Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0014550

Physical Location & Seq

Genomic Coordinates Reverse (-)

4091496 .. 4092605

Gene Structure 1110 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG060600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1110 bp

ATGGAACTTTGTAATGTCGAGCCTAATGAGATTACGATGGTCAATGTCTTAGTTGCTTGTGCTCGAAGTAGGGATATCAATACTGGGAAGTGGGTTCACAGTAGTATTCGCCAACTTGGGTTTGATCCCTTTGGATCGAGTTTTGGTTTTAATGTGATTCTTGCGACTGCCATTGTAGATATGTATGCAAAATGTGGCAGCTTGAGAACAGCAAGGCATCTGTTTGACAAGATGCCTGACAGAAACTTGGTTGCCTGGAATTCCATGATCAGTGCCTACAATCAATATGGCCAGGGTGATAAAGCGATTGATCTCTTTTTTGATATGCGGATTGCTGGGTTTGTTCCAGACCAAGCTACCATTCTGGGTGTGATTGGTTCTTGTGCGCAGTTGGGGGCTTTGGCATTGGGACAAAGTCTTCATTCGTATGTATCAAAAACTAGCATAGGCACAGATGCTTCTATTGGAACTGCTTTAGTGGACATGTATACAAAAAATGGAGATGCAGGCAGTGCGCAAAGAATTTTTGACAATATGCAGAAGAAAGATGTAATGGCGTGGACTAGTATGATTGTTGGTTTAGCTATGCATGGGCATGCCGTGGAAGCACTGCATACTTTTAGAAGAATGCAAGAGGATGCTAGTGTTATTCCAGACCAGATCACTTATATTGGGGTTTTATGCGCGTGTAGCCATGTTGGGCTTGTGGAGGAGGGTCAGAGACACTTTGGCTCAATGGTTGATGTTTATGGCATAAAACCAACTGCAGAGCATTACGGCTGCATGGTTGATCTTCTGAGTCGAGCAGGCCGGTTTGAAGAGGCGGTGAAACTACTGGAAGAAATGCCAATTCAACCCAATGTTGCTATATGGGGAGCTCTCTTAAATGGGTGTGAGATATATGAAAATGTAGATCTAGCTGACCAAGTTAGAAGATACATAACAGAGTTGGAGCCTCATATTAGTGGAGTTTTCGTCCTTCTTTCCAATATATATGCTAGGGCCGGAAGATGGCAAGAAGTAAAGCTGACTAGAGAATTGATGAAAGATAGGAGGATTGCCAAAAGTCTTGGATGTAGTTCAGTTGAAATGAAATTTTTAAGTTCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000959 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016071 GO:0016556 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0046483 GO:0071704 GO:0080156 GO:0090304 GO:0090305 GO:0097159 GO:1900864 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

369

Amino Acids

40.74

Weight (kDa)

5.94

Isoelectric Point (pI)

37.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	82 - 129	2.2e-08	PPR repeat family
PPR	PF01535	84 - 113	8.1e-07	PPR repeat
PPR_1	PF12854	251 - 282	2.8e-06	PPR repeat
E_motif	PF20431	301 - 363	3.9e-15	E motif

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: OG0014550)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G05240
fragaria_vesca	FvH4_6g05570
malus_domestica	MD12G1221500.v1.1
prunus_persica	Prupe.6G328300_v2.0.a1
pyrus_communis	pycom12g20770
rosa_chinensis	RchiOBHm_Chr3g0454351
rosa_laevigata	RLG00000025451 RLG00000025452 RLG00000025458
rosa_multiflora	Rmu_sc0000006.1_g000021 Rmu_sc0007209.1_g000013
rosa_roxburghii	Rroxscaffold_165G00437180 Rroxscaffold_6G00425180
rosa_rugosa	Rorug02G0654500
rosa_samantha	Rh3BG060200 Rh3DG060600
rosa_wichuraiana	Rw3G004500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	2 cut(s)	387, 516
AccI	GTMKAC	1 cut(s)	488
AccII	CGCG	1 cut(s)	686
AciI	CCGC	2 cut(s)	328, 824
AclWI	GGATC	2 cut(s)	119, 142
AcoI	YGGCCR	1 cut(s)	289
AcsI	RAATTY	3 cut(s)	259, 522, 1094
AfiI	CCNNNNNNNGG	1 cut(s)	1011
AflIII	ACRYGT	1 cut(s)	483
AgsI	TTSAA	3 cut(s)	818, 854, 1088
AhlI	ACTAGT	1 cut(s)	563
AjnI	CCWGG	2 cut(s)	254, 291
AjuI	GAANNNNNNNTTGG	2 cut(s)	345, 377
AluBI	AGCT	6 cut(s)	201, 356, 584, 878, 920, 1027
AluI	AGCT	6 cut(s)	201, 356, 584, 878, 920, 1027
Alw21I	GWGCWC	2 cut(s)	64, 880
Alw26I	GTCTC	1 cut(s)	715
AlwI	GGATC	2 cut(s)	119, 142
AoxI	GGCC	3 cut(s)	289, 808, 1002
ApeKI	GCWGC	2 cut(s)	198, 780
ApoI	RAATTY	3 cut(s)	259, 522, 1094
AspLEI	GCGC	3 cut(s)	388, 517, 686
AspS9I	GGNCC	1 cut(s)	1002
AsuHPI	GGTGA	2 cut(s)	308, 838
BalI	TGGCCA	1 cut(s)	291
BanII	GRGCYC	1 cut(s)	880
BbsI	GAAGAC	1 cut(s)	410
Bbv12I	GWGCWC	2 cut(s)	64, 880
BbvI	GCAGC	2 cut(s)	210, 767
BccI	CCATC	2 cut(s)	31, 1005
BceAI	ACGGC	2 cut(s)	584, 793
BciT130I	CCWGG	2 cut(s)	256, 293
BclI	TGATCA	1 cut(s)	267
BcoDI	GTCTC	1 cut(s)	715
BcuI	ACTAGT	1 cut(s)	563
BfaI	CTAG	6 cut(s)	441, 564, 642, 917, 999, 1032
BfmI	CTRYAG	1 cut(s)	765
BglII	AGATCT	1 cut(s)	913
BisI	GCNGC	2 cut(s)	199, 781
BlsI	GCNGC	2 cut(s)	200, 782
Bme1390I	CCNGG	2 cut(s)	256, 293
BmgT120I	GGNCC	1 cut(s)	1002
BmiI	GGNNCC	1 cut(s)	954
BmrFI	CCNGG	2 cut(s)	256, 293
BmrI	ACTGGG	1 cut(s)	93
BmsI	GCATC	5 cut(s)	222, 226, 445, 493, 628
BmuI	ACTGGG	1 cut(s)	93
BpiI	GAAGAC	1 cut(s)	410
BpuEI	CTTGAG	1 cut(s)	223
BsaJI	CCNNGG	2 cut(s)	292, 600
BsaXI	ACNNNNNCTCC	2 cut(s)	960, 990
Bsc4I	CCNNNNNNNGG	1 cut(s)	1011
Bse118I	RCCGGY	1 cut(s)	810
Bse1I	ACTGG	2 cut(s)	88, 840
BseBI	CCWGG	2 cut(s)	256, 293
BseDI	CCNNGG	2 cut(s)	292, 600
BseGI	GGATG	2 cut(s)	643, 1079
BseLI	CCNNNNNNNGG	1 cut(s)	1011
BseMII	CTCAG	1 cut(s)	788
BseNI	ACTGG	2 cut(s)	88, 840
BseRI	GAGGAG	1 cut(s)	725
BseXI	GCAGC	2 cut(s)	210, 767
BseYI	CCCAGC	1 cut(s)	335
Bsh1236I	CGCG	1 cut(s)	686
BshFI	GGCC	3 cut(s)	291, 810, 1004
BsiHKAI	GWGCWC	2 cut(s)	64, 880
BsiSI	CCGG	2 cut(s)	811, 1005
BslFI	GGGAC	1 cut(s)	423
BslI	CCNNNNNNNGG	1 cut(s)	1011
BsmAI	GTCTC	1 cut(s)	715
BsmFI	GGGAC	1 cut(s)	423
BsmI	GAATGC	1 cut(s)	633
BsnI	GGCC	3 cut(s)	291, 810, 1004
Bsp1286I	GDGCHC	2 cut(s)	64, 880
Bsp143I	GATC	7 cut(s)	124, 134, 267, 310, 660, 790, 913
BspACI	CCGC	2 cut(s)	328, 824
BspANI	GGCC	3 cut(s)	291, 810, 1004
BspCNI	CTCAG	1 cut(s)	789
BspFNI	CGCG	1 cut(s)	686
BspLI	GGNNCC	1 cut(s)	954
BspMAI	CTGCAG	1 cut(s)	769
BspPI	GGATC	2 cut(s)	119, 142
BsrFI	RCCGGY	1 cut(s)	810
BsrI	ACTGG	2 cut(s)	88, 840
BssAI	RCCGGY	1 cut(s)	810
BssECI	CCNNGG	2 cut(s)	292, 600
BssMI	GATC	7 cut(s)	124, 134, 267, 310, 660, 790, 913
BssNAI	GTATAC	1 cut(s)	489
Bst1107I	GTATAC	1 cut(s)	489
Bst2UI	CCWGG	2 cut(s)	256, 293
Bst4CI	ACNGT	1 cut(s)	101
Bst6I	CTCTTC	1 cut(s)	813
BstAPI	GCANNNNNTGC	1 cut(s)	512
BstC8I	GCNNGC	3 cut(s)	508, 597, 808
BstDEI	CTNAG	2 cut(s)	49, 797
BstDSI	CCRYGG	1 cut(s)	600
BstF5I	GGATG	2 cut(s)	643, 1079
BstFNI	CGCG	1 cut(s)	686
BstHHI	GCGC	3 cut(s)	388, 517, 686
BstKTI	GATC	7 cut(s)	127, 137, 270, 313, 663, 793, 916
BstMAI	GTCTC	1 cut(s)	715
BstMBI	GATC	7 cut(s)	124, 134, 267, 310, 660, 790, 913
BstMWI	GCNNNNNNNGC	3 cut(s)	512, 605, 690
BstNI	CCWGG	2 cut(s)	256, 293
BstNSI	RCATGY	2 cut(s)	487, 599
BstSCI	CCNGG	2 cut(s)	254, 291
BstSFI	CTRYAG	1 cut(s)	765
BstUI	CGCG	1 cut(s)	686
BstV1I	GCAGC	2 cut(s)	210, 767
BstV2I	GAAGAC	1 cut(s)	410
BstX2I	RGATCY	1 cut(s)	913
BstYI	RGATCY	1 cut(s)	913
BstZ17I	GTATAC	1 cut(s)	489
BsuRI	GGCC	3 cut(s)	291, 810, 1004
BtgI	CCRYGG	1 cut(s)	600
BtsCI	GGATG	2 cut(s)	643, 1079
BtsI	GCAGTG	2 cut(s)	517, 608
BtsIMutI	CAGTG	3 cut(s)	277, 517, 608
Cac8I	GCNNGC	3 cut(s)	508, 597, 808
CfoI	GCGC	3 cut(s)	388, 517, 686
Cfr10I	RCCGGY	1 cut(s)	810
Cfr13I	GGNCC	1 cut(s)	1002
CviAII	CATG	6 cut(s)	265, 484, 590, 596, 695, 784
DdeI	CTNAG	2 cut(s)	49, 797
DpnI	GATC	7 cut(s)	126, 136, 269, 312, 662, 792, 915
DpnII	GATC	7 cut(s)	124, 134, 267, 310, 660, 790, 913
EaeI	YGGCCR	1 cut(s)	289
Eam1104I	CTCTTC	1 cut(s)	813
EarI	CTCTTC	1 cut(s)	813
Ecl136II	GAGCTC	1 cut(s)	878
Eco24I	GRGCYC	1 cut(s)	880
Eco32I	GATATC	1 cut(s)	76
Eco53kI	GAGCTC	1 cut(s)	878
EcoICRI	GAGCTC	1 cut(s)	878
EcoRI	GAATTC	1 cut(s)	259
EcoRII	CCWGG	2 cut(s)	254, 291
EcoRV	GATATC	1 cut(s)	76
EcoT22I	ATGCAT	1 cut(s)	591
EcoT38I	GRGCYC	1 cut(s)	880
FaeI	CATG	6 cut(s)	268, 487, 593, 599, 698, 787
FaqI	GGGAC	1 cut(s)	423
FatI	CATG	6 cut(s)	264, 483, 589, 595, 694, 783
FbaI	TGATCA	1 cut(s)	267
FblI	GTMKAC	1 cut(s)	488
Fnu4HI	GCNGC	2 cut(s)	199, 781
FokI	GGATG	2 cut(s)	650, 1086
FriOI	GRGCYC	1 cut(s)	880
Fsp4HI	GCNGC	2 cut(s)	199, 781
FspBI	CTAG	6 cut(s)	441, 564, 642, 917, 999, 1032
FspI	TGCGCA	2 cut(s)	387, 516
GlaI	GCGC	3 cut(s)	387, 516, 685
GluI	GCNGC	2 cut(s)	199, 781
GsaI	CCCAGC	1 cut(s)	339
HaeIII	GGCC	3 cut(s)	291, 810, 1004
HapII	CCGG	2 cut(s)	811, 1005
HhaI	GCGC	3 cut(s)	388, 517, 686
Hin1II	CATG	6 cut(s)	268, 487, 593, 599, 698, 787
Hin6I	GCGC	3 cut(s)	386, 515, 684
HinP1I	GCGC	3 cut(s)	386, 515, 684
HinfI	GANTC	2 cut(s)	157, 799
HpaII	CCGG	2 cut(s)	811, 1005
HphI	GGTGA	2 cut(s)	308, 838
Hpy166II	GTNNAC	4 cut(s)	97, 481, 489, 561
Hpy188I	TCNGA	2 cut(s)	720, 798
Hpy188III	TCNNGA	2 cut(s)	347, 653
Hpy8I	GTNNAC	4 cut(s)	97, 481, 489, 561
HpyAV	CCTTC	1 cut(s)	989
HpyCH4III	ACNGT	1 cut(s)	101
HpyCH4V	TGCA	8 cut(s)	188, 506, 538, 589, 613, 631, 767, 783
HpyF10VI	GCNNNNNNNGC	3 cut(s)	512, 605, 690
HpyF3I	CTNAG	2 cut(s)	49, 797
Hsp92II	CATG	6 cut(s)	268, 487, 593, 599, 698, 787
HspAI	GCGC	3 cut(s)	386, 515, 684
Ksp22I	TGATCA	1 cut(s)	267
Kzo9I	GATC	7 cut(s)	124, 134, 267, 310, 660, 790, 913
LmnI	GCTCC	2 cut(s)	875, 952
Lsp1109I	GCAGC	2 cut(s)	210, 767
LweI	GCATC	5 cut(s)	222, 226, 445, 493, 628
MaeI	CTAG	6 cut(s)	441, 564, 642, 917, 999, 1032
MalI	GATC	7 cut(s)	126, 136, 269, 312, 662, 792, 915
MboI	GATC	7 cut(s)	124, 134, 267, 310, 660, 790, 913
MboII	GAAGA	8 cut(s)	410, 553, 636, 785, 830, 851, 945, 1020
MflI	RGATCY	1 cut(s)	913
MhlI	GDGCHC	2 cut(s)	64, 880
MlsI	TGGCCA	1 cut(s)	291
MluCI	AATT	5 cut(s)	259, 522, 849, 1037, 1094
MluNI	TGGCCA	1 cut(s)	291
MlyI	GAGTC	1 cut(s)	808
MmeI	TCCRAC	1 cut(s)	930
MnlI	CCTC	6 cut(s)	628, 703, 706, 814, 966, 1047
Mox20I	TGGCCA	1 cut(s)	291
Mph1103I	ATGCAT	1 cut(s)	591
MscI	TGGCCA	1 cut(s)	291
MseI	TTAA	3 cut(s)	150, 884, 1100
MslI	CAYNNNNRTG	3 cut(s)	426, 594, 963
Msp20I	TGGCCA	1 cut(s)	291
MspI	CCGG	2 cut(s)	811, 1005
MspR9I	CCNGG	2 cut(s)	256, 293
Mva1269I	GAATGC	1 cut(s)	633
MvaI	CCWGG	2 cut(s)	256, 293
MvnI	CGCG	1 cut(s)	686
MwoI	GCNNNNNNNGC	3 cut(s)	512, 605, 690
NdeII	GATC	7 cut(s)	124, 134, 267, 310, 660, 790, 913
NlaIII	CATG	6 cut(s)	268, 487, 593, 599, 698, 787
NlaIV	GGNNCC	1 cut(s)	954
NsbI	TGCGCA	2 cut(s)	387, 516
NsiI	ATGCAT	1 cut(s)	591
NspI	RCATGY	2 cut(s)	487, 599
PaeI	GCATGC	1 cut(s)	599
PciI	ACATGT	1 cut(s)	483
PctI	GAATGC	1 cut(s)	633
PfeI	GAWTC	1 cut(s)	157
PflFI	GACNNNGTC	1 cut(s)	414
PkrI	GCNGC	2 cut(s)	200, 782
PleI	GAGTC	1 cut(s)	807
PpsI	GAGTC	1 cut(s)	807
PscI	ACATGT	1 cut(s)	483
Psp124BI	GAGCTC	1 cut(s)	880
Psp6I	CCWGG	2 cut(s)	254, 291
PspFI	CCCAGC	1 cut(s)	335
PspGI	CCWGG	2 cut(s)	254, 291
PspN4I	GGNNCC	1 cut(s)	954
PspPI	GGNCC	1 cut(s)	1002
PstI	CTGCAG	1 cut(s)	769
PsuI	RGATCY	1 cut(s)	913
PsyI	GACNNNGTC	1 cut(s)	414
RseI	CAYNNNNRTG	3 cut(s)	426, 594, 963
SacI	GAGCTC	1 cut(s)	880
SaqAI	TTAA	3 cut(s)	150, 884, 1100
SatI	GCNGC	2 cut(s)	199, 781
Sau3AI	GATC	7 cut(s)	124, 134, 267, 310, 660, 790, 913
Sau96I	GGNCC	1 cut(s)	1002
SchI	GAGTC	1 cut(s)	808
ScrFI	CCNGG	2 cut(s)	256, 293
SduI	GDGCHC	2 cut(s)	64, 880
SetI	ASST	6 cut(s)	203, 358, 586, 880, 922, 1029
SfaNI	GCATC	5 cut(s)	222, 226, 445, 493, 628
SfcI	CTRYAG	1 cut(s)	765
SmiMI	CAYNNNNRTG	3 cut(s)	426, 594, 963
SmlI	CTYRAG	1 cut(s)	202
SmoI	CTYRAG	1 cut(s)	202
SpeI	ACTAGT	1 cut(s)	563
SphI	GCATGC	1 cut(s)	599
Sse9I	AATT	5 cut(s)	259, 522, 849, 1037, 1094
SsiI	CCGC	2 cut(s)	328, 824
SspMI	CTAG	6 cut(s)	441, 564, 642, 917, 999, 1032
SstI	GAGCTC	1 cut(s)	880
StyD4I	CCNGG	2 cut(s)	254, 291
TaaI	ACNGT	1 cut(s)	101
TaqI	TCGA	4 cut(s)	18, 64, 137, 802
TasI	AATT	5 cut(s)	259, 522, 849, 1037, 1094
TfiI	GAWTC	1 cut(s)	157
Tru1I	TTAA	3 cut(s)	150, 884, 1100
Tru9I	TTAA	3 cut(s)	150, 884, 1100
TscAI	CASTG	3 cut(s)	277, 517, 615
TseI	GCWGC	2 cut(s)	198, 780
TspDTI	ATGAA	5 cut(s)	410, 918, 1058, 1095, 1106
TspRI	CASTG	3 cut(s)	277, 517, 615
Tth111I	GACNNNGTC	1 cut(s)	414
XapI	RAATTY	3 cut(s)	259, 522, 1094
XceI	RCATGY	2 cut(s)	487, 599
XmiI	GTMKAC	1 cut(s)	488
XspI	CTAG	6 cut(s)	441, 564, 642, 917, 999, 1032
Zsp2I	ATGCAT	1 cut(s)	591

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