Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Contig00186

Orthogroup ID

OG0007987

Physical Location & Seq

Genomic Coordinates Forward (+)

332 .. 3582

Gene Structure 3251 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw0G004830.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1488 bp

CGAAAGCTCAAAAACAAGACGATTCCTAAGGATCTTGTTCTTGGAACGTTGGTTAGATTCAAGCAATTGAGGAAATGGAACCTTGTCGGTGAGATTCTTGAATGGCTTCAGACTCAGGACTGGTGGGACTTCAGCGAAATGGATTTTCTGATGCTTATAACAGCTTATGGAAAGCAAGGCAAATTCAACAGGGCTGAGAAGGTTTTAAGCTTGTTGAATGAAAAGGGCTATGCACCAAGTGTAATATCGCATACTGCTCTTATGGAAGCATATGGAAAAGGAGGCCGATACAATAATGCTGAAGCAATATTTCGAAGAATGCAGTCTTCAGGGCCTGAACCATCTGCTGTGACATATCAAATTATACTAAAAATATTTGTTGAGGGCTGCAAGTTTAAGGAAGCTGAAGAAATCTTTGAGACCCTTTTGGATGAGGAAAAGTCACCTTTAAAGCCAGACCAAAAGATGTTCCACATGATGATCTATATGTTTAAGAAGGCTGGAAGTTATGAAAAAGCTCGTAAGATGTTTGCAGTGATGACTGAGAGAGGGGTTCGGCAATCAACAGTTACTTATAATAGCCTAATGTCGTTTGAAACTAACTACAAGGAAGTATCAAAGATGTACAACCAGATGCAAAGAGCTGGTCTCCGACCTGATGTTGTGAGTTATGCTTTACTCATTAATGCTTATGGGAAAGCTAGAAGAGAGGAAGAAGCCTTAGCTGTTTTTGAGGAAATGCTTGATGCTGGTGTCAGCATACAATATTTGCTTGACGCATTTGCAGTATCAGGAATGGTGGACCAAGCTCGAACTGTTTTTAAAAGCATGAGAAGGGACAGGTATGAACCCGATATATACTCGTATACCACTATGCTGTCAGCTTATGTAAATGCACCCGACATGGAAGGTGCTGAAAAATTCTTCACAAGACTAAAGCAAGATGGATTCAAACCCAATGTCGTCACTTATGGGACCTTAATCAAAGGTTATGCTAAGACAAATGATATTGAGAAGATGATGGAGAAATATGAGGAAATGCAGGCATGTGGTGTCAAACCAAATCAAACGATCTTGACAACCATAATGGATGCGTATGGCAAGAACATTGATTTTGGGAGTGCTGCTGTTTGGTACAAGGAAATGGAATCCTGCAGGCTTACTCCTGATCAGAAAGCAAAGAATATCCTTTTATCTTTGGCAAAAACTGTAGAAGAACAACAGTTAGCAAACCAAATTGTAGGATATTTGGATAATACTAGCAATGAACAAGGACTTGGTCGTTTATCAATCTCTGTTGAGCAGAATGATGAGGATGAAGACAATTACGAAGATGATGAAGACGACGATGACAGTTATGATGAGGAAGTCGATGGTCCTTCACAGGTCACTTCATCATATGATGATGAACAAGAAAGTGAGCTGGTTTATTTAAATGCTGATAGTGAAAAAAACCTCGATGACTTACTTACAGTGGCTGAATTGTAA

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

PPR PPR_2 PPR_3

Protein Analysis

495

Amino Acids

56.78

Weight (kDa)

4.77

Isoelectric Point (pI)

37.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	47 - 93	7.8e-06	Pentatricopeptide repeat domain
TPR_24	PF23276	57 - 147	3.8e-07	Fungal tetratrico peptide repeats
PPR_2	PF13041	79 - 125	2e-08	PPR repeat family
PPR_2	PF13041	188 - 232	2e-07	PPR repeat family
PPR_3	PF13812	210 - 252	8.6e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	216 - 247	9.3e-07	PPR repeat
PPR_2	PF13041	219 - 253	3.7e-06	PPR repeat family
PPR	PF01535	222 - 252	1.6e-06	PPR repeat
PPR_2	PF13041	256 - 297	1.5e-07	PPR repeat family
PPR_long	PF17177	266 - 386	1.2e-09	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	273 - 331	1.9e-12	Pentatricopeptide repeat domain
PPR_2	PF13041	284 - 333	1.8e-13	PPR repeat family
PPR_3	PF13812	311 - 369	1.4e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	315 - 347	2.7e-06	PPR repeat
PPR_2	PF13041	319 - 356	4.5e-09	PPR repeat family
PPR	PF01535	322 - 352	4.4e-06	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0007987)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G59040 AT3G59040
fragaria_vesca	FvH4_6g38970 FvH4_6g38970 FvH4_6g38970 FvH4_6g38970 FvH4_6g38970
malus_domestica	MD09G1145700.v1.1
prunus_persica	Prupe.3G180100_v2.0.a1
pyrus_communis	pycom09g06600
rosa_chinensis	RchiOBHm_Chr2g0152561
rosa_laevigata	RLG00000020646
rosa_multiflora	Rmu_co8487657.1_g000002 Rmu_sc0027676.1_g000001 Rmu_sc0027677.1_g000001
rosa_roxburghii	Rroxscaffold_2G00095600
rosa_rugosa	Rorug02G0434500
rosa_samantha	Rh2AG495800 Rh2BG507600 Rh2CG482000 Rh2DG518900
rosa_wichuraiana	Rw0G004830 Rw2G040790 Rw2G041270

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	158, 576
AccI	GTMKAC	1 cut(s)	866
AclI	AACGTT	1 cut(s)	47
AclWI	GGATC	1 cut(s)	39
AcsI	RAATTY	2 cut(s)	182, 920
AcuI	CTGAAG	5 cut(s)	92, 115, 312, 321, 426
AdeI	CACNNNGTG	1 cut(s)	239
AfaI	GTAC	2 cut(s)	626, 1136
AgsI	TTSAA	6 cut(s)	61, 101, 187, 217, 596, 952
AjuI	GAANNNNNNNTTGG	2 cut(s)	1260, 1292
Alw26I	GTCTC	2 cut(s)	413, 653
AlwI	GGATC	1 cut(s)	39
AlwNI	CAGNNNCTG	2 cut(s)	335, 1478
AoxI	GGCC	2 cut(s)	283, 332
ApeKI	GCWGC	2 cut(s)	387, 1124
ApoI	RAATTY	2 cut(s)	182, 920
ArsI	GACNNNNNNTTYG	4 cut(s)	631, 663, 945, 977
AseI	ATTAAT	1 cut(s)	684
Asp700I	GAANNNNTTC	1 cut(s)	105
AspS9I	GGNCC	4 cut(s)	332, 802, 975, 1376
AsuHPI	GGTGA	2 cut(s)	101, 435
AsuII	TTCGAA	1 cut(s)	313
AvaII	GGWCC	3 cut(s)	802, 975, 1376
AxyI	CCTNAGG	1 cut(s)	27
BbsI	GAAGAC	3 cut(s)	318, 1326, 1347
BbvI	GCAGC	2 cut(s)	374, 1111
BccI	CCATC	4 cut(s)	349, 938, 1015, 1367
BclI	TGATCA	1 cut(s)	1168
BcoDI	GTCTC	2 cut(s)	413, 653
BfaI	CTAG	2 cut(s)	702, 1260
BfmI	CTRYAG	2 cut(s)	1153, 1209
BisI	GCNGC	2 cut(s)	388, 1125
BlsI	GCNGC	2 cut(s)	389, 1126
Bme18I	GGWCC	3 cut(s)	802, 975, 1376
BmgT120I	GGNCC	4 cut(s)	332, 802, 975, 1376
BmiI	GGNNCC	2 cut(s)	80, 976
BmsI	GCATC	4 cut(s)	141, 624, 736, 1081
BpiI	GAAGAC	3 cut(s)	318, 1326, 1347
BplI	GAGNNNNNCTC	2 cut(s)	633, 665
Bpu10I	CCTNAGC	1 cut(s)	721
Bpu14I	TTCGAA	1 cut(s)	313
BsaI	GGTCTC	2 cut(s)	413, 653
Bse1I	ACTGG	1 cut(s)	125
Bse21I	CCTNAGG	1 cut(s)	27
Bse3DI	GCAATG	1 cut(s)	1270
BseGI	GGATG	3 cut(s)	436, 1096, 1321
BseMI	GCAATG	1 cut(s)	1270
BseMII	CTCAG	3 cut(s)	128, 186, 534
BseNI	ACTGG	1 cut(s)	125
BseXI	GCAGC	2 cut(s)	374, 1111
BshFI	GGCC	2 cut(s)	285, 334
BslFI	GGGAC	3 cut(s)	140, 851, 988
BsmAI	GTCTC	2 cut(s)	413, 653
BsmFI	GGGAC	3 cut(s)	140, 851, 988
BsmI	GAATGC	1 cut(s)	324
BsnI	GGCC	2 cut(s)	285, 334
Bso31I	GGTCTC	2 cut(s)	413, 653
Bsp119I	TTCGAA	1 cut(s)	313
Bsp1407I	TGTACA	1 cut(s)	624
Bsp143I	GATC	4 cut(s)	31, 480, 1071, 1168
BspANI	GGCC	2 cut(s)	285, 334
BspCNI	CTCAG	3 cut(s)	127, 187, 535
BspLI	GGNNCC	2 cut(s)	80, 976
BspMAI	CTGCAG	1 cut(s)	1157
BspPI	GGATC	1 cut(s)	39
BspT104I	TTCGAA	1 cut(s)	313
BspTNI	GGTCTC	2 cut(s)	413, 653
BsrDI	GCAATG	1 cut(s)	1270
BsrGI	TGTACA	1 cut(s)	624
BsrI	ACTGG	1 cut(s)	125
BssMI	GATC	4 cut(s)	31, 480, 1071, 1168
BssNAI	GTATAC	1 cut(s)	867
Bst1107I	GTATAC	1 cut(s)	867
Bst4CI	ACNGT	6 cut(s)	568, 817, 1210, 1224, 1355, 1474
Bst6I	CTCTTC	1 cut(s)	700
BstAUI	TGTACA	1 cut(s)	624
BstBI	TTCGAA	1 cut(s)	313
BstC8I	GCNNGC	2 cut(s)	1044, 1157
BstDEI	CTNAG	6 cut(s)	27, 114, 195, 543, 721, 996
BstF5I	GGATG	3 cut(s)	436, 1096, 1321
BstKTI	GATC	4 cut(s)	34, 483, 1074, 1171
BstMAI	GTCTC	2 cut(s)	413, 653
BstMBI	GATC	4 cut(s)	31, 480, 1071, 1168
BstNSI	RCATGY	1 cut(s)	1050
BstSFI	CTRYAG	2 cut(s)	1153, 1209
BstV1I	GCAGC	2 cut(s)	374, 1111
BstV2I	GAAGAC	3 cut(s)	318, 1326, 1347
BstX2I	RGATCY	1 cut(s)	31
BstYI	RGATCY	1 cut(s)	31
BstZ17I	GTATAC	1 cut(s)	867
Bsu36I	CCTNAGG	1 cut(s)	27
BsuRI	GGCC	2 cut(s)	285, 334
BtsCI	GGATG	3 cut(s)	436, 1096, 1321
BtsI	GCAGTG	1 cut(s)	540
BtsIMutI	CAGTG	2 cut(s)	540, 1479
Cac8I	GCNNGC	2 cut(s)	1044, 1157
CaiI	CAGNNNCTG	2 cut(s)	335, 1478
Cfr13I	GGNCC	4 cut(s)	332, 802, 975, 1376
CseI	GACGC	1 cut(s)	785
Csp6I	GTAC	2 cut(s)	625, 1135
CviAII	CATG	4 cut(s)	475, 829, 904, 1047
CviQI	GTAC	2 cut(s)	625, 1135
DdeI	CTNAG	6 cut(s)	27, 114, 195, 543, 721, 996
DpnI	GATC	4 cut(s)	33, 482, 1073, 1170
DpnII	GATC	4 cut(s)	31, 480, 1071, 1168
DraI	TTTAAA	3 cut(s)	450, 823, 1434
DraIII	CACNNNGTG	1 cut(s)	239
Eam1104I	CTCTTC	1 cut(s)	700
EarI	CTCTTC	1 cut(s)	700
Eco31I	GGTCTC	2 cut(s)	413, 653
Eco47I	GGWCC	3 cut(s)	802, 975, 1376
Eco57I	CTGAAG	5 cut(s)	92, 115, 312, 321, 426
Eco81I	CCTNAGG	1 cut(s)	27
EcoO109I	RGGNCCY	2 cut(s)	332, 975
FaeI	CATG	4 cut(s)	478, 832, 907, 1050
FaqI	GGGAC	3 cut(s)	140, 851, 988
FatI	CATG	4 cut(s)	474, 828, 903, 1046
FauNDI	CATATG	2 cut(s)	271, 1399
FbaI	TGATCA	1 cut(s)	1168
FblI	GTMKAC	1 cut(s)	866
Fnu4HI	GCNGC	2 cut(s)	388, 1125
FokI	GGATG	3 cut(s)	443, 1103, 1328
Fsp4HI	GCNGC	2 cut(s)	388, 1125
FspBI	CTAG	2 cut(s)	702, 1260
GluI	GCNGC	2 cut(s)	388, 1125
HaeIII	GGCC	2 cut(s)	285, 334
HgaI	GACGC	1 cut(s)	785
Hin1II	CATG	4 cut(s)	478, 832, 907, 1050
HindIII	AAGCTT	1 cut(s)	208
HinfI	GANTC	6 cut(s)	22, 57, 94, 112, 948, 1148
HphI	GGTGA	2 cut(s)	101, 435
Hpy166II	GTNNAC	2 cut(s)	802, 867
Hpy188I	TCNGA	4 cut(s)	111, 150, 653, 1173
Hpy188III	TCNNGA	5 cut(s)	98, 116, 792, 1075, 1166
Hpy8I	GTNNAC	2 cut(s)	802, 867
Hpy99I	CGWCG	1 cut(s)	1349
HpyAV	CCTTC	5 cut(s)	193, 490, 828, 902, 1389
HpyCH4III	ACNGT	6 cut(s)	568, 817, 1210, 1224, 1355, 1474
HpyCH4IV	ACGT	1 cut(s)	47
HpyCH4V	TGCA	9 cut(s)	233, 322, 390, 533, 637, 785, 896, 1042, 1155
HpyF3I	CTNAG	6 cut(s)	27, 114, 195, 543, 721, 996
HpySE526I	ACGT	1 cut(s)	47
Hsp92II	CATG	4 cut(s)	478, 832, 907, 1050
Ksp22I	TGATCA	1 cut(s)	1168
Kzo9I	GATC	4 cut(s)	31, 480, 1071, 1168
Lsp1109I	GCAGC	2 cut(s)	374, 1111
LweI	GCATC	4 cut(s)	141, 624, 736, 1081
MaeI	CTAG	2 cut(s)	702, 1260
MaeII	ACGT	1 cut(s)	47
MaeIII	GTNAC	5 cut(s)	349, 441, 568, 964, 1387
MalI	GATC	4 cut(s)	33, 482, 1073, 1170
MboI	GATC	4 cut(s)	31, 480, 1071, 1168
MfeI	CAATTG	1 cut(s)	65
MflI	RGATCY	1 cut(s)	31
MluCI	AATT	7 cut(s)	65, 182, 360, 920, 1236, 1324, 1481
MlyI	GAGTC	1 cut(s)	106
MmeI	TCCRAC	1 cut(s)	676
MroXI	GAANNNNTTC	1 cut(s)	105
MseI	TTAA	8 cut(s)	206, 396, 449, 492, 684, 822, 980, 1433
MunI	CAATTG	1 cut(s)	65
Mva1269I	GAATGC	1 cut(s)	324
NdeI	CATATG	2 cut(s)	271, 1399
NdeII	GATC	4 cut(s)	31, 480, 1071, 1168
NlaIII	CATG	4 cut(s)	478, 832, 907, 1050
NlaIV	GGNNCC	2 cut(s)	80, 976
NmuCI	GTSAC	4 cut(s)	349, 441, 964, 1387
NspI	RCATGY	1 cut(s)	1050
NspV	TTCGAA	1 cut(s)	313
PctI	GAATGC	1 cut(s)	324
PdmI	GAANNNNTTC	1 cut(s)	105
PfeI	GAWTC	5 cut(s)	22, 57, 94, 948, 1148
PflFI	GACNNNGTC	1 cut(s)	1278
PkrI	GCNGC	2 cut(s)	389, 1126
PleI	GAGTC	1 cut(s)	106
PpsI	GAGTC	1 cut(s)	106
PpuMI	RGGWCCY	1 cut(s)	975
PshBI	ATTAAT	1 cut(s)	684
PsiI	TTATAA	2 cut(s)	158, 576
Psp1406I	AACGTT	1 cut(s)	47
Psp5II	RGGWCCY	1 cut(s)	975
PspN4I	GGNNCC	2 cut(s)	80, 976
PspPI	GGNCC	4 cut(s)	332, 802, 975, 1376
PspPPI	RGGWCCY	1 cut(s)	975
PstI	CTGCAG	1 cut(s)	1157
PstNI	CAGNNNCTG	2 cut(s)	335, 1478
PsuI	RGATCY	1 cut(s)	31
PsyI	GACNNNGTC	1 cut(s)	1278
RsaI	GTAC	2 cut(s)	626, 1136
RsaNI	GTAC	2 cut(s)	625, 1135
SaqAI	TTAA	8 cut(s)	206, 396, 449, 492, 684, 822, 980, 1433
SatI	GCNGC	2 cut(s)	388, 1125
Sau3AI	GATC	4 cut(s)	31, 480, 1071, 1168
Sau96I	GGNCC	4 cut(s)	332, 802, 975, 1376
SbfI	CCTGCAGG	1 cut(s)	1157
SchI	GAGTC	1 cut(s)	106
SdaI	CCTGCAGG	1 cut(s)	1157
SfaNI	GCATC	4 cut(s)	141, 624, 736, 1081
SfcI	CTRYAG	2 cut(s)	1153, 1209
SfuI	TTCGAA	1 cut(s)	313
SinI	GGWCC	3 cut(s)	802, 975, 1376
SmiI	ATTTAAAT	1 cut(s)	1434
Sse8387I	CCTGCAGG	1 cut(s)	1157
Sse9I	AATT	7 cut(s)	65, 182, 360, 920, 1236, 1324, 1481
SspI	AATATT	3 cut(s)	309, 375, 767
SspMI	CTAG	2 cut(s)	702, 1260
SwaI	ATTTAAAT	1 cut(s)	1434
TaaI	ACNGT	6 cut(s)	568, 817, 1210, 1224, 1355, 1474
TaiI	ACGT	1 cut(s)	50
TaqI	TCGA	4 cut(s)	313, 811, 1371, 1458
TasI	AATT	7 cut(s)	65, 182, 360, 920, 1236, 1324, 1481
TatI	WGTACW	1 cut(s)	624
TfiI	GAWTC	5 cut(s)	22, 57, 94, 948, 1148
Tru1I	TTAA	8 cut(s)	206, 396, 449, 492, 684, 822, 980, 1433
Tru9I	TTAA	8 cut(s)	206, 396, 449, 492, 684, 822, 980, 1433
TscAI	CASTG	2 cut(s)	540, 1479
TseFI	GTSAC	4 cut(s)	349, 441, 964, 1387
TseI	GCWGC	2 cut(s)	387, 1124
Tsp45I	GTSAC	4 cut(s)	349, 441, 964, 1387
TspDTI	ATGAA	8 cut(s)	234, 525, 861, 1281, 1332, 1353, 1383, 1422
TspRI	CASTG	2 cut(s)	540, 1479
Tth111I	GACNNNGTC	1 cut(s)	1278
VpaK11BI	GGWCC	3 cut(s)	802, 975, 1376
VspI	ATTAAT	1 cut(s)	684
XapI	RAATTY	2 cut(s)	182, 920
XceI	RCATGY	1 cut(s)	1050
XmiI	GTMKAC	1 cut(s)	866
XmnI	GAANNNNTTC	1 cut(s)	105
XspI	CTAG	2 cut(s)	702, 1260

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