Basic Information

Type: gene

Biological Identity

Species

rosa_multiflora

Chromosome

Rmu_sc0004665.1

Orthogroup ID

OG0013505

Physical Location & Seq

Genomic Coordinates Reverse (-)

40535 .. 41383

Gene Structure 849 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

N/A

Sequence Viewer

CDS Protein Promoter (2k)

Length: 849 bp

atggatgtggagcagaatgttgtcacgtacaatacgatgattaggatttatgggaagtcgcttgagcatgaaaaggctacaaatcttgtgcaggaaatgcagaagagggggattcagccaaatgccattacatactcgacgattatatctatatggggtagggctgggaaattagacagggcggcaatgctgtttcaaaagctgaggagctctggggttgagattgatcaggttctttatcagacaatgattgtatcttatgagagagtaggtttggttgctcatgctaagcgcttgcttcatgagcttaagcgcccagacaatatcccgagggagactgcaattaccattcttgctggagccggtcgtgtagaagaggcgacatgggttttccatcaggcttttgaggctggggaggtgaaggatatagctgtgtttggttgtatgattgagcttttctcaagaaaccggaagtatgcaaattgcattgaagtgtttgaaaatatgcgagtggcaggatactttcctgcttcccatgtgattggtctagttctcaacgcttatggaaagttacgggagtttgagaaggctgatgctgtatatagggagatgcaggaagaagggtgtgttttctctgatgaaattcacttccaaatgctcagtctttatggtgcaagaagggactttaagacagtagaggcaatgtttgagaggctggtctccgatcccaacatcaacaaaaaggagttgcatcttgttgttgcaggcatctatgaaagatctaacagacttaatgattcataccggatcatgaacaggatgaatgaaagtcgagctttgaaatcatga

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0006996 GO:0008150 GO:0008152 GO:0009451 GO:0009507 GO:0009526 GO:0009532 GO:0009536 GO:0009570 GO:0009657 GO:0009658 GO:0009941 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0016787 GO:0016788 GO:0031425 GO:0031967 GO:0031975 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2 PPR_3

Protein Analysis

282

Amino Acids

32.43

Weight (kDa)

8.32

Isoelectric Point (pI)

27.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	2 - 53	4.9e-10	Pentatricopeptide repeat domain
PPR_long	PF17177	3 - 119	1.4e-09	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	6 - 50	1.9e-15	PPR repeat family
PPR	PF01535	8 - 38	1.6e-07	PPR repeat
PPR_1	PF12854	36 - 67	9.6e-08	PPR repeat

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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Orthologous Genes (Group: OG0013505)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G39980
fragaria_vesca	FvH4_6g49520
malus_domestica	MD09G1044200.v1.1
prunus_persica	Prupe.3G273600_v2.0.a1
pyrus_communis	pycom111g03450
rosa_chinensis	RchiOBHm_Chr2g0169431
rosa_laevigata	RLG00000021863
rosa_multiflora	Rmu_co8342305.1_g000001 Rmu_sc0004665.1_g000014 Rmu_sc0004665.1_g000015 Rmu_sc0006806.1_g000040
rosa_roxburghii	Rroxscaffold_2G00082130 Rroxscaffold_3G00240790
rosa_samantha	Rh2AG611300 Rh2BG624900 Rh2CG593300 Rh2DG635500
rosa_wichuraiana	Rw2G050730

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	182
AclWI	GGATC	2 cut(s)	719, 815
AcsI	RAATTY	1 cut(s)	642
AfaI	GTAC	1 cut(s)	29
AfeI	AGCGCT	1 cut(s)	293
AflII	CTTAAG	1 cut(s)	308
AgsI	TTSAA	4 cut(s)	197, 491, 500, 841
AluBI	AGCT	6 cut(s)	202, 210, 307, 431, 454, 836
AluI	AGCT	6 cut(s)	202, 210, 307, 431, 454, 836
Alw21I	GWGCWC	1 cut(s)	212
Alw26I	GTCTC	2 cut(s)	329, 724
AlwI	GGATC	2 cut(s)	719, 815
Ama87I	CYCGRG	1 cut(s)	328
Aor51HI	AGCGCT	1 cut(s)	293
ApoI	RAATTY	1 cut(s)	642
ArsI	GACNNNNNNTTYG	2 cut(s)	646, 678
AspLEI	GCGC	2 cut(s)	294, 315
AsuHPI	GGTGA	1 cut(s)	430
AvaI	CYCGRG	1 cut(s)	328
BanII	GRGCYC	1 cut(s)	212
Bbv12I	GWGCWC	1 cut(s)	212
BbvCI	CCTCAGC	1 cut(s)	203
BccI	CCATC	1 cut(s)	402
BciVI	GTATCC	1 cut(s)	512
BclI	TGATCA	1 cut(s)	226
BcoDI	GTCTC	2 cut(s)	329, 724
BfaI	CTAG	1 cut(s)	548
BfoI	RGCGCY	2 cut(s)	295, 316
BfrI	CTTAAG	1 cut(s)	308
BfuI	GTATCC	1 cut(s)	512
BglII	AGATCT	1 cut(s)	779
BisI	GCNGC	1 cut(s)	183
BlpI	GCTNAGC	1 cut(s)	288
BlsI	GCNGC	1 cut(s)	184
BmeT110I	CYCGRG	1 cut(s)	328
BmiI	GGNNCC	1 cut(s)	361
BmsI	GCATC	4 cut(s)	583, 600, 760, 777
BplI	GAGNNNNNCTC	2 cut(s)	443, 475
BpmI	CTGGAG	1 cut(s)	378
Bpu10I	CCTNAGC	1 cut(s)	203
Bpu1102I	GCTNAGC	1 cut(s)	288
BpuEI	CTTGAG	2 cut(s)	83, 445
BsaAI	YACGTR	1 cut(s)	27
BsaI	GGTCTC	1 cut(s)	724
BsaJI	CCNNGG	1 cut(s)	329
BsaWI	WCCGGW	2 cut(s)	468, 804
Bse118I	RCCGGY	1 cut(s)	362
Bse3DI	GCAATG	2 cut(s)	192, 708
BseDI	CCNNGG	1 cut(s)	329
BseGI	GGATG	2 cut(s)	10, 825
BseMI	GCAATG	2 cut(s)	192, 708
BseMII	CTCAG	2 cut(s)	194, 673
BseRI	GAGGAG	1 cut(s)	220
BseYI	CCCAGC	2 cut(s)	164, 410
BsgI	GTGCAG	1 cut(s)	110
Bsh1285I	CGRYCG	1 cut(s)	367
BsiEI	CGRYCG	1 cut(s)	367
BsiHKAI	GWGCWC	1 cut(s)	212
BsiHKCI	CYCGRG	1 cut(s)	328
BsiSI	CCGG	3 cut(s)	363, 469, 805
BslFI	GGGAC	1 cut(s)	695
BsmAI	GTCTC	2 cut(s)	329, 724
BsmFI	GGGAC	1 cut(s)	695
Bso31I	GGTCTC	1 cut(s)	724
BsoBI	CYCGRG	1 cut(s)	328
Bsp1286I	GDGCHC	1 cut(s)	212
Bsp143I	GATC	4 cut(s)	226, 724, 779, 807
Bsp1720I	GCTNAGC	1 cut(s)	288
BspACI	CCGC	1 cut(s)	182
BspCNI	CTCAG	2 cut(s)	195, 672
BspHI	TCATGA	3 cut(s)	301, 810, 845
BspLI	GGNNCC	1 cut(s)	361
BspPI	GGATC	2 cut(s)	719, 815
BspTI	CTTAAG	1 cut(s)	308
BspTNI	GGTCTC	1 cut(s)	724
BsrDI	GCAATG	2 cut(s)	192, 708
BsrFI	RCCGGY	1 cut(s)	362
BssAI	RCCGGY	1 cut(s)	362
BssECI	CCNNGG	1 cut(s)	329
BssMI	GATC	4 cut(s)	226, 724, 779, 807
Bst4CI	ACNGT	1 cut(s)	694
Bst6I	CTCTTC	2 cut(s)	98, 369
BstAFI	CTTAAG	1 cut(s)	308
BstAPI	GCANNNNNTGC	1 cut(s)	97
BstBAI	YACGTR	1 cut(s)	27
BstC8I	GCNNGC	2 cut(s)	296, 766
BstDEI	CTNAG	3 cut(s)	203, 288, 659
BstF5I	GGATG	2 cut(s)	10, 825
BstH2I	RGCGCY	2 cut(s)	295, 316
BstHHI	GCGC	2 cut(s)	294, 315
BstKTI	GATC	4 cut(s)	229, 727, 782, 810
BstMAI	GTCTC	2 cut(s)	329, 724
BstMBI	GATC	4 cut(s)	226, 724, 779, 807
BstMCI	CGRYCG	1 cut(s)	367
BstMWI	GCNNNNNNNGC	3 cut(s)	97, 304, 407
BstX2I	RGATCY	1 cut(s)	779
BstXI	CCANNNNNNTGG	1 cut(s)	542
BstYI	RGATCY	1 cut(s)	779
BsuI	GTATCC	1 cut(s)	512
BtsCI	GGATG	2 cut(s)	10, 825
Cac8I	GCNNGC	2 cut(s)	296, 766
CciI	TCATGA	3 cut(s)	301, 810, 845
CfoI	GCGC	2 cut(s)	294, 315
Cfr10I	RCCGGY	1 cut(s)	362
Csp6I	GTAC	1 cut(s)	28
CviAII	CATG	7 cut(s)	68, 284, 302, 384, 536, 811, 846
CviQI	GTAC	1 cut(s)	28
DdeI	CTNAG	3 cut(s)	203, 288, 659
DpnI	GATC	4 cut(s)	228, 726, 781, 809
DpnII	GATC	4 cut(s)	226, 724, 779, 807
Eam1104I	CTCTTC	2 cut(s)	98, 369
EarI	CTCTTC	2 cut(s)	98, 369
Ecl136II	GAGCTC	1 cut(s)	210
Eco24I	GRGCYC	1 cut(s)	212
Eco31I	GGTCTC	1 cut(s)	724
Eco47III	AGCGCT	1 cut(s)	293
Eco53kI	GAGCTC	1 cut(s)	210
Eco88I	CYCGRG	1 cut(s)	328
EcoICRI	GAGCTC	1 cut(s)	210
EcoT38I	GRGCYC	1 cut(s)	212
FaeI	CATG	7 cut(s)	71, 287, 305, 387, 539, 814, 849
FalI	AAGNNNNNCTT	1 cut(s)	820
FaqI	GGGAC	1 cut(s)	695
FatI	CATG	7 cut(s)	67, 283, 301, 383, 535, 810, 845
FbaI	TGATCA	1 cut(s)	226
Fnu4HI	GCNGC	1 cut(s)	183
FokI	GGATG	2 cut(s)	17, 832
FriOI	GRGCYC	1 cut(s)	212
Fsp4HI	GCNGC	1 cut(s)	183
FspBI	CTAG	1 cut(s)	548
GlaI	GCGC	2 cut(s)	293, 314
GluI	GCNGC	1 cut(s)	183
GsaI	CCCAGC	2 cut(s)	168, 414
GsuI	CTGGAG	1 cut(s)	378
HaeII	RGCGCY	2 cut(s)	295, 316
HapII	CCGG	3 cut(s)	363, 469, 805
HhaI	GCGC	2 cut(s)	294, 315
Hin1II	CATG	7 cut(s)	71, 287, 305, 387, 539, 814, 849
Hin6I	GCGC	2 cut(s)	292, 313
HinP1I	GCGC	2 cut(s)	292, 313
HinfI	GANTC	2 cut(s)	112, 797
HpaII	CCGG	3 cut(s)	363, 469, 805
HphI	GGTGA	1 cut(s)	430
Hpy188I	TCNGA	3 cut(s)	243, 637, 724
Hpy188III	TCNNGA	5 cut(s)	302, 328, 462, 811, 846
Hpy99I	CGWCG	1 cut(s)	142
HpyAV	CCTTC	4 cut(s)	415, 580, 614, 672
HpyCH4III	ACNGT	1 cut(s)	694
HpyCH4IV	ACGT	1 cut(s)	26
HpyCH4V	TGCA	9 cut(s)	91, 100, 341, 479, 486, 613, 674, 751, 764
HpyF10VI	GCNNNNNNNGC	3 cut(s)	97, 304, 407
HpyF3I	CTNAG	3 cut(s)	203, 288, 659
HpySE526I	ACGT	1 cut(s)	26
Hsp92II	CATG	7 cut(s)	71, 287, 305, 387, 539, 814, 849
HspAI	GCGC	2 cut(s)	292, 313
Ksp22I	TGATCA	1 cut(s)	226
Kzo9I	GATC	4 cut(s)	226, 724, 779, 807
LmnI	GCTCC	3 cut(s)	10, 207, 359
LweI	GCATC	4 cut(s)	583, 600, 760, 777
MaeI	CTAG	1 cut(s)	548
MaeII	ACGT	1 cut(s)	26
MaeIII	GTNAC	2 cut(s)	22, 570
MalI	GATC	4 cut(s)	228, 726, 781, 809
MboI	GATC	4 cut(s)	226, 724, 779, 807
MboII	GAAGA	3 cut(s)	115, 386, 629
MflI	RGATCY	1 cut(s)	779
MhlI	GDGCHC	1 cut(s)	212
MluCI	AATT	4 cut(s)	170, 342, 481, 642
MnlI	CCTC	8 cut(s)	99, 198, 324, 370, 400, 409, 691, 705
MseI	TTAA	3 cut(s)	309, 687, 792
MslI	CAYNNNNRTG	1 cut(s)	491
MspCI	CTTAAG	1 cut(s)	308
MspI	CCGG	3 cut(s)	363, 469, 805
MwoI	GCNNNNNNNGC	3 cut(s)	97, 304, 407
NdeII	GATC	4 cut(s)	226, 724, 779, 807
NlaIII	CATG	7 cut(s)	71, 287, 305, 387, 539, 814, 849
NlaIV	GGNNCC	1 cut(s)	361
NmuCI	GTSAC	1 cut(s)	22
PagI	TCATGA	3 cut(s)	301, 810, 845
PcsI	WCGNNNNNNNCGW	1 cut(s)	32
PfeI	GAWTC	2 cut(s)	112, 797
PkrI	GCNGC	1 cut(s)	184
Ppu21I	YACGTR	1 cut(s)	27
Psp124BI	GAGCTC	1 cut(s)	212
PspFI	CCCAGC	2 cut(s)	164, 410
PspN4I	GGNNCC	1 cut(s)	361
PsuI	RGATCY	1 cut(s)	779
RsaI	GTAC	1 cut(s)	29
RsaNI	GTAC	1 cut(s)	28
RseI	CAYNNNNRTG	1 cut(s)	491
SacI	GAGCTC	1 cut(s)	212
SaqAI	TTAA	3 cut(s)	309, 687, 792
SatI	GCNGC	1 cut(s)	183
Sau3AI	GATC	4 cut(s)	226, 724, 779, 807
SduI	GDGCHC	1 cut(s)	212
SfaNI	GCATC	4 cut(s)	583, 600, 760, 777
SmiMI	CAYNNNNRTG	1 cut(s)	491
SmlI	CTYRAG	3 cut(s)	62, 308, 460
SmoI	CTYRAG	3 cut(s)	62, 308, 460
Sse9I	AATT	4 cut(s)	170, 342, 481, 642
SsiI	CCGC	1 cut(s)	182
SspMI	CTAG	1 cut(s)	548
SstI	GAGCTC	1 cut(s)	212
TaaI	ACNGT	1 cut(s)	694
TaiI	ACGT	1 cut(s)	29
TaqI	TCGA	2 cut(s)	137, 832
TasI	AATT	4 cut(s)	170, 342, 481, 642
TauI	GCSGC	1 cut(s)	185
TfiI	GAWTC	2 cut(s)	112, 797
Tru1I	TTAA	3 cut(s)	309, 687, 792
Tru9I	TTAA	3 cut(s)	309, 687, 792
TseFI	GTSAC	1 cut(s)	22
Tsp45I	GTSAC	1 cut(s)	22
TspDTI	ATGAA	8 cut(s)	84, 290, 654, 789, 789, 827, 836, 840
Vha464I	CTTAAG	1 cut(s)	308
XapI	RAATTY	1 cut(s)	642
XspI	CTAG	1 cut(s)	548

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