Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0014550

Physical Location & Seq

Genomic Coordinates Reverse (-)

3907265 .. 3908973

Gene Structure 1709 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G004500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1698 bp

ATGAAGAAACACTACAACACCATTCTCTCCCTACTAGAAAAATGTAAAACCATGAGTGAATTGAAAGAGATACATGGGATGATGATCACTACCTCAGTTGATAAGAATGTAATCCCATTGAGTAGGCTTATTGATTTCTGTGCTAATTCTGAAGCTGGAGACATCAGCTATGCCAAGTCGGTTTTTCGCCGAATTCAGCAACCTAGTGTCTATATCTGGAACTCAATGATCAGAGGGTGCTCGAATAGCGAGAACCCAGTTGAGTCTTTGATAATGTATAGAGAAATGGTGCATAGGGGTTATGCCCCTGACCATTTTACATTTCCATTTGTGCTCAAAGGTTGTTCGATAATCGTTGATGTTGAAGTTGGGAAATGTGTTCATAACTGCATTGTGAAAACTGGGTTTGAGTGGAATGTGTATGCCTCTTCCGGTTTACTCAACATGTATGCTTGTTGTGCAGATATGGAATCTGCACAGAAGGTGTTTGATCAAATGCCTAAGTGGAATGTAGTTGCTTGGACTAGTCTGATTTCCGGGTTTGTTGGGAACAATCAAGCTAGTGAGGCTATAAAGGTGTTTAAGGACATGGAACTTTGTGATGTCGAGCCTAATGAGATTACGATGGTCAATGTCTTAGTTGCTTGTGCTCGAAGTAGGGATATCAATACTGGGAAGTGGGTTCACAGTCGTATTCGCCAACTTGGGTTTGATCCCTTTGGATCGAGTTTTGGTTTTAATGTGATTCTTGCGACTGCCATTGTAGATATGTATGCAAAATGTGGCAGCTTGAGAACAGCAAGGCATCTGTTTGACAAGATGCCTGACAGAAACTTGGTTGCCTGGAATTCCATGATCAGTGCCTACAATCAATATGGCCAGGGTGATAAAGCGATTGATCTATTTTTTGATATGCGGATTGCTGGGTTTGTTCCGGACCAAGCTACCATTCTGGGTGTGATTGGTTCTTGTGCGCAGTTGGGGGCTTTGGCATTGGGACAAAGTCTTCATTCGTATGTATCAAAAACTAGCATAGGCACAGATGCTTCTATTGGAACTGCTTTAGTGGACATGTATACGAAAAATGGAGATGCAGGCAGTGCGCAAAGAATTTTTGACAATATGCAGAAGAAAGATGTAATGGCGTGGACTAGTATGATTGTTGGTTTAGCTATGCATGGGCATGCCGCGGAAGCACTGCATATTTTTAGAAGAATGCAAGAGGATGCTAGTGTTATTCCAGACCAGATCACTTATATTGGGGTTTTATGCGCGTGTAGCCATGTTGGGCTTGTGGAGGAGGGTCAGAGACACTTTGGCTCAATGGTTGATGTTTATGGTATAAAACCAACTGCAGAGCATTACGGCTGCATGGTTGATCTTCTGAGTCGAGCAGGCCGGTTTGAAGAGGCGGTGAAACTACTGGAAGAAATGCCAATTCAACCCAATGTTGCTATATGGGGAGCTCTCTTAAATGGGTGTGAGATATATGAAAATGTAGATCTAGCTGACCAAGTTAGAAGATACATAACAGAGTTGGAGCCTCATATTAGTGGAGTTTTCGTCCTTCTTTCCAATATATATGCTAGGGCCGGAAGATGGCAAGAAGTAAAGCTGACTAGAGAATTGATGAAAGATAGGAGGATTGCCAAAAGTCTTGGATGTAGTTCAGTTGAAATGAAATTGTTAAGTTCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000959 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016071 GO:0016556 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0046483 GO:0071704 GO:0080156 GO:0090304 GO:0090305 GO:0097159 GO:1900864 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

565

Amino Acids

62.9

Weight (kDa)

6.33

Isoelectric Point (pI)

37.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	68 - 115	6.2e-09	PPR repeat family
PPR_2	PF13041	170 - 217	1.4e-09	PPR repeat family
PPR_2	PF13041	278 - 325	3.9e-08	PPR repeat family
PPR	PF01535	280 - 309	1.4e-06	PPR repeat
PPR_2	PF13041	378 - 427	9e-06	PPR repeat family
PPR_1	PF12854	447 - 478	4.8e-06	PPR repeat
E_motif	PF20431	497 - 559	7.3e-15	E motif

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: OG0014550)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G05240
fragaria_vesca	FvH4_6g05570
malus_domestica	MD12G1221500.v1.1
prunus_persica	Prupe.6G328300_v2.0.a1
pyrus_communis	pycom12g20770
rosa_chinensis	RchiOBHm_Chr3g0454351
rosa_laevigata	RLG00000025451 RLG00000025452 RLG00000025458
rosa_multiflora	Rmu_sc0000006.1_g000021 Rmu_sc0007209.1_g000013
rosa_roxburghii	Rroxscaffold_165G00437180 Rroxscaffold_6G00425180
rosa_rugosa	Rorug02G0654500
rosa_samantha	Rh3BG060200 Rh3DG060600
rosa_wichuraiana	Rw3G004500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	2 cut(s)	975, 1104
AccI	GTMKAC	1 cut(s)	1076
AccII	CGCG	2 cut(s)	1190, 1274
AccIII	TCCGGA	1 cut(s)	934
AciI	CCGC	4 cut(s)	916, 1188, 1190, 1412
AclWI	GGATC	2 cut(s)	707, 730
AcoI	YGGCCR	1 cut(s)	877
AcsI	RAATTY	3 cut(s)	192, 847, 1110
AcuI	CTGAAG	1 cut(s)	171
AfiI	CCNNNNNNNGG	1 cut(s)	1599
AflIII	ACRYGT	2 cut(s)	444, 1071
AgsI	TTSAA	5 cut(s)	64, 365, 1406, 1442, 1676
AhlI	ACTAGT	2 cut(s)	524, 1151
AjnI	CCWGG	2 cut(s)	842, 879
AjuI	GAANNNNNNNTTGG	2 cut(s)	933, 965
AluBI	AGCT	9 cut(s)	155, 168, 560, 789, 944, 1172, 1466, 1508, 1615
AluI	AGCT	9 cut(s)	155, 168, 560, 789, 944, 1172, 1466, 1508, 1615
Alw21I	GWGCWC	4 cut(s)	242, 336, 652, 1468
Alw26I	GTCTC	2 cut(s)	153, 1303
AlwI	GGATC	2 cut(s)	707, 730
Aor13HI	TCCGGA	1 cut(s)	934
AoxI	GGCC	3 cut(s)	877, 1396, 1590
ApeKI	GCWGC	2 cut(s)	786, 1368
ApoI	RAATTY	3 cut(s)	192, 847, 1110
AspLEI	GCGC	3 cut(s)	976, 1105, 1274
AspS9I	GGNCC	2 cut(s)	937, 1590
AsuC2I	CCSGG	1 cut(s)	538
AsuHPI	GGTGA	2 cut(s)	896, 1426
AvaII	GGWCC	1 cut(s)	937
BalI	TGGCCA	1 cut(s)	879
BanII	GRGCYC	1 cut(s)	1468
BarI	GAAGNNNNNNTAC	1 cut(s)	28
BbsI	GAAGAC	1 cut(s)	998
Bbv12I	GWGCWC	4 cut(s)	242, 336, 652, 1468
BbvI	GCAGC	2 cut(s)	798, 1355
BccI	CCATC	2 cut(s)	619, 1593
BceAI	ACGGC	1 cut(s)	1381
BciT130I	CCWGG	2 cut(s)	844, 881
BclI	TGATCA	4 cut(s)	84, 228, 490, 855
BcnI	CCSGG	1 cut(s)	538
BcoDI	GTCTC	2 cut(s)	153, 1303
BcuI	ACTAGT	2 cut(s)	524, 1151
BfmI	CTRYAG	1 cut(s)	1353
BglII	AGATCT	1 cut(s)	1501
BisI	GCNGC	3 cut(s)	787, 1188, 1369
BlsI	GCNGC	3 cut(s)	788, 1189, 1370
Bme1390I	CCNGG	3 cut(s)	538, 844, 881
Bme18I	GGWCC	1 cut(s)	937
BmgT120I	GGNCC	2 cut(s)	937, 1590
BmiI	GGNNCC	1 cut(s)	1542
BmrFI	CCNGG	3 cut(s)	538, 844, 881
BmrI	ACTGGG	3 cut(s)	251, 411, 681
BmsI	GCATC	5 cut(s)	810, 814, 1033, 1081, 1216
BmuI	ACTGGG	3 cut(s)	251, 411, 681
BpiI	GAAGAC	1 cut(s)	998
BpmI	CTGGAG	1 cut(s)	177
BpuEI	CTTGAG	1 cut(s)	811
BpuMI	CCSGG	1 cut(s)	538
BsaBI	GATNNNNATC	1 cut(s)	83
BsaJI	CCNNGG	2 cut(s)	880, 1188
BsaWI	WCCGGW	2 cut(s)	431, 934
BsaXI	ACNNNNNCTCC	2 cut(s)	1548, 1578
Bsc4I	CCNNNNNNNGG	1 cut(s)	1599
Bse118I	RCCGGY	1 cut(s)	1398
Bse1I	ACTGG	4 cut(s)	257, 406, 676, 1428
Bse8I	GATNNNNATC	1 cut(s)	83
BseAI	TCCGGA	1 cut(s)	934
BseBI	CCWGG	2 cut(s)	844, 881
BseDI	CCNNGG	2 cut(s)	880, 1188
BseGI	GGATG	3 cut(s)	84, 1231, 1667
BseJI	GATNNNNATC	1 cut(s)	83
BseLI	CCNNNNNNNGG	1 cut(s)	1599
BseMII	CTCAG	2 cut(s)	108, 1376
BseNI	ACTGG	4 cut(s)	257, 406, 676, 1428
BseRI	GAGGAG	1 cut(s)	1313
BseXI	GCAGC	2 cut(s)	798, 1355
BseYI	CCCAGC	1 cut(s)	923
BsgI	GTGCAG	2 cut(s)	459, 480
Bsh1236I	CGCG	2 cut(s)	1190, 1274
BshFI	GGCC	3 cut(s)	879, 1398, 1592
BsiHKAI	GWGCWC	4 cut(s)	242, 336, 652, 1468
BsiSI	CCGG	5 cut(s)	432, 537, 935, 1399, 1593
BslFI	GGGAC	1 cut(s)	1011
BslI	CCNNNNNNNGG	1 cut(s)	1599
BsmAI	GTCTC	2 cut(s)	153, 1303
BsmFI	GGGAC	1 cut(s)	1011
BsmI	GAATGC	1 cut(s)	1221
BsnI	GGCC	3 cut(s)	879, 1398, 1592
Bsp1286I	GDGCHC	4 cut(s)	242, 336, 652, 1468
Bsp13I	TCCGGA	1 cut(s)	934
BspACI	CCGC	4 cut(s)	916, 1188, 1190, 1412
BspANI	GGCC	3 cut(s)	879, 1398, 1592
BspCNI	CTCAG	2 cut(s)	107, 1377
BspEI	TCCGGA	1 cut(s)	934
BspFNI	CGCG	2 cut(s)	1190, 1274
BspLI	GGNNCC	1 cut(s)	1542
BspMAI	CTGCAG	1 cut(s)	1357
BspPI	GGATC	2 cut(s)	707, 730
BsrFI	RCCGGY	1 cut(s)	1398
BsrI	ACTGG	4 cut(s)	257, 406, 676, 1428
BssAI	RCCGGY	1 cut(s)	1398
BssECI	CCNNGG	2 cut(s)	880, 1188
BssNAI	GTATAC	1 cut(s)	1077
Bst1107I	GTATAC	1 cut(s)	1077
Bst2UI	CCWGG	2 cut(s)	844, 881
Bst4CI	ACNGT	1 cut(s)	689
Bst6I	CTCTTC	2 cut(s)	433, 1401
BstAPI	GCANNNNNTGC	1 cut(s)	1100
BstC8I	GCNNGC	3 cut(s)	1096, 1185, 1396
BstDEI	CTNAG	4 cut(s)	94, 501, 637, 1385
BstDSI	CCRYGG	1 cut(s)	1188
BstF5I	GGATG	3 cut(s)	84, 1231, 1667
BstFNI	CGCG	2 cut(s)	1190, 1274
BstHHI	GCGC	3 cut(s)	976, 1105, 1274
BstMAI	GTCTC	2 cut(s)	153, 1303
BstMWI	GCNNNNNNNGC	6 cut(s)	246, 458, 566, 1100, 1193, 1278
BstNI	CCWGG	2 cut(s)	844, 881
BstNSI	RCATGY	3 cut(s)	448, 1075, 1187
BstSCI	CCNGG	3 cut(s)	536, 842, 879
BstSFI	CTRYAG	1 cut(s)	1353
BstUI	CGCG	2 cut(s)	1190, 1274
BstV1I	GCAGC	2 cut(s)	798, 1355
BstV2I	GAAGAC	1 cut(s)	998
BstX2I	RGATCY	1 cut(s)	1501
BstYI	RGATCY	1 cut(s)	1501
BstZ17I	GTATAC	1 cut(s)	1077
BsuRI	GGCC	3 cut(s)	879, 1398, 1592
BtgI	CCRYGG	1 cut(s)	1188
BtsCI	GGATG	3 cut(s)	84, 1231, 1667
BtsI	GCAGTG	2 cut(s)	1105, 1196
BtsIMutI	CAGTG	3 cut(s)	865, 1105, 1196
Cac8I	GCNNGC	3 cut(s)	1096, 1185, 1396
CfoI	GCGC	3 cut(s)	976, 1105, 1274
Cfr10I	RCCGGY	1 cut(s)	1398
Cfr13I	GGNCC	2 cut(s)	937, 1590
Cfr42I	CCGCGG	1 cut(s)	1191
DdeI	CTNAG	4 cut(s)	94, 501, 637, 1385
EaeI	YGGCCR	1 cut(s)	877
Eam1104I	CTCTTC	2 cut(s)	433, 1401
EarI	CTCTTC	2 cut(s)	433, 1401
Ecl136II	GAGCTC	1 cut(s)	1466
Eco24I	GRGCYC	1 cut(s)	1468
Eco32I	GATATC	1 cut(s)	664
Eco47I	GGWCC	1 cut(s)	937
Eco53kI	GAGCTC	1 cut(s)	1466
Eco57I	CTGAAG	1 cut(s)	171
EcoICRI	GAGCTC	1 cut(s)	1466
EcoRI	GAATTC	2 cut(s)	192, 847
EcoRII	CCWGG	2 cut(s)	842, 879
EcoRV	GATATC	1 cut(s)	664
EcoT22I	ATGCAT	1 cut(s)	1179
EcoT38I	GRGCYC	1 cut(s)	1468
FaqI	GGGAC	1 cut(s)	1011
FbaI	TGATCA	4 cut(s)	84, 228, 490, 855
FblI	GTMKAC	1 cut(s)	1076
Fnu4HI	GCNGC	3 cut(s)	787, 1188, 1369
FokI	GGATG	3 cut(s)	91, 1238, 1674
FriOI	GRGCYC	1 cut(s)	1468
Fsp4HI	GCNGC	3 cut(s)	787, 1188, 1369
FspI	TGCGCA	2 cut(s)	975, 1104
GlaI	GCGC	3 cut(s)	975, 1104, 1273
GluI	GCNGC	3 cut(s)	787, 1188, 1369
GsaI	CCCAGC	1 cut(s)	927
GsuI	CTGGAG	1 cut(s)	177
HaeIII	GGCC	3 cut(s)	879, 1398, 1592
HapII	CCGG	5 cut(s)	432, 537, 935, 1399, 1593
HhaI	GCGC	3 cut(s)	976, 1105, 1274
Hin6I	GCGC	3 cut(s)	974, 1103, 1272
HinP1I	GCGC	3 cut(s)	974, 1103, 1272
HinfI	GANTC	4 cut(s)	263, 470, 745, 1387
HpaII	CCGG	5 cut(s)	432, 537, 935, 1399, 1593
HphI	GGTGA	2 cut(s)	896, 1426
Hpy166II	GTNNAC	5 cut(s)	437, 685, 1069, 1077, 1149
Hpy188I	TCNGA	5 cut(s)	151, 233, 531, 1308, 1386
Hpy188III	TCNNGA	3 cut(s)	217, 935, 1241
Hpy8I	GTNNAC	5 cut(s)	437, 685, 1069, 1077, 1149
HpyAV	CCTTC	2 cut(s)	475, 1577
HpyCH4III	ACNGT	1 cut(s)	689
HpyF10VI	GCNNNNNNNGC	6 cut(s)	246, 458, 566, 1100, 1193, 1278
HpyF3I	CTNAG	4 cut(s)	94, 501, 637, 1385
HspAI	GCGC	3 cut(s)	974, 1103, 1272
Kpn2I	TCCGGA	1 cut(s)	934
Ksp22I	TGATCA	4 cut(s)	84, 228, 490, 855
KspI	CCGCGG	1 cut(s)	1191
LmnI	GCTCC	2 cut(s)	1463, 1540
Lsp1109I	GCAGC	2 cut(s)	798, 1355
LweI	GCATC	5 cut(s)	810, 814, 1033, 1081, 1216
MflI	RGATCY	1 cut(s)	1501
MhlI	GDGCHC	4 cut(s)	242, 336, 652, 1468
MlsI	TGGCCA	1 cut(s)	879
MluCI	AATT	8 cut(s)	59, 145, 192, 847, 1110, 1437, 1625, 1682
MluNI	TGGCCA	1 cut(s)	879
MlyI	GAGTC	2 cut(s)	272, 1396
MmeI	TCCRAC	1 cut(s)	1518
Mox20I	TGGCCA	1 cut(s)	879
Mph1103I	ATGCAT	1 cut(s)	1179
MroI	TCCGGA	1 cut(s)	934
MscI	TGGCCA	1 cut(s)	879
MseI	TTAA	4 cut(s)	582, 738, 1472, 1688
MslI	CAYNNNNRTG	3 cut(s)	1014, 1182, 1551
Msp20I	TGGCCA	1 cut(s)	879
MspA1I	CMGCKG	1 cut(s)	1190
MspI	CCGG	5 cut(s)	432, 537, 935, 1399, 1593
MspR9I	CCNGG	3 cut(s)	538, 844, 881
Mva1269I	GAATGC	1 cut(s)	1221
MvaI	CCWGG	2 cut(s)	844, 881
MvnI	CGCG	2 cut(s)	1190, 1274
MwoI	GCNNNNNNNGC	6 cut(s)	246, 458, 566, 1100, 1193, 1278
NciI	CCSGG	1 cut(s)	538
NlaIV	GGNNCC	1 cut(s)	1542
NsbI	TGCGCA	2 cut(s)	975, 1104
NsiI	ATGCAT	1 cut(s)	1179
NspI	RCATGY	3 cut(s)	448, 1075, 1187
PaeI	GCATGC	1 cut(s)	1187
PciI	ACATGT	2 cut(s)	444, 1071
PctI	GAATGC	1 cut(s)	1221
PfeI	GAWTC	2 cut(s)	470, 745
PflFI	GACNNNGTC	1 cut(s)	1002
PkrI	GCNGC	3 cut(s)	788, 1189, 1370
PleI	GAGTC	2 cut(s)	271, 1395
PpsI	GAGTC	2 cut(s)	271, 1395
PscI	ACATGT	2 cut(s)	444, 1071
Psp124BI	GAGCTC	1 cut(s)	1468
Psp6I	CCWGG	2 cut(s)	842, 879
PspFI	CCCAGC	1 cut(s)	923
PspGI	CCWGG	2 cut(s)	842, 879
PspN4I	GGNNCC	1 cut(s)	1542
PspPI	GGNCC	2 cut(s)	937, 1590
PstI	CTGCAG	1 cut(s)	1357
PsuI	RGATCY	1 cut(s)	1501
PsyI	GACNNNGTC	1 cut(s)	1002
RseI	CAYNNNNRTG	3 cut(s)	1014, 1182, 1551
SacI	GAGCTC	1 cut(s)	1468
SacII	CCGCGG	1 cut(s)	1191
SaqAI	TTAA	4 cut(s)	582, 738, 1472, 1688
SatI	GCNGC	3 cut(s)	787, 1188, 1369
Sau96I	GGNCC	2 cut(s)	937, 1590
SchI	GAGTC	2 cut(s)	272, 1396
ScrFI	CCNGG	3 cut(s)	538, 844, 881
SduI	GDGCHC	4 cut(s)	242, 336, 652, 1468
SfaNI	GCATC	5 cut(s)	810, 814, 1033, 1081, 1216
SfcI	CTRYAG	1 cut(s)	1353
Sfr303I	CCGCGG	1 cut(s)	1191
SgrBI	CCGCGG	1 cut(s)	1191
SinI	GGWCC	1 cut(s)	937
SmiMI	CAYNNNNRTG	3 cut(s)	1014, 1182, 1551
SmlI	CTYRAG	1 cut(s)	790
SmoI	CTYRAG	1 cut(s)	790
SpeI	ACTAGT	2 cut(s)	524, 1151
SphI	GCATGC	1 cut(s)	1187
Sse9I	AATT	8 cut(s)	59, 145, 192, 847, 1110, 1437, 1625, 1682
SsiI	CCGC	4 cut(s)	916, 1188, 1190, 1412
SstI	GAGCTC	1 cut(s)	1468
StyD4I	CCNGG	3 cut(s)	536, 842, 879
TaaI	ACNGT	1 cut(s)	689
TaqI	TCGA	6 cut(s)	242, 347, 606, 652, 725, 1390
TasI	AATT	8 cut(s)	59, 145, 192, 847, 1110, 1437, 1625, 1682
TauI	GCSGC	1 cut(s)	1190
TfiI	GAWTC	2 cut(s)	470, 745
Tru1I	TTAA	4 cut(s)	582, 738, 1472, 1688
Tru9I	TTAA	4 cut(s)	582, 738, 1472, 1688
TscAI	CASTG	3 cut(s)	865, 1105, 1203
TseI	GCWGC	2 cut(s)	786, 1368
TspDTI	ATGAA	7 cut(s)	17, 371, 998, 1506, 1646, 1683, 1694
TspRI	CASTG	3 cut(s)	865, 1105, 1203
Tth111I	GACNNNGTC	1 cut(s)	1002
VpaK11BI	GGWCC	1 cut(s)	937
XapI	RAATTY	3 cut(s)	192, 847, 1110
XceI	RCATGY	3 cut(s)	448, 1075, 1187
XmiI	GTMKAC	1 cut(s)	1076
Zsp2I	ATGCAT	1 cut(s)	1179

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