTTC	2 cut(s)	106, 363
LmnI	GCTCC	1 cut(s)	525
Lsp1109I	GCAGC	3 cut(s)	859, 865, 874
LweI	GCATC	5 cut(s)	763, 998, 1052, 1109, 1111
MaeI	CTAG	3 cut(s)	50, 960, 999
MaeII	ACGT	1 cut(s)	558
MaeIII	GTNAC	8 cut(s)	398, 484, 514, 544, 856, 892, 967, 973
MalI	GATC	2 cut(s)	725, 838
MboI	GATC	2 cut(s)	723, 836
MflI	RGATCY	2 cut(s)	723, 836
MluCI	AATT	6 cut(s)	42, 167, 338, 663, 1025, 1136
MseI	TTAA	3 cut(s)	171, 180, 768
MslI	CAYNNNNRTG	1 cut(s)	584
MspA1I	CMGCKG	1 cut(s)	878
MspI	CCGG	1 cut(s)	477
MspR9I	CCNGG	3 cut(s)	690, 761, 792
MvaI	CCWGG	3 cut(s)	690, 761, 792
MwoI	GCNNNNNNNGC	8 cut(s)	294, 575, 878, 884, 887, 896, 931, 1121
NcoI	CCATGG	1 cut(s)	75
NdeII	GATC	2 cut(s)	723, 836
NlaIII	CATG	3 cut(s)	79, 904, 946
NlaIV	GGNNCC	5 cut(s)	327, 672, 673, 749, 805
NmeAIII	GCCGAG	1 cut(s)	669
NmuCI	GTSAC	4 cut(s)	398, 484, 856, 892
PasI	CCCWGGG	1 cut(s)	760
PciSI	GCTCTTC	2 cut(s)	106, 363
PcsI	WCGNNNNNNNCGW	1 cut(s)	861
PfeI	GAWTC	2 cut(s)	685, 852
PkrI	GCNGC	6 cut(s)	248, 611, 874, 877, 880, 889
PpuMI	RGGWCCY	2 cut(s)	325, 671
Psp1406I	AACGTT	1 cut(s)	558
Psp5II	RGGWCCY	2 cut(s)	325, 671
Psp6I	CCWGG	3 cut(s)	688, 759, 790
PspFI	CCCAGC	2 cut(s)	404, 1096
PspGI	CCWGG	3 cut(s)	688, 759, 790
PspN4I	GGNNCC	5 cut(s)	327, 672, 673, 749, 805
PspPI	GGNCC	3 cut(s)	325, 671, 748
PspPPI	RGGWCCY	2 cut(s)	325, 671
PstI	CTGCAG	3 cut(s)	883, 1060, 1117
PstNI	CAGNNNCTG	3 cut(s)	389, 887, 1046
PsuI	RGATCY	2 cut(s)	723, 836
RsaI	GTAC	3 cut(s)	91, 481, 1003
RsaNI	GTAC	3 cut(s)	90, 480, 1002
RseI	CAYNNNNRTG	1 cut(s)	584
SalI	GTCGAC	1 cut(s)	58
SapI	GCTCTTC	2 cut(s)	106, 363
SaqAI	TTAA	3 cut(s)	171, 180, 768
SatI	GCNGC	6 cut(s)	247, 610, 873, 876, 879, 888
Sau3AI	GATC	2 cut(s)	723, 836
Sau96I	GGNCC	3 cut(s)	325, 671, 748
ScrFI	CCNGG	3 cut(s)	690, 761, 792
SfaNI	GCATC	5 cut(s)	763, 998, 1052, 1109, 1111
SfcI	CTRYAG	4 cut(s)	879, 1056, 1068, 1113
SinI	GGWCC	2 cut(s)	325, 671
SmiMI	CAYNNNNRTG	1 cut(s)	584
SmlI	CTYRAG	2 cut(s)	570, 600
SmoI	CTYRAG	2 cut(s)	570, 600
SpeI	ACTAGT	1 cut(s)	998
Sse9I	AATT	6 cut(s)	42, 167, 338, 663, 1025, 1136
SsiI	CCGC	5 cut(s)	244, 247, 609, 876, 925
SspMI	CTAG	3 cut(s)	50, 960, 999
StyD4I	CCNGG	3 cut(s)	688, 759, 790
StyI	CCWWGG	3 cut(s)	75, 739, 807
TaaI	ACNGT	5 cut(s)	484, 619, 967, 973, 1076
TaiI	ACGT	1 cut(s)	561
TaqI	TCGA	6 cut(s)	59, 273, 279, 554, 591, 864
TasI	AATT	6 cut(s)	42, 167, 338, 663, 1025, 1136
TatI	WGTACW	1 cut(s)	1001
TauI	GCSGC	3 cut(s)	249, 612, 878
TfiI	GAWTC	2 cut(s)	685, 852
Tru1I	TTAA	3 cut(s)	171, 180, 768
Tru9I	TTAA	3 cut(s)	171, 180, 768
TscAI	CASTG	4 cut(s)	874, 1027, 1081, 1138
TseFI	GTSAC	4 cut(s)	398, 484, 856, 892
TseI	GCWGC	3 cut(s)	872, 878, 887
Tsp45I	GTSAC	4 cut(s)	398, 484, 856, 892
TspDTI	ATGAA	2 cut(s)	306, 917
TspRI	CASTG	4 cut(s)	874, 1027, 1081, 1138
VpaK11BI	GGWCC	2 cut(s)	325, 671
XapI	RAATTY	1 cut(s)	663
XcmI	CCANNNNNNNNNTGG	1 cut(s)	907
XmiI	GTMKAC	2 cut(s)	59, 702
XspI	CTAG	3 cut(s)	50, 960, 999

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