Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0008232

Physical Location & Seq

Genomic Coordinates Reverse (-)

42618962 .. 42622218

Gene Structure 3257 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00421480.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1479 bp

ATGTGCAGAACCAACGGGTGGATGTTGCTAGGAAGCTTTTTTGAAGTGATGCCAGAGAAGAATGAGGTTTCGTGGACGGCGATGCTGATGGGGTACACTCAGTGTGGACGGATCACAGAGGCTTTAGAGCTGTTTCATGCAATGCCGGTTAAGTCAGTGGTTGCTTGTAATGCAATGATACTTGGGTATGGCCACAATGGGGAGGTAGAAGAAGCAAGGCAGGTTTTTGACAATATGAGAGAGAAAGATGATCAGACATGGAGTGCTATGATAAAAGTCTATGAACGGAAAGGTTTAGAATTGGAAGCACTTAAATTGTTTACTTTAATGCAAAGAGAAGGTGTTAGGCCCAATTTCCCTTCTCTGATAAGTCTTTTATCTGTTTGTGGAAGCTTGGCAACTCTTGATCATGGTACACAGATTCATGCCCAGTTGGTGAGAAACCAATTTGATCTTGATGTATATGTTGCCTCAGTTTTGATCACAATGTATGTTAAGTGTGGCAACCTTGTGAAGGCAAAACAGGTCTTCGACAGGTTTGGTGAAAAGGATGTTGTTATGTGGAACTCAATTATCACTGGTTATGCCCAACATGGTTTAGGAGAGGAAGCTTTACAAGTTTTTCAAAAGATGTGCTCTTTGGGGATACCACCAGATGATATCACCTTTATTGGAGTTCTTTCAGCATGTAGCTATTCTGGGAAGGTAGAACAAGGTCATGAGATTTTCGGGACAATGAAATCAAAGTATCAGGTCAAGCCAGGAACTGCACATTATGCCTGCATGGTTGATCTGCTTGGTCGAGCAGGCCAGGTAAAAGAGGCAATGGATTTAATAGAGAAAATGCCAGTGGAAGCAGATGCCATTGTTTGGGGTGCCTTATTAGGTGCATGCAGAACGCATATGAAGTTGGATTTGGCGGAAGTTGCGGCAAAGAAACTTATACAGCTAGAGCCCCACAATGCAGGACATTATATCTTGCTATCAAATATGTATGCATCCAAAGGTAGATGGCATGAGGTTGCAGAACTGAGGAAAACGATGGGAGCCAGAAGTATTACCAAGTCACCTGGCTGTAGCTGGATTGAGGTGGAACGTAAAGTACATATGTTTACTTGGGGAGAGACCACAGGCCACCCAGAGCATGTGATGATCATGAGAATGTTAGAGAGACTAGGTGTATTGTTAAGAGAAGCTGGGTACTGCCCTGATAGCAGCTTTGTGTTGCATGATGTGGATGAAGAAGAGAAGGTCCAGAGCTTGGGTTATCACAGTGAGAAGCTGGCAATAGCGTATGGACTCCTTAAGGTGCCACAAGGGATGCCCATTCGGGTGATGAAAAATCTTCGGGTTTGTGGGGATTGCCATTCTGCAATTAAACTAATAGCCAAAGTTACTGGGAGAGAGATCATTGTGAGGGATGCTAACAGATTTCATCATTTTAAGGATGGCTTGTGTTCTTGCCGAGACTATTGGTGA

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

492

Amino Acids

55.32

Weight (kDa)

6.83

Isoelectric Point (pI)

32.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR	PF01535	23 - 51	2.6e-06	PPR repeat
PPR_2	PF13041	52 - 82	1.3e-06	PPR repeat family
PPR	PF01535	54 - 82	1.2e-06	PPR repeat
PPR_2	PF13041	183 - 230	2.3e-12	PPR repeat family
PPR	PF01535	186 - 216	6.9e-09	PPR repeat
E_motif	PF20431	301 - 363	1.1e-21	E motif
DYW_deaminase	PF14432	400 - 492	5e-44	DYW family of nucleic acid deaminases

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: OG0008232)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G09410 AT1G56690
fragaria_vesca	FvH4_6g08090 FvH4_6g08090
malus_domestica	MD08G1248600.v1.1 MD12G1084600.v1.1 MD12G1084700.v1.1 MD14G1079300.v1.1
prunus_persica	Prupe.7G064700_v2.0.a1 Prupe.7G064700_v2.0.a1 Prupe.7G064700_v2.0.a1
pyrus_communis	pycom12g07180 pycom14g06800
rosa_chinensis	RchiOBHm_Chr3g0457821 RchiOBHm_Chr3g0457911
rosa_laevigata	RLG00000025187
rosa_multiflora	Rmu_sc0012092.1_g000010 Rmu_ssc0000446.1_g000002
rosa_roxburghii	Rroxscaffold_6G00421480
rosa_rugosa	Rorug03G0023400
rosa_samantha	Rh3BG086500 Rh3DG087400
rosa_wichuraiana	Rw0G012310

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	211
AccB1I	GGYRCC	2 cut(s)	875, 1309
AccB7I	CCANNNNNTGG	3 cut(s)	18, 870, 1261
AciI	CCGC	2 cut(s)	920, 929
AclWI	GGATC	1 cut(s)	119
AcoI	YGGCCR	1 cut(s)	190
AdeI	CACNNNGTG	1 cut(s)	102
AfaI	GTAC	4 cut(s)	95, 415, 1104, 1202
AfiI	CCNNNNNNNGG	5 cut(s)	18, 199, 514, 870, 1261
AflII	CTTAAG	1 cut(s)	1304
AgsI	TTSAA	2 cut(s)	44, 626
AjnI	CCWGG	3 cut(s)	760, 810, 1069
AjuI	GAANNNNNNNTTGG	2 cut(s)	899, 931
Alw21I	GWGCWC	1 cut(s)	638
Alw26I	GTCTC	3 cut(s)	1118, 1165, 1461
AlwI	GGATC	1 cut(s)	119
AlwNI	CAGNNNCTG	1 cut(s)	767
AoxI	GGCC	4 cut(s)	190, 347, 808, 1132
ApeKI	GCWGC	1 cut(s)	1215
AspS9I	GGNCC	2 cut(s)	348, 1252
AsuHPI	GGTGA	5 cut(s)	448, 554, 655, 1059, 1345
AvaII	GGWCC	1 cut(s)	1252
BaeI	ACNNNNGTAYC	2 cut(s)	170, 203
BalI	TGGCCA	1 cut(s)	192
BanI	GGYRCC	2 cut(s)	875, 1309
BanII	GRGCYC	1 cut(s)	957
BbsI	GAAGAC	1 cut(s)	520
Bbv12I	GWGCWC	1 cut(s)	638
BbvI	GCAGC	1 cut(s)	1227
BccI	CCATC	4 cut(s)	82, 1005, 1036, 1442
BceAI	ACGGC	1 cut(s)	93
BciT130I	CCWGG	3 cut(s)	762, 812, 1071
BciVI	GTATCC	1 cut(s)	639
BclI	TGATCA	4 cut(s)	250, 406, 480, 1152
BcoDI	GTCTC	3 cut(s)	1118, 1165, 1461
BfaI	CTAG	3 cut(s)	29, 950, 1175
BfmI	CTRYAG	1 cut(s)	1075
BfrI	CTTAAG	1 cut(s)	1304
BfuAI	ACCTGC	1 cut(s)	211
BfuI	GTATCC	1 cut(s)	639
BisI	GCNGC	2 cut(s)	930, 1216
BlsI	GCNGC	2 cut(s)	931, 1217
Bme1390I	CCNGG	3 cut(s)	762, 812, 1071
Bme18I	GGWCC	1 cut(s)	1252
BmgT120I	GGNCC	2 cut(s)	348, 1252
BmiI	GGNNCC	3 cut(s)	877, 1048, 1311
BmrFI	CCNGG	3 cut(s)	762, 812, 1071
BmrI	ACTGGG	2 cut(s)	424, 1407
BmsI	GCATC	6 cut(s)	39, 72, 850, 1007, 1311, 1411
BmuI	ACTGGG	2 cut(s)	424, 1407
BpiI	GAAGAC	1 cut(s)	520
BsaI	GGTCTC	1 cut(s)	1118
Bsc4I	CCNNNNNNNGG	5 cut(s)	18, 199, 514, 870, 1261
Bse118I	RCCGGY	1 cut(s)	145
Bse1I	ACTGG	4 cut(s)	430, 583, 848, 1402
Bse3DI	GCAATG	3 cut(s)	147, 180, 831
BseBI	CCWGG	3 cut(s)	762, 812, 1071
BseGI	GGATG	7 cut(s)	27, 556, 998, 1243, 1326, 1426, 1453
BseLI	CCNNNNNNNGG	5 cut(s)	18, 199, 514, 870, 1261
BseMI	GCAATG	3 cut(s)	147, 180, 831
BseMII	CTCAG	3 cut(s)	113, 486, 1022
BseNI	ACTGG	4 cut(s)	430, 583, 848, 1402
BseXI	GCAGC	1 cut(s)	1227
BseYI	CCCAGC	1 cut(s)	1196
BsgI	GTGCAG	2 cut(s)	25, 753
BshFI	GGCC	4 cut(s)	192, 349, 810, 1134
BshNI	GGYRCC	2 cut(s)	875, 1309
BsiHKAI	GWGCWC	1 cut(s)	638
BsiSI	CCGG	1 cut(s)	146
BslFI	GGGAC	1 cut(s)	745
BslI	CCNNNNNNNGG	5 cut(s)	18, 199, 514, 870, 1261
BsmAI	GTCTC	3 cut(s)	1118, 1165, 1461
BsmFI	GGGAC	1 cut(s)	745
BsnI	GGCC	4 cut(s)	192, 349, 810, 1134
Bso31I	GGTCTC	1 cut(s)	1118
Bsp1286I	GDGCHC	2 cut(s)	638, 957
Bsp143I	GATC	8 cut(s)	111, 250, 406, 451, 480, 790, 1152, 1407
BspACI	CCGC	2 cut(s)	920, 929
BspANI	GGCC	4 cut(s)	192, 349, 810, 1134
BspCNI	CTCAG	3 cut(s)	112, 485, 1023
BspHI	TCATGA	2 cut(s)	718, 1155
BspLI	GGNNCC	3 cut(s)	877, 1048, 1311
BspMI	ACCTGC	1 cut(s)	211
BspPI	GGATC	1 cut(s)	119
BspT107I	GGYRCC	2 cut(s)	875, 1309
BspTI	CTTAAG	1 cut(s)	1304
BspTNI	GGTCTC	1 cut(s)	1118
BsrDI	GCAATG	3 cut(s)	147, 180, 831
BsrFI	RCCGGY	1 cut(s)	145
BsrI	ACTGG	4 cut(s)	430, 583, 848, 1402
BssAI	RCCGGY	1 cut(s)	145
BssMI	GATC	8 cut(s)	111, 250, 406, 451, 480, 790, 1152, 1407
Bst2UI	CCWGG	3 cut(s)	762, 812, 1071
Bst4CI	ACNGT	1 cut(s)	1274
Bst6I	CTCTTC	1 cut(s)	1239
BstAFI	CTTAAG	1 cut(s)	1304
BstAPI	GCANNNNNTGC	1 cut(s)	776
BstC8I	GCNNGC	4 cut(s)	781, 808, 892, 1284
BstDEI	CTNAG	3 cut(s)	99, 472, 1031
BstENI	CCTNNNNNAGG	1 cut(s)	512
BstF5I	GGATG	7 cut(s)	27, 556, 998, 1243, 1326, 1426, 1453
BstKTI	GATC	8 cut(s)	114, 253, 409, 454, 483, 793, 1155, 1410
BstMAI	GTCTC	3 cut(s)	1118, 1165, 1461
BstMBI	GATC	8 cut(s)	111, 250, 406, 451, 480, 790, 1152, 1407
BstMWI	GCNNNNNNNGC	4 cut(s)	170, 776, 926, 1212
BstNI	CCWGG	3 cut(s)	762, 812, 1071
BstNSI	RCATGY	3 cut(s)	690, 894, 1148
BstSCI	CCNGG	3 cut(s)	760, 810, 1069
BstSFI	CTRYAG	1 cut(s)	1075
BstV1I	GCAGC	1 cut(s)	1227
BstV2I	GAAGAC	1 cut(s)	520
BsuI	GTATCC	1 cut(s)	639
BsuRI	GGCC	4 cut(s)	192, 349, 810, 1134
BtgZI	GCGATG	1 cut(s)	95
BtsCI	GGATG	7 cut(s)	27, 556, 998, 1243, 1326, 1426, 1453
BtsIMutI	CAGTG	5 cut(s)	107, 162, 576, 855, 1279
BveI	ACCTGC	1 cut(s)	211
Cac8I	GCNNGC	4 cut(s)	781, 808, 892, 1284
CaiI	CAGNNNCTG	1 cut(s)	767
CciI	TCATGA	2 cut(s)	718, 1155
Cfr10I	RCCGGY	1 cut(s)	145
Cfr13I	GGNCC	2 cut(s)	348, 1252
Csp6I	GTAC	4 cut(s)	94, 414, 1103, 1201
CviQI	GTAC	4 cut(s)	94, 414, 1103, 1201
DdeI	CTNAG	3 cut(s)	99, 472, 1031
DpnI	GATC	8 cut(s)	113, 252, 408, 453, 482, 792, 1154, 1409
DpnII	GATC	8 cut(s)	111, 250, 406, 451, 480, 790, 1152, 1407
DraIII	CACNNNGTG	1 cut(s)	102
EaeI	YGGCCR	1 cut(s)	190
Eam1104I	CTCTTC	1 cut(s)	1239
EarI	CTCTTC	1 cut(s)	1239
EciI	GGCGGA	1 cut(s)	935
Eco24I	GRGCYC	1 cut(s)	957
Eco31I	GGTCTC	1 cut(s)	1118
Eco32I	GATATC	1 cut(s)	661
Eco47I	GGWCC	1 cut(s)	1252
EcoNI	CCTNNNNNAGG	1 cut(s)	512
EcoRII	CCWGG	3 cut(s)	760, 810, 1069
EcoRV	GATATC	1 cut(s)	661
EcoT22I	ATGCAT	1 cut(s)	1000
EcoT38I	GRGCYC	1 cut(s)	957
FalI	AAGNNNNNCTT	2 cut(s)	1436, 1468
FaqI	GGGAC	1 cut(s)	745
FauNDI	CATATG	2 cut(s)	903, 1107
FbaI	TGATCA	4 cut(s)	250, 406, 480, 1152
Fnu4HI	GCNGC	2 cut(s)	930, 1216
FokI	GGATG	7 cut(s)	34, 563, 985, 1250, 1333, 1433, 1460
FriOI	GRGCYC	1 cut(s)	957
Fsp4HI	GCNGC	2 cut(s)	930, 1216
FspBI	CTAG	3 cut(s)	29, 950, 1175
GluI	GCNGC	2 cut(s)	930, 1216
GsaI	CCCAGC	1 cut(s)	1200
HaeIII	GGCC	4 cut(s)	192, 349, 810, 1134
HapII	CCGG	1 cut(s)	146
HindIII	AAGCTT	3 cut(s)	34, 391, 609
HinfI	GANTC	2 cut(s)	421, 1299
HpaII	CCGG	1 cut(s)	146
HphI	GGTGA	5 cut(s)	448, 554, 655, 1059, 1345
Hpy166II	GTNNAC	6 cut(s)	75, 96, 107, 321, 416, 1113
Hpy188I	TCNGA	2 cut(s)	255, 366
Hpy188III	TCNNGA	6 cut(s)	404, 455, 719, 730, 1156, 1255
Hpy8I	GTNNAC	6 cut(s)	75, 96, 107, 321, 416, 1113
HpyAV	CCTTC	5 cut(s)	332, 369, 508, 697, 1243
HpyCH4III	ACNGT	1 cut(s)	1274
HpyCH4IV	ACGT	1 cut(s)	1096
HpyF10VI	GCNNNNNNNGC	4 cut(s)	170, 776, 926, 1212
HpyF3I	CTNAG	3 cut(s)	99, 472, 1031
HpySE526I	ACGT	1 cut(s)	1096
Ksp22I	TGATCA	4 cut(s)	250, 406, 480, 1152
Kzo9I	GATC	8 cut(s)	111, 250, 406, 451, 480, 790, 1152, 1407
LmnI	GCTCC	1 cut(s)	1046
Lsp1109I	GCAGC	1 cut(s)	1227
LweI	GCATC	6 cut(s)	39, 72, 850, 1007, 1311, 1411
MaeI	CTAG	3 cut(s)	29, 950, 1175
MaeII	ACGT	1 cut(s)	1096
MaeIII	GTNAC	2 cut(s)	1065, 1393
MalI	GATC	8 cut(s)	113, 252, 408, 453, 482, 792, 1154, 1409
MboI	GATC	8 cut(s)	111, 250, 406, 451, 480, 790, 1152, 1407
MboII	GAAGA	6 cut(s)	70, 221, 520, 1253, 1256, 1337
MhlI	GDGCHC	2 cut(s)	638, 957
MlsI	TGGCCA	1 cut(s)	192
MluCI	AATT	6 cut(s)	299, 314, 352, 446, 570, 1374
MluNI	TGGCCA	1 cut(s)	192
MlyI	GAGTC	1 cut(s)	1293
MmeI	TCCRAC	1 cut(s)	891
Mox20I	TGGCCA	1 cut(s)	192
Mph1103I	ATGCAT	1 cut(s)	1000
MscI	TGGCCA	1 cut(s)	192
MseI	TTAA	9 cut(s)	150, 312, 326, 495, 833, 1187, 1305, 1377, 1443
MslI	CAYNNNNRTG	2 cut(s)	1160, 1331
Msp20I	TGGCCA	1 cut(s)	192
MspCI	CTTAAG	1 cut(s)	1304
MspI	CCGG	1 cut(s)	146
MspR9I	CCNGG	3 cut(s)	762, 812, 1071
MvaI	CCWGG	3 cut(s)	762, 812, 1071
MwoI	GCNNNNNNNGC	4 cut(s)	170, 776, 926, 1212
NdeI	CATATG	2 cut(s)	903, 1107
NdeII	GATC	8 cut(s)	111, 250, 406, 451, 480, 790, 1152, 1407
NlaIV	GGNNCC	3 cut(s)	877, 1048, 1311
NmuCI	GTSAC	1 cut(s)	1065
NsiI	ATGCAT	1 cut(s)	1000
NspI	RCATGY	3 cut(s)	690, 894, 1148
PaeI	GCATGC	1 cut(s)	894
PagI	TCATGA	2 cut(s)	718, 1155
PcsI	WCGNNNNNNNCGW	1 cut(s)	77
PfeI	GAWTC	1 cut(s)	421
PflMI	CCANNNNNTGG	3 cut(s)	18, 870, 1261
PkrI	GCNGC	2 cut(s)	931, 1217
PleI	GAGTC	1 cut(s)	1293
PpsI	GAGTC	1 cut(s)	1293
Psp6I	CCWGG	3 cut(s)	760, 810, 1069
PspFI	CCCAGC	1 cut(s)	1196
PspGI	CCWGG	3 cut(s)	760, 810, 1069
PspN4I	GGNNCC	3 cut(s)	877, 1048, 1311
PspPI	GGNCC	2 cut(s)	348, 1252
PsrI	GAACNNNNNNTAC	2 cut(s)	1086, 1118
PstNI	CAGNNNCTG	1 cut(s)	767
RsaI	GTAC	4 cut(s)	95, 415, 1104, 1202
RsaNI	GTAC	4 cut(s)	94, 414, 1103, 1201
RseI	CAYNNNNRTG	2 cut(s)	1160, 1331
SaqAI	TTAA	9 cut(s)	150, 312, 326, 495, 833, 1187, 1305, 1377, 1443
SatI	GCNGC	2 cut(s)	930, 1216
Sau3AI	GATC	8 cut(s)	111, 250, 406, 451, 480, 790, 1152, 1407
Sau96I	GGNCC	2 cut(s)	348, 1252
SchI	GAGTC	1 cut(s)	1293
ScrFI	CCNGG	3 cut(s)	762, 812, 1071
SduI	GDGCHC	2 cut(s)	638, 957
SfaNI	GCATC	6 cut(s)	39, 72, 850, 1007, 1311, 1411
SfcI	CTRYAG	1 cut(s)	1075
SinI	GGWCC	1 cut(s)	1252
SmiMI	CAYNNNNRTG	2 cut(s)	1160, 1331
SmlI	CTYRAG	1 cut(s)	1304
SmoI	CTYRAG	1 cut(s)	1304
SphI	GCATGC	1 cut(s)	894
Sse9I	AATT	6 cut(s)	299, 314, 352, 446, 570, 1374
SsiI	CCGC	2 cut(s)	920, 929
SspMI	CTAG	3 cut(s)	29, 950, 1175
StyD4I	CCNGG	3 cut(s)	760, 810, 1069
TaaI	ACNGT	1 cut(s)	1274
TaiI	ACGT	1 cut(s)	1099
TaqI	TCGA	2 cut(s)	531, 802
TasI	AATT	6 cut(s)	299, 314, 352, 446, 570, 1374
TatI	WGTACW	1 cut(s)	1102
TauI	GCSGC	1 cut(s)	932
TfiI	GAWTC	1 cut(s)	421
Tru1I	TTAA	9 cut(s)	150, 312, 326, 495, 833, 1187, 1305, 1377, 1443
Tru9I	TTAA	9 cut(s)	150, 312, 326, 495, 833, 1187, 1305, 1377, 1443
TscAI	CASTG	5 cut(s)	107, 162, 583, 855, 1279
TseFI	GTSAC	1 cut(s)	1065
TseI	GCWGC	1 cut(s)	1215
Tsp45I	GTSAC	1 cut(s)	1065
TspDTI	ATGAA	8 cut(s)	125, 297, 413, 752, 920, 1254, 1352, 1424
TspGWI	ACGGA	2 cut(s)	124, 301
TspRI	CASTG	5 cut(s)	107, 162, 583, 855, 1279
Van91I	CCANNNNNTGG	3 cut(s)	18, 870, 1261
Vha464I	CTTAAG	1 cut(s)	1304
VpaK11BI	GGWCC	1 cut(s)	1252
XagI	CCTNNNNNAGG	1 cut(s)	512
XceI	RCATGY	3 cut(s)	690, 894, 1148
XspI	CTAG	3 cut(s)	29, 950, 1175
Zsp2I	ATGCAT	1 cut(s)	1000

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