Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0005737

Physical Location & Seq

Genomic Coordinates Reverse (-)

64254462 .. 64256954

Gene Structure 2493 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG459600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 717 bp

ATGGAAATTGACAGATTGGATGGTCGTACCCCGAACCAGTTGAGACCACTGGCCTGCACTCACAACGTTCTCAACCGAGCTCATGGCTCTGCCAGTTGGTGTCAAGGGGATACCAAAGTTCTTGCTGCAGTTTATGGACCCAAAGCGGGGACAAAGAAGAATGAAAACCCTGAAAAGGCTTGCATTGAGGTTATTTGGAAGCCTAAAACAGGCCAGAGTGGAAAAACAGAAAGGGAATATGAGATGATATTGAAAAGGACCTTGCAAAGCATCTGTATACTGACTCTCAACCCAAATACTACGACCTCGGTTATTATTCAGGTTGTCAATGATGATGGCGCTCTTTTGCCATGCGCCATAAATGCAGCATGTGCTGCCCTTGTTGATGCTGGGATTCCTCTAAAGCATCTTGCTGTTGCAATATGTTGTTGCTTGGCGGAGAGTGGATACGTCATATTGGATCCCAGCAAGCTAGAAGAGCAGAAAATGAAGGCATTTGTATATTTGGTCTTCCCAAACTCAGTTCTCTCAAACCTTCCAGAAGGACAGTTAACGGTGCAAGGCGAACCAATGGAACATGGTATCATAACCTCTGTAACCCAGGGTGCAATGCCAGTCGACGACTATCTCCACTGTTTAGAACGAGGGCGTGCAGCTACTGCCAAGATGTCTGCTTTTCTCAGAAAGAGCCTGCAACCAAAGCTCCCAATTGATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000176 GO:0000177 GO:0000178 GO:0000291 GO:0000956 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003723 GO:0003727 GO:0003824 GO:0004518 GO:0004536 GO:0004540 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0006139 GO:0006259 GO:0006364 GO:0006396 GO:0006401 GO:0006402 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009892 GO:0009987 GO:0010467 GO:0010468 GO:0010605 GO:0010629 GO:0016070 GO:0016071 GO:0016072 GO:0016073 GO:0016074 GO:0016075 GO:0016180 GO:0016787 GO:0016788 GO:0019222 GO:0019439 GO:0022613 GO:0031123 GO:0031125 GO:0031126 GO:0031974 GO:0031981 GO:0032991 GO:0034427 GO:0034470 GO:0034472 GO:0034475 GO:0034641 GO:0034655 GO:0034660 GO:0034661 GO:0042254 GO:0042802 GO:0043144 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043628 GO:0044085 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0046700 GO:0048519 GO:0050789 GO:0060255 GO:0065007 GO:0070013 GO:0071025 GO:0071027 GO:0071028 GO:0071051 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0090501 GO:0097159 GO:0140097 GO:0140098 GO:1901360 GO:1901361 GO:1901363 GO:1901575 GO:1902494 GO:1905354

KEGG Pathways

Metabolic & Signaling

ko03018 map03018

Pfam Domains

Protein Families

RNase_PH

Protein Analysis

238

Amino Acids

25.84

Weight (kDa)

7.52

Isoelectric Point (pI)

39.29

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_PH	PF01138	13 - 133	4.8e-28	3' exoribonuclease family, domain 1

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: OG0005737)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G46210 AT3G46210 AT3G46210 AT3G46210 AT3G46210 AT3G46210 AT3G46210
fragaria_vesca	FvH4_2g35660 FvH4_2g35660 FvH4_2g35660
malus_domestica	MD01G1039900.v1.1 MD15G1311800.v1.1
prunus_persica	Prupe.1G449000_v2.0.a1 Prupe.1G449000_v2.0.a1
pyrus_communis	pycom01g06770 pycom15g27540
rosa_chinensis	RchiOBHm_Chr6g0305271 RchiOBHm_Chr6g0306141
rosa_laevigata	RLG00000010820
rosa_multiflora	Rmu_sc0003594.1_g000013 Rmu_ssc0000276.1_g000007
rosa_roxburghii	Rroxscaffold_7G00162010
rosa_rugosa	Rorug06G0347100
rosa_samantha	Rh6AG459600 Rh6BG441400 Rh6DG460300
rosa_wichuraiana	Rw6G039290 Rw6G040060

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	277, 618
AciI	CCGC	2 cut(s)	146, 437
AclI	AACGTT	1 cut(s)	66
AclWI	GGATC	2 cut(s)	455, 468
AfaI	GTAC	1 cut(s)	28
AfiI	CCNNNNNNNGG	4 cut(s)	146, 147, 175, 209
AgsI	TTSAA	1 cut(s)	253
AjnI	CCWGG	1 cut(s)	600
AluBI	AGCT	4 cut(s)	80, 472, 656, 703
AluI	AGCT	4 cut(s)	80, 472, 656, 703
Alw21I	GWGCWC	1 cut(s)	82
Alw26I	GTCTC	1 cut(s)	37
AlwI	GGATC	2 cut(s)	455, 468
AlwNI	CAGNNNCTG	1 cut(s)	659
AoxI	GGCC	2 cut(s)	51, 211
ApeKI	GCWGC	4 cut(s)	125, 365, 374, 653
AspLEI	GCGC	2 cut(s)	341, 356
AspS9I	GGNCC	2 cut(s)	137, 258
AvaII	GGWCC	2 cut(s)	137, 258
BaeI	ACNNNNGTAYC	2 cut(s)	102, 135
BamHI	GGATCC	1 cut(s)	460
BanII	GRGCYC	1 cut(s)	82
BbsI	GAAGAC	1 cut(s)	502
Bbv12I	GWGCWC	1 cut(s)	82
BbvI	GCAGC	4 cut(s)	112, 361, 377, 665
BccI	CCATC	2 cut(s)	14, 329
BciT130I	CCWGG	1 cut(s)	602
BciVI	GTATCC	2 cut(s)	103, 440
BcoDI	GTCTC	1 cut(s)	37
BfaI	CTAG	1 cut(s)	473
BfmI	CTRYAG	1 cut(s)	126
BfoI	RGCGCY	1 cut(s)	342
BfuI	GTATCC	2 cut(s)	103, 440
BisI	GCNGC	4 cut(s)	126, 366, 375, 654
BlsI	GCNGC	4 cut(s)	127, 367, 376, 655
Bme1390I	CCNGG	1 cut(s)	602
Bme18I	GGWCC	2 cut(s)	137, 258
BmgT120I	GGNCC	2 cut(s)	137, 258
BmiI	GGNNCC	2 cut(s)	139, 462
BmrFI	CCNGG	1 cut(s)	602
BmsI	GCATC	3 cut(s)	279, 376, 415
BpiI	GAAGAC	1 cut(s)	502
BsaI	GGTCTC	1 cut(s)	37
BsaJI	CCNNGG	3 cut(s)	306, 600, 601
BsaXI	ACNNNNNCTCC	2 cut(s)	687, 717
Bsc4I	CCNNNNNNNGG	4 cut(s)	146, 147, 175, 209
Bse1I	ACTGG	4 cut(s)	37, 54, 93, 614
Bse3DI	GCAATG	1 cut(s)	615
BseBI	CCWGG	1 cut(s)	602
BseDI	CCNNGG	3 cut(s)	306, 600, 601
BseGI	GGATG	1 cut(s)	25
BseLI	CCNNNNNNNGG	4 cut(s)	146, 147, 175, 209
BseMI	GCAATG	1 cut(s)	615
BseMII	CTCAG	2 cut(s)	534, 694
BseNI	ACTGG	4 cut(s)	37, 54, 93, 614
BseXI	GCAGC	4 cut(s)	112, 361, 377, 665
BseYI	CCCAGC	2 cut(s)	389, 464
BsgI	GTGCAG	2 cut(s)	40, 672
BshFI	GGCC	2 cut(s)	53, 213
BsiHKAI	GWGCWC	1 cut(s)	82
BslFI	GGGAC	1 cut(s)	163
BslI	CCNNNNNNNGG	4 cut(s)	146, 147, 175, 209
BsmAI	GTCTC	1 cut(s)	37
BsmFI	GGGAC	1 cut(s)	163
BsnI	GGCC	2 cut(s)	53, 213
Bso31I	GGTCTC	1 cut(s)	37
Bsp1286I	GDGCHC	1 cut(s)	82
Bsp143I	GATC	1 cut(s)	460
BspACI	CCGC	2 cut(s)	146, 437
BspANI	GGCC	2 cut(s)	53, 213
BspCNI	CTCAG	2 cut(s)	533, 693
BspLI	GGNNCC	2 cut(s)	139, 462
BspMAI	CTGCAG	1 cut(s)	130
BspPI	GGATC	2 cut(s)	455, 468
BspQI	GCTCTTC	1 cut(s)	471
BspTNI	GGTCTC	1 cut(s)	37
BsrDI	GCAATG	1 cut(s)	615
BsrI	ACTGG	4 cut(s)	37, 54, 93, 614
BssECI	CCNNGG	3 cut(s)	306, 600, 601
BssMI	GATC	1 cut(s)	460
BssNAI	GTATAC	1 cut(s)	278
Bst1107I	GTATAC	1 cut(s)	278
Bst2UI	CCWGG	1 cut(s)	602
Bst4CI	ACNGT	3 cut(s)	549, 556, 635
Bst6I	CTCTTC	1 cut(s)	471
BstAPI	GCANNNNNTGC	3 cut(s)	371, 374, 659
BstC8I	GCNNGC	5 cut(s)	55, 181, 470, 651, 692
BstDEI	CTNAG	2 cut(s)	520, 680
BstENI	CCTNNNNNAGG	1 cut(s)	207
BstF5I	GGATG	1 cut(s)	25
BstH2I	RGCGCY	1 cut(s)	342
BstHHI	GCGC	2 cut(s)	341, 356
BstKTI	GATC	1 cut(s)	463
BstMAI	GTCTC	1 cut(s)	37
BstMBI	GATC	1 cut(s)	460
BstMWI	GCNNNNNNNGC	6 cut(s)	362, 371, 374, 478, 659, 700
BstNI	CCWGG	1 cut(s)	602
BstNSI	RCATGY	1 cut(s)	372
BstSCI	CCNGG	1 cut(s)	600
BstSFI	CTRYAG	1 cut(s)	126
BstV1I	GCAGC	4 cut(s)	112, 361, 377, 665
BstV2I	GAAGAC	1 cut(s)	502
BstX2I	RGATCY	1 cut(s)	460
BstYI	RGATCY	1 cut(s)	460
BstZ17I	GTATAC	1 cut(s)	278
BsuI	GTATCC	2 cut(s)	103, 440
BsuRI	GGCC	2 cut(s)	53, 213
BtsCI	GGATG	1 cut(s)	25
BtsIMutI	CAGTG	2 cut(s)	47, 631
Cac8I	GCNNGC	5 cut(s)	55, 181, 470, 651, 692
CaiI	CAGNNNCTG	1 cut(s)	659
CfoI	GCGC	2 cut(s)	341, 356
Cfr13I	GGNCC	2 cut(s)	137, 258
Csp6I	GTAC	1 cut(s)	27
CviAII	CATG	4 cut(s)	83, 351, 369, 578
CviQI	GTAC	1 cut(s)	27
DdeI	CTNAG	2 cut(s)	520, 680
DpnI	GATC	1 cut(s)	462
DpnII	GATC	1 cut(s)	460
Eam1104I	CTCTTC	1 cut(s)	471
EarI	CTCTTC	1 cut(s)	471
EciI	GGCGGA	1 cut(s)	452
Ecl136II	GAGCTC	1 cut(s)	80
Eco24I	GRGCYC	1 cut(s)	82
Eco31I	GGTCTC	1 cut(s)	37
Eco47I	GGWCC	2 cut(s)	137, 258
Eco53kI	GAGCTC	1 cut(s)	80
EcoICRI	GAGCTC	1 cut(s)	80
EcoNI	CCTNNNNNAGG	1 cut(s)	207
EcoO109I	RGGNCCY	1 cut(s)	258
EcoRII	CCWGG	1 cut(s)	600
EcoT38I	GRGCYC	1 cut(s)	82
FaeI	CATG	4 cut(s)	86, 354, 372, 581
FaqI	GGGAC	1 cut(s)	163
FatI	CATG	4 cut(s)	82, 350, 368, 577
FauI	CCCGC	1 cut(s)	139
FblI	GTMKAC	2 cut(s)	277, 618
Fnu4HI	GCNGC	4 cut(s)	126, 366, 375, 654
FokI	GGATG	1 cut(s)	32
FriOI	GRGCYC	1 cut(s)	82
Fsp4HI	GCNGC	4 cut(s)	126, 366, 375, 654
FspBI	CTAG	1 cut(s)	473
GlaI	GCGC	2 cut(s)	340, 355
GluI	GCNGC	4 cut(s)	126, 366, 375, 654
GsaI	CCCAGC	2 cut(s)	393, 468
HaeII	RGCGCY	1 cut(s)	342
HaeIII	GGCC	2 cut(s)	53, 213
HhaI	GCGC	2 cut(s)	341, 356
Hin1II	CATG	4 cut(s)	86, 354, 372, 581
Hin6I	GCGC	2 cut(s)	339, 354
HinP1I	GCGC	2 cut(s)	339, 354
HincII	GTYRAC	2 cut(s)	552, 619
HindII	GTYRAC	2 cut(s)	552, 619
HinfI	GANTC	2 cut(s)	283, 394
HpaI	GTTAAC	1 cut(s)	552
Hpy166II	GTNNAC	3 cut(s)	278, 552, 619
Hpy188I	TCNGA	1 cut(s)	683
Hpy188III	TCNNGA	1 cut(s)	539
Hpy8I	GTNNAC	3 cut(s)	278, 552, 619
Hpy99I	CGWCG	1 cut(s)	623
HpyAV	CCTTC	3 cut(s)	484, 536, 545
HpyCH4III	ACNGT	3 cut(s)	549, 556, 635
HpyCH4IV	ACGT	2 cut(s)	66, 450
HpyF10VI	GCNNNNNNNGC	6 cut(s)	362, 371, 374, 478, 659, 700
HpyF3I	CTNAG	2 cut(s)	520, 680
HpySE526I	ACGT	2 cut(s)	66, 450
Hsp92II	CATG	4 cut(s)	86, 354, 372, 581
HspAI	GCGC	2 cut(s)	339, 354
KspAI	GTTAAC	1 cut(s)	552
Kzo9I	GATC	1 cut(s)	460
LguI	GCTCTTC	1 cut(s)	471
LmnI	GCTCC	1 cut(s)	708
Lsp1109I	GCAGC	4 cut(s)	112, 361, 377, 665
LweI	GCATC	3 cut(s)	279, 376, 415
MaeI	CTAG	1 cut(s)	473
MaeII	ACGT	2 cut(s)	66, 450
MaeIII	GTNAC	1 cut(s)	595
MalI	GATC	1 cut(s)	462
MboI	GATC	1 cut(s)	460
MboII	GAAGA	3 cut(s)	169, 488, 502
MfeI	CAATTG	1 cut(s)	708
MflI	RGATCY	1 cut(s)	460
MhlI	GDGCHC	1 cut(s)	82
MluCI	AATT	2 cut(s)	6, 708
MlyI	GAGTC	1 cut(s)	277
MnlI	CCTC	5 cut(s)	181, 316, 408, 601, 638
MseI	TTAA	1 cut(s)	551
MspR9I	CCNGG	1 cut(s)	602
MunI	CAATTG	1 cut(s)	708
MvaI	CCWGG	1 cut(s)	602
MwoI	GCNNNNNNNGC	6 cut(s)	362, 371, 374, 478, 659, 700
NdeII	GATC	1 cut(s)	460
NlaIII	CATG	4 cut(s)	86, 354, 372, 581
NlaIV	GGNNCC	2 cut(s)	139, 462
NspI	RCATGY	1 cut(s)	372
PasI	CCCWGGG	1 cut(s)	601
PciSI	GCTCTTC	1 cut(s)	471
PfeI	GAWTC	1 cut(s)	394
PkrI	GCNGC	4 cut(s)	127, 367, 376, 655
PleI	GAGTC	1 cut(s)	277
PpsI	GAGTC	1 cut(s)	277
PpuMI	RGGWCCY	1 cut(s)	258
Psp124BI	GAGCTC	1 cut(s)	82
Psp1406I	AACGTT	1 cut(s)	66
Psp5II	RGGWCCY	1 cut(s)	258
Psp6I	CCWGG	1 cut(s)	600
PspFI	CCCAGC	2 cut(s)	389, 464
PspGI	CCWGG	1 cut(s)	600
PspN4I	GGNNCC	2 cut(s)	139, 462
PspPI	GGNCC	2 cut(s)	137, 258
PspPPI	RGGWCCY	1 cut(s)	258
PstI	CTGCAG	1 cut(s)	130
PstNI	CAGNNNCTG	1 cut(s)	659
PsuI	RGATCY	1 cut(s)	460
RsaI	GTAC	1 cut(s)	28
RsaNI	GTAC	1 cut(s)	27
SacI	GAGCTC	1 cut(s)	82
SalI	GTCGAC	1 cut(s)	617
SapI	GCTCTTC	1 cut(s)	471
SaqAI	TTAA	1 cut(s)	551
SatI	GCNGC	4 cut(s)	126, 366, 375, 654
Sau3AI	GATC	1 cut(s)	460
Sau96I	GGNCC	2 cut(s)	137, 258
SchI	GAGTC	1 cut(s)	277
ScrFI	CCNGG	1 cut(s)	602
SduI	GDGCHC	1 cut(s)	82
SfaNI	GCATC	3 cut(s)	279, 376, 415
SfcI	CTRYAG	1 cut(s)	126
SinI	GGWCC	2 cut(s)	137, 258
Sse9I	AATT	2 cut(s)	6, 708
SsiI	CCGC	2 cut(s)	146, 437
SspMI	CTAG	1 cut(s)	473
SstI	GAGCTC	1 cut(s)	82
StyD4I	CCNGG	1 cut(s)	600
TaaI	ACNGT	3 cut(s)	549, 556, 635
TaiI	ACGT	2 cut(s)	69, 453
TaqI	TCGA	1 cut(s)	618
TasI	AATT	2 cut(s)	6, 708
TfiI	GAWTC	1 cut(s)	394
Tru1I	TTAA	1 cut(s)	551
Tru9I	TTAA	1 cut(s)	551
TscAI	CASTG	2 cut(s)	54, 638
TseI	GCWGC	4 cut(s)	125, 365, 374, 653
TspDTI	ATGAA	2 cut(s)	177, 503
TspRI	CASTG	2 cut(s)	54, 638
VpaK11BI	GGWCC	2 cut(s)	137, 258
XagI	CCTNNNNNAGG	1 cut(s)	207
XceI	RCATGY	1 cut(s)	372
XmiI	GTMKAC	2 cut(s)	277, 618
XspI	CTAG	1 cut(s)	473

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