Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr1

Orthogroup ID

OG0007852

Physical Location & Seq

Genomic Coordinates Forward (+)

5770568 .. 5774810

Gene Structure 4243 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw1G003160.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1230 bp

ATGGAGTCTCAGGGGAAACCCCCAACCGAGAAACAGTTTGAGATTCTGATCAGAATGCACTCTGATGCCAATAGAGGTCTTAGGGTTTATCATGTCTATGAGAAGATGAAGAAGTTTGGGGTTAAACCCAGGGTTTATTTGTACAATAGGGTAATGGATGCGTTGGTGAAAACAGGTCATTTGGATTTGGCATTGTCGGTTTACGACGATTTTCGGGGTGATGGGCTGGTGGAGGAGAGTGTGACTTTTATGATTTTGATAAAGGGGATGTGTAAATGTGGGAGAGTTGATGAAATGTTGGGGCTTTTGGATAGAATGAGGGTGAGTTTGTGTAAGCCGGACGTGTTTGCGTACACCGCAATGATAAAGGTGATGGTTTCGGAGGGGGATTTGGATGGTTGTTTGAAGGTTTGGGAGGAAATGAGGAGGGATAGAGTTGAGGCGGATGCTATGGCGTATGTGACTCTGGTTACGGGGTTGTGTAAAGGAGGGAGGGTGGAGAAGGGGTATGAGTTGTTTAGGGAGATGAAGGAGAAGGGTTTCTTGATTGATAGAGCGATTTATGGGGTGCTGGTTGAGGGGTTTGTGGAAGACAGGAAGGTTGGGGCAGCGTGTGATTTGTTGAAGGATTTGGTGGGATCAGGGTATAGAGCAGATTTGGGGATATATAATTCTCTGATCAAGGGTTTATGTGATGCTAAACGGGTTGATAAGGCTTATAAGCTTTTCCGAGTTGCAGTTCAAGAGGGTCTTGGGCCGGATTTTGCCACGGTGAATCCCATTCTGGTGTCTTATGCTGAGATGAGAAAAATGGATAACTTTTGCGAGTTGCTTGCACAGATGGAGAAATGCGGTTGTCCTGTTATTGATGATCTTTCGAAATTCTTTTCCATTGTTGCTGAAAAGGAGGATGGAGTCATGATGGCTTTGGAAGTGTTTGAAGACTTGAAAGTTAAAAATTATTCTAGTGTTGCGATCTACAATATCCTTATTGCCAGCCTCCACAAATTTGGGAAAGTGAAGAAAGCATTATCCCTCTTTGATGAGATGAAGAGTTTTGATTTCCAGCCGGATTCGTCCACTTATAGCTCTGCCATTATGTGTTATATTGAAGAAGGGGATCTCCATGAAGCTTGTGCCTGTCATAATAAGATAATTGAAATGTCTTGTGTTCCTTCTATTGCTGCCTATCGCTCTCTTGCTAAAGGGCTTTTCAATGTTGGAGATTGA

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 PPR_long

Protein Analysis

409

Amino Acids

46.02

Weight (kDa)

5.86

Isoelectric Point (pI)

31.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_long	PF17177	1 - 112	3e-08	Pentacotripeptide-repeat region of PRORP
PPR_2	PF13041	80 - 125	4e-11	PPR repeat family
PPR_1	PF12854	80 - 107	1.3e-06	PPR repeat
PPR	PF01535	81 - 107	1e-05	PPR repeat
PPR_2	PF13041	113 - 162	2.4e-11	PPR repeat family
PPR_1	PF12854	146 - 177	3.4e-07	PPR repeat
PPR_2	PF13041	149 - 196	8.1e-08	PPR repeat family
PPR	PF01535	152 - 181	2.1e-07	PPR repeat
PPR_1	PF12854	215 - 244	6.2e-08	PPR repeat
PPR_2	PF13041	221 - 259	1.1e-06	PPR repeat family
PPR_2	PF13041	323 - 366	1.5e-11	PPR repeat family
PPR	PF01535	326 - 354	1.6e-06	PPR repeat

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: OG0007852)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G20740
fragaria_vesca	FvH4_7g02120 FvH4_7g02120 FvH4_7g02120 FvH4_7g02120 FvH4_7g02120 FvH4_7g02120
malus_domestica	MD02G1297100.v1.1 MD07G1026900.v1.1
prunus_persica	Prupe.2G027000_v2.0.a1 Prupe.2G027000_v2.0.a1
pyrus_communis	pycom02g25030 pycom07g02030 pycom07g02070
rosa_chinensis	RchiOBHm_Chr1g0319391
rosa_laevigata	RLG00000030490
rosa_multiflora	Rmu_sc0005870.1_g000005
rosa_roxburghii	Rroxscaffold_4G00328510
rosa_rugosa	Rorug01G0027200
rosa_samantha	Rh1AG039500 Rh1BG036300 Rh1CG038400 Rh1DG031400
rosa_wichuraiana	Rw1G003160

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	720
AciI	CCGC	3 cut(s)	357, 443, 852
AclWI	GGATC	2 cut(s)	646, 1128
AcsI	RAATTY	2 cut(s)	881, 1007
AfaI	GTAC	2 cut(s)	143, 353
AflIII	ACRYGT	1 cut(s)	342
AgsI	TTSAA	8 cut(s)	406, 625, 743, 941, 949, 1112, 1160, 1216
AjiI	CACGTC	1 cut(s)	343
AjnI	CCWGG	1 cut(s)	128
AluBI	AGCT	3 cut(s)	724, 1089, 1133
AluI	AGCT	3 cut(s)	724, 1089, 1133
Alw26I	GTCTC	1 cut(s)	12
AlwI	GGATC	2 cut(s)	646, 1128
AoxI	GGCC	1 cut(s)	755
ApeKI	GCWGC	2 cut(s)	608, 1184
ApoI	RAATTY	2 cut(s)	881, 1007
Asp700I	GAANNNNTTC	1 cut(s)	539
AspS9I	GGNCC	1 cut(s)	755
AsuHPI	GGTGA	5 cut(s)	178, 230, 334, 382, 784
AsuII	TTCGAA	1 cut(s)	878
BbsI	GAAGAC	2 cut(s)	597, 948
BbvI	GCAGC	2 cut(s)	620, 1171
BccI	CCATC	6 cut(s)	215, 367, 389, 835, 905, 916
BcgI	CGANNNNNNTGC	2 cut(s)	815, 849
BciT130I	CCWGG	1 cut(s)	130
BclI	TGATCA	2 cut(s)	48, 678
BcoDI	GTCTC	1 cut(s)	12
BfaI	CTAG	1 cut(s)	966
BisI	GCNGC	2 cut(s)	609, 1185
BlsI	GCNGC	2 cut(s)	610, 1186
Bme1390I	CCNGG	1 cut(s)	130
BmgBI	CACGTC	1 cut(s)	343
BmgT120I	GGNCC	1 cut(s)	755
BmrFI	CCNGG	1 cut(s)	130
BmsI	GCATC	4 cut(s)	55, 148, 436, 685
BpiI	GAAGAC	2 cut(s)	597, 948
Bpu14I	TTCGAA	1 cut(s)	878
BsaBI	GATNNNNATC	1 cut(s)	47
BsaJI	CCNNGG	3 cut(s)	128, 129, 768
BsaXI	ACNNNNNCTCC	4 cut(s)	480, 491, 510, 521
Bse3DI	GCAATG	1 cut(s)	366
Bse8I	GATNNNNATC	1 cut(s)	47
BseBI	CCWGG	1 cut(s)	130
BseDI	CCNNGG	3 cut(s)	128, 129, 768
BseGI	GGATG	5 cut(s)	163, 273, 400, 451, 916
BseJI	GATNNNNATC	1 cut(s)	47
BseMI	GCAATG	1 cut(s)	366
BseMII	CTCAG	2 cut(s)	23, 789
BseRI	GAGGAG	2 cut(s)	248, 439
BseXI	GCAGC	2 cut(s)	620, 1171
BshFI	GGCC	1 cut(s)	757
BsiSI	CCGG	3 cut(s)	338, 758, 1070
BsmAI	GTCTC	1 cut(s)	12
BsmI	GAATGC	1 cut(s)	60
BsnI	GGCC	1 cut(s)	757
Bsp119I	TTCGAA	1 cut(s)	878
Bsp1407I	TGTACA	1 cut(s)	141
Bsp143I	GATC	6 cut(s)	48, 638, 678, 871, 975, 1120
BspACI	CCGC	3 cut(s)	357, 443, 852
BspANI	GGCC	1 cut(s)	757
BspCNI	CTCAG	2 cut(s)	22, 790
BspHI	TCATGA	1 cut(s)	918
BspPI	GGATC	2 cut(s)	646, 1128
BspT104I	TTCGAA	1 cut(s)	878
BsrDI	GCAATG	1 cut(s)	366
BsrGI	TGTACA	1 cut(s)	141
BssECI	CCNNGG	3 cut(s)	128, 129, 768
BssMI	GATC	6 cut(s)	48, 638, 678, 871, 975, 1120
Bst2UI	CCWGG	1 cut(s)	130
Bst4CI	ACNGT	2 cut(s)	36, 772
Bst6I	CTCTTC	1 cut(s)	1046
BstAUI	TGTACA	1 cut(s)	141
BstBI	TTCGAA	1 cut(s)	878
BstC8I	GCNNGC	2 cut(s)	834, 997
BstDEI	CTNAG	3 cut(s)	9, 80, 798
BstDSI	CCRYGG	1 cut(s)	768
BstF5I	GGATG	5 cut(s)	163, 273, 400, 451, 916
BstKTI	GATC	6 cut(s)	51, 641, 681, 874, 978, 1123
BstMAI	GTCTC	1 cut(s)	12
BstMBI	GATC	6 cut(s)	48, 638, 678, 871, 975, 1120
BstMWI	GCNNNNNNNGC	1 cut(s)	356
BstNI	CCWGG	1 cut(s)	130
BstSCI	CCNGG	1 cut(s)	128
BstV1I	GCAGC	2 cut(s)	620, 1171
BstV2I	GAAGAC	2 cut(s)	597, 948
BstX2I	RGATCY	1 cut(s)	1120
BstXI	CCANNNNNNTGG	1 cut(s)	1010
BstYI	RGATCY	1 cut(s)	1120
BsuRI	GGCC	1 cut(s)	757
BtgI	CCRYGG	1 cut(s)	768
BtrI	CACGTC	1 cut(s)	343
BtsCI	GGATG	5 cut(s)	163, 273, 400, 451, 916
Cac8I	GCNNGC	2 cut(s)	834, 997
CciI	TCATGA	1 cut(s)	918
Cfr13I	GGNCC	1 cut(s)	755
Csp6I	GTAC	2 cut(s)	142, 352
CviAII	CATG	3 cut(s)	92, 919, 1127
CviQI	GTAC	2 cut(s)	142, 352
DdeI	CTNAG	3 cut(s)	9, 80, 798
DpnI	GATC	6 cut(s)	50, 640, 680, 873, 977, 1122
DpnII	GATC	6 cut(s)	48, 638, 678, 871, 975, 1120
Eam1104I	CTCTTC	1 cut(s)	1046
EarI	CTCTTC	1 cut(s)	1046
EciI	GGCGGA	1 cut(s)	458
EcoRII	CCWGG	1 cut(s)	128
FaeI	CATG	3 cut(s)	95, 922, 1130
FalI	AAGNNNNNCTT	4 cut(s)	527, 559, 735, 767
FatI	CATG	3 cut(s)	91, 918, 1126
FbaI	TGATCA	2 cut(s)	48, 678
Fnu4HI	GCNGC	2 cut(s)	609, 1185
FokI	GGATG	5 cut(s)	170, 280, 407, 458, 923
Fsp4HI	GCNGC	2 cut(s)	609, 1185
FspBI	CTAG	1 cut(s)	966
GluI	GCNGC	2 cut(s)	609, 1185
HaeIII	GGCC	1 cut(s)	757
HapII	CCGG	3 cut(s)	338, 758, 1070
Hin1II	CATG	3 cut(s)	95, 922, 1130
HindIII	AAGCTT	2 cut(s)	722, 1131
HinfI	GANTC	6 cut(s)	5, 43, 463, 775, 915, 1073
HpaII	CCGG	3 cut(s)	338, 758, 1070
HphI	GGTGA	5 cut(s)	178, 230, 334, 382, 784
Hpy166II	GTNNAC	3 cut(s)	202, 354, 1080
Hpy188I	TCNGA	6 cut(s)	48, 53, 64, 382, 678, 731
Hpy188III	TCNNGA	3 cut(s)	544, 743, 919
Hpy8I	GTNNAC	3 cut(s)	202, 354, 1080
Hpy99I	CGWCG	1 cut(s)	209
HpyAV	CCTTC	8 cut(s)	400, 496, 523, 529, 592, 619, 1109, 1185
HpyCH4III	ACNGT	2 cut(s)	36, 772
HpyCH4IV	ACGT	1 cut(s)	342
HpyCH4V	TGCA	3 cut(s)	58, 737, 836
HpyF10VI	GCNNNNNNNGC	1 cut(s)	356
HpyF3I	CTNAG	3 cut(s)	9, 80, 798
HpySE526I	ACGT	1 cut(s)	342
Hsp92II	CATG	3 cut(s)	95, 922, 1130
Ksp22I	TGATCA	2 cut(s)	48, 678
Kzo9I	GATC	6 cut(s)	48, 638, 678, 871, 975, 1120
Lsp1109I	GCAGC	2 cut(s)	620, 1171
LweI	GCATC	4 cut(s)	55, 148, 436, 685
MaeI	CTAG	1 cut(s)	966
MaeII	ACGT	1 cut(s)	342
MaeIII	GTNAC	3 cut(s)	241, 460, 469
MalI	GATC	6 cut(s)	50, 640, 680, 873, 977, 1122
MboI	GATC	6 cut(s)	48, 638, 678, 871, 975, 1120
MboII	GAAGA	7 cut(s)	115, 121, 602, 953, 1033, 1063, 1124
MflI	RGATCY	1 cut(s)	1120
MluCI	AATT	5 cut(s)	670, 881, 958, 1007, 1155
MlyI	GAGTC	3 cut(s)	14, 457, 924
MmeI	TCCRAC	1 cut(s)	1201
MroXI	GAANNNNTTC	1 cut(s)	539
MseI	TTAA	2 cut(s)	123, 954
MslI	CAYNNNNRTG	4 cut(s)	63, 96, 359, 785
MspI	CCGG	3 cut(s)	338, 758, 1070
MspR9I	CCNGG	1 cut(s)	130
Mva1269I	GAATGC	1 cut(s)	60
MvaI	CCWGG	1 cut(s)	130
MwoI	GCNNNNNNNGC	1 cut(s)	356
NdeII	GATC	6 cut(s)	48, 638, 678, 871, 975, 1120
NlaIII	CATG	3 cut(s)	95, 922, 1130
NmuCI	GTSAC	2 cut(s)	241, 460
NspV	TTCGAA	1 cut(s)	878
PagI	TCATGA	1 cut(s)	918
PasI	CCCWGGG	1 cut(s)	129
PctI	GAATGC	1 cut(s)	60
PdmI	GAANNNNTTC	1 cut(s)	539
PfeI	GAWTC	3 cut(s)	43, 775, 1073
PkrI	GCNGC	2 cut(s)	610, 1186
PleI	GAGTC	3 cut(s)	13, 457, 923
PpsI	GAGTC	3 cut(s)	13, 457, 923
PsiI	TTATAA	1 cut(s)	720
Psp6I	CCWGG	1 cut(s)	128
PspGI	CCWGG	1 cut(s)	128
PspPI	GGNCC	1 cut(s)	755
PsuI	RGATCY	1 cut(s)	1120
RsaI	GTAC	2 cut(s)	143, 353
RsaNI	GTAC	2 cut(s)	142, 352
RseI	CAYNNNNRTG	4 cut(s)	63, 96, 359, 785
SaqAI	TTAA	2 cut(s)	123, 954
SatI	GCNGC	2 cut(s)	609, 1185
Sau3AI	GATC	6 cut(s)	48, 638, 678, 871, 975, 1120
Sau96I	GGNCC	1 cut(s)	755
SchI	GAGTC	3 cut(s)	14, 457, 924
ScrFI	CCNGG	1 cut(s)	130
SetI	ASST	9 cut(s)	79, 178, 345, 372, 411, 603, 726, 1091, 1135
SfaNI	GCATC	4 cut(s)	55, 148, 436, 685
SfuI	TTCGAA	1 cut(s)	878
SmiMI	CAYNNNNRTG	4 cut(s)	63, 96, 359, 785
Sse9I	AATT	5 cut(s)	670, 881, 958, 1007, 1155
SsiI	CCGC	3 cut(s)	357, 443, 852
SspMI	CTAG	1 cut(s)	966
StyD4I	CCNGG	1 cut(s)	128
TaaI	ACNGT	2 cut(s)	36, 772
TaiI	ACGT	1 cut(s)	345
TaqI	TCGA	1 cut(s)	878
TasI	AATT	5 cut(s)	670, 881, 958, 1007, 1155
TatI	WGTACW	1 cut(s)	141
TfiI	GAWTC	3 cut(s)	43, 775, 1073
Tru1I	TTAA	2 cut(s)	123, 954
Tru9I	TTAA	2 cut(s)	123, 954
TseFI	GTSAC	2 cut(s)	241, 460
TseI	GCWGC	2 cut(s)	608, 1184
Tsp45I	GTSAC	2 cut(s)	241, 460
TspDTI	ATGAA	5 cut(s)	122, 306, 542, 1064, 1143
XapI	RAATTY	2 cut(s)	881, 1007
XmnI	GAANNNNTTC	1 cut(s)	539
XspI	CTAG	1 cut(s)	966

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