Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0002117

Physical Location & Seq

Genomic Coordinates Reverse (-)

15684093 .. 15685340

Gene Structure 1248 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00394830.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 927 bp

ATGGCTACCGACGGATACAAACGGTCACAAGGTTCATTAGCTCCGCCTCGAAAATTAAGTGTCCAAAAGTTTGCGGAAGCGCGAGCTTCAGAACTTGAGACGCTCCACACAGTTGTATCGGACCGATTGAACAATGATTTCCGGTCTCAAAGAAGCAAGAGAAGAAGGACCACTGCTTATGACAATCAAGCCGCAAAAAAGAGATGTCGAAAAAAGCAAAAGCAAGGAGTAGGTCGTCAAAGCAATGCTTTGCCTGCAGAGAAATATGACAAGAATGTTCCTCGTCGCATTCGTCGGAGAGCTGAGCTTAAAAAGAACCTTCATACGGGTTTTTGTACCTCAGGGGATGGAACAAAGAGGCTTAGAACACATGTTTGGCATGCGAAGCGGTTCACAATGACAAAGCTTTGGGGTTATTATCTTCCCCTAGGATTGCAGGGCAGAGGAAGGGGTTCCAGAGCTGTCCTGAAATGGTTCAAAGATGGAGTGTTTGCCCATGATGCAAGCTATCACGTAGCTATGCAATTGGAGGGCACAGAGGAATCATTACTATCAGTGTTAAGAATGGTATTGGTGCCTTCTCCATCAGCTCGTTCCGAAGATATTTCCCGTTCCATTATTTCAGGGGCCATATATGATACTGCTATGCTTCATCAGTTGGGAGCCCCATGTTCAACCCCAATTGCACCTGCAACCTATATGTGGCGACCCTCTTGCCAATGGGATAGAGATAATGATGCTGCTGCTGTCTATGATGTTGGTGCATGTAATGGTCTAGAGGTTAAAGAGCGCTCGTCTACCTTTCGCCAGCTTTGGGTGTGGATACATGCTTCTGCTTTCACTGCAGGATATGATGCTCTCAAATTAGCTTGCCAAAAAGAGGTAAGCATGCTTTCTCTTTGCTCACATTTGAGCTTTATACAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000171 GO:0000172 GO:0000966 GO:0001682 GO:0003674 GO:0003824 GO:0004518 GO:0004519 GO:0004521 GO:0004526 GO:0004540 GO:0004549 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005655 GO:0005730 GO:0005732 GO:0006139 GO:0006396 GO:0006399 GO:0006401 GO:0006725 GO:0006807 GO:0008033 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009987 GO:0010467 GO:0016070 GO:0016078 GO:0016787 GO:0016788 GO:0016891 GO:0016893 GO:0019439 GO:0030677 GO:0030681 GO:0031974 GO:0031981 GO:0032991 GO:0034470 GO:0034471 GO:0034641 GO:0034655 GO:0034660 GO:0034661 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044452 GO:0044464 GO:0046483 GO:0046700 GO:0070013 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0099116 GO:0140098 GO:0140101 GO:1901360 GO:1901361 GO:1901575 GO:1902494 GO:1902555 GO:1905348 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03008 ko03013 map03008 map03013

Pfam Domains

Protein Families

POP1 POPLD

Protein Analysis

308

Amino Acids

34.78

Weight (kDa)

10.04

Isoelectric Point (pI)

60.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
POP1_N	PF06978	121 - 178	5e-11	Ribonucleases P/MRP protein subunit POP1, N-terminal

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

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Orthologous Genes (Group: OG0002117)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G47300 AT2G47300 AT2G47300
fragaria_vesca	FvH4_1g27070
malus_domestica	MD17G1273000.v1.1 MD17G1275500.v1.1 MD17G1275600.v1.1 MD17G1275700.v1.1 MD17G1277400.v1.1
prunus_persica	Prupe.3G010600_v2.0.a1 Prupe.3G010600_v2.0.a1 Prupe.3G010600_v2.0.a1
pyrus_communis	pycom09g19200 pycom17g27430 pycom17g27440 pycom17g27500
rosa_chinensis	RchiOBHm_Chr3g0487391 RchiOBHm_Chr3g0487761
rosa_laevigata	RLG00000023008
rosa_multiflora	Rmu_co8087646.1_g000001 Rmu_sc0001955.1_g000003 Rmu_sc0003620.1_g000002 Rmu_sc0008132.1_g000008 Rmu_sc0009101.1_g000013 Rmu_sc0021127.1_g000002
rosa_roxburghii	Rroxscaffold_5G00333670 Rroxscaffold_6G00394510 Rroxscaffold_6G00394520 Rroxscaffold_6G00394820 Rroxscaffold_6G00394830
rosa_rugosa	Rorug03G0233600
rosa_samantha	Rh3AG281700 Rh3BG317300 Rh3BG321000 Rh3CG315400 Rh3DG313300 Rh3DG318100 Rh5DG285200
rosa_wichuraiana	Rw1G008590 Rw2G029580 Rw3G024940 Rw5G013600 Rw5G015220 Rw7G032520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	697
Acc36I	ACCTGC	1 cut(s)	697
AccB1I	GGYRCC	1 cut(s)	574
AccI	GTMKAC	1 cut(s)	797
AccII	CGCG	1 cut(s)	82
AciI	CCGC	4 cut(s)	44, 74, 192, 388
AcuI	CTGAAG	1 cut(s)	72
AfaI	GTAC	1 cut(s)	337
AfeI	AGCGCT	1 cut(s)	791
AfiI	CCNNNNNNNGG	4 cut(s)	325, 702, 814, 880
AflIII	ACRYGT	1 cut(s)	370
AgsI	TTSAA	3 cut(s)	130, 478, 675
AjuI	GAANNNNNNNTTGG	2 cut(s)	358, 390
Alw26I	GTCTC	2 cut(s)	92, 150
Aor51HI	AGCGCT	1 cut(s)	791
AoxI	GGCC	1 cut(s)	627
ApeKI	GCWGC	2 cut(s)	740, 743
Asp700I	GAANNNNTTC	3 cut(s)	389, 451, 473
AspA2I	CCTAGG	1 cut(s)	427
AspLEI	GCGC	2 cut(s)	82, 792
AspS9I	GGNCC	3 cut(s)	121, 168, 627
AvaII	GGWCC	2 cut(s)	121, 168
AvrII	CCTAGG	1 cut(s)	427
AxyI	CCTNAGG	1 cut(s)	340
BaeGI	GKGCMC	1 cut(s)	536
BaeI	ACNNNNGTAYC	2 cut(s)	99, 132
BanI	GGYRCC	1 cut(s)	574
BanII	GRGCYC	1 cut(s)	667
BbvI	GCAGC	2 cut(s)	727, 730
BccI	CCATC	3 cut(s)	341, 476, 592
BcgI	CGANNNNNNTGC	2 cut(s)	696, 730
BciVI	GTATCC	2 cut(s)	8, 816
BcoDI	GTCTC	2 cut(s)	92, 150
BfaI	CTAG	2 cut(s)	428, 776
BfmI	CTRYAG	2 cut(s)	255, 843
BfoI	RGCGCY	1 cut(s)	793
BfuAI	ACCTGC	1 cut(s)	697
BfuI	GTATCC	2 cut(s)	8, 816
BisI	GCNGC	3 cut(s)	192, 741, 744
BlnI	CCTAGG	1 cut(s)	427
BlpI	GCTNAGC	1 cut(s)	303
BlsI	GCNGC	3 cut(s)	193, 742, 745
Bme18I	GGWCC	2 cut(s)	121, 168
BmgT120I	GGNCC	3 cut(s)	121, 168, 627
BmiI	GGNNCC	4 cut(s)	454, 576, 628, 664
BmsI	GCATC	3 cut(s)	490, 727, 844
Bpu1102I	GCTNAGC	1 cut(s)	303
BpuEI	CTTGAG	1 cut(s)	116
BsaAI	YACGTR	1 cut(s)	514
BsaI	GGTCTC	1 cut(s)	150
BsaJI	CCNNGG	1 cut(s)	427
BsaWI	WCCGGW	1 cut(s)	141
Bsc4I	CCNNNNNNNGG	4 cut(s)	325, 702, 814, 880
Bse21I	CCTNAGG	1 cut(s)	340
Bse3DI	GCAATG	1 cut(s)	250
BseDI	CCNNGG	1 cut(s)	427
BseGI	GGATG	1 cut(s)	352
BseLI	CCNNNNNNNGG	4 cut(s)	325, 702, 814, 880
BseMI	GCAATG	1 cut(s)	250
BseMII	CTCAG	2 cut(s)	294, 354
BseSI	GKGCMC	1 cut(s)	536
BseXI	GCAGC	2 cut(s)	727, 730
Bsh1236I	CGCG	1 cut(s)	82
BshFI	GGCC	1 cut(s)	629
BshNI	GGYRCC	1 cut(s)	574
BsiSI	CCGG	1 cut(s)	142
BslI	CCNNNNNNNGG	4 cut(s)	325, 702, 814, 880
BsmAI	GTCTC	2 cut(s)	92, 150
BsmBI	CGTCTC	1 cut(s)	92
BsmI	GAATGC	1 cut(s)	288
BsnI	GGCC	1 cut(s)	629
Bso31I	GGTCTC	1 cut(s)	150
Bsp1286I	GDGCHC	2 cut(s)	536, 667
Bsp1720I	GCTNAGC	1 cut(s)	303
BspACI	CCGC	4 cut(s)	44, 74, 192, 388
BspANI	GGCC	1 cut(s)	629
BspCNI	CTCAG	2 cut(s)	295, 353
BspFNI	CGCG	1 cut(s)	82
BspLI	GGNNCC	4 cut(s)	454, 576, 628, 664
BspMAI	CTGCAG	2 cut(s)	259, 847
BspMI	ACCTGC	1 cut(s)	697
BspT107I	GGYRCC	1 cut(s)	574
BspTNI	GGTCTC	1 cut(s)	150
BsrDI	GCAATG	1 cut(s)	250
BssECI	CCNNGG	1 cut(s)	427
BssT1I	CCWWGG	1 cut(s)	427
Bst4CI	ACNGT	3 cut(s)	24, 112, 924
BstBAI	YACGTR	1 cut(s)	514
BstC8I	GCNNGC	7 cut(s)	84, 255, 381, 505, 809, 871, 890
BstDEI	CTNAG	3 cut(s)	303, 340, 362
BstF5I	GGATG	1 cut(s)	352
BstFNI	CGCG	1 cut(s)	82
BstH2I	RGCGCY	1 cut(s)	793
BstHHI	GCGC	2 cut(s)	82, 792
BstMAI	GTCTC	2 cut(s)	92, 150
BstMWI	GCNNNNNNNGC	4 cut(s)	254, 385, 500, 842
BstNSI	RCATGY	5 cut(s)	374, 383, 768, 830, 892
BstSFI	CTRYAG	2 cut(s)	255, 843
BstSLI	GKGCMC	1 cut(s)	536
BstUI	CGCG	1 cut(s)	82
BstV1I	GCAGC	2 cut(s)	727, 730
Bsu36I	CCTNAGG	1 cut(s)	340
BsuI	GTATCC	2 cut(s)	8, 816
BsuRI	GGCC	1 cut(s)	629
BtsCI	GGATG	1 cut(s)	352
BtsI	GCAGTG	2 cut(s)	171, 840
BtsIMutI	CAGTG	3 cut(s)	171, 561, 840
BveI	ACCTGC	1 cut(s)	697
Cac8I	GCNNGC	7 cut(s)	84, 255, 381, 505, 809, 871, 890
CfoI	GCGC	2 cut(s)	82, 792
Cfr13I	GGNCC	3 cut(s)	121, 168, 627
CpoI	CGGWCCG	1 cut(s)	121
CseI	GACGC	1 cut(s)	109
Csp6I	GTAC	1 cut(s)	336
CspI	CGGWCCG	1 cut(s)	121
CviAII	CATG	7 cut(s)	371, 380, 497, 669, 765, 827, 889
CviQI	GTAC	1 cut(s)	336
DdeI	CTNAG	3 cut(s)	303, 340, 362
EciI	GGCGGA	1 cut(s)	33
Eco130I	CCWWGG	1 cut(s)	427
Eco24I	GRGCYC	1 cut(s)	667
Eco31I	GGTCTC	1 cut(s)	150
Eco47I	GGWCC	2 cut(s)	121, 168
Eco47III	AGCGCT	1 cut(s)	791
Eco57I	CTGAAG	1 cut(s)	72
Eco81I	CCTNAGG	1 cut(s)	340
EcoT14I	CCWWGG	1 cut(s)	427
EcoT38I	GRGCYC	1 cut(s)	667
ErhI	CCWWGG	1 cut(s)	427
Esp3I	CGTCTC	1 cut(s)	92
FaeI	CATG	7 cut(s)	374, 383, 500, 672, 768, 830, 892
FalI	AAGNNNNNCTT	2 cut(s)	232, 264
FatI	CATG	7 cut(s)	370, 379, 496, 668, 764, 826, 888
FblI	GTMKAC	1 cut(s)	797
Fnu4HI	GCNGC	3 cut(s)	192, 741, 744
FokI	GGATG	1 cut(s)	359
FriOI	GRGCYC	1 cut(s)	667
Fsp4HI	GCNGC	3 cut(s)	192, 741, 744
FspBI	CTAG	2 cut(s)	428, 776
GlaI	GCGC	2 cut(s)	81, 791
GluI	GCNGC	3 cut(s)	192, 741, 744
HaeII	RGCGCY	1 cut(s)	793
HaeIII	GGCC	1 cut(s)	629
HapII	CCGG	1 cut(s)	142
HgaI	GACGC	1 cut(s)	109
HhaI	GCGC	2 cut(s)	82, 792
Hin1II	CATG	7 cut(s)	374, 383, 500, 672, 768, 830, 892
Hin6I	GCGC	2 cut(s)	80, 790
HinP1I	GCGC	2 cut(s)	80, 790
HindIII	AAGCTT	1 cut(s)	404
HinfI	GANTC	1 cut(s)	542
HpaII	CCGG	1 cut(s)	142
Hpy166II	GTNNAC	2 cut(s)	393, 798
Hpy188I	TCNGA	4 cut(s)	91, 121, 297, 598
Hpy188III	TCNNGA	3 cut(s)	456, 466, 776
Hpy8I	GTNNAC	2 cut(s)	393, 798
Hpy99I	CGWCG	3 cut(s)	14, 288, 297
HpyAV	CCTTC	4 cut(s)	159, 329, 441, 588
HpyCH4III	ACNGT	3 cut(s)	24, 112, 924
HpyCH4IV	ACGT	1 cut(s)	513
HpyCH4V	TGCA	8 cut(s)	257, 436, 503, 523, 686, 692, 764, 845
HpyF10VI	GCNNNNNNNGC	4 cut(s)	254, 385, 500, 842
HpyF3I	CTNAG	3 cut(s)	303, 340, 362
HpySE526I	ACGT	1 cut(s)	513
Hsp92II	CATG	7 cut(s)	374, 383, 500, 672, 768, 830, 892
HspAI	GCGC	2 cut(s)	80, 790
LmnI	GCTCC	3 cut(s)	46, 108, 662
Lsp1109I	GCAGC	2 cut(s)	727, 730
LweI	GCATC	3 cut(s)	490, 727, 844
MaeI	CTAG	2 cut(s)	428, 776
MaeII	ACGT	1 cut(s)	513
MaeIII	GTNAC	1 cut(s)	24
MboII	GAAGA	3 cut(s)	174, 413, 611
MfeI	CAATTG	2 cut(s)	524, 681
MhlI	GDGCHC	2 cut(s)	536, 667
MluCI	AATT	4 cut(s)	53, 524, 681, 863
MmeI	TCCRAC	1 cut(s)	275
MroXI	GAANNNNTTC	3 cut(s)	389, 451, 473
MseI	TTAA	4 cut(s)	56, 309, 560, 783
MspI	CCGG	1 cut(s)	142
MunI	CAATTG	2 cut(s)	524, 681
Mva1269I	GAATGC	1 cut(s)	288
MvnI	CGCG	1 cut(s)	82
MwoI	GCNNNNNNNGC	4 cut(s)	254, 385, 500, 842
NlaIII	CATG	7 cut(s)	374, 383, 500, 672, 768, 830, 892
NlaIV	GGNNCC	4 cut(s)	454, 576, 628, 664
NmuCI	GTSAC	1 cut(s)	24
NspI	RCATGY	5 cut(s)	374, 383, 768, 830, 892
PaeI	GCATGC	2 cut(s)	383, 892
PaqCI	CACCTGC	1 cut(s)	697
PciI	ACATGT	1 cut(s)	370
PcsI	WCGNNNNNNNCGW	1 cut(s)	289
PctI	GAATGC	1 cut(s)	288
PdmI	GAANNNNTTC	3 cut(s)	389, 451, 473
PfeI	GAWTC	1 cut(s)	542
PkrI	GCNGC	3 cut(s)	193, 742, 745
Ppu21I	YACGTR	1 cut(s)	514
PscI	ACATGT	1 cut(s)	370
PspN4I	GGNNCC	4 cut(s)	454, 576, 628, 664
PspPI	GGNCC	3 cut(s)	121, 168, 627
PstI	CTGCAG	2 cut(s)	259, 847
RsaI	GTAC	1 cut(s)	337
RsaNI	GTAC	1 cut(s)	336
Rsr2I	CGGWCCG	1 cut(s)	121
RsrII	CGGWCCG	1 cut(s)	121
SaqAI	TTAA	4 cut(s)	56, 309, 560, 783
SatI	GCNGC	3 cut(s)	192, 741, 744
Sau96I	GGNCC	3 cut(s)	121, 168, 627
SduI	GDGCHC	2 cut(s)	536, 667
SfaNI	GCATC	3 cut(s)	490, 727, 844
SfcI	CTRYAG	2 cut(s)	255, 843
SinI	GGWCC	2 cut(s)	121, 168
SmlI	CTYRAG	1 cut(s)	95
SmoI	CTYRAG	1 cut(s)	95
SphI	GCATGC	2 cut(s)	383, 892
Sse9I	AATT	4 cut(s)	53, 524, 681, 863
SsiI	CCGC	4 cut(s)	44, 74, 192, 388
SspMI	CTAG	2 cut(s)	428, 776
StyI	CCWWGG	1 cut(s)	427
TaaI	ACNGT	3 cut(s)	24, 112, 924
TaiI	ACGT	1 cut(s)	516
TaqI	TCGA	2 cut(s)	49, 208
TaqII	GACCGA	1 cut(s)	138
TasI	AATT	4 cut(s)	53, 524, 681, 863
TauI	GCSGC	1 cut(s)	194
TfiI	GAWTC	1 cut(s)	542
Tru1I	TTAA	4 cut(s)	56, 309, 560, 783
Tru9I	TTAA	4 cut(s)	56, 309, 560, 783
TscAI	CASTG	3 cut(s)	178, 561, 847
TseFI	GTSAC	1 cut(s)	24
TseI	GCWGC	2 cut(s)	740, 743
Tsp45I	GTSAC	1 cut(s)	24
TspDTI	ATGAA	3 cut(s)	24, 311, 641
TspGWI	ACGGA	1 cut(s)	27
TspRI	CASTG	3 cut(s)	178, 561, 847
VpaK11BI	GGWCC	2 cut(s)	121, 168
XbaI	TCTAGA	1 cut(s)	775
XceI	RCATGY	5 cut(s)	374, 383, 768, 830, 892
XmaJI	CCTAGG	1 cut(s)	427
XmiI	GTMKAC	1 cut(s)	797
XmnI	GAANNNNTTC	3 cut(s)	389, 451, 473
XspI	CTAG	2 cut(s)	428, 776

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