Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0007354

Physical Location & Seq

Genomic Coordinates Forward (+)

23440340 .. 23453024

Gene Structure 12685 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG227300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 597 bp

ATGCGGGGTAAAGGAGTCGAGAGGTCACGAGGTCGCGGAGTCGCGAGGCCGCGGGGTCTCGGGCGCTGCAGGGGCAGCGAGGCTAACCTGATAATCGTCCTAGATCAACCAGAAAACAGAAGTGTTGCTGGGTTTCGAATTTCAGTGATTGAAGGAAATGCACATGGATTGAAATTTTCTACTTACTACTCTGGTTTTGTAGTGCTTTTCAAGGAATTCATACTGGAGTTTTTATTATTATTACAACACCTGGCAGAGCTATATGCTCAGAGAGAACATTCACTGTGGAAGCTGTACATGACATTGGAGGTTATCTTGGATCCGAATATAGAACTTGCAAAGAAAGATCATGTTATCATTACCACATATAATGTTACAAAAGCCATCAAGGATAGCATTCTTGTGAACTTTGGGGAGTGTGGTCTGGCTTCTTCACTTGGATCGTTCCAAGTGAAGTATGTCAATTGGATTACAAGGCTTTGTATCATAAGAGCTTCGAGGGAGGACCATCAAAAAGTATGGTCTGCTATTACCATGGTTAGGAGTATTGCTGGTTGCCCGGTGATTTTTAATTTGTTGGACTTAACTGGAAATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0006464 GO:0006807 GO:0008150 GO:0008152 GO:0009249 GO:0009987 GO:0010467 GO:0018065 GO:0018193 GO:0018205 GO:0019538 GO:0036211 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044444 GO:0044464 GO:0051604 GO:0071704 GO:1901564

KEGG Pathways

Metabolic & Signaling

ko03008 ko03013 map03008 map03013

Pfam Domains

Protein Families

RNase_P_Rpp14

Protein Analysis

198

Amino Acids

22.31

Weight (kDa)

9.39

Isoelectric Point (pI)

33.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_P_Rpp14	PF01900	99 - 197	9.6e-23	Rpp14/Pop5 family

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: OG0007354)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G04635
fragaria_vesca	FvH4_7g33290
malus_domestica	MD01G1231100.v1.1 MD07G1302900.v1.1 MD07G1303100.v1.1
prunus_persica	Prupe.2G321800_v2.0.a1
pyrus_communis	pycom01g23910
rosa_chinensis	RchiOBHm_Chr1g0383271 RchiOBHm_Chr3g0479561
rosa_laevigata	RLG00000026117
rosa_multiflora	Rmu_sc0007173.1_g000022 Rmu_sc0014196.1_g000006 Rmu_sc0031164.1_g000002
rosa_roxburghii	Rroxscaffold_4G00277450
rosa_rugosa	Rorug01G0440000 Rorug01G0440100 Rorug01G0440200
rosa_samantha	Rh1AG465700 Rh1BG423100 Rh1CG436300 Rh1DG455800 Rh3AG227300 Rh3CG257700
rosa_wichuraiana	Rw1G040670 Rw3G020350

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	3 cut(s)	36, 44, 52
AciI	CCGC	4 cut(s)	4, 36, 50, 52
AclWI	GGATC	3 cut(s)	314, 327, 448
AcsI	RAATTY	3 cut(s)	138, 173, 215
AfaI	GTAC	1 cut(s)	296
AfiI	CCNNNNNNNGG	1 cut(s)	540
AgsI	TTSAA	3 cut(s)	152, 172, 211
AjnI	CCWGG	1 cut(s)	249
AluBI	AGCT	3 cut(s)	259, 292, 494
AluI	AGCT	3 cut(s)	259, 292, 494
Alw26I	GTCTC	1 cut(s)	62
AlwI	GGATC	3 cut(s)	314, 327, 448
Ama87I	CYCGRG	1 cut(s)	59
AoxI	GGCC	1 cut(s)	47
ApeKI	GCWGC	2 cut(s)	66, 75
ApoI	RAATTY	3 cut(s)	138, 173, 215
AspLEI	GCGC	1 cut(s)	66
AspS9I	GGNCC	1 cut(s)	505
AsuC2I	CCSGG	1 cut(s)	560
AsuHPI	GGTGA	1 cut(s)	574
AsuII	TTCGAA	1 cut(s)	136
AvaI	CYCGRG	1 cut(s)	59
AvaII	GGWCC	1 cut(s)	505
BamHI	GGATCC	1 cut(s)	319
BauI	CACGAG	1 cut(s)	27
BbvI	GCAGC	2 cut(s)	53, 87
BccI	CCATC	2 cut(s)	392, 516
BciT130I	CCWGG	1 cut(s)	251
BcnI	CCSGG	1 cut(s)	560
BcoDI	GTCTC	1 cut(s)	62
BfaI	CTAG	1 cut(s)	101
BfmI	CTRYAG	1 cut(s)	67
BfoI	RGCGCY	1 cut(s)	67
BisI	GCNGC	3 cut(s)	50, 67, 76
BlsI	GCNGC	3 cut(s)	51, 68, 77
Bme1390I	CCNGG	2 cut(s)	251, 560
Bme18I	GGWCC	1 cut(s)	505
BmeT110I	CYCGRG	1 cut(s)	59
BmgT120I	GGNCC	1 cut(s)	505
BmiI	GGNNCC	1 cut(s)	321
BmrFI	CCNGG	2 cut(s)	251, 560
BpmI	CTGGAG	1 cut(s)	245
Bpu14I	TTCGAA	1 cut(s)	136
BpuMI	CCSGG	1 cut(s)	560
BsaI	GGTCTC	1 cut(s)	62
BsaJI	CCNNGG	2 cut(s)	50, 534
Bsc4I	CCNNNNNNNGG	1 cut(s)	540
Bse1I	ACTGG	2 cut(s)	228, 592
BseBI	CCWGG	1 cut(s)	251
BseDI	CCNNGG	2 cut(s)	50, 534
BseLI	CCNNNNNNNGG	1 cut(s)	540
BseMII	CTCAG	1 cut(s)	281
BseNI	ACTGG	2 cut(s)	228, 592
BseXI	GCAGC	2 cut(s)	53, 87
BseYI	CCCAGC	1 cut(s)	128
Bsh1236I	CGCG	3 cut(s)	36, 44, 52
BshFI	GGCC	1 cut(s)	49
BsiHKCI	CYCGRG	1 cut(s)	59
BsiSI	CCGG	1 cut(s)	560
BslI	CCNNNNNNNGG	1 cut(s)	540
BsmAI	GTCTC	1 cut(s)	62
BsmI	GAATGC	1 cut(s)	396
BsnI	GGCC	1 cut(s)	49
Bso31I	GGTCTC	1 cut(s)	62
BsoBI	CYCGRG	1 cut(s)	59
Bsp119I	TTCGAA	1 cut(s)	136
Bsp1407I	TGTACA	1 cut(s)	294
Bsp143I	GATC	4 cut(s)	103, 319, 346, 440
Bsp19I	CCATGG	1 cut(s)	534
Bsp68I	TCGCGA	1 cut(s)	44
BspACI	CCGC	4 cut(s)	4, 36, 50, 52
BspANI	GGCC	1 cut(s)	49
BspCNI	CTCAG	1 cut(s)	280
BspFNI	CGCG	3 cut(s)	36, 44, 52
BspLI	GGNNCC	1 cut(s)	321
BspMAI	CTGCAG	1 cut(s)	71
BspPI	GGATC	3 cut(s)	314, 327, 448
BspT104I	TTCGAA	1 cut(s)	136
BspTNI	GGTCTC	1 cut(s)	62
BsrGI	TGTACA	1 cut(s)	294
BsrI	ACTGG	2 cut(s)	228, 592
BssECI	CCNNGG	2 cut(s)	50, 534
BssMI	GATC	4 cut(s)	103, 319, 346, 440
BssSI	CACGAG	1 cut(s)	27
BssT1I	CCWWGG	1 cut(s)	534
Bst2BI	CACGAG	1 cut(s)	27
Bst2UI	CCWGG	1 cut(s)	251
Bst4CI	ACNGT	1 cut(s)	285
BstAUI	TGTACA	1 cut(s)	294
BstBI	TTCGAA	1 cut(s)	136
BstDEI	CTNAG	1 cut(s)	267
BstDSI	CCRYGG	2 cut(s)	50, 534
BstFNI	CGCG	3 cut(s)	36, 44, 52
BstH2I	RGCGCY	1 cut(s)	67
BstHHI	GCGC	1 cut(s)	66
BstKTI	GATC	4 cut(s)	106, 322, 349, 443
BstMAI	GTCTC	1 cut(s)	62
BstMBI	GATC	4 cut(s)	103, 319, 346, 440
BstMWI	GCNNNNNNNGC	2 cut(s)	72, 75
BstNI	CCWGG	1 cut(s)	251
BstSCI	CCNGG	2 cut(s)	249, 558
BstSFI	CTRYAG	1 cut(s)	67
BstUI	CGCG	3 cut(s)	36, 44, 52
BstV1I	GCAGC	2 cut(s)	53, 87
BstX2I	RGATCY	1 cut(s)	319
BstYI	RGATCY	1 cut(s)	319
BsuRI	GGCC	1 cut(s)	49
BtgI	CCRYGG	2 cut(s)	50, 534
BtsIMutI	CAGTG	2 cut(s)	150, 281
BtuMI	TCGCGA	1 cut(s)	44
CfoI	GCGC	1 cut(s)	66
Cfr13I	GGNCC	1 cut(s)	505
Cfr42I	CCGCGG	1 cut(s)	53
Csp6I	GTAC	1 cut(s)	295
CviAII	CATG	4 cut(s)	164, 298, 350, 535
CviJI	RGCY	8 cut(s)	49, 83, 259, 292, 383, 428, 478, 494
CviKI_1	RGCY	8 cut(s)	49, 83, 259, 292, 383, 428, 478, 494
CviQI	GTAC	1 cut(s)	295
DdeI	CTNAG	1 cut(s)	267
DpnI	GATC	4 cut(s)	105, 321, 348, 442
DpnII	GATC	4 cut(s)	103, 319, 346, 440
Eco130I	CCWWGG	1 cut(s)	534
Eco31I	GGTCTC	1 cut(s)	62
Eco47I	GGWCC	1 cut(s)	505
Eco88I	CYCGRG	1 cut(s)	59
EcoRI	GAATTC	1 cut(s)	215
EcoRII	CCWGG	1 cut(s)	249
EcoT14I	CCWWGG	1 cut(s)	534
ErhI	CCWWGG	1 cut(s)	534
FaeI	CATG	4 cut(s)	167, 301, 353, 538
FatI	CATG	4 cut(s)	163, 297, 349, 534
FauI	CCCGC	1 cut(s)	45
Fnu4HI	GCNGC	3 cut(s)	50, 67, 76
Fsp4HI	GCNGC	3 cut(s)	50, 67, 76
FspBI	CTAG	1 cut(s)	101
GlaI	GCGC	1 cut(s)	65
GluI	GCNGC	3 cut(s)	50, 67, 76
GsaI	CCCAGC	1 cut(s)	132
GsuI	CTGGAG	1 cut(s)	245
HaeII	RGCGCY	1 cut(s)	67
HaeIII	GGCC	1 cut(s)	49
HapII	CCGG	1 cut(s)	560
HhaI	GCGC	1 cut(s)	66
Hin1II	CATG	4 cut(s)	167, 301, 353, 538
Hin6I	GCGC	1 cut(s)	64
HinP1I	GCGC	1 cut(s)	64
HinfI	GANTC	2 cut(s)	15, 39
HpaII	CCGG	1 cut(s)	560
HphI	GGTGA	1 cut(s)	574
Hpy166II	GTNNAC	1 cut(s)	406
Hpy188I	TCNGA	2 cut(s)	270, 324
Hpy188III	TCNNGA	3 cut(s)	19, 27, 43
Hpy8I	GTNNAC	1 cut(s)	406
HpyAV	CCTTC	1 cut(s)	146
HpyCH4III	ACNGT	1 cut(s)	285
HpyCH4V	TGCA	3 cut(s)	69, 161, 338
HpyF10VI	GCNNNNNNNGC	2 cut(s)	72, 75
HpyF3I	CTNAG	1 cut(s)	267
Hsp92II	CATG	4 cut(s)	167, 301, 353, 538
HspAI	GCGC	1 cut(s)	64
KspI	CCGCGG	1 cut(s)	53
Kzo9I	GATC	4 cut(s)	103, 319, 346, 440
Lsp1109I	GCAGC	2 cut(s)	53, 87
MaeI	CTAG	1 cut(s)	101
MaeIII	GTNAC	2 cut(s)	24, 373
MalI	GATC	4 cut(s)	105, 321, 348, 442
MboI	GATC	4 cut(s)	103, 319, 346, 440
MboII	GAAGA	1 cut(s)	423
MfeI	CAATTG	1 cut(s)	463
MflI	RGATCY	1 cut(s)	319
MluCI	AATT	6 cut(s)	138, 173, 215, 463, 571, 592
MlyI	GAGTC	2 cut(s)	24, 48
MmeI	TCCRAC	1 cut(s)	558
MnlI	CCTC	7 cut(s)	15, 23, 39, 73, 301, 492, 496
MseI	TTAA	2 cut(s)	570, 584
MslI	CAYNNNNRTG	1 cut(s)	401
MspA1I	CMGCKG	1 cut(s)	52
MspI	CCGG	1 cut(s)	560
MspR9I	CCNGG	2 cut(s)	251, 560
MunI	CAATTG	1 cut(s)	463
Mva1269I	GAATGC	1 cut(s)	396
MvaI	CCWGG	1 cut(s)	251
MvnI	CGCG	3 cut(s)	36, 44, 52
MwoI	GCNNNNNNNGC	2 cut(s)	72, 75
NciI	CCSGG	1 cut(s)	560
NcoI	CCATGG	1 cut(s)	534
NdeII	GATC	4 cut(s)	103, 319, 346, 440
NlaIII	CATG	4 cut(s)	167, 301, 353, 538
NlaIV	GGNNCC	1 cut(s)	321
NmuCI	GTSAC	1 cut(s)	24
NruI	TCGCGA	1 cut(s)	44
NspV	TTCGAA	1 cut(s)	136
PctI	GAATGC	1 cut(s)	396
PkrI	GCNGC	3 cut(s)	51, 68, 77
PleI	GAGTC	2 cut(s)	23, 47
PpsI	GAGTC	2 cut(s)	23, 47
Psp6I	CCWGG	1 cut(s)	249
PspFI	CCCAGC	1 cut(s)	128
PspGI	CCWGG	1 cut(s)	249
PspN4I	GGNNCC	1 cut(s)	321
PspPI	GGNCC	1 cut(s)	505
PstI	CTGCAG	1 cut(s)	71
PsuI	RGATCY	1 cut(s)	319
RruI	TCGCGA	1 cut(s)	44
RsaI	GTAC	1 cut(s)	296
RsaNI	GTAC	1 cut(s)	295
RseI	CAYNNNNRTG	1 cut(s)	401
SacII	CCGCGG	1 cut(s)	53
SaqAI	TTAA	2 cut(s)	570, 584
SatI	GCNGC	3 cut(s)	50, 67, 76
Sau3AI	GATC	4 cut(s)	103, 319, 346, 440
Sau96I	GGNCC	1 cut(s)	505
SchI	GAGTC	2 cut(s)	24, 48
ScrFI	CCNGG	2 cut(s)	251, 560
SetI	ASST	8 cut(s)	26, 34, 90, 252, 261, 294, 312, 496
SfcI	CTRYAG	1 cut(s)	67
Sfr303I	CCGCGG	1 cut(s)	53
SfuI	TTCGAA	1 cut(s)	136
SgrBI	CCGCGG	1 cut(s)	53
SinI	GGWCC	1 cut(s)	505
SmiMI	CAYNNNNRTG	1 cut(s)	401
Sse9I	AATT	6 cut(s)	138, 173, 215, 463, 571, 592
SsiI	CCGC	4 cut(s)	4, 36, 50, 52
SspMI	CTAG	1 cut(s)	101
StyD4I	CCNGG	2 cut(s)	249, 558
StyI	CCWWGG	1 cut(s)	534
TaaI	ACNGT	1 cut(s)	285
TaqI	TCGA	3 cut(s)	18, 136, 497
TasI	AATT	6 cut(s)	138, 173, 215, 463, 571, 592
TatI	WGTACW	1 cut(s)	294
TauI	GCSGC	1 cut(s)	52
Tru1I	TTAA	2 cut(s)	570, 584
Tru9I	TTAA	2 cut(s)	570, 584
TscAI	CASTG	2 cut(s)	150, 288
TseFI	GTSAC	1 cut(s)	24
TseI	GCWGC	2 cut(s)	66, 75
Tsp45I	GTSAC	1 cut(s)	24
TspDTI	ATGAA	1 cut(s)	208
TspRI	CASTG	2 cut(s)	150, 288
VpaK11BI	GGWCC	1 cut(s)	505
XapI	RAATTY	3 cut(s)	138, 173, 215
XspI	CTAG	1 cut(s)	101

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