Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0005465

Physical Location & Seq

Genomic Coordinates Reverse (-)

5930905 .. 5932692

Gene Structure 1788 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00083250.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1350 bp

ATGGACACAAGAGCAAGGTACCATCTTTTCTCAGCTCAACTGTTTGATCCGACAGCCATGGAGGTTCCTTTGTTAAGGTACCAAAGCCTAGCGTTGGACCAGATTCAATGTAGCATTAGCTTCCCTTTGTCATTCTCAGATTTCAAGTTTTCCAAGCAGAGATCTTTGTTTTCTGGCTACTCTTTTTCCCTGAATAGACCAAAATGGAGGAGCCCATTTTCCCAAATTAGGTGTTGTTCATACGTGGAGCAACAGCTGAAGCCCCGGCCCAGGCCCATACCCGCCAAAATTGAGGTTGAGGAAGAACCAAAGGTCGCACCTTTAGAACCAAAAGAGGCCCAGATTGCAGTACCCAGTTCTGGGATTTGTAGTCAGATTGAGAAGTTGGTTTTGTATAAGAGCTTGAAATCAATTAGAGGAGCGAAGAGGGTGTTTGGTAATGGGTTTGAGTTGGATCAGTATATGAGGAACAGGGTTTTGCTTATGCATGTGAAATGTGGGATGATGATTGATGCACGGCACCTGTTTGAGGAAATGCCTGAGAGAAATTTGGTTTCGTGGAACACGATCATTGGGGGTCTTGTGGATTGTGGAGAGTTCATGGAGGTGTTTGTGTTGTTTTTGGATATGTGGGAGGAGTTTTCTGACGGGGAGTCGAGGATATTTGCCGCAATGATTTGGGCTTCGGCTGGTTTGGGACTCATTTTTGCAGGGAGACAGTTTCATTCGTGTTGTGTGAAGATGGGTGTGGTAGCTGATATTTTTGTGTCTTGTGCGTTGATTGATATGTATAGCAAGTGTGGGAGCATTGATGATGCTCACTGTGTTTTTAATGAGATGCCGAAGAAGACAACTGTAGGATGGAATACGATCATAGCTAGTTATGCACTTCATGGTTACAACGAGGAGTGTTTGAGTATGTACTATGATATGTGTGATTCTGGCATGCCGATGGACCATTTTACGTTTTCCATGATCATAAGAACATGTGCAAGGTTGGCCTCGTTGGAACATGCTAAGCAAGCTCATGCAGGTCTTTTTCATTATAGTTTTGGGTTGGACATAATGCCTAACAACGTCATATCTTGGAATGCCTTGATTGTTGGATATGGTAACCGCGGTTGGGGTGATGAGGCTGTTGAGATGTTTGAGAAGACGCTTCAGGAAGGAATGATACCCAACCATGTTACCTTTCTTGCTGTCTTTGCTGCTCTGCTGACAGCTTGTGGAATCCATGAAAATTTAGAGCTTCGCAAATTTGCAGCCGAAGAGCTCTATTGGATGGAGCCTGAGAAGCTAAACTCTAAGAAGAAAGGGTTTGAGAATGCTTGCGACATGCAGTTGGATTGA

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

449

Amino Acids

51.09

Weight (kDa)

5.8

Isoelectric Point (pI)

43.79

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	284 - 332	2.7e-09	PPR repeat family
PPR_2	PF13041	359 - 405	4.1e-07	PPR repeat family

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: OG0005465)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G50390
fragaria_vesca	FvH4_6g48290
malus_domestica	MD00G1131200.v1.1 MD09G1052300.v1.1
prunus_persica	Prupe.3G266400_v2.0.a1
pyrus_communis	pycom111g04370 pycom17g04780
rosa_chinensis	RchiOBHm_Chr2g0168271 RchiOBHm_Chr6g0267531
rosa_laevigata	RLG00000013953 RLG00000013992
rosa_multiflora	Rmu_co8459511.1_g000001 Rmu_sc0003354.1_g000005 Rmu_sc0012005.1_g000008
rosa_roxburghii	Rroxscaffold_2G00083250 Rroxscaffold_7G00200650
rosa_rugosa	Rorug02G0532200 Rorug02G0532200 Rorug02G0532300 Rorug06G0033600
rosa_samantha	Rh2AG601300 Rh2BG614500 Rh2BG614600 Rh6AG155000 Rh6BG155600 Rh6DG140900
rosa_wichuraiana	Rw0G012800 Rw2G049930 Rw6G013300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	1022
Acc65I	GGTACC	2 cut(s)	18, 78
AccB1I	GGYRCC	3 cut(s)	18, 78, 519
AccII	CGCG	1 cut(s)	1119
AciI	CCGC	4 cut(s)	282, 669, 1117, 1119
AclWI	GGATC	2 cut(s)	41, 462
AcsI	RAATTY	3 cut(s)	547, 1240, 1256
AcuI	CTGAAG	2 cut(s)	278, 1145
AfaI	GTAC	4 cut(s)	20, 80, 351, 923
AfiI	CCNNNNNNNGG	7 cut(s)	94, 228, 270, 359, 360, 529, 1123
AflIII	ACRYGT	1 cut(s)	986
AgsI	TTSAA	3 cut(s)	107, 145, 406
AhdI	GACNNNNNGTC	1 cut(s)	652
AjnI	CCWGG	1 cut(s)	269
Alw21I	GWGCWC	1 cut(s)	1275
Alw26I	GTCTC	1 cut(s)	709
AlwI	GGATC	2 cut(s)	41, 462
AoxI	GGCC	4 cut(s)	266, 272, 336, 999
ApeKI	GCWGC	2 cut(s)	1208, 1262
ApoI	RAATTY	3 cut(s)	547, 1240, 1256
Asp718I	GGTACC	2 cut(s)	18, 78
AspS9I	GGNCC	5 cut(s)	97, 267, 273, 337, 955
AsuC2I	CCSGG	1 cut(s)	265
AsuHPI	GGTGA	1 cut(s)	1139
AvaII	GGWCC	2 cut(s)	97, 955
BanI	GGYRCC	3 cut(s)	18, 78, 519
BanII	GRGCYC	2 cut(s)	215, 1275
BarI	GAAGNNNNNNTAC	2 cut(s)	1158, 1190
BbsI	GAAGAC	2 cut(s)	854, 1160
Bbv12I	GWGCWC	1 cut(s)	1275
BbvI	GCAGC	2 cut(s)	1195, 1274
BccI	CCATC	5 cut(s)	30, 736, 855, 946, 1276
BceAI	ACGGC	1 cut(s)	533
BciT130I	CCWGG	1 cut(s)	271
BclI	TGATCA	1 cut(s)	975
BcnI	CCSGG	1 cut(s)	265
BcoDI	GTCTC	1 cut(s)	709
BfaI	CTAG	2 cut(s)	89, 879
BfmI	CTRYAG	1 cut(s)	855
BfuAI	ACCTGC	1 cut(s)	1022
BglII	AGATCT	1 cut(s)	161
BisI	GCNGC	3 cut(s)	669, 1209, 1263
BlpI	GCTNAGC	1 cut(s)	1017
BlsI	GCNGC	3 cut(s)	670, 1210, 1264
Bme1390I	CCNGG	2 cut(s)	265, 271
Bme18I	GGWCC	2 cut(s)	97, 955
BmeRI	GACNNNNNGTC	1 cut(s)	652
BmgT120I	GGNCC	5 cut(s)	97, 267, 273, 337, 955
BmiI	GGNNCC	6 cut(s)	20, 66, 80, 212, 521, 1287
BmrFI	CCNGG	2 cut(s)	265, 271
BmrI	ACTGGG	1 cut(s)	348
BmsI	GCATC	3 cut(s)	502, 805, 828
BmuI	ACTGGG	1 cut(s)	348
BpiI	GAAGAC	2 cut(s)	854, 1160
Bpu1102I	GCTNAGC	1 cut(s)	1017
BpuMI	CCSGG	1 cut(s)	265
BsaAI	YACGTR	1 cut(s)	244
BsaJI	CCNNGG	4 cut(s)	57, 263, 269, 1117
Bsc4I	CCNNNNNNNGG	7 cut(s)	94, 228, 270, 359, 360, 529, 1123
Bse1I	ACTGG	1 cut(s)	354
Bse3DI	GCAATG	1 cut(s)	678
BseBI	CCWGG	1 cut(s)	271
BseDI	CCNNGG	4 cut(s)	57, 263, 269, 1117
BseGI	GGATG	3 cut(s)	507, 866, 1287
BseLI	CCNNNNNNNGG	7 cut(s)	94, 228, 270, 359, 360, 529, 1123
BseMI	GCAATG	1 cut(s)	678
BseMII	CTCAG	4 cut(s)	45, 150, 531, 1281
BseNI	ACTGG	1 cut(s)	354
BseRI	GAGGAG	4 cut(s)	223, 432, 650, 920
BseXI	GCAGC	2 cut(s)	1195, 1274
Bsh1236I	CGCG	1 cut(s)	1119
BshFI	GGCC	4 cut(s)	268, 274, 338, 1001
BshNI	GGYRCC	3 cut(s)	18, 78, 519
BsiHKAI	GWGCWC	1 cut(s)	1275
BsiSI	CCGG	1 cut(s)	265
BslFI	GGGAC	1 cut(s)	711
BslI	CCNNNNNNNGG	7 cut(s)	94, 228, 270, 359, 360, 529, 1123
BsmAI	GTCTC	1 cut(s)	709
BsmFI	GGGAC	1 cut(s)	711
BsmI	GAATGC	2 cut(s)	1096, 1330
BsnI	GGCC	4 cut(s)	268, 274, 338, 1001
Bsp1286I	GDGCHC	2 cut(s)	215, 1275
Bsp143I	GATC	6 cut(s)	46, 161, 454, 567, 870, 975
Bsp1720I	GCTNAGC	1 cut(s)	1017
Bsp19I	CCATGG	1 cut(s)	57
BspACI	CCGC	4 cut(s)	282, 669, 1117, 1119
BspANI	GGCC	4 cut(s)	268, 274, 338, 1001
BspCNI	CTCAG	4 cut(s)	44, 149, 532, 1282
BspFNI	CGCG	1 cut(s)	1119
BspLI	GGNNCC	6 cut(s)	20, 66, 80, 212, 521, 1287
BspMI	ACCTGC	1 cut(s)	1022
BspPI	GGATC	2 cut(s)	41, 462
BspQI	GCTCTTC	1 cut(s)	1263
BspT107I	GGYRCC	3 cut(s)	18, 78, 519
BsrDI	GCAATG	1 cut(s)	678
BsrI	ACTGG	1 cut(s)	354
BssECI	CCNNGG	4 cut(s)	57, 263, 269, 1117
BssMI	GATC	6 cut(s)	46, 161, 454, 567, 870, 975
BssT1I	CCWWGG	1 cut(s)	57
Bst2UI	CCWGG	1 cut(s)	271
Bst4CI	ACNGT	4 cut(s)	42, 720, 824, 856
Bst6I	CTCTTC	2 cut(s)	419, 1263
BstBAI	YACGTR	1 cut(s)	244
BstC8I	GCNNGC	3 cut(s)	947, 1023, 1330
BstDEI	CTNAG	6 cut(s)	31, 136, 540, 1017, 1290, 1305
BstDSI	CCRYGG	2 cut(s)	57, 1117
BstEII	GGTNACC	1 cut(s)	1112
BstENI	CCTNNNNNAGG	1 cut(s)	527
BstF5I	GGATG	3 cut(s)	507, 866, 1287
BstFNI	CGCG	1 cut(s)	1119
BstKTI	GATC	6 cut(s)	49, 164, 457, 570, 873, 978
BstMAI	GTCTC	1 cut(s)	709
BstMBI	GATC	6 cut(s)	46, 161, 454, 567, 870, 975
BstMWI	GCNNNNNNNGC	6 cut(s)	344, 884, 998, 1022, 1205, 1294
BstNI	CCWGG	1 cut(s)	271
BstNSI	RCATGY	5 cut(s)	491, 949, 990, 1016, 1339
BstPI	GGTNACC	1 cut(s)	1112
BstSCI	CCNGG	2 cut(s)	263, 269
BstSFI	CTRYAG	1 cut(s)	855
BstUI	CGCG	1 cut(s)	1119
BstV1I	GCAGC	2 cut(s)	1195, 1274
BstV2I	GAAGAC	2 cut(s)	854, 1160
BstX2I	RGATCY	1 cut(s)	161
BstYI	RGATCY	1 cut(s)	161
BsuRI	GGCC	4 cut(s)	268, 274, 338, 1001
BtgI	CCRYGG	2 cut(s)	57, 1117
BtsCI	GGATG	3 cut(s)	507, 866, 1287
BtsIMutI	CAGTG	1 cut(s)	820
BveI	ACCTGC	1 cut(s)	1022
Cac8I	GCNNGC	3 cut(s)	947, 1023, 1330
Cfr13I	GGNCC	5 cut(s)	97, 267, 273, 337, 955
Cfr42I	CCGCGG	1 cut(s)	1120
CseI	GACGC	1 cut(s)	1165
Csp6I	GTAC	4 cut(s)	19, 79, 350, 922
CviQI	GTAC	4 cut(s)	19, 79, 350, 922
DdeI	CTNAG	6 cut(s)	31, 136, 540, 1017, 1290, 1305
DpnI	GATC	6 cut(s)	48, 163, 456, 569, 872, 977
DpnII	GATC	6 cut(s)	46, 161, 454, 567, 870, 975
DriI	GACNNNNNGTC	1 cut(s)	652
Eam1104I	CTCTTC	2 cut(s)	419, 1263
Eam1105I	GACNNNNNGTC	1 cut(s)	652
EarI	CTCTTC	2 cut(s)	419, 1263
Ecl136II	GAGCTC	1 cut(s)	1273
Eco130I	CCWWGG	1 cut(s)	57
Eco24I	GRGCYC	2 cut(s)	215, 1275
Eco47I	GGWCC	2 cut(s)	97, 955
Eco53kI	GAGCTC	1 cut(s)	1273
Eco57I	CTGAAG	2 cut(s)	278, 1145
Eco91I	GGTNACC	1 cut(s)	1112
EcoICRI	GAGCTC	1 cut(s)	1273
EcoNI	CCTNNNNNAGG	1 cut(s)	527
EcoO65I	GGTNACC	1 cut(s)	1112
EcoRII	CCWGG	1 cut(s)	269
EcoT14I	CCWWGG	1 cut(s)	57
EcoT22I	ATGCAT	1 cut(s)	489
EcoT38I	GRGCYC	2 cut(s)	215, 1275
ErhI	CCWWGG	1 cut(s)	57
FaqI	GGGAC	1 cut(s)	711
FauI	CCCGC	1 cut(s)	289
FbaI	TGATCA	1 cut(s)	975
Fnu4HI	GCNGC	3 cut(s)	669, 1209, 1263
FokI	GGATG	3 cut(s)	514, 873, 1294
FriOI	GRGCYC	2 cut(s)	215, 1275
Fsp4HI	GCNGC	3 cut(s)	669, 1209, 1263
FspBI	CTAG	2 cut(s)	89, 879
GluI	GCNGC	3 cut(s)	669, 1209, 1263
HaeIII	GGCC	4 cut(s)	268, 274, 338, 1001
HapII	CCGG	1 cut(s)	265
HgaI	GACGC	1 cut(s)	1165
HinfI	GANTC	5 cut(s)	103, 653, 699, 938, 1230
HpaII	CCGG	1 cut(s)	265
HphI	GGTGA	1 cut(s)	1139
Hpy188I	TCNGA	4 cut(s)	51, 139, 375, 646
Hpy188III	TCNNGA	1 cut(s)	1163
HpyAV	CCTTC	1 cut(s)	1160
HpyCH4III	ACNGT	4 cut(s)	42, 720, 824, 856
HpyCH4IV	ACGT	3 cut(s)	243, 965, 1077
HpyCH4V	TGCA	9 cut(s)	347, 487, 515, 710, 887, 992, 1031, 1262, 1339
HpyF10VI	GCNNNNNNNGC	6 cut(s)	344, 884, 998, 1022, 1205, 1294
HpyF3I	CTNAG	6 cut(s)	31, 136, 540, 1017, 1290, 1305
HpySE526I	ACGT	3 cut(s)	243, 965, 1077
KpnI	GGTACC	2 cut(s)	22, 82
Ksp22I	TGATCA	1 cut(s)	975
KspI	CCGCGG	1 cut(s)	1120
Kzo9I	GATC	6 cut(s)	46, 161, 454, 567, 870, 975
LguI	GCTCTTC	1 cut(s)	1263
LmnI	GCTCC	5 cut(s)	210, 247, 419, 804, 1285
Lsp1109I	GCAGC	2 cut(s)	1195, 1274
LweI	GCATC	3 cut(s)	502, 805, 828
MaeI	CTAG	2 cut(s)	89, 879
MaeII	ACGT	3 cut(s)	243, 965, 1077
MaeIII	GTNAC	3 cut(s)	896, 1112, 1186
MalI	GATC	6 cut(s)	48, 163, 456, 569, 872, 977
MboI	GATC	6 cut(s)	46, 161, 454, 567, 870, 975
MboII	GAAGA	8 cut(s)	314, 436, 751, 856, 859, 1165, 1280, 1321
MflI	RGATCY	1 cut(s)	161
MhlI	GDGCHC	2 cut(s)	215, 1275
MluCI	AATT	6 cut(s)	225, 288, 411, 547, 1240, 1256
MlyI	GAGTC	2 cut(s)	662, 693
MmeI	TCCRAC	7 cut(s)	74, 75, 432, 987, 1038, 1084, 1323
Mph1103I	ATGCAT	1 cut(s)	489
MseI	TTAA	2 cut(s)	74, 831
MslI	CAYNNNNRTG	2 cut(s)	605, 950
MspA1I	CMGCKG	2 cut(s)	256, 1119
MspI	CCGG	1 cut(s)	265
MspR9I	CCNGG	2 cut(s)	265, 271
Mva1269I	GAATGC	2 cut(s)	1096, 1330
MvaI	CCWGG	1 cut(s)	271
MvnI	CGCG	1 cut(s)	1119
MwoI	GCNNNNNNNGC	6 cut(s)	344, 884, 998, 1022, 1205, 1294
NciI	CCSGG	1 cut(s)	265
NcoI	CCATGG	1 cut(s)	57
NdeII	GATC	6 cut(s)	46, 161, 454, 567, 870, 975
NlaIV	GGNNCC	6 cut(s)	20, 66, 80, 212, 521, 1287
NsiI	ATGCAT	1 cut(s)	489
NspI	RCATGY	5 cut(s)	491, 949, 990, 1016, 1339
PaeI	GCATGC	1 cut(s)	949
PciI	ACATGT	1 cut(s)	986
PciSI	GCTCTTC	1 cut(s)	1263
PcsI	WCGNNNNNNNCGW	1 cut(s)	563
PctI	GAATGC	2 cut(s)	1096, 1330
PfeI	GAWTC	3 cut(s)	103, 938, 1230
PkrI	GCNGC	3 cut(s)	670, 1210, 1264
PleI	GAGTC	2 cut(s)	661, 693
PpsI	GAGTC	2 cut(s)	661, 693
Ppu21I	YACGTR	1 cut(s)	244
PscI	ACATGT	1 cut(s)	986
Psp124BI	GAGCTC	1 cut(s)	1275
Psp6I	CCWGG	1 cut(s)	269
PspEI	GGTNACC	1 cut(s)	1112
PspGI	CCWGG	1 cut(s)	269
PspN4I	GGNNCC	6 cut(s)	20, 66, 80, 212, 521, 1287
PspPI	GGNCC	5 cut(s)	97, 267, 273, 337, 955
PsuI	RGATCY	1 cut(s)	161
PvuII	CAGCTG	1 cut(s)	256
RsaI	GTAC	4 cut(s)	20, 80, 351, 923
RsaNI	GTAC	4 cut(s)	19, 79, 350, 922
RseI	CAYNNNNRTG	2 cut(s)	605, 950
SacI	GAGCTC	1 cut(s)	1275
SacII	CCGCGG	1 cut(s)	1120
SapI	GCTCTTC	1 cut(s)	1263
SaqAI	TTAA	2 cut(s)	74, 831
SatI	GCNGC	3 cut(s)	669, 1209, 1263
Sau3AI	GATC	6 cut(s)	46, 161, 454, 567, 870, 975
Sau96I	GGNCC	5 cut(s)	97, 267, 273, 337, 955
SchI	GAGTC	2 cut(s)	662, 693
ScrFI	CCNGG	2 cut(s)	265, 271
SduI	GDGCHC	2 cut(s)	215, 1275
SfaNI	GCATC	3 cut(s)	502, 805, 828
SfcI	CTRYAG	1 cut(s)	855
Sfr303I	CCGCGG	1 cut(s)	1120
SgrBI	CCGCGG	1 cut(s)	1120
SinI	GGWCC	2 cut(s)	97, 955
SmiMI	CAYNNNNRTG	2 cut(s)	605, 950
SphI	GCATGC	1 cut(s)	949
Sse9I	AATT	6 cut(s)	225, 288, 411, 547, 1240, 1256
SsiI	CCGC	4 cut(s)	282, 669, 1117, 1119
SspMI	CTAG	2 cut(s)	89, 879
SstI	GAGCTC	1 cut(s)	1275
StyD4I	CCNGG	2 cut(s)	263, 269
StyI	CCWWGG	1 cut(s)	57
TaaI	ACNGT	4 cut(s)	42, 720, 824, 856
TaiI	ACGT	3 cut(s)	246, 968, 1080
TaqI	TCGA	1 cut(s)	656
TasI	AATT	6 cut(s)	225, 288, 411, 547, 1240, 1256
TatI	WGTACW	1 cut(s)	921
TauI	GCSGC	1 cut(s)	671
TfiI	GAWTC	3 cut(s)	103, 938, 1230
Tru1I	TTAA	2 cut(s)	74, 831
Tru9I	TTAA	2 cut(s)	74, 831
TscAI	CASTG	1 cut(s)	827
TseI	GCWGC	2 cut(s)	1208, 1262
TspDTI	ATGAA	6 cut(s)	228, 589, 713, 881, 1031, 1251
TspRI	CASTG	1 cut(s)	827
VpaK11BI	GGWCC	2 cut(s)	97, 955
XagI	CCTNNNNNAGG	1 cut(s)	527
XapI	RAATTY	3 cut(s)	547, 1240, 1256
XceI	RCATGY	5 cut(s)	491, 949, 990, 1016, 1339
XspI	CTAG	2 cut(s)	89, 879
Zsp2I	ATGCAT	1 cut(s)	489

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