Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr6

Orthogroup ID

OG0012429

Physical Location & Seq

Genomic Coordinates Forward (+)

43826136 .. 43827085

Gene Structure 950 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw6G022130.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 921 bp

ATGCCATCGTTTACGAAGCACATCTTCTCCACAATTTCCAACCCTATTGGCCATTCATCTCAGGCCTCCATTTCTGCTAGCTCGTTGATTAAACTACGTCGTTTTAGCTCCGGTACTGATCGTGGCCGTGAAATGGAAGCGCCGGAGAAACAACCGCCGGAGCCGATACCCAATAGGCCCTTAAGAGGGCAGAGACCATCGAATCCCCGGACCAATGCTGATAGAAGGAGAGAGAGCCATCCCAATTTAGAAAGGAGGAGGGAGAACCCTAATCCGCCATTGCAGGACAGCAGTTTTCTTGAAAAGCTCAAGATGGGTCTTGACAACGGAGGAGCGCCGCCGCAGCAGCAGCCGCCGGAGGAGGCCAATGAGATATTCAAGAAGATGAAGGAGACGGGTCTGATTCCCAATGCAGTGGCCATGCTTGATGGGCTCTGCAAAGATGGGCTGGTCCAGGAGGCAATGAAGCTTTTCGGGTCGATGCGCGAAAAGGGTACTATTCCTGAGGTGGTGATATACACTGCTGTGGTGGAAGGGTTTTGCAAAGCCCAGAAGCCTGAAGATGCTAAGAGGATTTTCAGGAAGATGCAGGGCAATGGGATTGTTCCGAATGCGTTTAGTTACAATGTGTTGGTGCAGGGGTTGTGTAGGTGTGATAAGCTGGAGGATGCTGCTGAGTTCTGTGGTGAAATGTTGGAAGCCGGTCACTCGCCGAATGTGACTACTTTTGTGGGGCTAGTTGATGGGGTATGCAAGGAAAGTGGCGTGGAAGAAGCTGGAAGTGTGATTGGGAAGTTGAAGCAGAAGGGATATATGGTTAATGAGAAGGCTGTTAGAGAGTTTTTGGATAAAAGGGCAACGTTTTCGCCAGTGGTTTGGGAAGCTATCTTTGGGAAGAACCACCCAAAGAAACCTTTTTGA

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_1 PPR_2

Protein Analysis

306

Amino Acids

33.9

Weight (kDa)

9.05

Isoelectric Point (pI)

49.61

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR	PF01535	140 - 165	1.2e-06	PPR repeat
PPR_3	PF13812	157 - 212	1.1e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	167 - 197	2.3e-06	PPR repeat
PPR_2	PF13041	168 - 217	7.8e-15	PPR repeat family
PPR	PF01535	171 - 201	3.7e-06	PPR repeat
PPR_3	PF13812	191 - 244	6.5e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	199 - 231	5.5e-09	PPR repeat
PPR_2	PF13041	203 - 252	3.5e-12	PPR repeat family

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: OG0012429)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G38150 AT4G38150 AT4G38150
fragaria_vesca	FvH4_2g17180
malus_domestica	MD05G1145100.v1.1
prunus_persica	Prupe.8G183200_v2.0.a1
pyrus_communis	pycom05g14030 pycom07g10800 pycom10g12460
rosa_chinensis	RchiOBHm_Chr6g0281671
rosa_laevigata	RLG00000012952
rosa_multiflora	Rmu_co8238379.1_g000001 Rmu_sc0019758.1_g000001
rosa_rugosa	Rorug06G0142300
rosa_samantha	Rh6AG255000 Rh6BG258400 Rh6CG257200 Rh6DG249400
rosa_wichuraiana	Rw6G022130

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	486
AciI	CCGC	5 cut(s)	155, 275, 338, 341, 353
AclI	AACGTT	1 cut(s)	860
AcoI	YGGCCR	3 cut(s)	49, 124, 417
AcuI	CTGAAG	1 cut(s)	579
AfaI	GTAC	2 cut(s)	115, 496
AfiI	CCNNNNNNNGG	3 cut(s)	133, 185, 186
AflII	CTTAAG	1 cut(s)	181
AgsI	TTSAA	3 cut(s)	302, 379, 799
AjnI	CCWGG	1 cut(s)	453
AjuI	GAANNNNNNNTTGG	4 cut(s)	359, 391, 873, 905
AleI	CACNNNNGTG	1 cut(s)	524
AluBI	AGCT	7 cut(s)	81, 108, 307, 469, 661, 776, 884
AluI	AGCT	7 cut(s)	81, 108, 307, 469, 661, 776, 884
Alw26I	GTCTC	2 cut(s)	187, 386
AoxI	GGCC	6 cut(s)	49, 63, 124, 176, 363, 417
ApeKI	GCWGC	4 cut(s)	343, 346, 349, 671
Asp700I	GAANNNNTTC	1 cut(s)	470
AspLEI	GCGC	3 cut(s)	142, 337, 486
AspS9I	GGNCC	3 cut(s)	177, 210, 451
AsuC2I	CCSGG	1 cut(s)	208
AsuHPI	GGTGA	2 cut(s)	523, 698
AsuNHI	GCTAGC	1 cut(s)	77
AvaII	GGWCC	2 cut(s)	210, 451
AxyI	CCTNAGG	1 cut(s)	504
BalI	TGGCCA	2 cut(s)	51, 419
BanII	GRGCYC	1 cut(s)	435
BbvI	GCAGC	4 cut(s)	355, 358, 361, 658
BccI	CCATC	7 cut(s)	13, 205, 246, 307, 422, 437, 737
BceAI	ACGGC	1 cut(s)	111
BcgI	CGANNNNNNTGC	2 cut(s)	846, 880
BciT130I	CCWGG	1 cut(s)	455
BcnI	CCSGG	1 cut(s)	208
BcoDI	GTCTC	2 cut(s)	187, 386
BfaI	CTAG	2 cut(s)	78, 737
BfoI	RGCGCY	2 cut(s)	143, 338
BfrI	CTTAAG	1 cut(s)	181
BisI	GCNGC	7 cut(s)	338, 341, 344, 347, 350, 353, 672
BlsI	GCNGC	7 cut(s)	339, 342, 345, 348, 351, 354, 673
Bme1390I	CCNGG	2 cut(s)	208, 455
Bme18I	GGWCC	2 cut(s)	210, 451
BmgT120I	GGNCC	3 cut(s)	177, 210, 451
BmiI	GGNNCC	1 cut(s)	162
BmrFI	CCNGG	2 cut(s)	208, 455
BmsI	GCATC	4 cut(s)	471, 553, 576, 658
BmtI	GCTAGC	1 cut(s)	81
BpmI	CTGGAG	1 cut(s)	683
BpuEI	CTTGAG	1 cut(s)	293
BpuMI	CCSGG	1 cut(s)	208
BsaI	GGTCTC	1 cut(s)	187
BsaJI	CCNNGG	1 cut(s)	206
BsaWI	WCCGGW	1 cut(s)	110
BsaXI	ACNNNNNCTCC	2 cut(s)	11, 41
Bsc4I	CCNNNNNNNGG	3 cut(s)	133, 185, 186
Bse118I	RCCGGY	1 cut(s)	701
Bse1I	ACTGG	1 cut(s)	869
Bse21I	CCTNAGG	1 cut(s)	504
Bse3DI	GCAATG	3 cut(s)	278, 468, 601
BseBI	CCWGG	1 cut(s)	455
BseDI	CCNNGG	1 cut(s)	206
BseGI	GGATG	2 cut(s)	238, 673
BseLI	CCNNNNNNNGG	3 cut(s)	133, 185, 186
BseMI	GCAATG	3 cut(s)	278, 468, 601
BseMII	CTCAG	3 cut(s)	74, 495, 666
BseNI	ACTGG	1 cut(s)	869
BseRI	GAGGAG	3 cut(s)	271, 345, 374
BseXI	GCAGC	4 cut(s)	355, 358, 361, 658
BsgI	GTGCAG	1 cut(s)	656
Bsh1236I	CGCG	1 cut(s)	486
BshFI	GGCC	6 cut(s)	51, 65, 126, 178, 365, 419
BsiSI	CCGG	6 cut(s)	111, 143, 158, 208, 356, 702
BslI	CCNNNNNNNGG	3 cut(s)	133, 185, 186
BsmAI	GTCTC	2 cut(s)	187, 386
BsmBI	CGTCTC	1 cut(s)	386
BsmI	GAATGC	1 cut(s)	616
BsnI	GGCC	6 cut(s)	51, 65, 126, 178, 365, 419
Bso31I	GGTCTC	1 cut(s)	187
Bsp1286I	GDGCHC	1 cut(s)	435
Bsp143I	GATC	1 cut(s)	118
BspACI	CCGC	5 cut(s)	155, 275, 338, 341, 353
BspANI	GGCC	6 cut(s)	51, 65, 126, 178, 365, 419
BspCNI	CTCAG	3 cut(s)	73, 496, 667
BspFNI	CGCG	1 cut(s)	486
BspLI	GGNNCC	1 cut(s)	162
BspOI	GCTAGC	1 cut(s)	81
BspTI	CTTAAG	1 cut(s)	181
BspTNI	GGTCTC	1 cut(s)	187
BsrDI	GCAATG	3 cut(s)	278, 468, 601
BsrFI	RCCGGY	1 cut(s)	701
BsrI	ACTGG	1 cut(s)	869
BssAI	RCCGGY	1 cut(s)	701
BssECI	CCNNGG	1 cut(s)	206
BssMI	GATC	1 cut(s)	118
Bst2UI	CCWGG	1 cut(s)	455
BstAFI	CTTAAG	1 cut(s)	181
BstC8I	GCNNGC	1 cut(s)	79
BstDEI	CTNAG	4 cut(s)	60, 504, 567, 675
BstF5I	GGATG	2 cut(s)	238, 673
BstFNI	CGCG	1 cut(s)	486
BstH2I	RGCGCY	2 cut(s)	143, 338
BstHHI	GCGC	3 cut(s)	142, 337, 486
BstKTI	GATC	1 cut(s)	121
BstMAI	GTCTC	2 cut(s)	187, 386
BstMBI	GATC	1 cut(s)	118
BstMWI	GCNNNNNNNGC	5 cut(s)	343, 346, 349, 352, 430
BstNI	CCWGG	1 cut(s)	455
BstSCI	CCNGG	2 cut(s)	206, 453
BstUI	CGCG	1 cut(s)	486
BstV1I	GCAGC	4 cut(s)	355, 358, 361, 658
BstXI	CCANNNNNNTGG	2 cut(s)	415, 876
Bsu36I	CCTNAGG	1 cut(s)	504
BsuRI	GGCC	6 cut(s)	51, 65, 126, 178, 365, 419
BtsCI	GGATG	2 cut(s)	238, 673
BtsI	GCAGTG	2 cut(s)	420, 519
BtsIMutI	CAGTG	3 cut(s)	420, 519, 876
Cac8I	GCNNGC	1 cut(s)	79
CfoI	GCGC	3 cut(s)	142, 337, 486
Cfr10I	RCCGGY	1 cut(s)	701
Cfr13I	GGNCC	3 cut(s)	177, 210, 451
Csp6I	GTAC	2 cut(s)	114, 495
CspCI	CAANNNNNGTGG	2 cut(s)	742, 777
CviAII	CATG	1 cut(s)	421
CviQI	GTAC	2 cut(s)	114, 495
DdeI	CTNAG	4 cut(s)	60, 504, 567, 675
DpnI	GATC	1 cut(s)	120
DpnII	GATC	1 cut(s)	118
EaeI	YGGCCR	3 cut(s)	49, 124, 417
EciI	GGCGGA	1 cut(s)	264
Eco147I	AGGCCT	1 cut(s)	65
Eco24I	GRGCYC	1 cut(s)	435
Eco31I	GGTCTC	1 cut(s)	187
Eco47I	GGWCC	2 cut(s)	210, 451
Eco57I	CTGAAG	1 cut(s)	579
Eco81I	CCTNAGG	1 cut(s)	504
EcoO109I	RGGNCCY	1 cut(s)	177
EcoRII	CCWGG	1 cut(s)	453
EcoT38I	GRGCYC	1 cut(s)	435
Esp3I	CGTCTC	1 cut(s)	386
FaeI	CATG	1 cut(s)	424
FaiI	YATR	5 cut(s)	422, 517, 751, 813, 815
FalI	AAGNNNNNCTT	2 cut(s)	8, 40
FatI	CATG	1 cut(s)	420
Fnu4HI	GCNGC	7 cut(s)	338, 341, 344, 347, 350, 353, 672
FokI	GGATG	2 cut(s)	225, 680
FriOI	GRGCYC	1 cut(s)	435
Fsp4HI	GCNGC	7 cut(s)	338, 341, 344, 347, 350, 353, 672
FspBI	CTAG	2 cut(s)	78, 737
GlaI	GCGC	3 cut(s)	141, 336, 485
GluI	GCNGC	7 cut(s)	338, 341, 344, 347, 350, 353, 672
GsuI	CTGGAG	1 cut(s)	683
HaeII	RGCGCY	2 cut(s)	143, 338
HaeIII	GGCC	6 cut(s)	51, 65, 126, 178, 365, 419
HapII	CCGG	6 cut(s)	111, 143, 158, 208, 356, 702
HhaI	GCGC	3 cut(s)	142, 337, 486
Hin1II	CATG	1 cut(s)	424
Hin6I	GCGC	3 cut(s)	140, 335, 484
HinP1I	GCGC	3 cut(s)	140, 335, 484
HindIII	AAGCTT	1 cut(s)	467
HinfI	GANTC	2 cut(s)	202, 403
HpaII	CCGG	6 cut(s)	111, 143, 158, 208, 356, 702
HphI	GGTGA	2 cut(s)	523, 698
Hpy166II	GTNNAC	1 cut(s)	12
Hpy188I	TCNGA	2 cut(s)	402, 609
Hpy188III	TCNNGA	6 cut(s)	299, 310, 320, 379, 503, 580
Hpy8I	GTNNAC	1 cut(s)	12
Hpy99I	CGWCG	1 cut(s)	102
HpyAV	CCTTC	5 cut(s)	219, 382, 527, 799, 820
HpyCH4IV	ACGT	2 cut(s)	97, 860
HpyCH4V	TGCA	7 cut(s)	283, 413, 438, 543, 589, 637, 753
HpyF10VI	GCNNNNNNNGC	5 cut(s)	343, 346, 349, 352, 430
HpyF3I	CTNAG	4 cut(s)	60, 504, 567, 675
HpySE526I	ACGT	2 cut(s)	97, 860
Hsp92II	CATG	1 cut(s)	424
HspAI	GCGC	3 cut(s)	140, 335, 484
Kzo9I	GATC	1 cut(s)	118
LmnI	GCTCC	3 cut(s)	113, 160, 332
Lsp1109I	GCAGC	4 cut(s)	355, 358, 361, 658
LweI	GCATC	4 cut(s)	471, 553, 576, 658
MaeI	CTAG	2 cut(s)	78, 737
MaeII	ACGT	2 cut(s)	97, 860
MaeIII	GTNAC	3 cut(s)	620, 704, 718
MalI	GATC	1 cut(s)	120
MboI	GATC	1 cut(s)	118
MboII	GAAGA	6 cut(s)	16, 394, 572, 595, 782, 907
MhlI	GDGCHC	1 cut(s)	435
MlsI	TGGCCA	2 cut(s)	51, 419
MluCI	AATT	2 cut(s)	33, 244
MluNI	TGGCCA	2 cut(s)	51, 419
MmeI	TCCRAC	2 cut(s)	63, 675
Mox20I	TGGCCA	2 cut(s)	51, 419
MroXI	GAANNNNTTC	1 cut(s)	470
MscI	TGGCCA	2 cut(s)	51, 419
MseI	TTAA	3 cut(s)	90, 182, 819
MslI	CAYNNNNRTG	1 cut(s)	524
Msp20I	TGGCCA	2 cut(s)	51, 419
MspCI	CTTAAG	1 cut(s)	181
MspI	CCGG	6 cut(s)	111, 143, 158, 208, 356, 702
MspR9I	CCNGG	2 cut(s)	208, 455
Mva1269I	GAATGC	1 cut(s)	616
MvaI	CCWGG	1 cut(s)	455
MvnI	CGCG	1 cut(s)	486
MwoI	GCNNNNNNNGC	5 cut(s)	343, 346, 349, 352, 430
NciI	CCSGG	1 cut(s)	208
NdeII	GATC	1 cut(s)	118
NheI	GCTAGC	1 cut(s)	77
NlaIII	CATG	1 cut(s)	424
NlaIV	GGNNCC	1 cut(s)	162
NmuCI	GTSAC	2 cut(s)	704, 718
OliI	CACNNNNGTG	1 cut(s)	524
PceI	AGGCCT	1 cut(s)	65
PctI	GAATGC	1 cut(s)	616
PdmI	GAANNNNTTC	1 cut(s)	470
PfeI	GAWTC	2 cut(s)	202, 403
PfoI	TCCNGGA	1 cut(s)	453
PkrI	GCNGC	7 cut(s)	339, 342, 345, 348, 351, 354, 673
Psp1406I	AACGTT	1 cut(s)	860
Psp6I	CCWGG	1 cut(s)	453
PspGI	CCWGG	1 cut(s)	453
PspN4I	GGNNCC	1 cut(s)	162
PspPI	GGNCC	3 cut(s)	177, 210, 451
RsaI	GTAC	2 cut(s)	115, 496
RsaNI	GTAC	2 cut(s)	114, 495
RseI	CAYNNNNRTG	1 cut(s)	524
SaqAI	TTAA	3 cut(s)	90, 182, 819
SatI	GCNGC	7 cut(s)	338, 341, 344, 347, 350, 353, 672
Sau3AI	GATC	1 cut(s)	118
Sau96I	GGNCC	3 cut(s)	177, 210, 451
ScrFI	CCNGG	2 cut(s)	208, 455
SduI	GDGCHC	1 cut(s)	435
SfaNI	GCATC	4 cut(s)	471, 553, 576, 658
SinI	GGWCC	2 cut(s)	210, 451
SmiMI	CAYNNNNRTG	1 cut(s)	524
SmlI	CTYRAG	2 cut(s)	181, 308
SmoI	CTYRAG	2 cut(s)	181, 308
Sse9I	AATT	2 cut(s)	33, 244
SseBI	AGGCCT	1 cut(s)	65
SsiI	CCGC	5 cut(s)	155, 275, 338, 341, 353
SspMI	CTAG	2 cut(s)	78, 737
StuI	AGGCCT	1 cut(s)	65
StyD4I	CCNGG	2 cut(s)	206, 453
TaiI	ACGT	2 cut(s)	100, 863
TaqI	TCGA	2 cut(s)	200, 479
TasI	AATT	2 cut(s)	33, 244
TauI	GCSGC	3 cut(s)	340, 343, 355
TfiI	GAWTC	2 cut(s)	202, 403
Tru1I	TTAA	3 cut(s)	90, 182, 819
Tru9I	TTAA	3 cut(s)	90, 182, 819
TscAI	CASTG	3 cut(s)	420, 526, 876
TseFI	GTSAC	2 cut(s)	704, 718
TseI	GCWGC	4 cut(s)	343, 346, 349, 671
Tsp45I	GTSAC	2 cut(s)	704, 718
TspDTI	ATGAA	3 cut(s)	45, 401, 479
TspGWI	ACGGA	1 cut(s)	342
TspRI	CASTG	3 cut(s)	420, 526, 876
Vha464I	CTTAAG	1 cut(s)	181
VpaK11BI	GGWCC	2 cut(s)	210, 451
XmnI	GAANNNNTTC	1 cut(s)	470
XspI	CTAG	2 cut(s)	78, 737

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