Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0001580

Physical Location & Seq

Genomic Coordinates Reverse (-)

54171139 .. 54172649

Gene Structure 1511 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000030054

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1437 bp

ATGCGGGGTGAGAACACCTCCCCGGATTCGCACACTTTTGCTGGAGTTTGTAATGCTGCTTCATATGGAAAGGATGTTTCGGGTGGCAGGCAAGTTCACACGGTTGCTGTTAAGGCTGTGGGCTGTTTTGATGTGTTTGTTGGAAGTTCTCTTGTTATTATGTGTTGTAAGATGGGTCTTGTAGGGGAAGCACGAAAGGTGTTCGATGAAATGCTTGAGAGGAATTCGGTTACTTGGGCTACTATGATTTCTGGGTATGCAATGCAACAGTTGGCTGCAAATGGATTCGAGGTTTTTATACTGATGCGTAGGAGTGAGGAGATGGAAGAAGAGAATGAGTTTGTTTTGACCGCGGTTCTTAGTGGTTTGGCGGGTCCTGAATTTGTTGATACAGGCAAGCAGATTCATTGTCTTGCGGTGAAAAATGGGCTGATGTGTAATGTTTCTGTTGGGAATGCGCTTGTTACGATAGGGGGGATTCGCAAAAGGCTTTGGACTGCGATGATACCTGGTTTTGCACAGAGGGGGGATTCGCAAAAGGCTTTGGACTTGTTTTCAGACATGCATTTTTCTGGGATAGTGCCGACCGAGTTTGCGTTTGGTGGGGTCATCAGTGCCTGTAGTGACATCAATGCTCTTGAACAAGGAAAGCAAGTGCATAGTTATCTGCTCAAGTTGGGATTTGAATTCCAATTATATATAATTTCAGCTTTGGTTGACATGTATGGCAAATGTGGTAGCGTTAGTGATGCTCGGAAAGGGTTTGATTGTATAAAAGAGTCTGATATTGTTCTTTGGAGTTCTATGATTGGAGGGTATGTACAAAATGGGGAGAATGAAGCTGCTTTGAGTTTATATTGTAGAATGCAGAGGGAGGGATTTTTGCCTAATGAACTTACGATTGCCAGTCTCCTAAAAGCATGTTCAAGCCTATGTGCTTTTGAACAAGGAAAGCAAATCCATGCGAGTACCATTAAGTATGGATTCAGTCTTGAATTTCCAATTGGAAGTTCTCTTTTCACTATGTATGCAAAGTGTGGGAATTTGGAAGATGGGAAGTTAGTGTTTAGGAGAATGCCTATGAGAGATGTAGTGTCTTGGAATGCAATGATATCTGGGCTTTCACAAAATGGGCAGGGTAACGAAGCTCTAGAGCTCTTTGAGGAGATGCGATTGGGTGGTACAGAGCTGGATTACGTTGCATTTGTGAATGTTCTCTCTGCTTGCAGCCATATGGGATCTGTGGAGAGAGGATGGATTTATTTCAAGATGATGTCTAATGAATTTGGCATTGCCCCAAGGGTGGACCATTATGCTTGCATGGTTGATGTCCTGAGCCGTGCTGGGAAGTTAGATGAAGCTAAAGGTTTTATAGAGTCAGCTACTATTGATCATGGCATATGTTTGAAGGAATGGATGGATTTCAAAACTTTTTAG

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

479

Amino Acids

52.42

Weight (kDa)

5.35

Isoelectric Point (pI)

32.49

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	165 - 208	5e-07	PPR repeat family
PPR_2	PF13041	262 - 309	5.2e-11	PPR repeat family
PPR	PF01535	264 - 294	2.6e-07	PPR repeat
PPR_2	PF13041	362 - 410	1.4e-10	PPR repeat family
PPR_1	PF12854	363 - 391	9.1e-07	PPR repeat
PPR	PF01535	365 - 391	2.7e-09	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: OG0001580)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G33680 AT2G33680 AT2G33680 AT2G33680 AT2G33680 AT2G33680 AT2G33680 AT2G33680
fragaria_vesca	FvH4_7g03841 FvH4_7g03850
malus_domestica	MD02G1276700.v1.1
prunus_persica	Prupe.2G043400_v2.0.a1
pyrus_communis	pycom02g23700
rosa_chinensis	RchiOBHm_Chr1g0326811 RchiOBHm_Chr1g0326821 RchiOBHm_Chr1g0327271 RchiOBHm_Chr1g0327321
rosa_laevigata	RLG00000030002 RLG00000030005 RLG00000030054
rosa_multiflora	Rmu_sc0001021.1_g000002 Rmu_sc0003600.1_g000043 Rmu_sc0005038.1_g000015 Rmu_sc0010151.1_g000003 Rmu_sc0010151.1_g000004 Rmu_sc0020365.1_g000001
rosa_roxburghii	Rroxscaffold_2G00128000 Rroxscaffold_4G00322770 Rroxscaffold_4G00322870
rosa_rugosa	Rorug01G0064900 Rorug01G0065300 Rorug01G0065400 Rorug01G0065500 Rorug01G0065500
rosa_samantha	Rh1AG082500 Rh1AG083100 Rh1BG065600 Rh1BG065900 Rh1BG066000 Rh1CG080500 Rh1DG087500 Rh2AG148500 Rh2AG148600 Rh2BG154000 Rh2DG154200 Rh3CG329400
rosa_wichuraiana	Rw1G006500 Rw1G006530 Rw2G011590 Rw2G011600

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	353
AciI	CCGC	5 cut(s)	4, 351, 353, 371, 416
AclWI	GGATC	1 cut(s)	1246
AcsI	RAATTY	6 cut(s)	223, 380, 686, 995, 1042, 1283
AfaI	GTAC	3 cut(s)	822, 970, 1183
AfiI	CCNNNNNNNGG	1 cut(s)	1303
AflIII	ACRYGT	1 cut(s)	720
AgsI	TTSAA	8 cut(s)	641, 686, 927, 944, 995, 1267, 1408, 1426
AjnI	CCWGG	1 cut(s)	508
AjuI	GAANNNNNNNTTGG	4 cut(s)	987, 994, 1019, 1026
AluBI	AGCT	7 cut(s)	710, 842, 1148, 1156, 1189, 1361, 1382
AluI	AGCT	7 cut(s)	710, 842, 1148, 1156, 1189, 1361, 1382
Alw21I	GWGCWC	1 cut(s)	1158
Alw26I	GTCTC	1 cut(s)	914
AlwI	GGATC	1 cut(s)	1246
AlwNI	CAGNNNCTG	1 cut(s)	618
ApeKI	GCWGC	4 cut(s)	56, 275, 842, 1227
ApoI	RAATTY	6 cut(s)	223, 380, 686, 995, 1042, 1283
AspLEI	GCGC	1 cut(s)	460
AspS9I	GGNCC	2 cut(s)	374, 1306
AsuC2I	CCSGG	1 cut(s)	23
AsuHPI	GGTGA	2 cut(s)	20, 430
AvaII	GGWCC	2 cut(s)	374, 1306
BanII	GRGCYC	1 cut(s)	1158
BarI	GAAGNNNNNNTAC	2 cut(s)	43, 75
Bbv12I	GWGCWC	1 cut(s)	1158
BbvI	GCAGC	4 cut(s)	43, 262, 829, 1239
BccI	CCATC	5 cut(s)	166, 316, 1046, 1248, 1411
BceAI	ACGGC	1 cut(s)	1323
BciT130I	CCWGG	1 cut(s)	510
BclI	TGATCA	1 cut(s)	1390
BcnI	CCSGG	1 cut(s)	23
BcoDI	GTCTC	1 cut(s)	914
BfaI	CTAG	1 cut(s)	1151
BfmI	CTRYAG	1 cut(s)	619
BisI	GCNGC	4 cut(s)	57, 276, 843, 1228
BlsI	GCNGC	4 cut(s)	58, 277, 844, 1229
Bme1390I	CCNGG	2 cut(s)	23, 510
Bme18I	GGWCC	2 cut(s)	374, 1306
BmgT120I	GGNCC	2 cut(s)	374, 1306
BmiI	GGNNCC	1 cut(s)	375
BmrFI	CCNGG	2 cut(s)	23, 510
BmsI	GCATC	3 cut(s)	294, 739, 1158
BplI	GAGNNNNNCTC	1 cut(s)	34
BpmI	CTGGAG	1 cut(s)	63
Bpu10I	CCTNAGC	1 cut(s)	1334
BpuEI	CTTGAG	2 cut(s)	236, 656
BpuMI	CCSGG	1 cut(s)	23
BsaJI	CCNNGG	3 cut(s)	21, 351, 1298
BsaXI	ACNNNNNCTCC	2 cut(s)	804, 834
Bsc4I	CCNNNNNNNGG	1 cut(s)	1303
Bse1I	ACTGG	1 cut(s)	906
Bse3DI	GCAATG	3 cut(s)	267, 1113, 1290
BseBI	CCWGG	1 cut(s)	510
BseDI	CCNNGG	3 cut(s)	21, 351, 1298
BseGI	GGATG	3 cut(s)	79, 1259, 1422
BseLI	CCNNNNNNNGG	1 cut(s)	1303
BseMI	GCAATG	3 cut(s)	267, 1113, 1290
BseMII	CTCAG	1 cut(s)	1325
BseNI	ACTGG	1 cut(s)	906
BseRI	GAGGAG	2 cut(s)	332, 1178
BseXI	GCAGC	4 cut(s)	43, 262, 829, 1239
BseYI	CCCAGC	1 cut(s)	1343
Bsh1236I	CGCG	1 cut(s)	353
Bsh1285I	CGRYCG	1 cut(s)	588
BsiEI	CGRYCG	1 cut(s)	588
BsiHKAI	GWGCWC	1 cut(s)	1158
BsiSI	CCGG	1 cut(s)	23
BslI	CCNNNNNNNGG	1 cut(s)	1303
BsmAI	GTCTC	1 cut(s)	914
BsmI	GAATGC	4 cut(s)	460, 870, 1080, 1108
Bsp1286I	GDGCHC	1 cut(s)	1158
Bsp1407I	TGTACA	1 cut(s)	820
Bsp143I	GATC	2 cut(s)	1238, 1390
BspACI	CCGC	5 cut(s)	4, 351, 353, 371, 416
BspCNI	CTCAG	1 cut(s)	1326
BspFNI	CGCG	1 cut(s)	353
BspLI	GGNNCC	1 cut(s)	375
BspPI	GGATC	1 cut(s)	1246
BsrDI	GCAATG	3 cut(s)	267, 1113, 1290
BsrGI	TGTACA	1 cut(s)	820
BsrI	ACTGG	1 cut(s)	906
BssECI	CCNNGG	3 cut(s)	21, 351, 1298
BssMI	GATC	2 cut(s)	1238, 1390
BssT1I	CCWWGG	1 cut(s)	1298
Bst2UI	CCWGG	1 cut(s)	510
Bst4CI	ACNGT	2 cut(s)	103, 270
Bst6I	CTCTTC	1 cut(s)	324
BstAUI	TGTACA	1 cut(s)	820
BstC8I	GCNNGC	4 cut(s)	89, 398, 1225, 1318
BstDEI	CTNAG	2 cut(s)	359, 1334
BstDSI	CCRYGG	1 cut(s)	351
BstF5I	GGATG	3 cut(s)	79, 1259, 1422
BstFNI	CGCG	1 cut(s)	353
BstHHI	GCGC	1 cut(s)	460
BstKTI	GATC	2 cut(s)	1241, 1393
BstMAI	GTCTC	1 cut(s)	914
BstMBI	GATC	2 cut(s)	1238, 1390
BstMCI	CGRYCG	1 cut(s)	588
BstMWI	GCNNNNNNNGC	1 cut(s)	113
BstNI	CCWGG	1 cut(s)	510
BstNSI	RCATGY	3 cut(s)	565, 724, 924
BstSCI	CCNGG	2 cut(s)	21, 508
BstSFI	CTRYAG	1 cut(s)	619
BstUI	CGCG	1 cut(s)	353
BstV1I	GCAGC	4 cut(s)	43, 262, 829, 1239
BstX2I	RGATCY	1 cut(s)	1238
BstYI	RGATCY	1 cut(s)	1238
BtgI	CCRYGG	1 cut(s)	351
BtgZI	GCGATG	1 cut(s)	515
BtsCI	GGATG	3 cut(s)	79, 1259, 1422
BtsIMutI	CAGTG	1 cut(s)	619
Cac8I	GCNNGC	4 cut(s)	89, 398, 1225, 1318
CaiI	CAGNNNCTG	1 cut(s)	618
CfoI	GCGC	1 cut(s)	460
Cfr13I	GGNCC	2 cut(s)	374, 1306
Cfr42I	CCGCGG	1 cut(s)	354
CsiI	ACCWGGT	1 cut(s)	508
Csp6I	GTAC	3 cut(s)	821, 969, 1182
CviAII	CATG	6 cut(s)	562, 721, 921, 962, 1321, 1394
CviQI	GTAC	3 cut(s)	821, 969, 1182
DdeI	CTNAG	2 cut(s)	359, 1334
DpnI	GATC	2 cut(s)	1240, 1392
DpnII	GATC	2 cut(s)	1238, 1390
Eam1104I	CTCTTC	1 cut(s)	324
EarI	CTCTTC	1 cut(s)	324
Ecl136II	GAGCTC	1 cut(s)	1156
Eco130I	CCWWGG	1 cut(s)	1298
Eco24I	GRGCYC	1 cut(s)	1158
Eco32I	GATATC	1 cut(s)	1113
Eco47I	GGWCC	2 cut(s)	374, 1306
Eco53kI	GAGCTC	1 cut(s)	1156
EcoICRI	GAGCTC	1 cut(s)	1156
EcoO109I	RGGNCCY	1 cut(s)	374
EcoRI	GAATTC	2 cut(s)	223, 686
EcoRII	CCWGG	1 cut(s)	508
EcoRV	GATATC	1 cut(s)	1113
EcoT14I	CCWWGG	1 cut(s)	1298
EcoT22I	ATGCAT	1 cut(s)	567
EcoT38I	GRGCYC	1 cut(s)	1158
ErhI	CCWWGG	1 cut(s)	1298
FaeI	CATG	6 cut(s)	565, 724, 924, 965, 1324, 1397
FatI	CATG	6 cut(s)	561, 720, 920, 961, 1320, 1393
FauI	CCCGC	1 cut(s)	364
FauNDI	CATATG	3 cut(s)	64, 1233, 1400
FbaI	TGATCA	1 cut(s)	1390
Fnu4HI	GCNGC	4 cut(s)	57, 276, 843, 1228
FokI	GGATG	3 cut(s)	86, 1266, 1429
FriOI	GRGCYC	1 cut(s)	1158
Fsp4HI	GCNGC	4 cut(s)	57, 276, 843, 1228
FspBI	CTAG	1 cut(s)	1151
GlaI	GCGC	1 cut(s)	459
GluI	GCNGC	4 cut(s)	57, 276, 843, 1228
GsaI	CCCAGC	1 cut(s)	1347
GsuI	CTGGAG	1 cut(s)	63
HapII	CCGG	1 cut(s)	23
HhaI	GCGC	1 cut(s)	460
Hin1II	CATG	6 cut(s)	565, 724, 924, 965, 1324, 1397
Hin6I	GCGC	1 cut(s)	458
HinP1I	GCGC	1 cut(s)	458
HincII	GTYRAC	1 cut(s)	718
HindII	GTYRAC	1 cut(s)	718
HinfI	GANTC	8 cut(s)	26, 285, 403, 478, 530, 779, 984, 1376
HpaII	CCGG	1 cut(s)	23
HphI	GGTGA	2 cut(s)	20, 430
Hpy166II	GTNNAC	3 cut(s)	97, 718, 1306
Hpy188I	TCNGA	3 cut(s)	559, 756, 784
Hpy188III	TCNNGA	6 cut(s)	377, 638, 992, 1151, 1267, 1333
Hpy8I	GTNNAC	3 cut(s)	97, 718, 1306
HpyAV	CCTTC	1 cut(s)	1402
HpyCH4III	ACNGT	2 cut(s)	103, 270
HpyCH4IV	ACGT	1 cut(s)	1197
HpyF10VI	GCNNNNNNNGC	1 cut(s)	113
HpyF3I	CTNAG	2 cut(s)	359, 1334
HpySE526I	ACGT	1 cut(s)	1197
Hsp92II	CATG	6 cut(s)	565, 724, 924, 965, 1324, 1397
HspAI	GCGC	1 cut(s)	458
Ksp22I	TGATCA	1 cut(s)	1390
KspI	CCGCGG	1 cut(s)	354
Kzo9I	GATC	2 cut(s)	1238, 1390
Lsp1109I	GCAGC	4 cut(s)	43, 262, 829, 1239
LweI	GCATC	3 cut(s)	294, 739, 1158
MabI	ACCWGGT	1 cut(s)	508
MaeI	CTAG	1 cut(s)	1151
MaeII	ACGT	1 cut(s)	1197
MaeIII	GTNAC	4 cut(s)	229, 463, 623, 1139
MalI	GATC	2 cut(s)	1240, 1392
MboI	GATC	2 cut(s)	1238, 1390
MboII	GAAGA	3 cut(s)	338, 341, 1061
MfeI	CAATTG	1 cut(s)	1002
MflI	RGATCY	1 cut(s)	1238
MhlI	GDGCHC	1 cut(s)	1158
MluCI	AATT	9 cut(s)	223, 380, 686, 692, 702, 995, 1002, 1042, 1283
MlyI	GAGTC	2 cut(s)	788, 1385
MmeI	TCCRAC	1 cut(s)	121
Mph1103I	ATGCAT	1 cut(s)	567
MseI	TTAA	2 cut(s)	111, 975
MspA1I	CMGCKG	1 cut(s)	353
MspI	CCGG	1 cut(s)	23
MspR9I	CCNGG	2 cut(s)	23, 510
MunI	CAATTG	1 cut(s)	1002
Mva1269I	GAATGC	4 cut(s)	460, 870, 1080, 1108
MvaI	CCWGG	1 cut(s)	510
MvnI	CGCG	1 cut(s)	353
MwoI	GCNNNNNNNGC	1 cut(s)	113
NciI	CCSGG	1 cut(s)	23
NdeI	CATATG	3 cut(s)	64, 1233, 1400
NdeII	GATC	2 cut(s)	1238, 1390
NlaIII	CATG	6 cut(s)	565, 724, 924, 965, 1324, 1397
NlaIV	GGNNCC	1 cut(s)	375
NmuCI	GTSAC	1 cut(s)	623
NsiI	ATGCAT	1 cut(s)	567
NspI	RCATGY	3 cut(s)	565, 724, 924
PciI	ACATGT	1 cut(s)	720
PctI	GAATGC	4 cut(s)	460, 870, 1080, 1108
PfeI	GAWTC	6 cut(s)	26, 285, 403, 478, 530, 984
PkrI	GCNGC	4 cut(s)	58, 277, 844, 1229
PleI	GAGTC	2 cut(s)	787, 1384
PpsI	GAGTC	2 cut(s)	787, 1384
PpuMI	RGGWCCY	1 cut(s)	374
PscI	ACATGT	1 cut(s)	720
Psp124BI	GAGCTC	1 cut(s)	1158
Psp5II	RGGWCCY	1 cut(s)	374
Psp6I	CCWGG	1 cut(s)	508
PspFI	CCCAGC	1 cut(s)	1343
PspGI	CCWGG	1 cut(s)	508
PspN4I	GGNNCC	1 cut(s)	375
PspPI	GGNCC	2 cut(s)	374, 1306
PspPPI	RGGWCCY	1 cut(s)	374
PstNI	CAGNNNCTG	1 cut(s)	618
PsuI	RGATCY	1 cut(s)	1238
RsaI	GTAC	3 cut(s)	822, 970, 1183
RsaNI	GTAC	3 cut(s)	821, 969, 1182
SacI	GAGCTC	1 cut(s)	1158
SacII	CCGCGG	1 cut(s)	354
SaqAI	TTAA	2 cut(s)	111, 975
SatI	GCNGC	4 cut(s)	57, 276, 843, 1228
Sau3AI	GATC	2 cut(s)	1238, 1390
Sau96I	GGNCC	2 cut(s)	374, 1306
SchI	GAGTC	2 cut(s)	788, 1385
ScrFI	CCNGG	2 cut(s)	23, 510
SduI	GDGCHC	1 cut(s)	1158
SexAI	ACCWGGT	1 cut(s)	508
SfaNI	GCATC	3 cut(s)	294, 739, 1158
SfcI	CTRYAG	1 cut(s)	619
Sfr303I	CCGCGG	1 cut(s)	354
SgrBI	CCGCGG	1 cut(s)	354
SinI	GGWCC	2 cut(s)	374, 1306
SmlI	CTYRAG	2 cut(s)	215, 671
SmoI	CTYRAG	2 cut(s)	215, 671
Sse9I	AATT	9 cut(s)	223, 380, 686, 692, 702, 995, 1002, 1042, 1283
SsiI	CCGC	5 cut(s)	4, 351, 353, 371, 416
SspMI	CTAG	1 cut(s)	1151
SstI	GAGCTC	1 cut(s)	1158
StyD4I	CCNGG	2 cut(s)	21, 508
StyI	CCWWGG	1 cut(s)	1298
TaaI	ACNGT	2 cut(s)	103, 270
TaiI	ACGT	1 cut(s)	1200
TaqI	TCGA	2 cut(s)	204, 288
TaqII	GACCGA	1 cut(s)	602
TasI	AATT	9 cut(s)	223, 380, 686, 692, 702, 995, 1002, 1042, 1283
TatI	WGTACW	1 cut(s)	820
TfiI	GAWTC	6 cut(s)	26, 285, 403, 478, 530, 984
Tru1I	TTAA	2 cut(s)	111, 975
Tru9I	TTAA	2 cut(s)	111, 975
TscAI	CASTG	1 cut(s)	619
TseFI	GTSAC	1 cut(s)	623
TseI	GCWGC	4 cut(s)	56, 275, 842, 1227
Tsp45I	GTSAC	1 cut(s)	623
TspDTI	ATGAA	7 cut(s)	51, 222, 395, 852, 906, 1296, 1371
TspRI	CASTG	1 cut(s)	619
VpaK11BI	GGWCC	2 cut(s)	374, 1306
XapI	RAATTY	6 cut(s)	223, 380, 686, 995, 1042, 1283
XbaI	TCTAGA	1 cut(s)	1150
XceI	RCATGY	3 cut(s)	565, 724, 924
XspI	CTAG	1 cut(s)	1151
Zsp2I	ATGCAT	1 cut(s)	567

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