Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0005657

Physical Location & Seq

Genomic Coordinates Reverse (-)

21952763 .. 21955205

Gene Structure 2443 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00235130.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 822 bp

ATGGAGGAAATTGACTCTACAGCTAATGTAAAGAAGAGAAAGAAAATCATCAAGGATGGCATAATGGGTGTGGCAACTGAATATGGAGATGTTGCACAAATGAACGAGGGAGGAGATAAAAAGAAAATAGAGAAGAAAGAGAAGAGGGGCAAAGCAGGTGGTGAATTGGTACAGAATATAACAAGTGATGGAGTGGAGGCTGGATTAGCAAGTCAGCGTTTAGATGGGCATATCGTGGAGAACAGGAGAAGGTTGGTTTTGCACTTGAGGAGAGGAAGAAAGAGAAAAGAAACCATGGAAAGAATTCAGGAATGGAATTGCAGGAATTCGTGGCTGAAAAAATGGGCACTGAGAGCACTGAAGTTCAAGAAAACATGTTCTCAAAGAATGATGTCAATGTGCAGTCAAAATAGTCCAAGACTTTTGCAGCATGCGGAGACTGTTCATGCTCCAAGTTCATGGGTAGGACTGCATTCTAATTCTTATGAGGACATACCGTGGATAGAGAGCAGTTTGAGGTGGGAAGAAGAGGCTAGGAGATTGGCTGGGGAGATGTATAGGGGAGGCTTCGACATTGGGACCAGTTCTTTCAATGCGATTCTTGATTGCGTGTGTAAGCTTTCCAGGAAAAAGGACCCCTTTCACCTTCATTCCAAGGCTGAGCAAATCTTGGTGGATATGGACTTTCATGGGGTGCTGAGAAATGTGGAGACTTTCAATGTGCTGATTACTAATTTGTGTAAGATTAGGAAGACCGAGGATGCGTTGAATTTGTTTCATAGAATGGGGGAGTGGGGCTGTTCTCCAAAGTATATTTCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005739 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0071704 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

273

Amino Acids

31.42

Weight (kDa)

9.46

Isoelectric Point (pI)

49.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	235 - 269	2.4e-08	PPR repeat 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)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0005657)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G60960
fragaria_vesca	FvH4_5g29994 FvH4_5g29994 FvH4_5g29994 FvH4_7g15150
malus_domestica	MD06G1203500.v1.1 MD14G1214300.v1.1
prunus_persica	Prupe.5G207600_v2.0.a1
pyrus_communis	pycom06g18160 pycom14g17770 pycom16g18740
rosa_chinensis	RchiOBHm_Chr7g0224161 RchiOBHm_Chr7g0224171
rosa_laevigata	RLG00000001915
rosa_multiflora	Rmu_co8487915.1_g000001 Rmu_sc0008008.1_g000001 Rmu_sc0023501.1_g000005
rosa_roxburghii	Rroxscaffold_3G00235130 Rroxscaffold_3G00235140 Rroxscaffold_3G00235150
rosa_rugosa	Rorug07G0199800 Rorug07G0221500
rosa_samantha	Rh7AG365400 Rh7BG357100 Rh7CG384300 Rh7DG360200
rosa_wichuraiana	Rw7G030930 Rw7G030940

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	146
Acc36I	ACCTGC	1 cut(s)	146
AciI	CCGC	1 cut(s)	434
AcsI	RAATTY	3 cut(s)	303, 325, 769
AcuI	CTGAAG	1 cut(s)	380
AfaI	GTAC	1 cut(s)	171
AflIII	ACRYGT	1 cut(s)	374
AgsI	TTSAA	4 cut(s)	367, 592, 718, 769
AjnI	CCWGG	1 cut(s)	623
AjuI	GAANNNNNNNTTGG	1 cut(s)	799
AluBI	AGCT	2 cut(s)	23, 619
AluI	AGCT	2 cut(s)	23, 619
Alw21I	GWGCWC	1 cut(s)	358
Alw26I	GTCTC	2 cut(s)	431, 704
ApeKI	GCWGC	1 cut(s)	427
ApoI	RAATTY	3 cut(s)	303, 325, 769
Asp700I	GAANNNNTTC	1 cut(s)	303
AspS9I	GGNCC	2 cut(s)	579, 634
AsuHPI	GGTGA	2 cut(s)	173, 635
AvaII	GGWCC	2 cut(s)	579, 634
BaeGI	GKGCMC	1 cut(s)	349
BbsI	GAAGAC	1 cut(s)	758
Bbv12I	GWGCWC	1 cut(s)	358
BbvI	GCAGC	1 cut(s)	439
BccI	CCATC	3 cut(s)	50, 182, 218
BciT130I	CCWGG	1 cut(s)	625
BcoDI	GTCTC	2 cut(s)	431, 704
BfaI	CTAG	1 cut(s)	534
BfmI	CTRYAG	1 cut(s)	18
BfuAI	ACCTGC	1 cut(s)	146
BisI	GCNGC	1 cut(s)	428
BlpI	GCTNAGC	1 cut(s)	660
BlsI	GCNGC	1 cut(s)	429
Bme1390I	CCNGG	1 cut(s)	625
Bme18I	GGWCC	2 cut(s)	579, 634
BmgT120I	GGNCC	2 cut(s)	579, 634
BmiI	GGNNCC	2 cut(s)	580, 636
BmrFI	CCNGG	1 cut(s)	625
BmsI	GCATC	1 cut(s)	751
BpiI	GAAGAC	1 cut(s)	758
Bpu1102I	GCTNAGC	1 cut(s)	660
BpuEI	CTTGAG	1 cut(s)	286
BsaJI	CCNNGG	4 cut(s)	294, 497, 654, 756
Bse1I	ACTGG	1 cut(s)	582
BseBI	CCWGG	1 cut(s)	625
BseDI	CCNNGG	4 cut(s)	294, 497, 654, 756
BseGI	GGATG	2 cut(s)	61, 766
BseMII	CTCAG	3 cut(s)	341, 651, 689
BseNI	ACTGG	1 cut(s)	582
BseRI	GAGGAG	2 cut(s)	126, 283
BseSI	GKGCMC	1 cut(s)	349
BseXI	GCAGC	1 cut(s)	439
BseYI	CCCAGC	1 cut(s)	545
BsgI	GTGCAG	1 cut(s)	421
BsiHKAI	GWGCWC	1 cut(s)	358
BslFI	GGGAC	1 cut(s)	592
BsmAI	GTCTC	2 cut(s)	431, 704
BsmFI	GGGAC	1 cut(s)	592
BsmI	GAATGC	1 cut(s)	472
Bsp1286I	GDGCHC	2 cut(s)	349, 358
Bsp1720I	GCTNAGC	1 cut(s)	660
Bsp19I	CCATGG	1 cut(s)	294
BspACI	CCGC	1 cut(s)	434
BspCNI	CTCAG	3 cut(s)	342, 652, 690
BspLI	GGNNCC	2 cut(s)	580, 636
BspMI	ACCTGC	1 cut(s)	146
BsrI	ACTGG	1 cut(s)	582
BssECI	CCNNGG	4 cut(s)	294, 497, 654, 756
BssT1I	CCWWGG	2 cut(s)	294, 654
Bst2UI	CCWGG	1 cut(s)	625
Bst4CI	ACNGT	2 cut(s)	442, 498
Bst6I	CTCTTC	3 cut(s)	29, 137, 522
BstC8I	GCNNGC	1 cut(s)	432
BstDEI	CTNAG	3 cut(s)	350, 660, 698
BstDSI	CCRYGG	2 cut(s)	294, 497
BstF5I	GGATG	2 cut(s)	61, 766
BstMAI	GTCTC	2 cut(s)	431, 704
BstMWI	GCNNNNNNNGC	2 cut(s)	206, 353
BstNI	CCWGG	1 cut(s)	625
BstNSI	RCATGY	2 cut(s)	378, 434
BstSCI	CCNGG	1 cut(s)	623
BstSFI	CTRYAG	1 cut(s)	18
BstSLI	GKGCMC	1 cut(s)	349
BstV1I	GCAGC	1 cut(s)	439
BstV2I	GAAGAC	1 cut(s)	758
BstXI	CCANNNNNNTGG	1 cut(s)	459
BtgI	CCRYGG	2 cut(s)	294, 497
BtsCI	GGATG	2 cut(s)	61, 766
BtsIMutI	CAGTG	2 cut(s)	347, 356
BveI	ACCTGC	1 cut(s)	146
Cac8I	GCNNGC	1 cut(s)	432
Cfr13I	GGNCC	2 cut(s)	579, 634
Csp6I	GTAC	1 cut(s)	170
CspCI	CAANNNNNGTGG	2 cut(s)	139, 174
CviAII	CATG	6 cut(s)	295, 375, 431, 446, 459, 689
CviJI	RGCY	9 cut(s)	23, 200, 334, 533, 545, 567, 619, 659, 798
CviKI_1	RGCY	9 cut(s)	23, 200, 334, 533, 545, 567, 619, 659, 798
CviQI	GTAC	1 cut(s)	170
DdeI	CTNAG	3 cut(s)	350, 660, 698
Eam1104I	CTCTTC	3 cut(s)	29, 137, 522
EarI	CTCTTC	3 cut(s)	29, 137, 522
Eco130I	CCWWGG	2 cut(s)	294, 654
Eco47I	GGWCC	2 cut(s)	579, 634
Eco57I	CTGAAG	1 cut(s)	380
EcoO109I	RGGNCCY	1 cut(s)	634
EcoRI	GAATTC	2 cut(s)	303, 325
EcoRII	CCWGG	1 cut(s)	623
EcoT14I	CCWWGG	2 cut(s)	294, 654
ErhI	CCWWGG	2 cut(s)	294, 654
FaeI	CATG	6 cut(s)	298, 378, 434, 449, 462, 692
FalI	AAGNNNNNCTT	2 cut(s)	623, 655
FaqI	GGGAC	1 cut(s)	592
FatI	CATG	6 cut(s)	294, 374, 430, 445, 458, 688
Fnu4HI	GCNGC	1 cut(s)	428
FokI	GGATG	2 cut(s)	68, 773
Fsp4HI	GCNGC	1 cut(s)	428
FspBI	CTAG	1 cut(s)	534
GluI	GCNGC	1 cut(s)	428
GsaI	CCCAGC	1 cut(s)	549
Hin1II	CATG	6 cut(s)	298, 378, 434, 449, 462, 692
HindIII	AAGCTT	1 cut(s)	617
HinfI	GANTC	2 cut(s)	14, 598
HphI	GGTGA	2 cut(s)	173, 635
Hpy188III	TCNNGA	4 cut(s)	308, 367, 602, 819
HpyAV	CCTTC	2 cut(s)	243, 656
HpyCH4III	ACNGT	2 cut(s)	442, 498
HpyCH4V	TGCA	6 cut(s)	95, 262, 321, 402, 427, 472
HpyF10VI	GCNNNNNNNGC	2 cut(s)	206, 353
HpyF3I	CTNAG	3 cut(s)	350, 660, 698
Hsp92II	CATG	6 cut(s)	298, 378, 434, 449, 462, 692
LmnI	GCTCC	1 cut(s)	454
LpnPI	CCDG	9 cut(s)	141, 186, 229, 293, 307, 531, 595, 610, 637
Lsp1109I	GCAGC	1 cut(s)	439
LweI	GCATC	1 cut(s)	751
MaeI	CTAG	1 cut(s)	534
MboII	GAAGA	7 cut(s)	46, 145, 154, 288, 536, 539, 763
MhlI	GDGCHC	2 cut(s)	349, 358
MluCI	AATT	8 cut(s)	9, 164, 303, 316, 325, 478, 733, 769
MlyI	GAGTC	1 cut(s)	8
MroXI	GAANNNNTTC	1 cut(s)	303
MspR9I	CCNGG	1 cut(s)	625
Mva1269I	GAATGC	1 cut(s)	472
MvaI	CCWGG	1 cut(s)	625
MwoI	GCNNNNNNNGC	2 cut(s)	206, 353
NcoI	CCATGG	1 cut(s)	294
NlaIII	CATG	6 cut(s)	298, 378, 434, 449, 462, 692
NlaIV	GGNNCC	2 cut(s)	580, 636
NspI	RCATGY	2 cut(s)	378, 434
PaeI	GCATGC	1 cut(s)	434
PaqCI	CACCTGC	1 cut(s)	146
PciI	ACATGT	1 cut(s)	374
PctI	GAATGC	1 cut(s)	472
PdmI	GAANNNNTTC	1 cut(s)	303
PfeI	GAWTC	1 cut(s)	598
PfoI	TCCNGGA	1 cut(s)	623
PkrI	GCNGC	1 cut(s)	429
PleI	GAGTC	1 cut(s)	8
PpsI	GAGTC	1 cut(s)	8
PpuMI	RGGWCCY	1 cut(s)	634
PscI	ACATGT	1 cut(s)	374
Psp5II	RGGWCCY	1 cut(s)	634
Psp6I	CCWGG	1 cut(s)	623
PspFI	CCCAGC	1 cut(s)	545
PspGI	CCWGG	1 cut(s)	623
PspN4I	GGNNCC	2 cut(s)	580, 636
PspPI	GGNCC	2 cut(s)	579, 634
PspPPI	RGGWCCY	1 cut(s)	634
RsaI	GTAC	1 cut(s)	171
RsaNI	GTAC	1 cut(s)	170
SatI	GCNGC	1 cut(s)	428
Sau96I	GGNCC	2 cut(s)	579, 634
SchI	GAGTC	1 cut(s)	8
ScrFI	CCNGG	1 cut(s)	625
SduI	GDGCHC	2 cut(s)	349, 358
SetI	ASST	6 cut(s)	25, 160, 254, 521, 621, 648
SfaNI	GCATC	1 cut(s)	751
SfcI	CTRYAG	1 cut(s)	18
SinI	GGWCC	2 cut(s)	579, 634
SmlI	CTYRAG	1 cut(s)	265
SmoI	CTYRAG	1 cut(s)	265
SphI	GCATGC	1 cut(s)	434
Sse9I	AATT	8 cut(s)	9, 164, 303, 316, 325, 478, 733, 769
SsiI	CCGC	1 cut(s)	434
SspMI	CTAG	1 cut(s)	534
StyD4I	CCNGG	1 cut(s)	623
StyI	CCWWGG	2 cut(s)	294, 654
TaaI	ACNGT	2 cut(s)	442, 498
TaqI	TCGA	1 cut(s)	570
TaqII	GACCGA	1 cut(s)	770
TasI	AATT	8 cut(s)	9, 164, 303, 316, 325, 478, 733, 769
TfiI	GAWTC	1 cut(s)	598
TscAI	CASTG	2 cut(s)	354, 363
TseI	GCWGC	1 cut(s)	427
TspDTI	ATGAA	6 cut(s)	116, 434, 447, 638, 677, 767
TspRI	CASTG	2 cut(s)	354, 363
VpaK11BI	GGWCC	2 cut(s)	579, 634
XapI	RAATTY	3 cut(s)	303, 325, 769
XceI	RCATGY	2 cut(s)	378, 434
XmnI	GAANNNNTTC	1 cut(s)	303
XspI	CTAG	1 cut(s)	534

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