Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0000874

Physical Location & Seq

Genomic Coordinates Forward (+)

14310387 .. 14311331

Gene Structure 945 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG166300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 354 bp

ATGAAGATGGGTGGTGCTGTAGAAGCTGCTTCGTGCAATGCGCTTTTGACAGCTTTGGGAAGAGCTAATGATTTTAAGAGGATGAGTGAGCTTATGGCGAAGATGGAAGAGATGGGCATTAAGCCCGATGTTATAACTTTTGGTATTCTTATTAATCGGTTAGGCAAGTCTAGGAGAATAGATGCTGCCTTGGAGGTGTTTGAAAAGATGAGTGGAGGGGTAAAGGGGGTTTCAGTTGAACCAGATGTGATCGTCTATAACACTCTGATTGATGGACTTTGCAAAGTGGGAAGGCAGGAAGAAGGATTGCTTAAGGATAATAGGGAGAAAGAAAGGCCATTGGTAGGCCCTTAG

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

ko03018 map03018

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

117

Amino Acids

12.74

Weight (kDa)

7.73

Isoelectric Point (pI)

44.11

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	10 - 55	1.1e-10	PPR repeat family
PPR_3	PF13812	10 - 56	1.8e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	38 - 71	6.7e-10	PPR repeat
PPR_2	PF13041	49 - 95	3.8e-08	PPR repeat family
PPR_1	PF12854	79 - 98	1.6e-08	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)

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Orthologous Genes (Group: OG0000874)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G61520 AT5G28370 AT5G28460
fragaria_vesca	FvH4_5g03011 FvH4_5g03011 FvH4_5g32150 FvH4_5g32150 FvH4_5g32150 FvH4_5g32150 FvH4_5g32150 FvH4_7g15360
malus_domestica	MD01G1071400.v1.1 MD07G1131300.v1.1
prunus_persica	Prupe.2G177500_v2.0.a1
pyrus_communis	pycom01g10040 pycom04g02360 pycom07g12830
rosa_chinensis	RchiOBHm_Chr1g0357681 RchiOBHm_Chr3g0468501 RchiOBHm_Chr5g0017031 RchiOBHm_Chr7g0228211 RchiOBHm_Chr7g0228281 RchiOBHm_Chr7g0228291
rosa_laevigata	RLG00000001577 RLG00000005833 RLG00000009015 RLG00000009124 RLG00000012161 RLG00000028007 RLG00000028484
rosa_multiflora	Rmu_sc0001062.1_g000004 Rmu_sc0001626.1_g000014 Rmu_sc0001626.1_g000015 Rmu_sc0002582.1_g000009 Rmu_sc0003490.1_g000025 Rmu_sc0003490.1_g000026 Rmu_sc0004842.1_g000011 Rmu_sc0004842.1_g000012 Rmu_sc0004842.1_g000020 Rmu_ssc0000425.1_g000002
rosa_roxburghii	Rroxscaffold_3G00231300 Rroxscaffold_4G00298600 Rroxscaffold_6G00429570
rosa_rugosa	Rorug01G0257700 Rorug02G0051500 Rorug02G0572600 Rorug07G0246900.1 Rorug07G0247000 Rorug07G0247000
rosa_samantha	Rh1AG271700 Rh1BG238800 Rh1CG255600 Rh1DG267200 Rh3AG143700 Rh3BG166200 Rh3BG166300 Rh5AG043600 Rh7AG400900 Rh7AG401200 Rh7BG382400 Rh7CG420000 Rh7DG396900 Rh7DG397300
rosa_wichuraiana	Rw1G024230 Rw7G033300 Rw7G033330

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	134
AfiI	CCNNNNNNNGG	1 cut(s)	344
AflII	CTTAAG	1 cut(s)	311
AgsI	TTSAA	2 cut(s)	203, 239
AluBI	AGCT	4 cut(s)	26, 53, 65, 91
AluI	AGCT	4 cut(s)	26, 53, 65, 91
AoxI	GGCC	2 cut(s)	335, 346
ApeKI	GCWGC	2 cut(s)	26, 185
AseI	ATTAAT	1 cut(s)	153
AspLEI	GCGC	1 cut(s)	43
AspS9I	GGNCC	1 cut(s)	347
BbvI	GCAGC	2 cut(s)	13, 172
BccI	CCATC	3 cut(s)	97, 106, 266
BfaI	CTAG	1 cut(s)	171
BfmI	CTRYAG	1 cut(s)	18
BfrI	CTTAAG	1 cut(s)	311
BisI	GCNGC	2 cut(s)	27, 186
BlsI	GCNGC	2 cut(s)	28, 187
BmgT120I	GGNCC	1 cut(s)	347
BmsI	GCATC	1 cut(s)	172
BsaJI	CCNNGG	1 cut(s)	189
Bsc4I	CCNNNNNNNGG	1 cut(s)	344
Bse3DI	GCAATG	1 cut(s)	43
BseDI	CCNNGG	1 cut(s)	189
BseGI	GGATG	1 cut(s)	87
BseLI	CCNNNNNNNGG	1 cut(s)	344
BseMI	GCAATG	1 cut(s)	43
BseXI	GCAGC	2 cut(s)	13, 172
BshFI	GGCC	2 cut(s)	337, 348
BslI	CCNNNNNNNGG	1 cut(s)	344
BsnI	GGCC	2 cut(s)	337, 348
Bsp143I	GATC	1 cut(s)	249
BspANI	GGCC	2 cut(s)	337, 348
BspQI	GCTCTTC	1 cut(s)	55
BspTI	CTTAAG	1 cut(s)	311
BsrDI	GCAATG	1 cut(s)	43
BssECI	CCNNGG	1 cut(s)	189
BssMI	GATC	1 cut(s)	249
BssT1I	CCWWGG	1 cut(s)	189
Bst6I	CTCTTC	2 cut(s)	55, 102
BstAFI	CTTAAG	1 cut(s)	311
BstDEI	CTNAG	1 cut(s)	351
BstF5I	GGATG	1 cut(s)	87
BstHHI	GCGC	1 cut(s)	43
BstKTI	GATC	1 cut(s)	252
BstMBI	GATC	1 cut(s)	249
BstMWI	GCNNNNNNNGC	1 cut(s)	23
BstSFI	CTRYAG	1 cut(s)	18
BstV1I	GCAGC	2 cut(s)	13, 172
BsuRI	GGCC	2 cut(s)	337, 348
BtsCI	GGATG	1 cut(s)	87
CfoI	GCGC	1 cut(s)	43
Cfr13I	GGNCC	1 cut(s)	347
CviJI	RGCY	7 cut(s)	26, 53, 65, 91, 124, 337, 348
CviKI_1	RGCY	7 cut(s)	26, 53, 65, 91, 124, 337, 348
DdeI	CTNAG	1 cut(s)	351
DpnI	GATC	1 cut(s)	251
DpnII	GATC	1 cut(s)	249
Eam1104I	CTCTTC	2 cut(s)	55, 102
EarI	CTCTTC	2 cut(s)	55, 102
Eco130I	CCWWGG	1 cut(s)	189
EcoO109I	RGGNCCY	1 cut(s)	347
EcoT14I	CCWWGG	1 cut(s)	189
ErhI	CCWWGG	1 cut(s)	189
FaiI	YATR	3 cut(s)	95, 134, 258
FalI	AAGNNNNNCTT	2 cut(s)	294, 326
Fnu4HI	GCNGC	2 cut(s)	27, 186
FokI	GGATG	1 cut(s)	94
Fsp4HI	GCNGC	2 cut(s)	27, 186
FspBI	CTAG	1 cut(s)	171
GlaI	GCGC	1 cut(s)	42
GluI	GCNGC	2 cut(s)	27, 186
HaeIII	GGCC	2 cut(s)	337, 348
HhaI	GCGC	1 cut(s)	43
Hin6I	GCGC	1 cut(s)	41
HinP1I	GCGC	1 cut(s)	41
Hpy188I	TCNGA	1 cut(s)	267
HpyAV	CCTTC	2 cut(s)	285, 296
HpyCH4V	TGCA	2 cut(s)	36, 282
HpyF10VI	GCNNNNNNNGC	1 cut(s)	23
HpyF3I	CTNAG	1 cut(s)	351
HspAI	GCGC	1 cut(s)	41
Kzo9I	GATC	1 cut(s)	249
LguI	GCTCTTC	1 cut(s)	55
LpnPI	CCDG	2 cut(s)	255, 281
Lsp1109I	GCAGC	2 cut(s)	13, 172
LweI	GCATC	1 cut(s)	172
MaeI	CTAG	1 cut(s)	171
MalI	GATC	1 cut(s)	251
MboI	GATC	1 cut(s)	249
MboII	GAAGA	5 cut(s)	16, 72, 112, 119, 311
MnlI	CCTC	3 cut(s)	72, 187, 209
MseI	TTAA	4 cut(s)	75, 120, 153, 312
MspCI	CTTAAG	1 cut(s)	311
MwoI	GCNNNNNNNGC	1 cut(s)	23
NdeII	GATC	1 cut(s)	249
PciSI	GCTCTTC	1 cut(s)	55
PkrI	GCNGC	2 cut(s)	28, 187
PshBI	ATTAAT	1 cut(s)	153
PsiI	TTATAA	1 cut(s)	134
PspPI	GGNCC	1 cut(s)	347
SapI	GCTCTTC	1 cut(s)	55
SaqAI	TTAA	4 cut(s)	75, 120, 153, 312
SatI	GCNGC	2 cut(s)	27, 186
Sau3AI	GATC	1 cut(s)	249
Sau96I	GGNCC	1 cut(s)	347
SetI	ASST	5 cut(s)	28, 55, 67, 93, 198
SfaNI	GCATC	1 cut(s)	172
SfcI	CTRYAG	1 cut(s)	18
SgeI	CNNG	7 cut(s)	45, 137, 178, 183, 202, 254, 308
SmlI	CTYRAG	1 cut(s)	311
SmoI	CTYRAG	1 cut(s)	311
SspMI	CTAG	1 cut(s)	171
StyI	CCWWGG	1 cut(s)	189
Tru1I	TTAA	4 cut(s)	75, 120, 153, 312
Tru9I	TTAA	4 cut(s)	75, 120, 153, 312
TseI	GCWGC	2 cut(s)	26, 185
TspDTI	ATGAA	1 cut(s)	17
Vha464I	CTTAAG	1 cut(s)	311
VspI	ATTAAT	1 cut(s)	153
XspI	CTAG	1 cut(s)	171

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