Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Contig00113

Orthogroup ID

OG0007498

Physical Location & Seq

Genomic Coordinates Reverse (-)

10980 .. 12724

Gene Structure 1745 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw0G003280.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1716 bp

ATGGCATCAACCACCCTCCCCAAACCGAACCCACTCGAACCCGACCCGCCGCCGCTGCCACAGCCCAACGCCGCCGACCCTCTTGCAATCTACGCCCAAGCCATCAAAACCCACAACGCCGACCGTTCCCTCCACAACCACCTCATCACTCTCTGCTCCAAATCCAACCTCACCTCCTTCTCTCTCCGCCTCTTCAACCAAATCCCATCACCCAACGTCGTCTCATGGACGGCCTTAATCTCATCCCACTCCACCACCCTCGCCGCCCTCCGCCACTTCGTCTCCATGCTCCGCCACCCCACCTTCCCCAACCAGCGCACAATAGCCACCCTCTTCAAAACCTGCGCTTCTCTCTCGTCTCTCTCCTTCGGTCTCTCCCTCCACTCACTCTCCCTCAAGCTCGGTATCTCCGCCGAACCGTATTCGGGTTCAGCCCTCATACATTTCTACTCCAAATGTGGGATGCCGGTTTATGCCCAGAAGGTGCTCGATGAAATTCCCCACAAGGATGCTGTCTGCTATGGCGCGGTGATTGTTGGGCTGGCGCAGAACTCGAGGCCCATTGATGCGCTTTTGGCTTTCGCTGACATGAAATGTAGAGATGTTGGGTCGAGTATGTATACTGTTTCGGGTGCATTGAGGGCCGCGGCGGAGCTTGCTGCTTTGGAGCAATGTAGGATCATACACACACATGCTGTTGTTACGGGGCTTGATGCGAATGTGGTTGTGGGAACTGCTTTGTTGGATGCGTATGGGAAGTCCGGGATTGTGTCTGATGCTAGACAGGTTTTCGATGAGAATTTGCTGGTGAGGAGTCTTGTGGGATGCAATGCAATGCTGGCGGCGTATGCACAACAGGGGGACAAGAATTCAGCGGTCGAGCTTTTTAATGCAATGGAAGCTCGAGGGCTTGTACCGGATGAATATAGCTTCTTAGCGATTTTGACGTGCCTTGGTAATGCAGGTTTGGTTTTGGAAACGGATTGGTGGTTGAACAGGATGAAGGCTGATTACGGGTTGGAACCAGCACTTGAGCATTATACTTGTCTGGTTGGTGCAATGGGCCGAGCTGGTCAGTTGGAAGATGCTGAAAGGGCTGCAATGACAATGCCTATTGTGCCTGATGCTGCAGTGTGGCGAACATTGCTAACATGTGCAGCTTATCATAAATCACCTGACTTGGCTAGGTCCATGGCTAAACGGTTATTGGAAATTGATCCGCAGGATGATTCAGCTTATGTTATTGTTGCAAATGTGTTATCATCCGCAGGAAAGTGGGATGAAGTTGCAGAAGTTAGGAAGATGATGAAAGATAGGAGGGTGAAGAAGGAAGGAGGTAGGAGTTGGATTGAAGTGCGAGGAAAAGTTCATGTGTTTTTGGCTGGGGACAGAAGGCATCAAAGAATAGATGAGATATACGCAAAATTAGGGTATGTGCCGTTGCAGAATGAGATGCTGCATGGGGTTGGGGAACAAGAGAAAAAGGAAGCCCTATGGTATCACAGTGAGAAGCTGGCTGTAGCATTTGGGGTGGTAAGTGGTGCTGCACCCCCCGGGAAGCCATTAAGGATTGTGAAGAATTTGAGGATTTGCAGAGATTGTCACGAGGCTTTTAAATATTTGTGTAGGTTGTTGGAGAGGGAAATCATTGTGAGGGATGTAAACCGATACCATATATTTTCAAATGGTAGCTGTAATTGTGGAGAGATGTGGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

571

Amino Acids

62.72

Weight (kDa)

8.1

Isoelectric Point (pI)

35.87

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	272 - 318	9.3e-10	PPR repeat family
E_motif	PF20431	393 - 451	2.2e-17	E motif
DYW_deaminase	PF14432	477 - 571	7.7e-33	DYW family of nucleic acid deaminases

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0007498)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g04611
malus_domestica	MD13G1221300.v1.1 MD13G1221400.v1.1 MD13G1221500.v1.1
prunus_persica	Prupe.1G048200_v2.0.a1
pyrus_communis	pycom13g19580
rosa_chinensis	RchiOBHm_Chr4g0395381
rosa_laevigata	RLG00000002110 RLG00000009627
rosa_multiflora	Rmu_sc0002791.1_g000013 Rmu_sc0005834.1_g000011 Rmu_sc0010817.1_g000019
rosa_roxburghii	Rroxscaffold_3G00237650 Rroxscaffold_5G00340340
rosa_rugosa	Rorug03G0358000
rosa_samantha	Rh4BG057900 Rh4CG063400 Rh4DG054500 Rh4DG085800 Rh7AG345000 Rh7CG362400 Rh7DG342600
rosa_wichuraiana	Rw0G003280 Rw0G007680 Rw4G004740

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	350, 953
AccI	GTMKAC	1 cut(s)	620
AccII	CGCG	2 cut(s)	527, 647
AclWI	GGATC	2 cut(s)	686, 1211
AcsI	RAATTY	4 cut(s)	495, 799, 868, 1579
AfaI	GTAC	1 cut(s)	915
AfiI	CCNNNNNNNGG	2 cut(s)	425, 459
AflIII	ACRYGT	1 cut(s)	1151
AgsI	TTSAA	5 cut(s)	196, 337, 994, 1352, 1683
AjiI	CACGTC	1 cut(s)	948
Alw21I	GWGCWC	1 cut(s)	489
Alw26I	GTCTC	4 cut(s)	226, 286, 363, 377
AlwI	GGATC	2 cut(s)	686, 1211
Ama87I	CYCGRG	3 cut(s)	553, 903, 1553
AoxI	GGCC	4 cut(s)	231, 557, 642, 1063
ApeKI	GCWGC	7 cut(s)	55, 659, 1097, 1127, 1157, 1456, 1544
ApoI	RAATTY	4 cut(s)	495, 799, 868, 1579
AspLEI	GCGC	5 cut(s)	318, 347, 527, 547, 571
AspS9I	GGNCC	4 cut(s)	558, 642, 1063, 1188
AsuC2I	CCSGG	3 cut(s)	763, 1554, 1555
AsuHPI	GGTGA	6 cut(s)	163, 201, 541, 820, 1164, 1333
AvaI	CYCGRG	3 cut(s)	553, 903, 1553
AvaII	GGWCC	1 cut(s)	1188
BarI	GAAGNNNNNNTAC	2 cut(s)	995, 1027
BauI	CACGAG	1 cut(s)	1604
Bbv12I	GWGCWC	1 cut(s)	489
BbvI	GCAGC	7 cut(s)	42, 646, 1084, 1114, 1169, 1443, 1531
BccI	CCATC	2 cut(s)	110, 214
BceAI	ACGGC	2 cut(s)	246, 1423
BcgI	CGANNNNNNTGC	2 cut(s)	65, 99
BcnI	CCSGG	3 cut(s)	763, 1554, 1555
BcoDI	GTCTC	4 cut(s)	226, 286, 363, 377
BfaI	CTAG	2 cut(s)	780, 1185
BfmI	CTRYAG	2 cut(s)	1128, 1518
BfuAI	ACCTGC	2 cut(s)	350, 953
Bme1390I	CCNGG	3 cut(s)	763, 1554, 1555
Bme18I	GGWCC	1 cut(s)	1188
BmeT110I	CYCGRG	3 cut(s)	553, 903, 1553
BmgBI	CACGTC	1 cut(s)	948
BmgT120I	GGNCC	4 cut(s)	558, 642, 1063, 1188
BmiI	GGNNCC	1 cut(s)	1023
BmrFI	CCNGG	3 cut(s)	763, 1554, 1555
BpuEI	CTTGAG	2 cut(s)	380, 1052
BpuMI	CCSGG	3 cut(s)	763, 1554, 1555
BsaI	GGTCTC	1 cut(s)	377
BsaJI	CCNNGG	5 cut(s)	645, 952, 1191, 1552, 1553
BsaWI	WCCGGW	1 cut(s)	916
BsaXI	ACNNNNNCTCC	6 cut(s)	158, 188, 266, 296, 374, 404
Bsc4I	CCNNNNNNNGG	2 cut(s)	425, 459
Bse118I	RCCGGY	1 cut(s)	466
Bse3DI	GCAATG	7 cut(s)	677, 835, 840, 900, 1065, 1107, 1142
BseDI	CCNNGG	5 cut(s)	645, 952, 1191, 1552, 1553
BseLI	CCNNNNNNNGG	2 cut(s)	425, 459
BseMI	GCAATG	7 cut(s)	677, 835, 840, 900, 1065, 1107, 1142
BseRI	GAGGAG	1 cut(s)	826
BseXI	GCAGC	7 cut(s)	42, 646, 1084, 1114, 1169, 1443, 1531
BseYI	CCCAGC	1 cut(s)	1382
BsgI	GTGCAG	2 cut(s)	1176, 1530
Bsh1236I	CGCG	2 cut(s)	527, 647
Bsh1285I	CGRYCG	2 cut(s)	124, 879
BshFI	GGCC	4 cut(s)	233, 559, 644, 1065
BsiEI	CGRYCG	2 cut(s)	124, 879
BsiHKAI	GWGCWC	1 cut(s)	489
BsiHKCI	CYCGRG	3 cut(s)	553, 903, 1553
BsiSI	CCGG	4 cut(s)	467, 762, 917, 1554
BslFI	GGGAC	2 cut(s)	875, 1400
BslI	CCNNNNNNNGG	2 cut(s)	425, 459
BsmAI	GTCTC	4 cut(s)	226, 286, 363, 377
BsmBI	CGTCTC	3 cut(s)	226, 286, 363
BsmFI	GGGAC	2 cut(s)	875, 1400
BsnI	GGCC	4 cut(s)	233, 559, 644, 1065
Bso31I	GGTCTC	1 cut(s)	377
BsoBI	CYCGRG	3 cut(s)	553, 903, 1553
Bsp1286I	GDGCHC	1 cut(s)	489
Bsp143I	GATC	2 cut(s)	678, 1216
Bsp19I	CCATGG	1 cut(s)	1191
BspANI	GGCC	4 cut(s)	233, 559, 644, 1065
BspFNI	CGCG	2 cut(s)	527, 647
BspLI	GGNNCC	1 cut(s)	1023
BspMAI	CTGCAG	1 cut(s)	1132
BspMI	ACCTGC	2 cut(s)	350, 953
BspPI	GGATC	2 cut(s)	686, 1211
BspTNI	GGTCTC	1 cut(s)	377
BsrDI	GCAATG	7 cut(s)	677, 835, 840, 900, 1065, 1107, 1142
BsrFI	RCCGGY	1 cut(s)	466
BssAI	RCCGGY	1 cut(s)	466
BssECI	CCNNGG	5 cut(s)	645, 952, 1191, 1552, 1553
BssMI	GATC	2 cut(s)	678, 1216
BssNAI	GTATAC	1 cut(s)	621
BssSI	CACGAG	1 cut(s)	1604
BssT1I	CCWWGG	2 cut(s)	952, 1191
Bst1107I	GTATAC	1 cut(s)	621
Bst2BI	CACGAG	1 cut(s)	1604
Bst4CI	ACNGT	5 cut(s)	125, 420, 625, 1203, 1505
Bst6I	CTCTTC	2 cut(s)	197, 338
BstC8I	GCNNGC	4 cut(s)	543, 657, 840, 1515
BstDEI	CTNAG	1 cut(s)	934
BstDSI	CCRYGG	2 cut(s)	645, 1191
BstFNI	CGCG	2 cut(s)	527, 647
BstHHI	GCGC	5 cut(s)	318, 347, 527, 547, 571
BstKTI	GATC	2 cut(s)	681, 1219
BstMAI	GTCTC	4 cut(s)	226, 286, 363, 377
BstMBI	GATC	2 cut(s)	678, 1216
BstMCI	CGRYCG	2 cut(s)	124, 879
BstNSI	RCATGY	2 cut(s)	695, 1155
BstSCI	CCNGG	3 cut(s)	761, 1552, 1553
BstSFI	CTRYAG	2 cut(s)	1128, 1518
BstUI	CGCG	2 cut(s)	527, 647
BstV1I	GCAGC	7 cut(s)	42, 646, 1084, 1114, 1169, 1443, 1531
BstZ17I	GTATAC	1 cut(s)	621
BsuRI	GGCC	4 cut(s)	233, 559, 644, 1065
BtgI	CCRYGG	2 cut(s)	645, 1191
BtrI	CACGTC	1 cut(s)	948
BtsI	GCAGTG	1 cut(s)	1137
BtsIMutI	CAGTG	2 cut(s)	1137, 1510
BveI	ACCTGC	2 cut(s)	350, 953
Cac8I	GCNNGC	4 cut(s)	543, 657, 840, 1515
CfoI	GCGC	5 cut(s)	318, 347, 527, 547, 571
Cfr10I	RCCGGY	1 cut(s)	466
Cfr13I	GGNCC	4 cut(s)	558, 642, 1063, 1188
Cfr42I	CCGCGG	1 cut(s)	648
Cfr9I	CCCGGG	1 cut(s)	1553
Csp6I	GTAC	1 cut(s)	914
CviAII	CATG	8 cut(s)	225, 286, 589, 692, 1152, 1192, 1370, 1460
CviQI	GTAC	1 cut(s)	914
DdeI	CTNAG	1 cut(s)	934
DpnI	GATC	2 cut(s)	680, 1218
DpnII	GATC	2 cut(s)	678, 1216
DraI	TTTAAA	1 cut(s)	1615
Eam1104I	CTCTTC	2 cut(s)	197, 338
EarI	CTCTTC	2 cut(s)	197, 338
EciI	GGCGGA	5 cut(s)	176, 260, 281, 400, 665
Eco130I	CCWWGG	2 cut(s)	952, 1191
Eco31I	GGTCTC	1 cut(s)	377
Eco47I	GGWCC	1 cut(s)	1188
Eco88I	CYCGRG	3 cut(s)	553, 903, 1553
EcoRI	GAATTC	1 cut(s)	868
EcoT14I	CCWWGG	2 cut(s)	952, 1191
ErhI	CCWWGG	2 cut(s)	952, 1191
Esp3I	CGTCTC	3 cut(s)	226, 286, 363
FaeI	CATG	8 cut(s)	228, 289, 592, 695, 1155, 1195, 1373, 1463
FaqI	GGGAC	2 cut(s)	875, 1400
FatI	CATG	8 cut(s)	224, 285, 588, 691, 1151, 1191, 1369, 1459
FauI	CCCGC	1 cut(s)	54
FblI	GTMKAC	1 cut(s)	620
FspBI	CTAG	2 cut(s)	780, 1185
GlaI	GCGC	5 cut(s)	317, 346, 526, 546, 570
GsaI	CCCAGC	1 cut(s)	1386
HaeIII	GGCC	4 cut(s)	233, 559, 644, 1065
HapII	CCGG	4 cut(s)	467, 762, 917, 1554
HhaI	GCGC	5 cut(s)	318, 347, 527, 547, 571
Hin1II	CATG	8 cut(s)	228, 289, 592, 695, 1155, 1195, 1373, 1463
Hin6I	GCGC	5 cut(s)	316, 345, 525, 545, 569
HinP1I	GCGC	5 cut(s)	316, 345, 525, 545, 569
HinfI	GANTC	2 cut(s)	814, 1229
HpaII	CCGG	4 cut(s)	467, 762, 917, 1554
HphI	GGTGA	6 cut(s)	163, 201, 541, 820, 1164, 1333
Hpy166II	GTNNAC	2 cut(s)	621, 1663
Hpy188I	TCNGA	1 cut(s)	775
Hpy188III	TCNNGA	1 cut(s)	1604
Hpy8I	GTNNAC	2 cut(s)	621, 1663
Hpy99I	CGWCG	1 cut(s)	221
HpyAV	CCTTC	8 cut(s)	187, 313, 376, 475, 997, 1321, 1325, 1386
HpyCH4III	ACNGT	5 cut(s)	125, 420, 625, 1203, 1505
HpyCH4IV	ACGT	2 cut(s)	216, 947
HpyF3I	CTNAG	1 cut(s)	934
HpySE526I	ACGT	2 cut(s)	216, 947
Hsp92II	CATG	8 cut(s)	228, 289, 592, 695, 1155, 1195, 1373, 1463
HspAI	GCGC	5 cut(s)	316, 345, 525, 545, 569
KspI	CCGCGG	1 cut(s)	648
Kzo9I	GATC	2 cut(s)	678, 1216
LmnI	GCTCC	4 cut(s)	161, 294, 652, 667
Lsp1109I	GCAGC	7 cut(s)	42, 646, 1084, 1114, 1169, 1443, 1531
MaeI	CTAG	2 cut(s)	780, 1185
MaeII	ACGT	2 cut(s)	216, 947
MaeIII	GTNAC	2 cut(s)	700, 1601
MalI	GATC	2 cut(s)	680, 1218
MboI	GATC	2 cut(s)	678, 1216
MboII	GAAGA	6 cut(s)	184, 325, 1094, 1312, 1336, 1588
MhlI	GDGCHC	1 cut(s)	489
MluCI	AATT	7 cut(s)	495, 799, 868, 1212, 1424, 1579, 1696
MlyI	GAGTC	1 cut(s)	823
MmeI	TCCRAC	6 cut(s)	189, 723, 999, 1059, 1325, 1614
MseI	TTAA	4 cut(s)	236, 888, 1565, 1614
MslI	CAYNNNNRTG	2 cut(s)	507, 690
MspA1I	CMGCKG	3 cut(s)	55, 647, 875
MspI	CCGG	4 cut(s)	467, 762, 917, 1554
MspR9I	CCNGG	3 cut(s)	763, 1554, 1555
MvnI	CGCG	2 cut(s)	527, 647
NciI	CCSGG	3 cut(s)	763, 1554, 1555
NcoI	CCATGG	1 cut(s)	1191
NdeII	GATC	2 cut(s)	678, 1216
NlaIII	CATG	8 cut(s)	228, 289, 592, 695, 1155, 1195, 1373, 1463
NlaIV	GGNNCC	1 cut(s)	1023
NmeAIII	GCCGAG	1 cut(s)	1091
NmuCI	GTSAC	1 cut(s)	1601
NspI	RCATGY	2 cut(s)	695, 1155
PaeR7I	CTCGAG	2 cut(s)	553, 903
PciI	ACATGT	1 cut(s)	1151
PfeI	GAWTC	1 cut(s)	1229
PfoI	TCCNGGA	1 cut(s)	761
PleI	GAGTC	1 cut(s)	822
PpsI	GAGTC	1 cut(s)	822
PscI	ACATGT	1 cut(s)	1151
PspFI	CCCAGC	1 cut(s)	1382
PspN4I	GGNNCC	1 cut(s)	1023
PspPI	GGNCC	4 cut(s)	558, 642, 1063, 1188
PspXI	VCTCGAGB	2 cut(s)	553, 903
PstI	CTGCAG	1 cut(s)	1132
RsaI	GTAC	1 cut(s)	915
RsaNI	GTAC	1 cut(s)	914
RseI	CAYNNNNRTG	2 cut(s)	507, 690
SacII	CCGCGG	1 cut(s)	648
SaqAI	TTAA	4 cut(s)	236, 888, 1565, 1614
Sau3AI	GATC	2 cut(s)	678, 1216
Sau96I	GGNCC	4 cut(s)	558, 642, 1063, 1188
SchI	GAGTC	1 cut(s)	823
ScrFI	CCNGG	3 cut(s)	763, 1554, 1555
SduI	GDGCHC	1 cut(s)	489
SfcI	CTRYAG	2 cut(s)	1128, 1518
Sfr274I	CTCGAG	2 cut(s)	553, 903
Sfr303I	CCGCGG	1 cut(s)	648
SgrBI	CCGCGG	1 cut(s)	648
SinI	GGWCC	1 cut(s)	1188
SlaI	CTCGAG	2 cut(s)	553, 903
SmaI	CCCGGG	1 cut(s)	1555
SmiMI	CAYNNNNRTG	2 cut(s)	507, 690
SmlI	CTYRAG	4 cut(s)	395, 553, 903, 1031
SmoI	CTYRAG	4 cut(s)	395, 553, 903, 1031
Sse9I	AATT	7 cut(s)	495, 799, 868, 1212, 1424, 1579, 1696
SspI	AATATT	1 cut(s)	1619
SspMI	CTAG	2 cut(s)	780, 1185
StyD4I	CCNGG	3 cut(s)	761, 1552, 1553
StyI	CCWWGG	2 cut(s)	952, 1191
TaaI	ACNGT	5 cut(s)	125, 420, 625, 1203, 1505
TaiI	ACGT	2 cut(s)	219, 950
TaqI	TCGA	7 cut(s)	36, 489, 554, 611, 792, 879, 904
TaqII	GACCGA	1 cut(s)	359
TasI	AATT	7 cut(s)	495, 799, 868, 1212, 1424, 1579, 1696
TauI	GCSGC	7 cut(s)	52, 55, 74, 266, 647, 650, 845
TfiI	GAWTC	1 cut(s)	1229
Tru1I	TTAA	4 cut(s)	236, 888, 1565, 1614
Tru9I	TTAA	4 cut(s)	236, 888, 1565, 1614
TscAI	CASTG	2 cut(s)	1137, 1510
TseFI	GTSAC	1 cut(s)	1601
TseI	GCWGC	7 cut(s)	55, 659, 1097, 1127, 1157, 1456, 1544
Tsp45I	GTSAC	1 cut(s)	1601
TspDTI	ATGAA	7 cut(s)	507, 605, 936, 1016, 1296, 1322, 1358
TspGWI	ACGGA	1 cut(s)	995
TspMI	CCCGGG	1 cut(s)	1553
TspRI	CASTG	2 cut(s)	1137, 1510
VpaK11BI	GGWCC	1 cut(s)	1188
XapI	RAATTY	4 cut(s)	495, 799, 868, 1579
XceI	RCATGY	2 cut(s)	695, 1155
XhoI	CTCGAG	2 cut(s)	553, 903
XmaI	CCCGGG	1 cut(s)	1553
XmiI	GTMKAC	1 cut(s)	620
XspI	CTAG	2 cut(s)	780, 1185

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