Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0010687

Physical Location & Seq

Genomic Coordinates Reverse (-)

27864766 .. 27869104

Gene Structure 4339 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG274900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1086 bp

ATGGGTTATAAGCCCCGGAGCGTAAAACGGGTATGGTCACAGCAACCTAGCTATTTACTTGACCCGCCCAGTTCCACAGCCTTTGTGTCTCCTTGTTTCGTCTCGCAAATTCTGTGTGTGTCTCTCTCAACTCGGAAGCTCCAACAGATACACATAGCATTAGAAGAAACTCGACAAGAGAGAATGGGATTGCCTGATTCTTCTGGAGGTTTGCTGTCTGAATTGGACGTCGATGCTTTCAGACGCCTATTTCCTCTTCGGTTCTATGAGAGCCATCTTGCCAAGTCCACACGCCCTGATGGCAGGTCACTTGACAAAGCTAGAGACACTTCCTCAGCCCTTGGGGCCGTTGCATCTGCGGATGGATCAGCACTAGTAAAAATTGGTTCGACGACAATGTTGGCAGCTATAAAAATGGAAGTCATGACCCCTTCTCAAGAGTCACCAGATGAGGGATGCATAGCAATTGAATTCCACATGCCTCCAATTTGCTCTCCAATTGTAAGGCCTGGCAGGCCAGCTGAGGCAGCACCTGTTGTGTCAAAACAGCTATCTGACACTATTTTAAGTTCCGGCATGATTAATTTGAAGGAATTATCCTTGATTAGTGGAAAAGCTGCTTGGATGGTCTACCTGGACATATACTGTTTGGATGCTGATGGTGCTCTATTTGATGCTGCTTTGCTGTCAGCAGTCGCTGCCTTTTCTCACTTGCAGATTCCTGTAGTTTCTATGAATGATGAAGGGAAAGTAGTAGTCATGTCTGAGGAAAATGAGGGAGGAAAGGAGCCAGTCAATAAAGAGAAGAGGAAACTCACGTTATGCAGTATTCCATTTTCACTAACATGCATACTTTATAAGAATTACATCTTGGCGGACCCTACAGCAGAGGAAGAGTCGATCATGGAAACCCTTGTAACCGTGGTTTTGGATTCATCTGGTCAACTTGTGTCTCTTTACAAGCCAGGTGGATCAGTTCTTGCCTATACATCAGCTATCCAGGATTGTGTGGCACTCACTAGGCAAAGAGTGAGGGAGCTTCAGACGATTCTAGACGAAGCTACCGCTGGTATGGAGGTCGATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03018 map03018

Pfam Domains

Protein Families

RNase_PH RNase_PH_C

Protein Analysis

361

Amino Acids

39.13

Weight (kDa)

5.08

Isoelectric Point (pI)

52.37

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_PH	PF01138	107 - 241	2.7e-25	3' exoribonuclease family, domain 1
RNase_PH_C	PF03725	277 - 326	9.5e-10	3' exoribonuclease family, domain 2

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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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: OG0010687)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G60080
fragaria_vesca	FvH4_6g23810 FvH4_6g23810 FvH4_6g23810 FvH4_6g23810
malus_domestica	MD12G1073800.v1.1
prunus_persica	Prupe.7G061000_v2.0.a1 Prupe.7G061000_v2.0.a1 Prupe.7G061000_v2.0.a1 Prupe.7G061000_v2.0.a1
pyrus_communis	pycom12g06380
rosa_chinensis	RchiOBHm_Chr3g0482341
rosa_laevigata	RLG00000023357
rosa_roxburghii	Rroxscaffold_6G00399410
rosa_rugosa	Rorug03G0195900
rosa_samantha	Rh3AG247600 Rh3BG282100 Rh3CG279100 Rh3DG274900
rosa_wichuraiana	Rw3G022200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	9, 858
AatII	GACGTC	1 cut(s)	231
Acc36I	ACCTGC	1 cut(s)	294
AccI	GTMKAC	1 cut(s)	630
AciI	CCGC	4 cut(s)	65, 359, 875, 1065
AclWI	GGATC	2 cut(s)	373, 979
AcsI	RAATTY	2 cut(s)	108, 470
AcuI	CTGAAG	1 cut(s)	1025
AcyI	GRCGYC	2 cut(s)	228, 244
AfiI	CCNNNNNNNGG	1 cut(s)	452
AgsI	TTSAA	2 cut(s)	470, 589
AhlI	ACTAGT	1 cut(s)	373
AjnI	CCWGG	4 cut(s)	508, 633, 964, 999
AjuI	GAANNNNNNNTTGG	4 cut(s)	604, 636, 854, 886
Alw21I	GWGCWC	1 cut(s)	667
Alw26I	GTCTC	5 cut(s)	93, 106, 126, 318, 957
AlwI	GGATC	2 cut(s)	373, 979
AlwNI	CAGNNNCTG	2 cut(s)	533, 698
AoxI	GGCC	3 cut(s)	345, 506, 515
ApeKI	GCWGC	5 cut(s)	404, 527, 617, 677, 698
ApoI	RAATTY	2 cut(s)	108, 470
AseI	ATTAAT	1 cut(s)	582
AspS9I	GGNCC	2 cut(s)	345, 877
AsuC2I	CCSGG	1 cut(s)	16
AsuHPI	GGTGA	1 cut(s)	435
AvaII	GGWCC	1 cut(s)	877
Bbv12I	GWGCWC	1 cut(s)	667
BbvCI	CCTCAGC	2 cut(s)	334, 522
BbvI	GCAGC	5 cut(s)	416, 539, 604, 664, 685
BccI	CCATC	5 cut(s)	282, 293, 356, 619, 653
BceAI	ACGGC	1 cut(s)	332
BciT130I	CCWGG	4 cut(s)	510, 635, 966, 1001
BcnI	CCSGG	1 cut(s)	16
BcoDI	GTCTC	5 cut(s)	93, 106, 126, 318, 957
BcuI	ACTAGT	1 cut(s)	373
BfaI	CTAG	5 cut(s)	48, 321, 374, 1020, 1052
BfmI	CTRYAG	2 cut(s)	723, 882
BfuAI	ACCTGC	1 cut(s)	294
BglI	GCCNNNNNGGC	3 cut(s)	300, 344, 514
BisI	GCNGC	5 cut(s)	405, 528, 618, 678, 699
BlsI	GCNGC	5 cut(s)	406, 529, 619, 679, 700
Bme1390I	CCNGG	5 cut(s)	16, 510, 635, 966, 1001
Bme18I	GGWCC	1 cut(s)	877
BmgT120I	GGNCC	2 cut(s)	345, 877
BmiI	GGNNCC	3 cut(s)	346, 789, 879
BmrFI	CCNGG	5 cut(s)	16, 510, 635, 966, 1001
BmrI	ACTGGG	1 cut(s)	63
BmsI	GCATC	5 cut(s)	223, 362, 446, 643, 664
BmuI	ACTGGG	1 cut(s)	63
BpmI	CTGGAG	1 cut(s)	225
Bpu10I	CCTNAGC	2 cut(s)	334, 522
BpuEI	CTTGAG	1 cut(s)	420
BpuMI	CCSGG	1 cut(s)	16
BsaHI	GRCGYC	2 cut(s)	228, 244
BsaJI	CCNNGG	3 cut(s)	14, 340, 921
Bsc4I	CCNNNNNNNGG	1 cut(s)	452
Bse1I	ACTGG	2 cut(s)	69, 791
BseBI	CCWGG	4 cut(s)	510, 635, 966, 1001
BseDI	CCNNGG	3 cut(s)	14, 340, 921
BseGI	GGATG	4 cut(s)	367, 461, 630, 658
BseLI	CCNNNNNNNGG	1 cut(s)	452
BseMII	CTCAG	3 cut(s)	348, 513, 756
BseNI	ACTGG	2 cut(s)	69, 791
BseXI	GCAGC	5 cut(s)	416, 539, 604, 664, 685
BshFI	GGCC	3 cut(s)	347, 508, 517
BsiHKAI	GWGCWC	1 cut(s)	667
BsiSI	CCGG	2 cut(s)	16, 573
BslI	CCNNNNNNNGG	1 cut(s)	452
BsmAI	GTCTC	5 cut(s)	93, 106, 126, 318, 957
BsmBI	CGTCTC	1 cut(s)	106
BsnI	GGCC	3 cut(s)	347, 508, 517
Bsp1286I	GDGCHC	1 cut(s)	667
Bsp143I	GATC	3 cut(s)	365, 900, 971
BspACI	CCGC	4 cut(s)	65, 359, 875, 1065
BspANI	GGCC	3 cut(s)	347, 508, 517
BspCNI	CTCAG	3 cut(s)	347, 514, 757
BspHI	TCATGA	1 cut(s)	423
BspLI	GGNNCC	3 cut(s)	346, 789, 879
BspMI	ACCTGC	1 cut(s)	294
BspPI	GGATC	2 cut(s)	373, 979
BsrI	ACTGG	2 cut(s)	69, 791
BssECI	CCNNGG	3 cut(s)	14, 340, 921
BssMI	GATC	3 cut(s)	365, 900, 971
BssNI	GRCGYC	2 cut(s)	228, 244
BssT1I	CCWWGG	1 cut(s)	340
Bst2UI	CCWGG	4 cut(s)	510, 635, 966, 1001
Bst4CI	ACNGT	2 cut(s)	647, 922
Bst6I	CTCTTC	3 cut(s)	261, 800, 888
BstACI	GRCGYC	2 cut(s)	228, 244
BstAPI	GCANNNNNTGC	1 cut(s)	698
BstC8I	GCNNGC	2 cut(s)	515, 519
BstDEI	CTNAG	3 cut(s)	334, 522, 765
BstDSI	CCRYGG	1 cut(s)	921
BstF5I	GGATG	4 cut(s)	367, 461, 630, 658
BstKTI	GATC	3 cut(s)	368, 903, 974
BstMAI	GTCTC	5 cut(s)	93, 106, 126, 318, 957
BstMBI	GATC	3 cut(s)	365, 900, 971
BstMWI	GCNNNNNNNGC	6 cut(s)	300, 344, 514, 527, 662, 698
BstNI	CCWGG	4 cut(s)	510, 635, 966, 1001
BstNSI	RCATGY	2 cut(s)	481, 849
BstSCI	CCNGG	5 cut(s)	14, 508, 633, 964, 999
BstSFI	CTRYAG	2 cut(s)	723, 882
BstV1I	GCAGC	5 cut(s)	416, 539, 604, 664, 685
BsuRI	GGCC	3 cut(s)	347, 508, 517
BtgI	CCRYGG	1 cut(s)	921
BtsCI	GGATG	4 cut(s)	367, 461, 630, 658
BveI	ACCTGC	1 cut(s)	294
Cac8I	GCNNGC	2 cut(s)	515, 519
CaiI	CAGNNNCTG	2 cut(s)	533, 698
CciI	TCATGA	1 cut(s)	423
Cfr13I	GGNCC	2 cut(s)	345, 877
CseI	GACGC	1 cut(s)	252
CspCI	CAANNNNNGTGG	4 cut(s)	64, 99, 949, 984
CviAII	CATG	6 cut(s)	424, 478, 577, 760, 846, 904
DdeI	CTNAG	3 cut(s)	334, 522, 765
DpnI	GATC	3 cut(s)	367, 902, 973
DpnII	GATC	3 cut(s)	365, 900, 971
Eam1104I	CTCTTC	3 cut(s)	261, 800, 888
EarI	CTCTTC	3 cut(s)	261, 800, 888
EciI	GGCGGA	1 cut(s)	890
Eco130I	CCWWGG	1 cut(s)	340
Eco147I	AGGCCT	1 cut(s)	508
Eco47I	GGWCC	1 cut(s)	877
Eco57I	CTGAAG	1 cut(s)	1025
EcoRI	GAATTC	1 cut(s)	470
EcoRII	CCWGG	4 cut(s)	508, 633, 964, 999
EcoT14I	CCWWGG	1 cut(s)	340
EcoT22I	ATGCAT	2 cut(s)	461, 851
ErhI	CCWWGG	1 cut(s)	340
Esp3I	CGTCTC	1 cut(s)	106
FaeI	CATG	6 cut(s)	427, 481, 580, 763, 849, 907
FatI	CATG	6 cut(s)	423, 477, 576, 759, 845, 903
FauI	CCCGC	1 cut(s)	72
FblI	GTMKAC	1 cut(s)	630
Fnu4HI	GCNGC	5 cut(s)	405, 528, 618, 678, 699
FokI	GGATG	4 cut(s)	374, 468, 637, 665
Fsp4HI	GCNGC	5 cut(s)	405, 528, 618, 678, 699
FspBI	CTAG	5 cut(s)	48, 321, 374, 1020, 1052
GluI	GCNGC	5 cut(s)	405, 528, 618, 678, 699
GsuI	CTGGAG	1 cut(s)	225
HaeIII	GGCC	3 cut(s)	347, 508, 517
HapII	CCGG	2 cut(s)	16, 573
HgaI	GACGC	1 cut(s)	252
Hin1I	GRCGYC	2 cut(s)	228, 244
Hin1II	CATG	6 cut(s)	427, 481, 580, 763, 849, 907
HincII	GTYRAC	1 cut(s)	944
HindII	GTYRAC	1 cut(s)	944
HinfI	GANTC	6 cut(s)	197, 440, 718, 896, 932, 1048
HpaII	CCGG	2 cut(s)	16, 573
HphI	GGTGA	1 cut(s)	435
Hpy166II	GTNNAC	3 cut(s)	288, 631, 944
Hpy188I	TCNGA	6 cut(s)	135, 220, 242, 556, 766, 1044
Hpy188III	TCNNGA	4 cut(s)	204, 424, 437, 1052
Hpy8I	GTNNAC	3 cut(s)	288, 631, 944
Hpy99I	CGWCG	2 cut(s)	233, 394
HpyAV	CCTTC	3 cut(s)	441, 583, 737
HpyCH4III	ACNGT	2 cut(s)	647, 922
HpyCH4IV	ACGT	2 cut(s)	228, 818
HpyCH4V	TGCA	5 cut(s)	353, 459, 715, 825, 849
HpyF10VI	GCNNNNNNNGC	6 cut(s)	300, 344, 514, 527, 662, 698
HpyF3I	CTNAG	3 cut(s)	334, 522, 765
HpySE526I	ACGT	2 cut(s)	228, 818
Hsp92I	GRCGYC	2 cut(s)	228, 244
Hsp92II	CATG	6 cut(s)	427, 481, 580, 763, 849, 907
Kzo9I	GATC	3 cut(s)	365, 900, 971
LmnI	GCTCC	4 cut(s)	18, 144, 787, 1036
Lsp1109I	GCAGC	5 cut(s)	416, 539, 604, 664, 685
LweI	GCATC	5 cut(s)	223, 362, 446, 643, 664
MaeI	CTAG	5 cut(s)	48, 321, 374, 1020, 1052
MaeII	ACGT	2 cut(s)	228, 818
MaeIII	GTNAC	4 cut(s)	36, 306, 441, 916
MalI	GATC	3 cut(s)	367, 902, 973
MboI	GATC	3 cut(s)	365, 900, 971
MboII	GAAGA	5 cut(s)	176, 192, 248, 817, 905
MfeI	CAATTG	2 cut(s)	465, 498
MhlI	GDGCHC	1 cut(s)	667
MlyI	GAGTC	2 cut(s)	449, 905
MmeI	TCCRAC	1 cut(s)	166
Mph1103I	ATGCAT	2 cut(s)	461, 851
MseI	TTAA	2 cut(s)	566, 582
MslI	CAYNNNNRTG	1 cut(s)	844
MspA1I	CMGCKG	2 cut(s)	521, 1067
MspI	CCGG	2 cut(s)	16, 573
MspR9I	CCNGG	5 cut(s)	16, 510, 635, 966, 1001
MunI	CAATTG	2 cut(s)	465, 498
MvaI	CCWGG	4 cut(s)	510, 635, 966, 1001
MwoI	GCNNNNNNNGC	6 cut(s)	300, 344, 514, 527, 662, 698
NciI	CCSGG	1 cut(s)	16
NdeII	GATC	3 cut(s)	365, 900, 971
NlaIII	CATG	6 cut(s)	427, 481, 580, 763, 849, 907
NlaIV	GGNNCC	3 cut(s)	346, 789, 879
NmuCI	GTSAC	3 cut(s)	36, 306, 441
NsiI	ATGCAT	2 cut(s)	461, 851
NspI	RCATGY	2 cut(s)	481, 849
PagI	TCATGA	1 cut(s)	423
PceI	AGGCCT	1 cut(s)	508
PfeI	GAWTC	4 cut(s)	197, 718, 932, 1048
PfoI	TCCNGGA	1 cut(s)	999
PkrI	GCNGC	5 cut(s)	406, 529, 619, 679, 700
PleI	GAGTC	2 cut(s)	448, 904
PpsI	GAGTC	2 cut(s)	448, 904
PshBI	ATTAAT	1 cut(s)	582
PsiI	TTATAA	2 cut(s)	9, 858
Psp6I	CCWGG	4 cut(s)	508, 633, 964, 999
PspGI	CCWGG	4 cut(s)	508, 633, 964, 999
PspN4I	GGNNCC	3 cut(s)	346, 789, 879
PspPI	GGNCC	2 cut(s)	345, 877
PstNI	CAGNNNCTG	2 cut(s)	533, 698
PvuII	CAGCTG	1 cut(s)	521
RseI	CAYNNNNRTG	1 cut(s)	844
SaqAI	TTAA	2 cut(s)	566, 582
SatI	GCNGC	5 cut(s)	405, 528, 618, 678, 699
Sau3AI	GATC	3 cut(s)	365, 900, 971
Sau96I	GGNCC	2 cut(s)	345, 877
SchI	GAGTC	2 cut(s)	449, 905
ScrFI	CCNGG	5 cut(s)	16, 510, 635, 966, 1001
SduI	GDGCHC	1 cut(s)	667
SfaNI	GCATC	5 cut(s)	223, 362, 446, 643, 664
SfcI	CTRYAG	2 cut(s)	723, 882
SfiI	GGCCNNNNNGGCC	1 cut(s)	514
SinI	GGWCC	1 cut(s)	877
SmiMI	CAYNNNNRTG	1 cut(s)	844
SmlI	CTYRAG	1 cut(s)	435
SmoI	CTYRAG	1 cut(s)	435
SpeI	ACTAGT	1 cut(s)	373
SseBI	AGGCCT	1 cut(s)	508
SsiI	CCGC	4 cut(s)	65, 359, 875, 1065
SspMI	CTAG	5 cut(s)	48, 321, 374, 1020, 1052
StuI	AGGCCT	1 cut(s)	508
StyD4I	CCNGG	5 cut(s)	14, 508, 633, 964, 999
StyI	CCWWGG	1 cut(s)	340
TaaI	ACNGT	2 cut(s)	647, 922
TaiI	ACGT	2 cut(s)	231, 821
TaqI	TCGA	5 cut(s)	172, 231, 389, 899, 1080
TfiI	GAWTC	4 cut(s)	197, 718, 932, 1048
Tru1I	TTAA	2 cut(s)	566, 582
Tru9I	TTAA	2 cut(s)	566, 582
TseFI	GTSAC	3 cut(s)	36, 306, 441
TseI	GCWGC	5 cut(s)	404, 527, 617, 677, 698
Tsp45I	GTSAC	3 cut(s)	36, 306, 441
TspDTI	ATGAA	3 cut(s)	749, 756, 924
VpaK11BI	GGWCC	1 cut(s)	877
VspI	ATTAAT	1 cut(s)	582
XapI	RAATTY	2 cut(s)	108, 470
XbaI	TCTAGA	1 cut(s)	1051
XceI	RCATGY	2 cut(s)	481, 849
XmiI	GTMKAC	1 cut(s)	630
XspI	CTAG	5 cut(s)	48, 321, 374, 1020, 1052
ZraI	GACGTC	1 cut(s)	229
Zsp2I	ATGCAT	2 cut(s)	461, 851

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