Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0016202

Physical Location & Seq

Genomic Coordinates Reverse (-)

15078922 .. 15080348

Gene Structure 1427 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000017299

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1002 bp

ATGCCTGAGAGGGATATGTGTTCTTGGAATACTATGATTTCTGGGTATGCCAAAGTGGGGAAGATCGGTGAAGCTAGGAAACTGTTTGATGAAATGCCTCAAAGAGATAATTTTTCTTGGACGGCGATGATTTCCGGCGTTCTTGCTGCTTCAGCAGCCATTCAGAGTTTGAGAACGGAGAAGGAGATTCATGGTTATATAATGCGAACTGGATTGGACTCGGATGAGGTGGTTTGGAGCGCCTTGTCGGATATGTATGGGAAATGTGGGAGTATAGAGGAAGCTAGGCGCATTTTCGATAAGATGGTGAATCGAGATGTTGTGACATGGACCGCGATGATTGGGAGATACTTTGAGGATGGGGAGAAGGACGAGGGACTTGCCTTGTTTTCGGAGTTGATGAAATCCAGGATTAGACCTAATGAGTTCACGTTTGCAGGGGTTTTGAATGCCTGTGCTGATCATGCTACTGAGAACCTAGGCAAGCAGGTACATGGATACATGACACGGATAGGATTCGACCCCTTTTCGTTTGCCGCAAGTGCCCTTGTTCATATGTATTCAAACTCAAAGTGTGGAAACACTGCTAATGCGAAGAAGGTGTTTAAAGGGATGCCCAGTCCAGATTTGGTTTCGTGGACTTCCCTCATTGTTGGATATGCTCAGAATGGTCAAGCTGAGGAAGCTCTTCAGTTGTTTGAGTCACTACTTAAATCAGGTACACGGCCTGATCACGTAACATTTGTAGGTGTTCTTTCAGCTTGTACTCATGCTGGATTAGTAGATAGAGGACTTGAGTATTTCCATTCTACTAAGGTAAAACATGGGTTAAAACATACTGCGGACCACTATGCATGCGTAGTTGATTTGTTAGCCCAAGCTGGCCGATTTGAAGAAGCCGAGAATATTATAAGTGAAATGGCCATGAAGCCTGGTAAGTTCTTGTGGGCCTCCTTAATTGGTGGTTGTAGAATTCATGGAAACGTGAAGCTGGCAAAGTGA

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: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: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

DYW_deaminase PPR

Protein Analysis

334

Amino Acids

36.82

Weight (kDa)

6.6

Isoelectric Point (pI)

34.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_1	PF12854	4 - 32	6.4e-08	PPR repeat
PPR_2	PF13041	5 - 46	6.3e-09	PPR repeat family
PPR	PF01535	8 - 35	2.7e-09	PPR repeat
PPR_2	PF13041	105 - 153	1.1e-10	PPR repeat family
PPR_2	PF13041	208 - 255	2.8e-11	PPR repeat family
PPR	PF01535	211 - 240	1.4e-07	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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Publication-ready

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Orthologous Genes (Group: OG0016202)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G37170
fragaria_vesca	FvH4_1g15050 FvH4_1g15080
malus_domestica	MD15G1276800.v1.1
prunus_persica	Prupe.7G139900_v2.0.a1
rosa_chinensis	RchiOBHm_Chr2g0104091 RchiOBHm_Chr2g0104101
rosa_laevigata	RLG00000017288 RLG00000017299
rosa_multiflora	Rmu_ssc0000257.1_g000009
rosa_rugosa	Rorug02G0119400
rosa_samantha	Rh2BG176100 Rh2CG174500 Rh2CG174700
rosa_wichuraiana	Rw2G013220

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	911
Acc36I	ACCTGC	1 cut(s)	478
AccII	CGCG	1 cut(s)	335
AciI	CCGC	3 cut(s)	333, 537, 842
AcoI	YGGCCR	2 cut(s)	883, 921
AcsI	RAATTY	1 cut(s)	972
AcuI	CTGAAG	2 cut(s)	135, 674
AfaI	GTAC	3 cut(s)	492, 721, 766
AfiI	CCNNNNNNNGG	1 cut(s)	57
AgsI	TTSAA	3 cut(s)	448, 564, 893
AjnI	CCWGG	2 cut(s)	407, 931
AluBI	AGCT	7 cut(s)	74, 284, 677, 686, 761, 881, 991
AluI	AGCT	7 cut(s)	74, 284, 677, 686, 761, 881, 991
AoxI	GGCC	4 cut(s)	725, 883, 921, 948
ApeKI	GCWGC	2 cut(s)	146, 155
ApoI	RAATTY	1 cut(s)	972
Asp700I	GAANNNNTTC	1 cut(s)	687
AspA2I	CCTAGG	1 cut(s)	478
AspLEI	GCGC	2 cut(s)	242, 291
AspS9I	GGNCC	3 cut(s)	330, 844, 948
AsuHPI	GGTGA	2 cut(s)	80, 319
AvaII	GGWCC	2 cut(s)	330, 844
AvrII	CCTAGG	1 cut(s)	478
BaeGI	GKGCMC	1 cut(s)	547
BalI	TGGCCA	1 cut(s)	923
BbvCI	CCTCAGC	1 cut(s)	678
BbvI	GCAGC	2 cut(s)	133, 167
BccI	CCATC	2 cut(s)	298, 353
BceAI	ACGGC	2 cut(s)	138, 740
BcgI	CGANNNNNNTGC	2 cut(s)	362, 396
BciT130I	CCWGG	2 cut(s)	409, 933
BciVI	GTATCC	1 cut(s)	491
BclI	TGATCA	2 cut(s)	460, 730
BfaI	CTAG	3 cut(s)	75, 285, 479
BfoI	RGCGCY	1 cut(s)	243
BfuAI	ACCTGC	1 cut(s)	478
BfuI	GTATCC	1 cut(s)	491
BisI	GCNGC	3 cut(s)	147, 156, 537
BlnI	CCTAGG	1 cut(s)	478
BlsI	GCNGC	3 cut(s)	148, 157, 538
Bme1390I	CCNGG	2 cut(s)	409, 933
Bme18I	GGWCC	2 cut(s)	330, 844
BmgT120I	GGNCC	3 cut(s)	330, 844, 948
BmrFI	CCNGG	2 cut(s)	409, 933
BmrI	ACTGGG	1 cut(s)	612
BmsI	GCATC	1 cut(s)	603
BmuI	ACTGGG	1 cut(s)	612
Bpu10I	CCTNAGC	1 cut(s)	678
BpuEI	CTTGAG	1 cut(s)	815
BsaAI	YACGTR	1 cut(s)	736
BsaJI	CCNNGG	1 cut(s)	478
Bsc4I	CCNNNNNNNGG	1 cut(s)	57
Bse1I	ACTGG	2 cut(s)	214, 618
BseBI	CCWGG	2 cut(s)	409, 933
BseDI	CCNNGG	1 cut(s)	478
BseGI	GGATG	3 cut(s)	229, 364, 618
BseLI	CCNNNNNNNGG	1 cut(s)	57
BseMII	CTCAG	3 cut(s)	462, 669, 677
BseNI	ACTGG	2 cut(s)	214, 618
BseSI	GKGCMC	1 cut(s)	547
BseXI	GCAGC	2 cut(s)	133, 167
Bsh1236I	CGCG	1 cut(s)	335
BshFI	GGCC	4 cut(s)	727, 885, 923, 950
BsiSI	CCGG	1 cut(s)	135
BslFI	GGGAC	1 cut(s)	390
BslI	CCNNNNNNNGG	1 cut(s)	57
BsmFI	GGGAC	1 cut(s)	390
BsmI	GAATGC	1 cut(s)	454
BsnI	GGCC	4 cut(s)	727, 885, 923, 950
Bsp1286I	GDGCHC	1 cut(s)	547
Bsp143I	GATC	3 cut(s)	63, 460, 730
BspACI	CCGC	3 cut(s)	333, 537, 842
BspANI	GGCC	4 cut(s)	727, 885, 923, 950
BspCNI	CTCAG	3 cut(s)	463, 670, 676
BspFNI	CGCG	1 cut(s)	335
BspMI	ACCTGC	1 cut(s)	478
BspQI	GCTCTTC	1 cut(s)	693
BsrI	ACTGG	2 cut(s)	214, 618
BssECI	CCNNGG	1 cut(s)	478
BssMI	GATC	3 cut(s)	63, 460, 730
BssT1I	CCWWGG	1 cut(s)	478
Bst2UI	CCWGG	2 cut(s)	409, 933
Bst4CI	ACNGT	1 cut(s)	84
Bst6I	CTCTTC	1 cut(s)	693
BstBAI	YACGTR	1 cut(s)	736
BstC8I	GCNNGC	4 cut(s)	485, 856, 883, 993
BstDEI	CTNAG	5 cut(s)	6, 471, 663, 678, 813
BstF5I	GGATG	3 cut(s)	229, 364, 618
BstFNI	CGCG	1 cut(s)	335
BstH2I	RGCGCY	1 cut(s)	243
BstHHI	GCGC	2 cut(s)	242, 291
BstKTI	GATC	3 cut(s)	66, 463, 733
BstMBI	GATC	3 cut(s)	63, 460, 730
BstMWI	GCNNNNNNNGC	5 cut(s)	152, 155, 464, 542, 683
BstNI	CCWGG	2 cut(s)	409, 933
BstNSI	RCATGY	1 cut(s)	858
BstSCI	CCNGG	2 cut(s)	407, 931
BstSLI	GKGCMC	1 cut(s)	547
BstUI	CGCG	1 cut(s)	335
BstV1I	GCAGC	2 cut(s)	133, 167
BsuI	GTATCC	1 cut(s)	491
BsuRI	GGCC	4 cut(s)	727, 885, 923, 950
BtgZI	GCGATG	2 cut(s)	140, 350
BtsCI	GGATG	3 cut(s)	229, 364, 618
BtsI	GCAGTG	1 cut(s)	582
BtsIMutI	CAGTG	1 cut(s)	582
BveI	ACCTGC	1 cut(s)	478
Cac8I	GCNNGC	4 cut(s)	485, 856, 883, 993
CfoI	GCGC	2 cut(s)	242, 291
Cfr13I	GGNCC	3 cut(s)	330, 844, 948
Csp6I	GTAC	3 cut(s)	491, 720, 765
CviQI	GTAC	3 cut(s)	491, 720, 765
DdeI	CTNAG	5 cut(s)	6, 471, 663, 678, 813
DpnI	GATC	3 cut(s)	65, 462, 732
DpnII	GATC	3 cut(s)	63, 460, 730
DraI	TTTAAA	1 cut(s)	607
EaeI	YGGCCR	2 cut(s)	883, 921
Eam1104I	CTCTTC	1 cut(s)	693
EarI	CTCTTC	1 cut(s)	693
Eco130I	CCWWGG	1 cut(s)	478
Eco47I	GGWCC	2 cut(s)	330, 844
Eco57I	CTGAAG	2 cut(s)	135, 674
EcoRI	GAATTC	1 cut(s)	972
EcoRII	CCWGG	2 cut(s)	407, 931
EcoT14I	CCWWGG	1 cut(s)	478
EcoT22I	ATGCAT	1 cut(s)	856
ErhI	CCWWGG	1 cut(s)	478
FaqI	GGGAC	1 cut(s)	390
FauNDI	CATATG	1 cut(s)	555
FbaI	TGATCA	2 cut(s)	460, 730
Fnu4HI	GCNGC	3 cut(s)	147, 156, 537
FokI	GGATG	3 cut(s)	236, 371, 625
Fsp4HI	GCNGC	3 cut(s)	147, 156, 537
FspBI	CTAG	3 cut(s)	75, 285, 479
GlaI	GCGC	2 cut(s)	241, 290
GluI	GCNGC	3 cut(s)	147, 156, 537
HaeII	RGCGCY	1 cut(s)	243
HaeIII	GGCC	4 cut(s)	727, 885, 923, 950
HapII	CCGG	1 cut(s)	135
HhaI	GCGC	2 cut(s)	242, 291
Hin6I	GCGC	2 cut(s)	240, 289
HinP1I	GCGC	2 cut(s)	240, 289
HinfI	GANTC	5 cut(s)	187, 218, 310, 516, 701
HpaII	CCGG	1 cut(s)	135
HphI	GGTGA	2 cut(s)	80, 319
Hpy166II	GTNNAC	3 cut(s)	429, 639, 722
Hpy188I	TCNGA	5 cut(s)	165, 223, 250, 394, 666
Hpy188III	TCNNGA	2 cut(s)	314, 623
Hpy8I	GTNNAC	3 cut(s)	429, 639, 722
HpyAV	CCTTC	3 cut(s)	175, 361, 592
HpyCH4III	ACNGT	1 cut(s)	84
HpyCH4IV	ACGT	3 cut(s)	431, 735, 984
HpyCH4V	TGCA	2 cut(s)	437, 854
HpyF10VI	GCNNNNNNNGC	5 cut(s)	152, 155, 464, 542, 683
HpyF3I	CTNAG	5 cut(s)	6, 471, 663, 678, 813
HpySE526I	ACGT	3 cut(s)	431, 735, 984
HspAI	GCGC	2 cut(s)	240, 289
Ksp22I	TGATCA	2 cut(s)	460, 730
Kzo9I	GATC	3 cut(s)	63, 460, 730
LguI	GCTCTTC	1 cut(s)	693
LmnI	GCTCC	1 cut(s)	237
Lsp1109I	GCAGC	2 cut(s)	133, 167
LweI	GCATC	1 cut(s)	603
MaeI	CTAG	3 cut(s)	75, 285, 479
MaeII	ACGT	3 cut(s)	431, 735, 984
MaeIII	GTNAC	3 cut(s)	322, 702, 736
MalI	GATC	3 cut(s)	65, 462, 732
MboI	GATC	3 cut(s)	63, 460, 730
MboII	GAAGA	4 cut(s)	73, 607, 680, 905
MhlI	GDGCHC	1 cut(s)	547
MlsI	TGGCCA	1 cut(s)	923
MluCI	AATT	3 cut(s)	109, 957, 972
MluNI	TGGCCA	1 cut(s)	923
MlyI	GAGTC	2 cut(s)	212, 710
MmeI	TCCRAC	2 cut(s)	228, 634
Mox20I	TGGCCA	1 cut(s)	923
Mph1103I	ATGCAT	1 cut(s)	856
MroXI	GAANNNNTTC	1 cut(s)	687
MscI	TGGCCA	1 cut(s)	923
MseI	TTAA	4 cut(s)	606, 711, 830, 956
Msp20I	TGGCCA	1 cut(s)	923
MspI	CCGG	1 cut(s)	135
MspR9I	CCNGG	2 cut(s)	409, 933
Mva1269I	GAATGC	1 cut(s)	454
MvaI	CCWGG	2 cut(s)	409, 933
MvnI	CGCG	1 cut(s)	335
MwoI	GCNNNNNNNGC	5 cut(s)	152, 155, 464, 542, 683
NdeI	CATATG	1 cut(s)	555
NdeII	GATC	3 cut(s)	63, 460, 730
NmeAIII	GCCGAG	1 cut(s)	925
NmuCI	GTSAC	2 cut(s)	322, 702
NsiI	ATGCAT	1 cut(s)	856
NspI	RCATGY	1 cut(s)	858
PaeI	GCATGC	1 cut(s)	858
PciSI	GCTCTTC	1 cut(s)	693
PctI	GAATGC	1 cut(s)	454
PdmI	GAANNNNTTC	1 cut(s)	687
PfeI	GAWTC	3 cut(s)	187, 310, 516
PfoI	TCCNGGA	1 cut(s)	407
PkrI	GCNGC	3 cut(s)	148, 157, 538
PleI	GAGTC	2 cut(s)	212, 709
PpsI	GAGTC	2 cut(s)	212, 709
Ppu21I	YACGTR	1 cut(s)	736
PsiI	TTATAA	1 cut(s)	911
Psp6I	CCWGG	2 cut(s)	407, 931
PspGI	CCWGG	2 cut(s)	407, 931
PspPI	GGNCC	3 cut(s)	330, 844, 948
RsaI	GTAC	3 cut(s)	492, 721, 766
RsaNI	GTAC	3 cut(s)	491, 720, 765
SapI	GCTCTTC	1 cut(s)	693
SaqAI	TTAA	4 cut(s)	606, 711, 830, 956
SatI	GCNGC	3 cut(s)	147, 156, 537
Sau3AI	GATC	3 cut(s)	63, 460, 730
Sau96I	GGNCC	3 cut(s)	330, 844, 948
SchI	GAGTC	2 cut(s)	212, 710
ScrFI	CCNGG	2 cut(s)	409, 933
SduI	GDGCHC	1 cut(s)	547
SfaNI	GCATC	1 cut(s)	603
SinI	GGWCC	2 cut(s)	330, 844
SmlI	CTYRAG	1 cut(s)	794
SmoI	CTYRAG	1 cut(s)	794
SphI	GCATGC	1 cut(s)	858
Sse9I	AATT	3 cut(s)	109, 957, 972
SsiI	CCGC	3 cut(s)	333, 537, 842
SspI	AATATT	1 cut(s)	907
SspMI	CTAG	3 cut(s)	75, 285, 479
StyD4I	CCNGG	2 cut(s)	407, 931
StyI	CCWWGG	1 cut(s)	478
TaaI	ACNGT	1 cut(s)	84
TaiI	ACGT	3 cut(s)	434, 738, 987
TaqI	TCGA	3 cut(s)	297, 313, 519
TasI	AATT	3 cut(s)	109, 957, 972
TatI	WGTACW	1 cut(s)	764
TauI	GCSGC	1 cut(s)	539
TfiI	GAWTC	3 cut(s)	187, 310, 516
Tru1I	TTAA	4 cut(s)	606, 711, 830, 956
Tru9I	TTAA	4 cut(s)	606, 711, 830, 956
TscAI	CASTG	1 cut(s)	589
TseFI	GTSAC	2 cut(s)	322, 702
TseI	GCWGC	2 cut(s)	146, 155
Tsp45I	GTSAC	2 cut(s)	322, 702
TspDTI	ATGAA	6 cut(s)	105, 179, 416, 542, 941, 965
TspGWI	ACGGA	2 cut(s)	191, 523
TspRI	CASTG	1 cut(s)	589
VpaK11BI	GGWCC	2 cut(s)	330, 844
XapI	RAATTY	1 cut(s)	972
XceI	RCATGY	1 cut(s)	858
XcmI	CCANNNNNNNNNTGG	1 cut(s)	625
XmaJI	CCTAGG	1 cut(s)	478
XmnI	GAANNNNTTC	1 cut(s)	687
XspI	CTAG	3 cut(s)	75, 285, 479
Zsp2I	ATGCAT	1 cut(s)	856

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