Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0004880

Physical Location & Seq

Genomic Coordinates Forward (+)

49794998 .. 49797424

Gene Structure 2427 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00368020.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1119 bp

ATGGCGGGTAAGGGAATAGACCCTAATGTCATTACATACTCGACGATTATTAGTTCTTTTTCTGATATGAGGAATGTTGAGTCTGTTCTTGCAGTTTTGGCGAAAATGTTTGTGAGGGGATGTAGGCCTAACATTCACACCTTTACTTCCTTGATGAAGGGTTATTTTATGGAAGGCAGAGTTAGTGAAGCTCTAGACTTGTGGAACCGCATGGTTCGTGAGGGATTTGGGCCCAATGTTGTTACATATACAATTGTTATACATGGTCTCTGCTCTGTTGGGAATATGCACGAAGCTGTATCTGTTTTACATGAGATTGAGAGAAAAGGTTGCTCTCCAAATCACGTCACTCTTATTGCAAAACCTGGCAACCTTGTTGGTGCATCTGAGACTTGGAACAATATGATGGCCCGCGGTTGCTGTCCTAATGTCATAGCATATACCTGTATGGTGGATGTTCTGTGCAGGAAACATATGTTTAATCGAGCTCAATGTCTTGTAGAAAATATGACGGCCAAAGGCTGTCCACCAAATACAGTTACGTTTAACACATTTATCAAAGGGTTGTGTGAAGATGGAGAAGTAGATTGGGCTGTTAAGGTGCTCAACAAGATGAGAGAAAATGGGTGTTTGCCCAACATTACGACATATAATGAGTTATTGGATGGTCTGTTCAAGGTGAACAGATTCGAAGAAGCATTTGGACTTGTCAGGGAGATGGATGAAAAGGGACTGAAAATGAATTTGGTAACATACAACACCATTTTGAATGGTTTTTGTCGCGCCGGGATGACCAACGAGGCTATGCAAATTGGTTACGGCAGCAGAAATTACTGGTTTAAGGGAAAAAGTCAAGGAAATCATATTGTTGCGCCTGGTAACAGGTCACTGGAACCAGACTTGGGTGAGCCAGGGAAAATTGTCAAAAAGCTGTTACAGCCTCAGGTCTATCTCAAATTGATCAATCTGGATGTTGAGAAAGACGAAACTCTGACAATGCAATTGTTGGCTGTGGCAGATTTGTCCCTTGCATCCAAAGTGGAGGAGATTAATGTCCTAATCTCCCCTGATTTACAGGTCAGGAAAATTGGGTACTATGGTTGTGCTCAAACTGATTAA

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 PPR_3 PPR_long

Protein Analysis

372

Amino Acids

41.4

Weight (kDa)

7.49

Isoelectric Point (pI)

25.06

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	1 - 55	3.3e-09	Pentatricopeptide repeat domain
PPR_2	PF13041	8 - 55	2e-11	PPR repeat family
PPR_1	PF12854	39 - 72	3e-08	PPR repeat
PPR_2	PF13041	47 - 91	8.4e-16	PPR repeat family
PPR	PF01535	47 - 76	2e-07	PPR repeat
PPR_3	PF13812	69 - 117	1.5e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	75 - 106	1.2e-10	PPR repeat
PPR_2	PF13041	78 - 117	1.4e-12	PPR repeat family
PPR	PF01535	81 - 111	1.1e-07	PPR repeat
PPR_long	PF17177	124 - 221	2.3e-08	Pentacotripeptide-repeat region of PRORP
PPR_1	PF12854	138 - 170	5.5e-06	PPR repeat
PPR_2	PF13041	142 - 190	1.9e-14	PPR repeat family
TPR_24	PF23276	157 - 271	5.9e-08	Fungal tetratrico peptide repeats
PPR_3	PF13812	166 - 221	1.5e-11	Pentatricopeptide repeat domain
PPR_1	PF12854	173 - 206	1.2e-14	PPR repeat
PPR_2	PF13041	177 - 226	2.5e-16	PPR repeat family
PPR	PF01535	180 - 210	1.6e-07	PPR repeat
PPR_1	PF12854	208 - 240	6.2e-08	PPR repeat
PPR_2	PF13041	212 - 261	1.8e-16	PPR repeat family
PPR_1	PF12854	243 - 270	8.9e-11	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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Orthologous Genes (Group: OG0004880)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr2g0127211 RchiOBHm_Chr2g0139521 RchiOBHm_Chr4g0426021 RchiOBHm_Chr7g0215691
rosa_laevigata	RLG00000013555 RLG00000022625 RLG00000025917 RLG00000026011 RLG00000031338 RLG00000035292
rosa_roxburghii	Rroxscaffold_1G00061270 Rroxscaffold_2G00080310 Rroxscaffold_5G00368020 Rroxscaffold_7G00185710 Rroxscaffold_7G00209630
rosa_rugosa	Rorug05G0481000 Rorug06G0001200
rosa_samantha	Rh2BG287200 Rh3CG326000 Rh4DG038400 Rh4DG214600 Rh5AG514800 Rh6BG109200 Rh6BG184600 Rh6BG190000 Rh6CG109500 Rh6CG109600 Rh6CG262000 Rh6DG099200 Rh7BG146700 Rh7CG407100

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	26
AccII	CGCG	2 cut(s)	414, 783
AciI	CCGC	4 cut(s)	5, 208, 412, 414
AcoI	YGGCCR	1 cut(s)	513
AcsI	RAATTY	1 cut(s)	742
AfaI	GTAC	1 cut(s)	1094
AfiI	CCNNNNNNNGG	1 cut(s)	902
AgsI	TTSAA	2 cut(s)	676, 769
AjiI	CACGTC	1 cut(s)	346
AjnI	CCWGG	3 cut(s)	364, 874, 910
AjuI	GAANNNNNNNTTGG	4 cut(s)	684, 716, 728, 760
AloI	GAACNNNNNNTCC	2 cut(s)	656, 688
AluBI	AGCT	4 cut(s)	191, 296, 488, 931
AluI	AGCT	4 cut(s)	191, 296, 488, 931
Alw21I	GWGCWC	3 cut(s)	490, 606, 1108
Alw26I	GTCTC	2 cut(s)	272, 383
AoxI	GGCC	4 cut(s)	125, 230, 408, 513
ApaI	GGGCCC	1 cut(s)	234
ApeKI	GCWGC	1 cut(s)	822
ApoI	RAATTY	1 cut(s)	742
AseI	ATTAAT	1 cut(s)	1050
Asp700I	GAANNNNTTC	1 cut(s)	686
AspLEI	GCGC	2 cut(s)	785, 874
AspS9I	GGNCC	3 cut(s)	230, 231, 409
AsuC2I	CCSGG	1 cut(s)	787
AsuHPI	GGTGA	2 cut(s)	691, 917
AsuII	TTCGAA	1 cut(s)	690
AxyI	CCTNAGG	1 cut(s)	942
BaeGI	GKGCMC	1 cut(s)	234
BaeI	ACNNNNGTAYC	2 cut(s)	1084, 1117
BanII	GRGCYC	2 cut(s)	234, 490
Bbv12I	GWGCWC	3 cut(s)	490, 606, 1108
BbvI	GCAGC	1 cut(s)	834
BccI	CCATC	4 cut(s)	400, 569, 659, 712
BceAI	ACGGC	2 cut(s)	528, 835
BciT130I	CCWGG	3 cut(s)	366, 876, 912
BclI	TGATCA	1 cut(s)	960
BcnI	CCSGG	1 cut(s)	787
BcoDI	GTCTC	2 cut(s)	272, 383
BfaI	CTAG	1 cut(s)	194
BisI	GCNGC	1 cut(s)	823
BlsI	GCNGC	1 cut(s)	824
Bme1390I	CCNGG	4 cut(s)	366, 787, 876, 912
BmgBI	CACGTC	1 cut(s)	346
BmgT120I	GGNCC	3 cut(s)	230, 231, 409
BmiI	GGNNCC	3 cut(s)	206, 232, 894
BmrFI	CCNGG	4 cut(s)	366, 787, 876, 912
BmsI	GCATC	2 cut(s)	392, 1040
Bpu14I	TTCGAA	1 cut(s)	690
BpuMI	CCSGG	1 cut(s)	787
BsaI	GGTCTC	1 cut(s)	272
BsaJI	CCNNGG	2 cut(s)	412, 911
Bsc4I	CCNNNNNNNGG	1 cut(s)	902
Bse1I	ACTGG	2 cut(s)	839, 894
Bse21I	CCTNAGG	1 cut(s)	942
BseBI	CCWGG	3 cut(s)	366, 876, 912
BseDI	CCNNGG	2 cut(s)	412, 911
BseGI	GGATG	7 cut(s)	125, 460, 670, 727, 795, 976, 1031
BseLI	CCNNNNNNNGG	1 cut(s)	902
BseMII	CTCAG	2 cut(s)	378, 956
BseNI	ACTGG	2 cut(s)	839, 894
BseRI	GAGGAG	1 cut(s)	1058
BseSI	GKGCMC	1 cut(s)	234
BseXI	GCAGC	1 cut(s)	834
BsgI	GTGCAG	1 cut(s)	484
Bsh1236I	CGCG	2 cut(s)	414, 783
BshFI	GGCC	4 cut(s)	127, 232, 410, 515
BsiHKAI	GWGCWC	3 cut(s)	490, 606, 1108
BsiSI	CCGG	1 cut(s)	786
BslFI	GGGAC	2 cut(s)	744, 1009
BslI	CCNNNNNNNGG	1 cut(s)	902
BsmAI	GTCTC	2 cut(s)	272, 383
BsmFI	GGGAC	2 cut(s)	744, 1009
BsnI	GGCC	4 cut(s)	127, 232, 410, 515
Bso31I	GGTCTC	1 cut(s)	272
Bsp119I	TTCGAA	1 cut(s)	690
Bsp120I	GGGCCC	1 cut(s)	230
Bsp1286I	GDGCHC	4 cut(s)	234, 490, 606, 1108
Bsp143I	GATC	1 cut(s)	960
BspACI	CCGC	4 cut(s)	5, 208, 412, 414
BspANI	GGCC	4 cut(s)	127, 232, 410, 515
BspCNI	CTCAG	2 cut(s)	379, 955
BspFNI	CGCG	2 cut(s)	414, 783
BspLI	GGNNCC	3 cut(s)	206, 232, 894
BspT104I	TTCGAA	1 cut(s)	690
BspTNI	GGTCTC	1 cut(s)	272
BsrI	ACTGG	2 cut(s)	839, 894
BssECI	CCNNGG	2 cut(s)	412, 911
BssMI	GATC	1 cut(s)	960
Bst2UI	CCWGG	3 cut(s)	366, 876, 912
Bst4CI	ACNGT	1 cut(s)	538
BstBI	TTCGAA	1 cut(s)	690
BstC8I	GCNNGC	1 cut(s)	412
BstDEI	CTNAG	2 cut(s)	387, 942
BstDSI	CCRYGG	1 cut(s)	412
BstF5I	GGATG	7 cut(s)	125, 460, 670, 727, 795, 976, 1031
BstFNI	CGCG	2 cut(s)	414, 783
BstHHI	GCGC	2 cut(s)	785, 874
BstKTI	GATC	1 cut(s)	963
BstMAI	GTCTC	2 cut(s)	272, 383
BstMBI	GATC	1 cut(s)	960
BstMWI	GCNNNNNNNGC	2 cut(s)	98, 937
BstNI	CCWGG	3 cut(s)	366, 876, 912
BstSCI	CCNGG	4 cut(s)	364, 785, 874, 910
BstSLI	GKGCMC	1 cut(s)	234
BstUI	CGCG	2 cut(s)	414, 783
BstV1I	GCAGC	1 cut(s)	834
Bsu36I	CCTNAGG	1 cut(s)	942
BsuRI	GGCC	4 cut(s)	127, 232, 410, 515
BtgI	CCRYGG	1 cut(s)	412
BtrI	CACGTC	1 cut(s)	346
BtsCI	GGATG	7 cut(s)	125, 460, 670, 727, 795, 976, 1031
BtsIMutI	CAGTG	1 cut(s)	887
Cac8I	GCNNGC	1 cut(s)	412
CfoI	GCGC	2 cut(s)	785, 874
Cfr13I	GGNCC	3 cut(s)	230, 231, 409
Cfr42I	CCGCGG	1 cut(s)	415
Csp6I	GTAC	1 cut(s)	1093
CviAII	CATG	3 cut(s)	211, 263, 311
CviQI	GTAC	1 cut(s)	1093
DdeI	CTNAG	2 cut(s)	387, 942
DpnI	GATC	1 cut(s)	962
DpnII	GATC	1 cut(s)	960
DrdI	GACNNNNNNGTC	1 cut(s)	26
DseDI	GACNNNNNNGTC	1 cut(s)	26
EaeI	YGGCCR	1 cut(s)	513
Ecl136II	GAGCTC	1 cut(s)	488
Eco147I	AGGCCT	1 cut(s)	127
Eco24I	GRGCYC	2 cut(s)	234, 490
Eco31I	GGTCTC	1 cut(s)	272
Eco53kI	GAGCTC	1 cut(s)	488
Eco81I	CCTNAGG	1 cut(s)	942
EcoICRI	GAGCTC	1 cut(s)	488
EcoRII	CCWGG	3 cut(s)	364, 874, 910
EcoT38I	GRGCYC	2 cut(s)	234, 490
FaeI	CATG	3 cut(s)	214, 266, 314
FaqI	GGGAC	2 cut(s)	744, 1009
FatI	CATG	3 cut(s)	210, 262, 310
FauI	CCCGC	1 cut(s)	419
FauNDI	CATATG	1 cut(s)	474
FbaI	TGATCA	1 cut(s)	960
Fnu4HI	GCNGC	1 cut(s)	823
FokI	GGATG	7 cut(s)	132, 467, 677, 734, 802, 983, 1018
FriOI	GRGCYC	2 cut(s)	234, 490
Fsp4HI	GCNGC	1 cut(s)	823
FspBI	CTAG	1 cut(s)	194
GlaI	GCGC	2 cut(s)	784, 873
GluI	GCNGC	1 cut(s)	823
HaeIII	GGCC	4 cut(s)	127, 232, 410, 515
HapII	CCGG	1 cut(s)	786
HhaI	GCGC	2 cut(s)	785, 874
Hin1II	CATG	3 cut(s)	214, 266, 314
Hin6I	GCGC	2 cut(s)	783, 872
HinP1I	GCGC	2 cut(s)	783, 872
HinfI	GANTC	2 cut(s)	80, 687
HpaII	CCGG	1 cut(s)	786
HphI	GGTGA	2 cut(s)	691, 917
Hpy166II	GTNNAC	2 cut(s)	527, 682
Hpy188I	TCNGA	3 cut(s)	64, 388, 993
Hpy188III	TCNNGA	4 cut(s)	194, 218, 968, 1081
Hpy8I	GTNNAC	2 cut(s)	527, 682
Hpy99I	CGWCG	1 cut(s)	46
HpyAV	CCTTC	2 cut(s)	151, 167
HpyCH4III	ACNGT	1 cut(s)	538
HpyCH4IV	ACGT	2 cut(s)	345, 542
HpyCH4V	TGCA	8 cut(s)	92, 289, 359, 383, 465, 808, 1000, 1031
HpyF10VI	GCNNNNNNNGC	2 cut(s)	98, 937
HpyF3I	CTNAG	2 cut(s)	387, 942
HpySE526I	ACGT	2 cut(s)	345, 542
Hsp92II	CATG	3 cut(s)	214, 266, 314
HspAI	GCGC	2 cut(s)	783, 872
Ksp22I	TGATCA	1 cut(s)	960
KspI	CCGCGG	1 cut(s)	415
Kzo9I	GATC	1 cut(s)	960
Lsp1109I	GCAGC	1 cut(s)	834
LweI	GCATC	2 cut(s)	392, 1040
MaeI	CTAG	1 cut(s)	194
MaeII	ACGT	2 cut(s)	345, 542
MaeIII	GTNAC	8 cut(s)	241, 346, 538, 748, 815, 878, 885, 933
MalI	GATC	1 cut(s)	962
MboI	GATC	1 cut(s)	960
MboII	GAAGA	2 cut(s)	584, 704
MfeI	CAATTG	2 cut(s)	252, 1001
MhlI	GDGCHC	4 cut(s)	234, 490, 606, 1108
MluCI	AATT	8 cut(s)	252, 742, 810, 829, 918, 956, 1001, 1086
MlyI	GAGTC	1 cut(s)	89
MnlI	CCTC	6 cut(s)	63, 108, 214, 793, 951, 1036
MroXI	GAANNNNTTC	1 cut(s)	686
MseI	TTAA	6 cut(s)	480, 546, 597, 840, 1050, 1117
MspA1I	CMGCKG	1 cut(s)	414
MspI	CCGG	1 cut(s)	786
MspR9I	CCNGG	4 cut(s)	366, 787, 876, 912
MunI	CAATTG	2 cut(s)	252, 1001
MvaI	CCWGG	3 cut(s)	366, 876, 912
MvnI	CGCG	2 cut(s)	414, 783
MwoI	GCNNNNNNNGC	2 cut(s)	98, 937
NciI	CCSGG	1 cut(s)	787
NdeI	CATATG	1 cut(s)	474
NdeII	GATC	1 cut(s)	960
NlaIII	CATG	3 cut(s)	214, 266, 314
NlaIV	GGNNCC	3 cut(s)	206, 232, 894
NmuCI	GTSAC	2 cut(s)	346, 885
NspV	TTCGAA	1 cut(s)	690
PceI	AGGCCT	1 cut(s)	127
PdmI	GAANNNNTTC	1 cut(s)	686
PfeI	GAWTC	1 cut(s)	687
PkrI	GCNGC	1 cut(s)	824
PleI	GAGTC	1 cut(s)	88
PpsI	GAGTC	1 cut(s)	88
PshBI	ATTAAT	1 cut(s)	1050
Psp124BI	GAGCTC	1 cut(s)	490
Psp6I	CCWGG	3 cut(s)	364, 874, 910
PspGI	CCWGG	3 cut(s)	364, 874, 910
PspN4I	GGNNCC	3 cut(s)	206, 232, 894
PspOMI	GGGCCC	1 cut(s)	230
PspPI	GGNCC	3 cut(s)	230, 231, 409
RsaI	GTAC	1 cut(s)	1094
RsaNI	GTAC	1 cut(s)	1093
SacI	GAGCTC	1 cut(s)	490
SacII	CCGCGG	1 cut(s)	415
SaqAI	TTAA	6 cut(s)	480, 546, 597, 840, 1050, 1117
SatI	GCNGC	1 cut(s)	823
Sau3AI	GATC	1 cut(s)	960
Sau96I	GGNCC	3 cut(s)	230, 231, 409
SchI	GAGTC	1 cut(s)	89
ScrFI	CCNGG	4 cut(s)	366, 787, 876, 912
SduI	GDGCHC	4 cut(s)	234, 490, 606, 1108
SfaNI	GCATC	2 cut(s)	392, 1040
Sfr303I	CCGCGG	1 cut(s)	415
SfuI	TTCGAA	1 cut(s)	690
SgrBI	CCGCGG	1 cut(s)	415
Sse9I	AATT	8 cut(s)	252, 742, 810, 829, 918, 956, 1001, 1086
SseBI	AGGCCT	1 cut(s)	127
SsiI	CCGC	4 cut(s)	5, 208, 412, 414
SspMI	CTAG	1 cut(s)	194
SstI	GAGCTC	1 cut(s)	490
StuI	AGGCCT	1 cut(s)	127
StyD4I	CCNGG	4 cut(s)	364, 785, 874, 910
TaaI	ACNGT	1 cut(s)	538
TaiI	ACGT	2 cut(s)	348, 545
TaqI	TCGA	3 cut(s)	41, 484, 690
TasI	AATT	8 cut(s)	252, 742, 810, 829, 918, 956, 1001, 1086
TfiI	GAWTC	1 cut(s)	687
Tru1I	TTAA	6 cut(s)	480, 546, 597, 840, 1050, 1117
Tru9I	TTAA	6 cut(s)	480, 546, 597, 840, 1050, 1117
TscAI	CASTG	1 cut(s)	894
TseFI	GTSAC	2 cut(s)	346, 885
TseI	GCWGC	1 cut(s)	822
Tsp45I	GTSAC	2 cut(s)	346, 885
TspDTI	ATGAA	3 cut(s)	170, 738, 755
TspRI	CASTG	1 cut(s)	894
VspI	ATTAAT	1 cut(s)	1050
XapI	RAATTY	1 cut(s)	742
XbaI	TCTAGA	1 cut(s)	193
XmnI	GAANNNNTTC	1 cut(s)	686
XspI	CTAG	1 cut(s)	194

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