Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr2

Orthogroup ID

OG0002156

Physical Location & Seq

Genomic Coordinates Forward (+)

48636472 .. 48637594

Gene Structure 1123 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000009193

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1035 bp

ATGCAGACTGAGGGAATAAAAGGAGATAGGGTGACCATGGTGGAGGTTGCATCTGCATGCAGATATCTAGGAGCTCTTGATCTTGCAAAGTGGACCCATGCTATATCAAAAAAAATGAAATTAACTGTGACATGCGGCTTGGGACAGCTTTGTTTGACATGTTTGCTAGATGTGGCAACCCTCAAAAGTGCAATGAAGGTGTTTGATAACATGGCAAGAAGAGATGTTTCTGCTTGGACAGCAGCCATTGGAGCAATGGTTATGCAAGGAAATGGGGAGCGAGCTCTAGAGCTTTTTGATGACATGCTTAAGCAAGGGGTGAAACCAGATGAAGTAGTCTTTGTGGCAGTACTAACAGCATGCAGCCATATTAGTCTTTTGGAACAAGGACGGAAGATTTTCATGTCAATGCAATCTGTCCATGGCATTTCCCCTCATATTGTTCATTATGGTTGCATGGTTGATCTACTTGGCCAAGCAGGGCGCTTGGAAGAAGCTGTTGATCTGCATATGCAGCTGAACAGGCATCCAAATTATCATGTGCTTCTTTCAAACATATATGCATCAGCTGAGGAATGGGTTGGTGTTGCAAAAGTGAGGCTACAATTGAAGGACAAAGGGATTCAAAAGGCACGAACCCACAAAAACGTTGAAATGGCAGCATATGCAGCTGAACAGGCATCCAAATTGACTACTCAGAGGAGTGGTATTCATGTGCTTCTTTCAAACATATATGCATCAGCTGAGAAATGGGTTGGTGTTGCAAAAGTGAGGCTACAATTGAAGGACAAAGGGATTCAAAAGGCACACAGATCCAGTTCCATTGAAGTTAATGGAGTGATCCATGAGTTTACCTCCCGTGGTGATACTGATACGCACACAGAGAAGAGCCACATTGTGTTAGTGATGTTGCAAGAAATAAACAGCAGACTCAGAGATGCTGGTCACGTTCCTGATTGGATAATGTCCTGCTTGATGTTGATGAGAAGGAGAAAGAGTTCTTGCTCAGTCGACACAGTGAGAAAGTGGCCATAG

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 PPR_2

Protein Analysis

345

Amino Acids

38.26

Weight (kDa)

9.2

Isoelectric Point (pI)

41.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	74 - 122	9.9e-10	PPR repeat family
E_motif	PF20431	178 - 210	2.9e-07	E motif
E_motif	PF20431	214 - 273	3.5e-12	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: OG0002156)

Species	Orthologous Gene IDs
malus_domestica	MD04G1086800.v1.1 MD15G1179900.v1.1
rosa_chinensis	RchiOBHm_Chr1g0319101 RchiOBHm_Chr1g0328871 RchiOBHm_Chr1g0329071 RchiOBHm_Chr1g0329121 RchiOBHm_Chr1g0329131 RchiOBHm_Chr3g0482401 RchiOBHm_Chr4g0386521 RchiOBHm_Chr4g0386661 RchiOBHm_Chr4g0386761 RchiOBHm_Chr4g0386771 RchiOBHm_Chr4g0386901 RchiOBHm_Chr4g0387051 RchiOBHm_Chr4g0387251 RchiOBHm_Chr4g0387261 RchiOBHm_Chr4g0389041 RchiOBHm_Chr4g0389121 RchiOBHm_Chr4g0389181 RchiOBHm_Chr4g0389271 RchiOBHm_Chr4g0389371 RchiOBHm_Chr4g0394511
rosa_laevigata	RLG00000009193 RLG00000009989 RLG00000009995 RLG00000010148 RLG00000010150 RLG00000010159
rosa_multiflora	Rmu_co8024538.1_g000001 Rmu_sc0002221.1_g000001 Rmu_sc0005233.1_g000001 Rmu_sc0006648.1_g000009 Rmu_sc0008380.1_g000013 Rmu_sc0018886.1_g000001 Rmu_sc0040950.1_g000001
rosa_roxburghii	Rroxscaffold_5G00335380
rosa_rugosa	Rorug03G0307400 Rorug03G0308300 Rorug03G0322800 Rorug03G0365000.1 Rorug03G0365100.1 Rorug05G0232600
rosa_samantha	Rh4CG016200
rosa_wichuraiana	Rw4G000010

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	1011
AciI	CCGC	1 cut(s)	135
AclI	AACGTT	1 cut(s)	648
AclWI	GGATC	2 cut(s)	807, 835
AcoI	YGGCCR	2 cut(s)	472, 1028
AdeI	CACNNNGTG	1 cut(s)	898
AfaI	GTAC	1 cut(s)	351
AflII	CTTAAG	1 cut(s)	308
AflIII	ACRYGT	1 cut(s)	158
AgsI	TTSAA	8 cut(s)	552, 610, 626, 653, 726, 784, 800, 827
AloI	GAACNNNNNNTCC	2 cut(s)	982, 1014
AluBI	AGCT	9 cut(s)	74, 148, 284, 292, 497, 517, 569, 671, 743
AluI	AGCT	9 cut(s)	74, 148, 284, 292, 497, 517, 569, 671, 743
Alw21I	GWGCWC	2 cut(s)	76, 286
AlwI	GGATC	2 cut(s)	807, 835
AoxI	GGCC	2 cut(s)	472, 1028
ApeKI	GCWGC	5 cut(s)	242, 363, 514, 659, 668
Asp700I	GAANNNNTTC	2 cut(s)	398, 997
AspLEI	GCGC	1 cut(s)	486
AspS9I	GGNCC	1 cut(s)	93
AsuHPI	GGTGA	3 cut(s)	43, 331, 875
AvaII	GGWCC	1 cut(s)	93
BalI	TGGCCA	2 cut(s)	474, 1030
BanII	GRGCYC	2 cut(s)	76, 286
Bbv12I	GWGCWC	2 cut(s)	76, 286
BbvCI	CCTCAGC	1 cut(s)	570
BbvI	GCAGC	5 cut(s)	254, 375, 526, 671, 680
BfaI	CTAG	3 cut(s)	68, 167, 287
BfoI	RGCGCY	1 cut(s)	487
BfrI	CTTAAG	1 cut(s)	308
BisI	GCNGC	6 cut(s)	136, 243, 364, 515, 660, 669
BlsI	GCNGC	6 cut(s)	137, 244, 365, 516, 661, 670
BmcAI	AGTACT	1 cut(s)	351
Bme18I	GGWCC	1 cut(s)	93
BmgT120I	GGNCC	1 cut(s)	93
BmiI	GGNNCC	1 cut(s)	95
BmsI	GCATC	6 cut(s)	59, 535, 572, 689, 746, 928
BplI	GAGNNNNNCTC	2 cut(s)	839, 871
Bpu10I	CCTNAGC	1 cut(s)	570
BsaJI	CCNNGG	3 cut(s)	36, 421, 859
BsaXI	ACNNNNNCTCC	6 cut(s)	15, 45, 243, 273, 982, 1012
Bse1I	ACTGG	1 cut(s)	816
Bse3DI	GCAATG	2 cut(s)	198, 261
BseDI	CCNNGG	3 cut(s)	36, 421, 859
BseGI	GGATG	2 cut(s)	526, 680
BseMI	GCAATG	2 cut(s)	198, 261
BseMII	CTCAG	5 cut(s)	561, 710, 735, 946, 1020
BseNI	ACTGG	1 cut(s)	816
BseRI	GAGGAG	1 cut(s)	715
BseXI	GCAGC	5 cut(s)	254, 375, 526, 671, 680
BshFI	GGCC	2 cut(s)	474, 1030
BsiHKAI	GWGCWC	2 cut(s)	76, 286
BslFI	GGGAC	1 cut(s)	156
BsmFI	GGGAC	1 cut(s)	156
BsnI	GGCC	2 cut(s)	474, 1030
Bsp1286I	GDGCHC	2 cut(s)	76, 286
Bsp143I	GATC	5 cut(s)	79, 463, 502, 812, 840
Bsp19I	CCATGG	2 cut(s)	36, 421
BspACI	CCGC	1 cut(s)	135
BspANI	GGCC	2 cut(s)	474, 1030
BspCNI	CTCAG	5 cut(s)	562, 709, 736, 945, 1019
BspLI	GGNNCC	1 cut(s)	95
BspPI	GGATC	2 cut(s)	807, 835
BspQI	GCTCTTC	1 cut(s)	881
BspTI	CTTAAG	1 cut(s)	308
BsrDI	GCAATG	2 cut(s)	198, 261
BsrI	ACTGG	1 cut(s)	816
BssECI	CCNNGG	3 cut(s)	36, 421, 859
BssMI	GATC	5 cut(s)	79, 463, 502, 812, 840
BssT1I	CCWWGG	2 cut(s)	36, 421
Bst4CI	ACNGT	2 cut(s)	127, 1018
Bst6I	CTCTTC	2 cut(s)	214, 881
BstAFI	CTTAAG	1 cut(s)	308
BstAPI	GCANNNNNTGC	1 cut(s)	665
BstC8I	GCNNGC	3 cut(s)	58, 282, 361
BstDEI	CTNAG	6 cut(s)	9, 570, 696, 744, 932, 1006
BstDSI	CCRYGG	3 cut(s)	36, 421, 859
BstEII	GGTNACC	1 cut(s)	31
BstF5I	GGATG	2 cut(s)	526, 680
BstH2I	RGCGCY	1 cut(s)	487
BstHHI	GCGC	1 cut(s)	486
BstKTI	GATC	5 cut(s)	82, 466, 505, 815, 843
BstMBI	GATC	5 cut(s)	79, 463, 502, 812, 840
BstMWI	GCNNNNNNNGC	7 cut(s)	239, 251, 514, 523, 665, 668, 677
BstNSI	RCATGY	5 cut(s)	60, 135, 162, 307, 363
BstPI	GGTNACC	1 cut(s)	31
BstV1I	GCAGC	5 cut(s)	254, 375, 526, 671, 680
BstX2I	RGATCY	1 cut(s)	812
BstYI	RGATCY	1 cut(s)	812
BsuRI	GGCC	2 cut(s)	474, 1030
BtgI	CCRYGG	3 cut(s)	36, 421, 859
BtsCI	GGATG	2 cut(s)	526, 680
BtsIMutI	CAGTG	1 cut(s)	1023
Cac8I	GCNNGC	3 cut(s)	58, 282, 361
CfoI	GCGC	1 cut(s)	486
Cfr13I	GGNCC	1 cut(s)	93
Csp6I	GTAC	1 cut(s)	350
CviQI	GTAC	1 cut(s)	350
DdeI	CTNAG	6 cut(s)	9, 570, 696, 744, 932, 1006
DpnI	GATC	5 cut(s)	81, 465, 504, 814, 842
DpnII	GATC	5 cut(s)	79, 463, 502, 812, 840
DraIII	CACNNNGTG	1 cut(s)	898
EaeI	YGGCCR	2 cut(s)	472, 1028
Eam1104I	CTCTTC	2 cut(s)	214, 881
EarI	CTCTTC	2 cut(s)	214, 881
Ecl136II	GAGCTC	2 cut(s)	74, 284
Eco130I	CCWWGG	2 cut(s)	36, 421
Eco24I	GRGCYC	2 cut(s)	76, 286
Eco32I	GATATC	1 cut(s)	65
Eco47I	GGWCC	1 cut(s)	93
Eco53kI	GAGCTC	2 cut(s)	74, 284
Eco91I	GGTNACC	1 cut(s)	31
EcoICRI	GAGCTC	2 cut(s)	74, 284
EcoO65I	GGTNACC	1 cut(s)	31
EcoRV	GATATC	1 cut(s)	65
EcoT14I	CCWWGG	2 cut(s)	36, 421
EcoT22I	ATGCAT	2 cut(s)	565, 739
EcoT38I	GRGCYC	2 cut(s)	76, 286
ErhI	CCWWGG	2 cut(s)	36, 421
FaqI	GGGAC	1 cut(s)	156
FauNDI	CATATG	2 cut(s)	510, 664
FblI	GTMKAC	1 cut(s)	1011
Fnu4HI	GCNGC	6 cut(s)	136, 243, 364, 515, 660, 669
FokI	GGATG	2 cut(s)	513, 667
FriOI	GRGCYC	2 cut(s)	76, 286
Fsp4HI	GCNGC	6 cut(s)	136, 243, 364, 515, 660, 669
FspBI	CTAG	3 cut(s)	68, 167, 287
GlaI	GCGC	1 cut(s)	485
GluI	GCNGC	6 cut(s)	136, 243, 364, 515, 660, 669
HaeII	RGCGCY	1 cut(s)	487
HaeIII	GGCC	2 cut(s)	474, 1030
HhaI	GCGC	1 cut(s)	486
Hin6I	GCGC	1 cut(s)	484
HinP1I	GCGC	1 cut(s)	484
HincII	GTYRAC	1 cut(s)	1012
HindII	GTYRAC	1 cut(s)	1012
HinfI	GANTC	3 cut(s)	622, 796, 930
HphI	GGTGA	3 cut(s)	43, 331, 875
Hpy166II	GTNNAC	3 cut(s)	93, 852, 1012
Hpy188I	TCNGA	2 cut(s)	699, 935
Hpy188III	TCNNGA	3 cut(s)	77, 287, 953
Hpy8I	GTNNAC	3 cut(s)	93, 852, 1012
HpyAV	CCTTC	4 cut(s)	190, 604, 778, 981
HpyCH4III	ACNGT	2 cut(s)	127, 1018
HpyCH4IV	ACGT	2 cut(s)	648, 948
HpyF10VI	GCNNNNNNNGC	7 cut(s)	239, 251, 514, 523, 665, 668, 677
HpyF3I	CTNAG	6 cut(s)	9, 570, 696, 744, 932, 1006
HpySE526I	ACGT	2 cut(s)	648, 948
HspAI	GCGC	1 cut(s)	484
Kzo9I	GATC	5 cut(s)	79, 463, 502, 812, 840
LguI	GCTCTTC	1 cut(s)	881
LmnI	GCTCC	3 cut(s)	71, 251, 277
LpnPI	CCDG	8 cut(s)	339, 465, 508, 662, 829, 927, 966, 982
Lsp1109I	GCAGC	5 cut(s)	254, 375, 526, 671, 680
LweI	GCATC	6 cut(s)	59, 535, 572, 689, 746, 928
MaeI	CTAG	3 cut(s)	68, 167, 287
MaeII	ACGT	2 cut(s)	648, 948
MaeIII	GTNAC	3 cut(s)	31, 127, 944
MalI	GATC	5 cut(s)	81, 465, 504, 814, 842
MboI	GATC	5 cut(s)	79, 463, 502, 812, 840
MboII	GAAGA	4 cut(s)	231, 406, 503, 898
MfeI	CAATTG	2 cut(s)	605, 779
MflI	RGATCY	1 cut(s)	812
MhlI	GDGCHC	2 cut(s)	76, 286
MlsI	TGGCCA	2 cut(s)	474, 1030
MluCI	AATT	5 cut(s)	119, 532, 605, 686, 779
MluNI	TGGCCA	2 cut(s)	474, 1030
MlyI	GAGTC	1 cut(s)	924
MnlI	CCTC	9 cut(s)	4, 37, 191, 444, 565, 591, 693, 765, 865
Mox20I	TGGCCA	2 cut(s)	474, 1030
Mph1103I	ATGCAT	2 cut(s)	565, 739
MroXI	GAANNNNTTC	2 cut(s)	398, 997
MscI	TGGCCA	2 cut(s)	474, 1030
MseI	TTAA	3 cut(s)	122, 309, 831
MslI	CAYNNNNRTG	2 cut(s)	55, 407
Msp20I	TGGCCA	2 cut(s)	474, 1030
MspA1I	CMGCKG	4 cut(s)	517, 569, 671, 743
MspCI	CTTAAG	1 cut(s)	308
MunI	CAATTG	2 cut(s)	605, 779
MwoI	GCNNNNNNNGC	7 cut(s)	239, 251, 514, 523, 665, 668, 677
NcoI	CCATGG	2 cut(s)	36, 421
NdeI	CATATG	2 cut(s)	510, 664
NdeII	GATC	5 cut(s)	79, 463, 502, 812, 840
NlaIV	GGNNCC	1 cut(s)	95
NmuCI	GTSAC	3 cut(s)	31, 127, 944
NsiI	ATGCAT	2 cut(s)	565, 739
NspI	RCATGY	5 cut(s)	60, 135, 162, 307, 363
PaeI	GCATGC	2 cut(s)	60, 363
PciI	ACATGT	1 cut(s)	158
PciSI	GCTCTTC	1 cut(s)	881
PdmI	GAANNNNTTC	2 cut(s)	398, 997
PfeI	GAWTC	2 cut(s)	622, 796
PkrI	GCNGC	6 cut(s)	137, 244, 365, 516, 661, 670
PleI	GAGTC	1 cut(s)	924
PpsI	GAGTC	1 cut(s)	924
PscI	ACATGT	1 cut(s)	158
Psp124BI	GAGCTC	2 cut(s)	76, 286
Psp1406I	AACGTT	1 cut(s)	648
PspEI	GGTNACC	1 cut(s)	31
PspN4I	GGNNCC	1 cut(s)	95
PspPI	GGNCC	1 cut(s)	93
PsuI	RGATCY	1 cut(s)	812
PvuII	CAGCTG	4 cut(s)	517, 569, 671, 743
RsaI	GTAC	1 cut(s)	351
RsaNI	GTAC	1 cut(s)	350
RseI	CAYNNNNRTG	2 cut(s)	55, 407
SacI	GAGCTC	2 cut(s)	76, 286
SalI	GTCGAC	1 cut(s)	1010
SapI	GCTCTTC	1 cut(s)	881
SaqAI	TTAA	3 cut(s)	122, 309, 831
SatI	GCNGC	6 cut(s)	136, 243, 364, 515, 660, 669
Sau3AI	GATC	5 cut(s)	79, 463, 502, 812, 840
Sau96I	GGNCC	1 cut(s)	93
ScaI	AGTACT	1 cut(s)	351
SchI	GAGTC	1 cut(s)	924
SduI	GDGCHC	2 cut(s)	76, 286
SfaNI	GCATC	6 cut(s)	59, 535, 572, 689, 746, 928
SinI	GGWCC	1 cut(s)	93
SmiMI	CAYNNNNRTG	2 cut(s)	55, 407
SmlI	CTYRAG	1 cut(s)	308
SmoI	CTYRAG	1 cut(s)	308
SphI	GCATGC	2 cut(s)	60, 363
Sse9I	AATT	5 cut(s)	119, 532, 605, 686, 779
SsiI	CCGC	1 cut(s)	135
SspMI	CTAG	3 cut(s)	68, 167, 287
SstI	GAGCTC	2 cut(s)	76, 286
StyI	CCWWGG	2 cut(s)	36, 421
TaaI	ACNGT	2 cut(s)	127, 1018
TaiI	ACGT	2 cut(s)	651, 951
TaqI	TCGA	1 cut(s)	1011
TasI	AATT	5 cut(s)	119, 532, 605, 686, 779
TatI	WGTACW	1 cut(s)	349
TauI	GCSGC	1 cut(s)	138
TfiI	GAWTC	2 cut(s)	622, 796
Tru1I	TTAA	3 cut(s)	122, 309, 831
Tru9I	TTAA	3 cut(s)	122, 309, 831
TscAI	CASTG	1 cut(s)	1023
TseFI	GTSAC	3 cut(s)	31, 127, 944
TseI	GCWGC	5 cut(s)	242, 363, 514, 659, 668
Tsp45I	GTSAC	3 cut(s)	31, 127, 944
TspDTI	ATGAA	6 cut(s)	131, 209, 345, 391, 434, 701
TspGWI	ACGGA	1 cut(s)	406
TspRI	CASTG	1 cut(s)	1023
Vha464I	CTTAAG	1 cut(s)	308
VpaK11BI	GGWCC	1 cut(s)	93
XbaI	TCTAGA	1 cut(s)	286
XceI	RCATGY	5 cut(s)	60, 135, 162, 307, 363
XcmI	CCANNNNNNNNNTGG	1 cut(s)	253
XmiI	GTMKAC	1 cut(s)	1011
XmnI	GAANNNNTTC	2 cut(s)	398, 997
XspI	CTAG	3 cut(s)	68, 167, 287
ZrmI	AGTACT	1 cut(s)	351
Zsp2I	ATGCAT	2 cut(s)	565, 739

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