Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr2

Orthogroup ID

OG0002156

Physical Location & Seq

Genomic Coordinates Forward (+)

63515620 .. 63517519

Gene Structure 1900 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000010148

Sequence Viewer

CDS Protein Promoter (2k)

Length: 780 bp

ATGAGCAATGATGCTCAGTCTTCTTCAATCACTCCGTCTGTTTCGGCTCTCAAAAGATTGAAGCAGAGATTGAATGACTTGTGGCTTTCTGCAGTTCGGAAATGGCCTACGGTGTCTGAAGAAGTTACGCCAACTAATGGTGAAGCGGTTGAACTTTTCCGGGTGATGCAGACTGAGGGAATAAAAGGAGATAGGGTGACAAAGGTGGAGGTTGTATCTGTCTGCGGATATCTAGGAGCTCTTTATCTTGCAAAATGTGGCGACCCTCAAAGTGCAATGAAGGTGTTCGATAACATGGCAAGAAGAGATGTTTCTGCTTGGACAGCAGCCCTTGGAGCAATGGTTATGCAAGGAAATGGGGAGCGAGCTCTAGAGCTTTTTGATGACATGCTTAAGCAAGGGGTGAAACCAGATGAAGTAGTCTTTGTGGCAGTACTAAGGCGCTTGGAAGAAGCTGTTGATCTGGTAAAGAGCATGCCAATGGAACCTAATGATGTCATTTGGGGCACTCTCTTGACTGCTTGTCGAACCCACAAAAACGTCGAAATGGCAGCATATGCAGCTGAACAGGCATCACTACTCAGAGTTAATGGAGCGATCCATGAGTTTACCTCTGGTGGTGATACTGAAACGCACAGAGAGAAGAGCCACATTGTGCAAGAAATAAATAGCAGATTCAGAGATGCTGGTCACGTTCCTGATTGGATAATGTTCTGCTTGATGTTGATGAGAAGGAGAAAGAGTTCTTGCTCAGTCGACACAGTGAGAAAGTGGCCATAG

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

260

Amino Acids

28.92

Weight (kDa)

6.97

Isoelectric Point (pI)

40.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	102 - 147	1.4e-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: 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)
AccB7I	CCANNNNNTGG	1 cut(s)	137
AccI	GTMKAC	1 cut(s)	756
AciI	CCGC	2 cut(s)	146, 225
AclWI	GGATC	1 cut(s)	592
AcoI	YGGCCR	1 cut(s)	773
AcuI	CTGAAG	1 cut(s)	138
AdeI	CACNNNGTG	1 cut(s)	655
AfaI	GTAC	1 cut(s)	435
AfiI	CCNNNNNNNGG	1 cut(s)	137
AflII	CTTAAG	1 cut(s)	392
AgsI	TTSAA	4 cut(s)	27, 61, 73, 152
AhdI	GACNNNNNGTC	1 cut(s)	522
AloI	GAACNNNNNNTCC	2 cut(s)	727, 759
AluBI	AGCT	5 cut(s)	239, 368, 376, 455, 563
AluI	AGCT	5 cut(s)	239, 368, 376, 455, 563
Alw21I	GWGCWC	2 cut(s)	241, 370
AlwI	GGATC	1 cut(s)	592
AoxI	GGCC	2 cut(s)	104, 773
ApeKI	GCWGC	3 cut(s)	326, 551, 560
Asp700I	GAANNNNTTC	2 cut(s)	284, 742
AspLEI	GCGC	1 cut(s)	444
AsuC2I	CCSGG	1 cut(s)	161
AsuHPI	GGTGA	5 cut(s)	152, 175, 208, 415, 632
BaeGI	GKGCMC	1 cut(s)	509
BalI	TGGCCA	1 cut(s)	775
BanII	GRGCYC	2 cut(s)	241, 370
BbsI	GAAGAC	1 cut(s)	12
Bbv12I	GWGCWC	2 cut(s)	241, 370
BbvI	GCAGC	3 cut(s)	338, 563, 572
BcnI	CCSGG	1 cut(s)	161
BfaI	CTAG	2 cut(s)	233, 371
BfmI	CTRYAG	1 cut(s)	90
BfoI	RGCGCY	1 cut(s)	445
BfrI	CTTAAG	1 cut(s)	392
BisI	GCNGC	3 cut(s)	327, 552, 561
BlsI	GCNGC	3 cut(s)	328, 553, 562
BmcAI	AGTACT	1 cut(s)	435
Bme1390I	CCNGG	1 cut(s)	161
BmeRI	GACNNNNNGTC	1 cut(s)	522
BmiI	GGNNCC	1 cut(s)	486
BmrFI	CCNGG	1 cut(s)	161
BmsI	GCATC	3 cut(s)	156, 581, 673
BpiI	GAAGAC	1 cut(s)	12
BplI	GAGNNNNNCTC	2 cut(s)	596, 628
BpuMI	CCSGG	1 cut(s)	161
BsaJI	CCNNGG	1 cut(s)	331
BsaXI	ACNNNNNCTCC	6 cut(s)	180, 210, 327, 357, 727, 757
Bsc4I	CCNNNNNNNGG	1 cut(s)	137
Bse3DI	GCAATG	3 cut(s)	13, 282, 345
BseDI	CCNNGG	1 cut(s)	331
BseLI	CCNNNNNNNGG	1 cut(s)	137
BseMI	GCAATG	3 cut(s)	13, 282, 345
BseMII	CTCAG	4 cut(s)	29, 165, 595, 765
BseSI	GKGCMC	1 cut(s)	509
BseXI	GCAGC	3 cut(s)	338, 563, 572
BshFI	GGCC	2 cut(s)	106, 775
BsiHKAI	GWGCWC	2 cut(s)	241, 370
BsiSI	CCGG	1 cut(s)	160
BslI	CCNNNNNNNGG	1 cut(s)	137
BsnI	GGCC	2 cut(s)	106, 775
Bsp1286I	GDGCHC	3 cut(s)	241, 370, 509
Bsp143I	GATC	2 cut(s)	460, 597
BspACI	CCGC	2 cut(s)	146, 225
BspANI	GGCC	2 cut(s)	106, 775
BspCNI	CTCAG	4 cut(s)	28, 166, 594, 764
BspLI	GGNNCC	1 cut(s)	486
BspMAI	CTGCAG	1 cut(s)	94
BspPI	GGATC	1 cut(s)	592
BspQI	GCTCTTC	1 cut(s)	638
BspTI	CTTAAG	1 cut(s)	392
BsrDI	GCAATG	3 cut(s)	13, 282, 345
BssECI	CCNNGG	1 cut(s)	331
BssMI	GATC	2 cut(s)	460, 597
BssT1I	CCWWGG	1 cut(s)	331
Bst4CI	ACNGT	2 cut(s)	112, 763
Bst6I	CTCTTC	2 cut(s)	298, 638
BstAFI	CTTAAG	1 cut(s)	392
BstAPI	GCANNNNNTGC	1 cut(s)	557
BstC8I	GCNNGC	2 cut(s)	366, 476
BstDEI	CTNAG	5 cut(s)	15, 174, 437, 581, 751
BstH2I	RGCGCY	1 cut(s)	445
BstHHI	GCGC	1 cut(s)	444
BstKTI	GATC	2 cut(s)	463, 600
BstMBI	GATC	2 cut(s)	460, 597
BstMWI	GCNNNNNNNGC	5 cut(s)	323, 335, 557, 560, 569
BstNSI	RCATGY	2 cut(s)	391, 478
BstSCI	CCNGG	1 cut(s)	159
BstSFI	CTRYAG	1 cut(s)	90
BstSLI	GKGCMC	1 cut(s)	509
BstV1I	GCAGC	3 cut(s)	338, 563, 572
BstV2I	GAAGAC	1 cut(s)	12
BsuRI	GGCC	2 cut(s)	106, 775
BtsIMutI	CAGTG	1 cut(s)	768
Cac8I	GCNNGC	2 cut(s)	366, 476
CfoI	GCGC	1 cut(s)	444
Csp6I	GTAC	1 cut(s)	434
CviAII	CATG	4 cut(s)	295, 388, 475, 602
CviQI	GTAC	1 cut(s)	434
DdeI	CTNAG	5 cut(s)	15, 174, 437, 581, 751
DpnI	GATC	2 cut(s)	462, 599
DpnII	GATC	2 cut(s)	460, 597
DraIII	CACNNNGTG	1 cut(s)	655
DriI	GACNNNNNGTC	1 cut(s)	522
EaeI	YGGCCR	1 cut(s)	773
Eam1104I	CTCTTC	2 cut(s)	298, 638
Eam1105I	GACNNNNNGTC	1 cut(s)	522
EarI	CTCTTC	2 cut(s)	298, 638
Ecl136II	GAGCTC	2 cut(s)	239, 368
Eco130I	CCWWGG	1 cut(s)	331
Eco24I	GRGCYC	2 cut(s)	241, 370
Eco32I	GATATC	1 cut(s)	230
Eco53kI	GAGCTC	2 cut(s)	239, 368
Eco57I	CTGAAG	1 cut(s)	138
EcoICRI	GAGCTC	2 cut(s)	239, 368
EcoRV	GATATC	1 cut(s)	230
EcoT14I	CCWWGG	1 cut(s)	331
EcoT38I	GRGCYC	2 cut(s)	241, 370
ErhI	CCWWGG	1 cut(s)	331
FaeI	CATG	4 cut(s)	298, 391, 478, 605
FaiI	YATR	8 cut(s)	296, 347, 389, 476, 556, 558, 603, 778
FatI	CATG	4 cut(s)	294, 387, 474, 601
FauNDI	CATATG	1 cut(s)	556
FblI	GTMKAC	1 cut(s)	756
Fnu4HI	GCNGC	3 cut(s)	327, 552, 561
FriOI	GRGCYC	2 cut(s)	241, 370
Fsp4HI	GCNGC	3 cut(s)	327, 552, 561
FspBI	CTAG	2 cut(s)	233, 371
GlaI	GCGC	1 cut(s)	443
GluI	GCNGC	3 cut(s)	327, 552, 561
HaeII	RGCGCY	1 cut(s)	445
HaeIII	GGCC	2 cut(s)	106, 775
HapII	CCGG	1 cut(s)	160
HhaI	GCGC	1 cut(s)	444
Hin1II	CATG	4 cut(s)	298, 391, 478, 605
Hin6I	GCGC	1 cut(s)	442
HinP1I	GCGC	1 cut(s)	442
HincII	GTYRAC	1 cut(s)	757
HindII	GTYRAC	1 cut(s)	757
HinfI	GANTC	1 cut(s)	675
HpaII	CCGG	1 cut(s)	160
HphI	GGTGA	5 cut(s)	152, 175, 208, 415, 632
Hpy166II	GTNNAC	2 cut(s)	609, 757
Hpy188I	TCNGA	4 cut(s)	99, 118, 584, 680
Hpy188III	TCNNGA	3 cut(s)	371, 514, 698
Hpy8I	GTNNAC	2 cut(s)	609, 757
Hpy99I	CGWCG	1 cut(s)	545
HpyAV	CCTTC	2 cut(s)	274, 726
HpyCH4III	ACNGT	2 cut(s)	112, 763
HpyCH4IV	ACGT	2 cut(s)	540, 693
HpyCH4V	TGCA	7 cut(s)	92, 169, 251, 275, 349, 560, 658
HpyF10VI	GCNNNNNNNGC	5 cut(s)	323, 335, 557, 560, 569
HpyF3I	CTNAG	5 cut(s)	15, 174, 437, 581, 751
HpySE526I	ACGT	2 cut(s)	540, 693
Hsp92II	CATG	4 cut(s)	298, 391, 478, 605
HspAI	GCGC	1 cut(s)	442
Kzo9I	GATC	2 cut(s)	460, 597
LguI	GCTCTTC	1 cut(s)	638
LmnI	GCTCC	4 cut(s)	236, 335, 361, 593
LpnPI	CCDG	7 cut(s)	173, 423, 449, 554, 600, 672, 711
Lsp1109I	GCAGC	3 cut(s)	338, 563, 572
LweI	GCATC	3 cut(s)	156, 581, 673
MaeI	CTAG	2 cut(s)	233, 371
MaeII	ACGT	2 cut(s)	540, 693
MaeIII	GTNAC	3 cut(s)	124, 196, 689
MalI	GATC	2 cut(s)	462, 599
MboI	GATC	2 cut(s)	460, 597
MboII	GAAGA	6 cut(s)	12, 15, 131, 315, 461, 655
MhlI	GDGCHC	3 cut(s)	241, 370, 509
MlsI	TGGCCA	1 cut(s)	775
MluNI	TGGCCA	1 cut(s)	775
MnlI	CCTC	4 cut(s)	169, 202, 276, 622
Mox20I	TGGCCA	1 cut(s)	775
MroXI	GAANNNNTTC	2 cut(s)	284, 742
MscI	TGGCCA	1 cut(s)	775
MseI	TTAA	2 cut(s)	393, 588
MslI	CAYNNNNRTG	1 cut(s)	479
Msp20I	TGGCCA	1 cut(s)	775
MspA1I	CMGCKG	1 cut(s)	563
MspCI	CTTAAG	1 cut(s)	392
MspI	CCGG	1 cut(s)	160
MspR9I	CCNGG	1 cut(s)	161
MwoI	GCNNNNNNNGC	5 cut(s)	323, 335, 557, 560, 569
NciI	CCSGG	1 cut(s)	161
NdeI	CATATG	1 cut(s)	556
NdeII	GATC	2 cut(s)	460, 597
NlaIII	CATG	4 cut(s)	298, 391, 478, 605
NlaIV	GGNNCC	1 cut(s)	486
NmuCI	GTSAC	2 cut(s)	196, 689
NspI	RCATGY	2 cut(s)	391, 478
PaeI	GCATGC	1 cut(s)	478
PciSI	GCTCTTC	1 cut(s)	638
PdmI	GAANNNNTTC	2 cut(s)	284, 742
PfeI	GAWTC	1 cut(s)	675
PflMI	CCANNNNNTGG	1 cut(s)	137
PkrI	GCNGC	3 cut(s)	328, 553, 562
Psp124BI	GAGCTC	2 cut(s)	241, 370
PspN4I	GGNNCC	1 cut(s)	486
PstI	CTGCAG	1 cut(s)	94
PvuII	CAGCTG	1 cut(s)	563
RsaI	GTAC	1 cut(s)	435
RsaNI	GTAC	1 cut(s)	434
RseI	CAYNNNNRTG	1 cut(s)	479
SacI	GAGCTC	2 cut(s)	241, 370
SalI	GTCGAC	1 cut(s)	755
SapI	GCTCTTC	1 cut(s)	638
SaqAI	TTAA	2 cut(s)	393, 588
SatI	GCNGC	3 cut(s)	327, 552, 561
Sau3AI	GATC	2 cut(s)	460, 597
ScaI	AGTACT	1 cut(s)	435
ScrFI	CCNGG	1 cut(s)	161
SduI	GDGCHC	3 cut(s)	241, 370, 509
SfaNI	GCATC	3 cut(s)	156, 581, 673
SfcI	CTRYAG	1 cut(s)	90
SmiMI	CAYNNNNRTG	1 cut(s)	479
SmlI	CTYRAG	1 cut(s)	392
SmoI	CTYRAG	1 cut(s)	392
SphI	GCATGC	1 cut(s)	478
SsiI	CCGC	2 cut(s)	146, 225
SspMI	CTAG	2 cut(s)	233, 371
SstI	GAGCTC	2 cut(s)	241, 370
StyD4I	CCNGG	1 cut(s)	159
StyI	CCWWGG	1 cut(s)	331
TaaI	ACNGT	2 cut(s)	112, 763
TaiI	ACGT	2 cut(s)	543, 696
TaqI	TCGA	4 cut(s)	288, 526, 543, 756
TatI	WGTACW	1 cut(s)	433
TfiI	GAWTC	1 cut(s)	675
Tru1I	TTAA	2 cut(s)	393, 588
Tru9I	TTAA	2 cut(s)	393, 588
TscAI	CASTG	1 cut(s)	768
TseFI	GTSAC	2 cut(s)	196, 689
TseI	GCWGC	3 cut(s)	326, 551, 560
Tsp45I	GTSAC	2 cut(s)	196, 689
TspDTI	ATGAA	2 cut(s)	293, 429
TspGWI	ACGGA	1 cut(s)	24
TspRI	CASTG	1 cut(s)	768
Van91I	CCANNNNNTGG	1 cut(s)	137
Vha464I	CTTAAG	1 cut(s)	392
XbaI	TCTAGA	1 cut(s)	370
XceI	RCATGY	2 cut(s)	391, 478
XmiI	GTMKAC	1 cut(s)	756
XmnI	GAANNNNTTC	2 cut(s)	284, 742
XspI	CTAG	2 cut(s)	233, 371
ZrmI	AGTACT	1 cut(s)	435

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