Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0003267

Physical Location & Seq

Genomic Coordinates Forward (+)

79100696 .. 79101812

Gene Structure 1117 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00057080.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 984 bp

ATGCAAGCCATAGCCAAACTCTCAAACCATCTTATCAAACCCACAAACCATGCCTTCTGTTGGTTTCTCAAAAGCTACAACTCATGGGCCGCAGCCATACGCAGCTCTTCTTCCCCACATAAAGCTCTGCATATCTATTCTCAAATGCACCGGCAGTCTGTACCTTTCGACAGCTTCTCCATTCTCTTTACTCTAAAATCATGTACCCAATTGCATAACCACGCAACCATTCAACACCTCCACTCCCATATCGTTAAACTCGGGTTTGATTCTCACGTATATGTGGCCACTTCACTTCTCCATGCTTACGTCGTCATCTCGTTTGTGGATGCATGTGAACTGTTCGACGAAATGCCTGAGAAGAGCAGTGTAACCTGGAACACAATGATTTCCGGGTATTCGAGGACCGGGAATGTAGAGAGAGCAAGACTGGTGTTTGAGGAAATGCCACTGAGAGATGTTTCATCATGGTGTGCAATGGTCGCAGCTTATGTGAACAATGGCAAACATGAGCTTGGGTTATCACTCTTTCGGGATATGGTAATGGGTGAAGTTGGCGTGAAACCTGACCAAGTGACTGCAGTAGTGGTTTTATCTGGCTGTGCTCACTTGGGTTCTGTTGGGTTGTTGGTGGGGGAAGTCAGTTCATGGGTTTATGGTCAAGAACCGGTGGCAGATGAATGCGGAGCTCGCAAAGAAGCATTGTGTTTGTTTGAGATGATGCAAAACAGCGGCGTAAGACCTAATGAACTGACTTTTACAGGAGTTCTCAGTGCTTGTGTGAACACTGGACTAGTTGAGGAGGGTCGAAAATATTTCAATTTGATTGAAGAAAGTGGCTTGGAGCTTCGGATTCAGCATTATGGATGCATGGTCGATTTGTATGGCAAGGCGGAGCTGTTAGAGGAAGCCTATGATTTTATTAAGAACATGAGACTTGAACCCAATATTGCTGTCTGGGGAGCTTTTTTTGTCGGCTTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

327

Amino Acids

36.48

Weight (kDa)

6.0

Isoelectric Point (pI)

40.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	122 - 154	1.9e-07	PPR repeat family
PPR_1	PF12854	123 - 149	1.3e-06	PPR repeat
PPR	PF01535	124 - 152	6.7e-09	PPR repeat
PPR_2	PF13041	153 - 203	5.5e-07	PPR repeat family
PPR_2	PF13041	229 - 262	8.7e-06	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: OG0003267)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g13211 FvH4_3g13220
malus_domestica	MD10G1225900.v1.1
prunus_persica	Prupe.4G119500_v2.0.a1 Prupe.4G119600_v2.0.a1
pyrus_communis	pycom10g18980
rosa_chinensis	RchiOBHm_Chr5g0021561 RchiOBHm_Chr5g0021571 RchiOBHm_Chr7g0219451
rosa_laevigata	RLG00000032615
rosa_multiflora	Rmu_co8317561.1_g000001 Rmu_co8317561.1_g000002 Rmu_co8347725.1_g000001 Rmu_sc0002052.1_g000015 Rmu_sc0002052.1_g000016 Rmu_sc0002052.1_g000017 Rmu_sc0003767.1_g000012 Rmu_sc0023070.1_g000006 Rmu_sc0023070.1_g000007 Rmu_sc0023070.1_g000008
rosa_roxburghii	Rroxscaffold_1G00057070 Rroxscaffold_1G00057080 Rroxscaffold_1G00057090
rosa_rugosa	Rorug05G0067400 Rorug05G0067400 Rorug07G0185200
rosa_samantha	Rh5AG156800 Rh5BG156000 Rh5BG156100 Rh5BG156200 Rh5CG170300 Rh5CG170400 Rh5DG156600 Rh7AG328000 Rh7BG318000 Rh7CG345400
rosa_wichuraiana	Rw7G027710

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	4 cut(s)	90, 684, 732, 893
AcoI	YGGCCR	1 cut(s)	285
AfaI	GTAC	2 cut(s)	162, 205
AfiI	CCNNNNNNNGG	1 cut(s)	60
AgeI	ACCGGT	1 cut(s)	667
AgsI	TTSAA	4 cut(s)	233, 820, 830, 941
AhlI	ACTAGT	1 cut(s)	793
AjnI	CCWGG	1 cut(s)	374
Alw21I	GWGCWC	2 cut(s)	607, 691
Alw26I	GTCTC	1 cut(s)	928
Ama87I	CYCGRG	1 cut(s)	260
AoxI	GGCC	2 cut(s)	87, 285
ApeKI	GCWGC	3 cut(s)	92, 102, 485
AsiGI	ACCGGT	1 cut(s)	667
AspS9I	GGNCC	2 cut(s)	87, 405
AsuC2I	CCSGG	2 cut(s)	394, 409
AsuHPI	GGTGA	1 cut(s)	560
AvaI	CYCGRG	1 cut(s)	260
AvaII	GGWCC	1 cut(s)	405
BalI	TGGCCA	1 cut(s)	287
BanII	GRGCYC	1 cut(s)	691
Bbv12I	GWGCWC	2 cut(s)	607, 691
BbvI	GCAGC	3 cut(s)	104, 114, 497
BccI	CCATC	1 cut(s)	36
BciT130I	CCWGG	1 cut(s)	376
BcnI	CCSGG	2 cut(s)	394, 409
BcoDI	GTCTC	1 cut(s)	928
BcuI	ACTAGT	1 cut(s)	793
BfaI	CTAG	1 cut(s)	794
BfmI	CTRYAG	1 cut(s)	579
BisI	GCNGC	5 cut(s)	90, 93, 103, 486, 733
BlsI	GCNGC	5 cut(s)	91, 94, 104, 487, 734
Bme1390I	CCNGG	3 cut(s)	376, 394, 409
Bme18I	GGWCC	1 cut(s)	405
BmeT110I	CYCGRG	1 cut(s)	260
BmgT120I	GGNCC	2 cut(s)	87, 405
BmrFI	CCNGG	3 cut(s)	376, 394, 409
BmsI	GCATC	3 cut(s)	319, 711, 857
BpuMI	CCSGG	2 cut(s)	394, 409
BsaAI	YACGTR	1 cut(s)	277
BsaWI	WCCGGW	1 cut(s)	667
BsaXI	ACNNNNNCTCC	4 cut(s)	161, 191, 227, 257
Bsc4I	CCNNNNNNNGG	1 cut(s)	60
Bse118I	RCCGGY	2 cut(s)	150, 667
Bse1I	ACTGG	2 cut(s)	435, 793
Bse3DI	GCAATG	1 cut(s)	483
BseBI	CCWGG	1 cut(s)	376
BseGI	GGATG	2 cut(s)	334, 872
BseLI	CCNNNNNNNGG	1 cut(s)	60
BseMI	GCAATG	1 cut(s)	483
BseMII	CTCAG	3 cut(s)	348, 443, 784
BseNI	ACTGG	2 cut(s)	435, 793
BseRI	GAGGAG	1 cut(s)	815
BseXI	GCAGC	3 cut(s)	104, 114, 497
BshFI	GGCC	2 cut(s)	89, 287
BshTI	ACCGGT	1 cut(s)	667
BsiHKAI	GWGCWC	2 cut(s)	607, 691
BsiHKCI	CYCGRG	1 cut(s)	260
BsiSI	CCGG	4 cut(s)	151, 393, 408, 668
BslI	CCNNNNNNNGG	1 cut(s)	60
BsmAI	GTCTC	1 cut(s)	928
BsmI	GAATGC	1 cut(s)	686
BsnI	GGCC	2 cut(s)	89, 287
BsoBI	CYCGRG	1 cut(s)	260
Bsp1286I	GDGCHC	2 cut(s)	607, 691
BspACI	CCGC	4 cut(s)	90, 684, 732, 893
BspANI	GGCC	2 cut(s)	89, 287
BspCNI	CTCAG	3 cut(s)	349, 444, 783
BspMAI	CTGCAG	1 cut(s)	583
BspQI	GCTCTTC	2 cut(s)	112, 356
BsrDI	GCAATG	1 cut(s)	483
BsrFI	RCCGGY	2 cut(s)	150, 667
BsrI	ACTGG	2 cut(s)	435, 793
BssAI	RCCGGY	2 cut(s)	150, 667
Bst2UI	CCWGG	1 cut(s)	376
Bst4CI	ACNGT	1 cut(s)	342
Bst6I	CTCTTC	2 cut(s)	112, 356
BstBAI	YACGTR	1 cut(s)	277
BstC8I	GCNNGC	2 cut(s)	6, 691
BstDEI	CTNAG	3 cut(s)	357, 452, 770
BstF5I	GGATG	2 cut(s)	334, 872
BstMAI	GTCTC	1 cut(s)	928
BstMWI	GCNNNNNNNGC	2 cut(s)	482, 690
BstNI	CCWGG	1 cut(s)	376
BstNSI	RCATGY	1 cut(s)	336
BstSCI	CCNGG	3 cut(s)	374, 392, 407
BstSFI	CTRYAG	1 cut(s)	579
BstV1I	GCAGC	3 cut(s)	104, 114, 497
BsuRI	GGCC	2 cut(s)	89, 287
BtsCI	GGATG	2 cut(s)	334, 872
BtsI	GCAGTG	1 cut(s)	373
BtsIMutI	CAGTG	4 cut(s)	373, 449, 778, 786
Cac8I	GCNNGC	2 cut(s)	6, 691
Cfr10I	RCCGGY	2 cut(s)	150, 667
Cfr13I	GGNCC	2 cut(s)	87, 405
Csp6I	GTAC	2 cut(s)	161, 204
CspAI	ACCGGT	1 cut(s)	667
CviQI	GTAC	2 cut(s)	161, 204
DdeI	CTNAG	3 cut(s)	357, 452, 770
EaeI	YGGCCR	1 cut(s)	285
Eam1104I	CTCTTC	2 cut(s)	112, 356
EarI	CTCTTC	2 cut(s)	112, 356
EciI	GGCGGA	1 cut(s)	908
Ecl136II	GAGCTC	1 cut(s)	689
Eco24I	GRGCYC	1 cut(s)	691
Eco47I	GGWCC	1 cut(s)	405
Eco53kI	GAGCTC	1 cut(s)	689
Eco88I	CYCGRG	1 cut(s)	260
EcoICRI	GAGCTC	1 cut(s)	689
EcoRII	CCWGG	1 cut(s)	374
EcoT22I	ATGCAT	2 cut(s)	334, 872
EcoT38I	GRGCYC	1 cut(s)	691
Fnu4HI	GCNGC	5 cut(s)	90, 93, 103, 486, 733
FokI	GGATG	2 cut(s)	341, 879
FriOI	GRGCYC	1 cut(s)	691
Fsp4HI	GCNGC	5 cut(s)	90, 93, 103, 486, 733
FspBI	CTAG	1 cut(s)	794
GluI	GCNGC	5 cut(s)	90, 93, 103, 486, 733
HaeIII	GGCC	2 cut(s)	89, 287
HapII	CCGG	4 cut(s)	151, 393, 408, 668
HinfI	GANTC	2 cut(s)	269, 853
HpaII	CCGG	4 cut(s)	151, 393, 408, 668
HphI	GGTGA	1 cut(s)	560
Hpy166II	GTNNAC	3 cut(s)	338, 496, 784
Hpy188I	TCNGA	1 cut(s)	852
Hpy188III	TCNNGA	2 cut(s)	533, 662
Hpy8I	GTNNAC	3 cut(s)	338, 496, 784
Hpy99I	CGWCG	2 cut(s)	314, 350
HpyAV	CCTTC	1 cut(s)	64
HpyCH4III	ACNGT	1 cut(s)	342
HpyCH4IV	ACGT	2 cut(s)	276, 309
HpyCH4V	TGCA	9 cut(s)	4, 130, 148, 214, 332, 476, 581, 724, 870
HpyF10VI	GCNNNNNNNGC	2 cut(s)	482, 690
HpyF3I	CTNAG	3 cut(s)	357, 452, 770
HpySE526I	ACGT	2 cut(s)	276, 309
LguI	GCTCTTC	2 cut(s)	112, 356
LmnI	GCTCC	4 cut(s)	686, 844, 895, 962
Lsp1109I	GCAGC	3 cut(s)	104, 114, 497
LweI	GCATC	3 cut(s)	319, 711, 857
MaeI	CTAG	1 cut(s)	794
MaeII	ACGT	2 cut(s)	276, 309
MaeIII	GTNAC	2 cut(s)	370, 574
MboII	GAAGA	4 cut(s)	99, 102, 373, 842
MfeI	CAATTG	1 cut(s)	209
MhlI	GDGCHC	2 cut(s)	607, 691
MlsI	TGGCCA	1 cut(s)	287
MluCI	AATT	2 cut(s)	209, 820
MluNI	TGGCCA	1 cut(s)	287
MnlI	CCTC	6 cut(s)	248, 396, 433, 793, 796, 898
Mox20I	TGGCCA	1 cut(s)	287
Mph1103I	ATGCAT	2 cut(s)	334, 872
MscI	TGGCCA	1 cut(s)	287
MseI	TTAA	2 cut(s)	255, 924
MslI	CAYNNNNRTG	2 cut(s)	279, 469
Msp20I	TGGCCA	1 cut(s)	287
MspA1I	CMGCKG	1 cut(s)	732
MspI	CCGG	4 cut(s)	151, 393, 408, 668
MspR9I	CCNGG	3 cut(s)	376, 394, 409
MunI	CAATTG	1 cut(s)	209
Mva1269I	GAATGC	1 cut(s)	686
MvaI	CCWGG	1 cut(s)	376
MwoI	GCNNNNNNNGC	2 cut(s)	482, 690
NciI	CCSGG	2 cut(s)	394, 409
NmuCI	GTSAC	1 cut(s)	574
NsiI	ATGCAT	2 cut(s)	334, 872
NspI	RCATGY	1 cut(s)	336
PciSI	GCTCTTC	2 cut(s)	112, 356
PctI	GAATGC	1 cut(s)	686
PfeI	GAWTC	2 cut(s)	269, 853
PinAI	ACCGGT	1 cut(s)	667
PkrI	GCNGC	5 cut(s)	91, 94, 104, 487, 734
Ppu21I	YACGTR	1 cut(s)	277
Psp124BI	GAGCTC	1 cut(s)	691
Psp6I	CCWGG	1 cut(s)	374
PspGI	CCWGG	1 cut(s)	374
PspPI	GGNCC	2 cut(s)	87, 405
PstI	CTGCAG	1 cut(s)	583
RsaI	GTAC	2 cut(s)	162, 205
RsaNI	GTAC	2 cut(s)	161, 204
RseI	CAYNNNNRTG	2 cut(s)	279, 469
SacI	GAGCTC	1 cut(s)	691
SapI	GCTCTTC	2 cut(s)	112, 356
SaqAI	TTAA	2 cut(s)	255, 924
SatI	GCNGC	5 cut(s)	90, 93, 103, 486, 733
Sau96I	GGNCC	2 cut(s)	87, 405
ScrFI	CCNGG	3 cut(s)	376, 394, 409
SduI	GDGCHC	2 cut(s)	607, 691
SfaNI	GCATC	3 cut(s)	319, 711, 857
SfcI	CTRYAG	1 cut(s)	579
SinI	GGWCC	1 cut(s)	405
SmiMI	CAYNNNNRTG	2 cut(s)	279, 469
SpeI	ACTAGT	1 cut(s)	793
Sse9I	AATT	2 cut(s)	209, 820
SsiI	CCGC	4 cut(s)	90, 684, 732, 893
SspI	AATATT	2 cut(s)	815, 949
SspMI	CTAG	1 cut(s)	794
SstI	GAGCTC	1 cut(s)	691
StyD4I	CCNGG	3 cut(s)	374, 392, 407
TaaI	ACNGT	1 cut(s)	342
TaiI	ACGT	2 cut(s)	279, 312
TaqI	TCGA	5 cut(s)	168, 345, 401, 808, 876
TasI	AATT	2 cut(s)	209, 820
TauI	GCSGC	2 cut(s)	92, 735
TfiI	GAWTC	2 cut(s)	269, 853
Tru1I	TTAA	2 cut(s)	255, 924
Tru9I	TTAA	2 cut(s)	255, 924
TscAI	CASTG	4 cut(s)	373, 456, 778, 793
TseFI	GTSAC	1 cut(s)	574
TseI	GCWGC	3 cut(s)	92, 102, 485
Tsp45I	GTSAC	1 cut(s)	574
TspDTI	ATGAA	4 cut(s)	453, 636, 693, 762
TspRI	CASTG	4 cut(s)	373, 456, 778, 793
VpaK11BI	GGWCC	1 cut(s)	405
XceI	RCATGY	1 cut(s)	336
XspI	CTAG	1 cut(s)	794
Zsp2I	ATGCAT	2 cut(s)	334, 872

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