Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0005737

Physical Location & Seq

Genomic Coordinates Reverse (-)

62971745 .. 62975226

Gene Structure 3482 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG460300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 525 bp

ATGGAAATTGACAGATTAGATGGTCGTACACCAAACCAGTTGAGACCACTGGCCTGTACTCGCAACGTTCTCAACCGAGCTCATGGCTCTGCCAGTTGGTGTCAAGGGGATACCAAAGTTCTTGCTGCAGTTTATGGACCCAAAGCGGGGACAAAGAAGAATGAAAACCCTGAAAAGGCTTGCATTGAGGTTATTTGGAAGCCTAAAACAGGCCAGAGTGGAAAAACAGAAAGGGAATATGAGATGATATTGAAAAGGACCTTGCAAAGCATCTGTATACTGACTCTCAACCCAAATACTACGACCTCGGTTATTATTCAGGTTGTCAATGATGATGGTGCTCTTTTGCCATGCGCCATAAATGCAGCATGTGCTGCCCTTGTTGATGCTGGGATTCCTTTAAAGCATCTTGCTGTTGCAATATGTTGTTGCTTGGCAGAGAGTGGATATGTCATATTGGATCCCAGCAAGCTAGAAGAGCAGGTTTTACTTTGTTTCATCTCATGTGTTTCTGCATCCATGTGA

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

174

Amino Acids

18.74

Weight (kDa)

7.45

Isoelectric Point (pI)

35.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_PH	PF01138	13 - 133	3e-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)

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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)
Acc36I	ACCTGC	1 cut(s)	472
AccI	GTMKAC	1 cut(s)	277
AciI	CCGC	1 cut(s)	146
AclI	AACGTT	1 cut(s)	66
AclWI	GGATC	2 cut(s)	455, 468
AfaI	GTAC	2 cut(s)	28, 58
AfiI	CCNNNNNNNGG	4 cut(s)	146, 147, 175, 209
AgsI	TTSAA	1 cut(s)	253
AluBI	AGCT	2 cut(s)	80, 472
AluI	AGCT	2 cut(s)	80, 472
Alw21I	GWGCWC	2 cut(s)	82, 343
Alw26I	GTCTC	1 cut(s)	37
AlwI	GGATC	2 cut(s)	455, 468
AoxI	GGCC	2 cut(s)	51, 211
ApeKI	GCWGC	3 cut(s)	125, 365, 374
AspLEI	GCGC	1 cut(s)	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
Bbv12I	GWGCWC	2 cut(s)	82, 343
BbvI	GCAGC	3 cut(s)	112, 361, 377
BccI	CCATC	2 cut(s)	14, 329
BciVI	GTATCC	1 cut(s)	103
BcoDI	GTCTC	1 cut(s)	37
BfaI	CTAG	1 cut(s)	473
BfmI	CTRYAG	1 cut(s)	126
BfuAI	ACCTGC	1 cut(s)	472
BfuI	GTATCC	1 cut(s)	103
BisI	GCNGC	3 cut(s)	126, 366, 375
BlsI	GCNGC	3 cut(s)	127, 367, 376
Bme18I	GGWCC	2 cut(s)	137, 258
BmgT120I	GGNCC	2 cut(s)	137, 258
BmiI	GGNNCC	2 cut(s)	139, 462
BmsI	GCATC	3 cut(s)	279, 376, 415
BsaI	GGTCTC	1 cut(s)	37
BsaJI	CCNNGG	1 cut(s)	306
Bsc4I	CCNNNNNNNGG	4 cut(s)	146, 147, 175, 209
Bse1I	ACTGG	3 cut(s)	37, 54, 93
BseDI	CCNNGG	1 cut(s)	306
BseGI	GGATG	1 cut(s)	515
BseLI	CCNNNNNNNGG	4 cut(s)	146, 147, 175, 209
BseNI	ACTGG	3 cut(s)	37, 54, 93
BseXI	GCAGC	3 cut(s)	112, 361, 377
BseYI	CCCAGC	2 cut(s)	389, 464
BshFI	GGCC	2 cut(s)	53, 213
BsiHKAI	GWGCWC	2 cut(s)	82, 343
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	2 cut(s)	82, 343
Bsp143I	GATC	1 cut(s)	460
BspACI	CCGC	1 cut(s)	146
BspANI	GGCC	2 cut(s)	53, 213
BspLI	GGNNCC	2 cut(s)	139, 462
BspMAI	CTGCAG	1 cut(s)	130
BspMI	ACCTGC	1 cut(s)	472
BspPI	GGATC	2 cut(s)	455, 468
BspQI	GCTCTTC	1 cut(s)	471
BspTNI	GGTCTC	1 cut(s)	37
BsrI	ACTGG	3 cut(s)	37, 54, 93
BssECI	CCNNGG	1 cut(s)	306
BssMI	GATC	1 cut(s)	460
BssNAI	GTATAC	1 cut(s)	278
Bst1107I	GTATAC	1 cut(s)	278
Bst6I	CTCTTC	1 cut(s)	471
BstAPI	GCANNNNNTGC	2 cut(s)	371, 374
BstC8I	GCNNGC	2 cut(s)	181, 470
BstENI	CCTNNNNNAGG	1 cut(s)	207
BstF5I	GGATG	1 cut(s)	515
BstHHI	GCGC	1 cut(s)	356
BstKTI	GATC	1 cut(s)	463
BstMAI	GTCTC	1 cut(s)	37
BstMBI	GATC	1 cut(s)	460
BstMWI	GCNNNNNNNGC	4 cut(s)	362, 371, 374, 478
BstNSI	RCATGY	1 cut(s)	372
BstSFI	CTRYAG	1 cut(s)	126
BstV1I	GCAGC	3 cut(s)	112, 361, 377
BstX2I	RGATCY	1 cut(s)	460
BstYI	RGATCY	1 cut(s)	460
BstZ17I	GTATAC	1 cut(s)	278
BsuI	GTATCC	1 cut(s)	103
BsuRI	GGCC	2 cut(s)	53, 213
BtsCI	GGATG	1 cut(s)	515
BtsIMutI	CAGTG	1 cut(s)	47
BveI	ACCTGC	1 cut(s)	472
Cac8I	GCNNGC	2 cut(s)	181, 470
CfoI	GCGC	1 cut(s)	356
Cfr13I	GGNCC	2 cut(s)	137, 258
Csp6I	GTAC	2 cut(s)	27, 57
CviAII	CATG	5 cut(s)	83, 351, 369, 504, 520
CviJI	RGCY	7 cut(s)	53, 80, 87, 179, 202, 213, 472
CviKI_1	RGCY	7 cut(s)	53, 80, 87, 179, 202, 213, 472
CviQI	GTAC	2 cut(s)	27, 57
DpnI	GATC	1 cut(s)	462
DpnII	GATC	1 cut(s)	460
DraI	TTTAAA	1 cut(s)	402
Eam1104I	CTCTTC	1 cut(s)	471
EarI	CTCTTC	1 cut(s)	471
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
EcoT38I	GRGCYC	1 cut(s)	82
FaeI	CATG	5 cut(s)	86, 354, 372, 507, 523
FaqI	GGGAC	1 cut(s)	163
FatI	CATG	5 cut(s)	82, 350, 368, 503, 519
FauI	CCCGC	1 cut(s)	139
FblI	GTMKAC	1 cut(s)	277
Fnu4HI	GCNGC	3 cut(s)	126, 366, 375
FokI	GGATG	1 cut(s)	502
FriOI	GRGCYC	1 cut(s)	82
Fsp4HI	GCNGC	3 cut(s)	126, 366, 375
FspBI	CTAG	1 cut(s)	473
GlaI	GCGC	1 cut(s)	355
GluI	GCNGC	3 cut(s)	126, 366, 375
GsaI	CCCAGC	2 cut(s)	393, 468
HaeIII	GGCC	2 cut(s)	53, 213
HhaI	GCGC	1 cut(s)	356
Hin1II	CATG	5 cut(s)	86, 354, 372, 507, 523
Hin6I	GCGC	1 cut(s)	354
HinP1I	GCGC	1 cut(s)	354
HinfI	GANTC	2 cut(s)	283, 394
Hpy166II	GTNNAC	2 cut(s)	29, 278
Hpy8I	GTNNAC	2 cut(s)	29, 278
HpyCH4IV	ACGT	1 cut(s)	66
HpyCH4V	TGCA	6 cut(s)	128, 183, 265, 365, 419, 515
HpyF10VI	GCNNNNNNNGC	4 cut(s)	362, 371, 374, 478
HpySE526I	ACGT	1 cut(s)	66
Hsp92II	CATG	5 cut(s)	86, 354, 372, 507, 523
HspAI	GCGC	1 cut(s)	354
Kzo9I	GATC	1 cut(s)	460
LguI	GCTCTTC	1 cut(s)	471
Lsp1109I	GCAGC	3 cut(s)	112, 361, 377
LweI	GCATC	3 cut(s)	279, 376, 415
MaeI	CTAG	1 cut(s)	473
MaeII	ACGT	1 cut(s)	66
MalI	GATC	1 cut(s)	462
MboI	GATC	1 cut(s)	460
MboII	GAAGA	2 cut(s)	169, 488
MflI	RGATCY	1 cut(s)	460
MhlI	GDGCHC	2 cut(s)	82, 343
MluCI	AATT	1 cut(s)	6
MlyI	GAGTC	1 cut(s)	277
MnlI	CCTC	2 cut(s)	181, 316
MseI	TTAA	1 cut(s)	401
MslI	CAYNNNNRTG	1 cut(s)	520
MwoI	GCNNNNNNNGC	4 cut(s)	362, 371, 374, 478
NdeII	GATC	1 cut(s)	460
NlaIII	CATG	5 cut(s)	86, 354, 372, 507, 523
NlaIV	GGNNCC	2 cut(s)	139, 462
NspI	RCATGY	1 cut(s)	372
PciSI	GCTCTTC	1 cut(s)	471
PfeI	GAWTC	1 cut(s)	394
PkrI	GCNGC	3 cut(s)	127, 367, 376
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
PspFI	CCCAGC	2 cut(s)	389, 464
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
PsuI	RGATCY	1 cut(s)	460
RsaI	GTAC	2 cut(s)	28, 58
RsaNI	GTAC	2 cut(s)	27, 57
RseI	CAYNNNNRTG	1 cut(s)	520
SacI	GAGCTC	1 cut(s)	82
SapI	GCTCTTC	1 cut(s)	471
SaqAI	TTAA	1 cut(s)	401
SatI	GCNGC	3 cut(s)	126, 366, 375
Sau3AI	GATC	1 cut(s)	460
Sau96I	GGNCC	2 cut(s)	137, 258
SchI	GAGTC	1 cut(s)	277
SduI	GDGCHC	2 cut(s)	82, 343
SetI	ASST	8 cut(s)	69, 82, 192, 263, 308, 324, 474, 486
SfaNI	GCATC	3 cut(s)	279, 376, 415
SfcI	CTRYAG	1 cut(s)	126
SinI	GGWCC	2 cut(s)	137, 258
SmiMI	CAYNNNNRTG	1 cut(s)	520
Sse9I	AATT	1 cut(s)	6
SsiI	CCGC	1 cut(s)	146
SspMI	CTAG	1 cut(s)	473
SstI	GAGCTC	1 cut(s)	82
TaiI	ACGT	1 cut(s)	69
TasI	AATT	1 cut(s)	6
TatI	WGTACW	1 cut(s)	56
TfiI	GAWTC	1 cut(s)	394
Tru1I	TTAA	1 cut(s)	401
Tru9I	TTAA	1 cut(s)	401
TscAI	CASTG	1 cut(s)	54
TseI	GCWGC	3 cut(s)	125, 365, 374
TspDTI	ATGAA	2 cut(s)	177, 487
TspRI	CASTG	1 cut(s)	54
VpaK11BI	GGWCC	2 cut(s)	137, 258
XagI	CCTNNNNNAGG	1 cut(s)	207
XceI	RCATGY	1 cut(s)	372
XmiI	GTMKAC	1 cut(s)	277
XspI	CTAG	1 cut(s)	473

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