Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0003267

Physical Location & Seq

Genomic Coordinates Reverse (-)

15927893 .. 15928732

Gene Structure 840 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG156100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 840 bp

ATGCAAGCCATAGCCAAACTCTCAAACCATCTTATCAAACCCACAAACCATGCCTTCTGTTGGTTTCTCAAAAGCTACAACTCATGGGCCGCAGCCATACGCAGCTCTTCTTCCCCACATAAAGCTCTGCATATCTATTCTCAAATGCACCGGCAGTCTGTACCTTTCGACAGCTTCTCCATTCTCTTTACTCTAAAATCATGTACCCAATTGCATAACCACGCAACCATTCAACACCTCCATTCCCATATCGTTAAACTCGGGTTTGATTCTCACGTATATGTGGCCACTTCACTTCTCCATGCTTACGTTGTCGTCTCGTTTGTGGATGCGTGTAAACTGTTCGACGAAATGCCTGACAAGAGCACAGTCACCTGGAACACAATGATTTCCGGGTATTCGAGGACCGGGAATGTAGAGAGAGCAAGACTGGTGTTTGAGGAAATGCCAGTGAGAGATGTTTCATCATGGTGTGCAATGATTGCTGCTTATGTGAACAATGGCAAACATGAGCTTGGGTTATCTCTCTTTCGGGATATGGTAATGGGTGACGAAGGTGTGAAACCTGACCAAGTGACTGCAGTCTCGGTTTTATCTGGCTGTGCTCACTTGGGTTCTGTTGGGTTGTTGGTGGGGAAGTCAGTTCATGGGTTTATGGTCAAGAACCGGTGGGAGATGAATGCGGAGCTCGGTACAGTTTTGATTGGCATGTATGCGAAATGTGGGTTTTTGAAGGGAGCAGAGCAGGTTTTTGAGTTGATGCAAGAGAAGAATGTGATGGCTTGGACTGCATTGATTTGTGGATCGGCACAACATGGCTACAACAAAGAAGCATTGTGA

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

279

Amino Acids

31.03

Weight (kDa)

8.42

Isoelectric Point (pI)

33.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	122 - 154	8e-08	PPR repeat family
PPR_1	PF12854	123 - 149	6.8e-07	PPR repeat
PPR	PF01535	124 - 152	4.1e-09	PPR repeat
PPR_2	PF13041	153 - 203	3e-08	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)
Acc36I	ACCTGC	1 cut(s)	736
AciI	CCGC	2 cut(s)	90, 683
AclWI	GGATC	1 cut(s)	811
AcoI	YGGCCR	1 cut(s)	285
AfaI	GTAC	3 cut(s)	162, 205, 694
AfiI	CCNNNNNNNGG	1 cut(s)	60
AgeI	ACCGGT	1 cut(s)	666
AgsI	TTSAA	2 cut(s)	233, 733
AjnI	CCWGG	1 cut(s)	374
AluBI	AGCT	6 cut(s)	75, 105, 125, 174, 514, 688
AluI	AGCT	6 cut(s)	75, 105, 125, 174, 514, 688
Alw21I	GWGCWC	3 cut(s)	368, 607, 690
Alw26I	GTCTC	2 cut(s)	322, 589
AlwI	GGATC	1 cut(s)	811
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)	666
AspS9I	GGNCC	2 cut(s)	87, 405
AsuC2I	CCSGG	2 cut(s)	394, 409
AsuHPI	GGTGA	2 cut(s)	364, 560
AvaI	CYCGRG	1 cut(s)	260
AvaII	GGWCC	1 cut(s)	405
BalI	TGGCCA	1 cut(s)	287
BanII	GRGCYC	1 cut(s)	690
Bbv12I	GWGCWC	3 cut(s)	368, 607, 690
BbvI	GCAGC	3 cut(s)	104, 114, 472
BccI	CCATC	2 cut(s)	36, 772
BciT130I	CCWGG	1 cut(s)	376
BcnI	CCSGG	2 cut(s)	394, 409
BcoDI	GTCTC	2 cut(s)	322, 589
BfmI	CTRYAG	1 cut(s)	579
BfuAI	ACCTGC	1 cut(s)	736
BisI	GCNGC	4 cut(s)	90, 93, 103, 486
BlsI	GCNGC	4 cut(s)	91, 94, 104, 487
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	2 cut(s)	319, 750
BoxI	GACNNNNGTC	1 cut(s)	581
BpuMI	CCSGG	2 cut(s)	394, 409
BsaAI	YACGTR	1 cut(s)	277
BsaWI	WCCGGW	1 cut(s)	666
BsaXI	ACNNNNNCTCC	2 cut(s)	161, 191
Bsc4I	CCNNNNNNNGG	1 cut(s)	60
Bse118I	RCCGGY	2 cut(s)	150, 666
Bse1I	ACTGG	2 cut(s)	435, 449
Bse3DI	GCAATG	1 cut(s)	483
BseBI	CCWGG	1 cut(s)	376
BseGI	GGATG	1 cut(s)	334
BseLI	CCNNNNNNNGG	1 cut(s)	60
BseMI	GCAATG	1 cut(s)	483
BseNI	ACTGG	2 cut(s)	435, 449
BseXI	GCAGC	3 cut(s)	104, 114, 472
BshFI	GGCC	2 cut(s)	89, 287
BshTI	ACCGGT	1 cut(s)	666
BsiHKAI	GWGCWC	3 cut(s)	368, 607, 690
BsiHKCI	CYCGRG	1 cut(s)	260
BsiSI	CCGG	4 cut(s)	151, 393, 408, 667
BslI	CCNNNNNNNGG	1 cut(s)	60
BsmAI	GTCTC	2 cut(s)	322, 589
BsmBI	CGTCTC	1 cut(s)	322
BsmI	GAATGC	1 cut(s)	685
BsnI	GGCC	2 cut(s)	89, 287
BsoBI	CYCGRG	1 cut(s)	260
Bsp1286I	GDGCHC	3 cut(s)	368, 607, 690
Bsp143I	GATC	1 cut(s)	803
BspACI	CCGC	2 cut(s)	90, 683
BspANI	GGCC	2 cut(s)	89, 287
BspMAI	CTGCAG	1 cut(s)	583
BspMI	ACCTGC	1 cut(s)	736
BspPI	GGATC	1 cut(s)	811
BspQI	GCTCTTC	1 cut(s)	112
BsrDI	GCAATG	1 cut(s)	483
BsrFI	RCCGGY	2 cut(s)	150, 666
BsrI	ACTGG	2 cut(s)	435, 449
BssAI	RCCGGY	2 cut(s)	150, 666
BssMI	GATC	1 cut(s)	803
Bst2UI	CCWGG	1 cut(s)	376
Bst4CI	ACNGT	3 cut(s)	342, 370, 697
Bst6I	CTCTTC	1 cut(s)	112
BstAPI	GCANNNNNTGC	1 cut(s)	482
BstBAI	YACGTR	1 cut(s)	277
BstC8I	GCNNGC	1 cut(s)	6
BstF5I	GGATG	1 cut(s)	334
BstKTI	GATC	1 cut(s)	806
BstMAI	GTCTC	2 cut(s)	322, 589
BstMBI	GATC	1 cut(s)	803
BstMWI	GCNNNNNNNGC	2 cut(s)	482, 788
BstNI	CCWGG	1 cut(s)	376
BstNSI	RCATGY	1 cut(s)	712
BstPAI	GACNNNNGTC	1 cut(s)	581
BstSCI	CCNGG	3 cut(s)	374, 392, 407
BstSFI	CTRYAG	1 cut(s)	579
BstV1I	GCAGC	3 cut(s)	104, 114, 472
BsuRI	GGCC	2 cut(s)	89, 287
BtsCI	GGATG	1 cut(s)	334
BtsIMutI	CAGTG	1 cut(s)	456
BveI	ACCTGC	1 cut(s)	736
Cac8I	GCNNGC	1 cut(s)	6
Cfr10I	RCCGGY	2 cut(s)	150, 666
Cfr13I	GGNCC	2 cut(s)	87, 405
Csp6I	GTAC	3 cut(s)	161, 204, 693
CspAI	ACCGGT	1 cut(s)	666
CviAII	CATG	9 cut(s)	50, 84, 201, 302, 468, 509, 647, 709, 815
CviQI	GTAC	3 cut(s)	161, 204, 693
DpnI	GATC	1 cut(s)	805
DpnII	GATC	1 cut(s)	803
EaeI	YGGCCR	1 cut(s)	285
Eam1104I	CTCTTC	1 cut(s)	112
EarI	CTCTTC	1 cut(s)	112
Ecl136II	GAGCTC	1 cut(s)	688
Eco24I	GRGCYC	1 cut(s)	690
Eco47I	GGWCC	1 cut(s)	405
Eco53kI	GAGCTC	1 cut(s)	688
Eco88I	CYCGRG	1 cut(s)	260
EcoICRI	GAGCTC	1 cut(s)	688
EcoRII	CCWGG	1 cut(s)	374
EcoT38I	GRGCYC	1 cut(s)	690
Esp3I	CGTCTC	1 cut(s)	322
FaeI	CATG	9 cut(s)	53, 87, 204, 305, 471, 512, 650, 712, 818
FatI	CATG	9 cut(s)	49, 83, 200, 301, 467, 508, 646, 708, 814
Fnu4HI	GCNGC	4 cut(s)	90, 93, 103, 486
FokI	GGATG	1 cut(s)	341
FriOI	GRGCYC	1 cut(s)	690
Fsp4HI	GCNGC	4 cut(s)	90, 93, 103, 486
GluI	GCNGC	4 cut(s)	90, 93, 103, 486
HaeIII	GGCC	2 cut(s)	89, 287
HapII	CCGG	4 cut(s)	151, 393, 408, 667
Hin1II	CATG	9 cut(s)	53, 87, 204, 305, 471, 512, 650, 712, 818
HinfI	GANTC	1 cut(s)	269
HpaII	CCGG	4 cut(s)	151, 393, 408, 667
HphI	GGTGA	2 cut(s)	364, 560
Hpy166II	GTNNAC	2 cut(s)	338, 496
Hpy188III	TCNNGA	2 cut(s)	533, 661
Hpy8I	GTNNAC	2 cut(s)	338, 496
Hpy99I	CGWCG	1 cut(s)	350
HpyAV	CCTTC	3 cut(s)	64, 548, 727
HpyCH4III	ACNGT	3 cut(s)	342, 370, 697
HpyCH4IV	ACGT	2 cut(s)	276, 309
HpyCH4V	TGCA	8 cut(s)	4, 130, 148, 214, 476, 581, 763, 791
HpyF10VI	GCNNNNNNNGC	2 cut(s)	482, 788
HpySE526I	ACGT	2 cut(s)	276, 309
Hsp92II	CATG	9 cut(s)	53, 87, 204, 305, 471, 512, 650, 712, 818
Kzo9I	GATC	1 cut(s)	803
LguI	GCTCTTC	1 cut(s)	112
LmnI	GCTCC	2 cut(s)	685, 737
Lsp1109I	GCAGC	3 cut(s)	104, 114, 472
LweI	GCATC	2 cut(s)	319, 750
MaeII	ACGT	2 cut(s)	276, 309
MaeIII	GTNAC	3 cut(s)	370, 548, 574
MalI	GATC	1 cut(s)	805
MboI	GATC	1 cut(s)	803
MboII	GAAGA	3 cut(s)	99, 102, 781
MfeI	CAATTG	1 cut(s)	209
MhlI	GDGCHC	3 cut(s)	368, 607, 690
MlsI	TGGCCA	1 cut(s)	287
MluCI	AATT	1 cut(s)	209
MluNI	TGGCCA	1 cut(s)	287
MnlI	CCTC	3 cut(s)	248, 396, 433
Mox20I	TGGCCA	1 cut(s)	287
MscI	TGGCCA	1 cut(s)	287
MseI	TTAA	1 cut(s)	255
MslI	CAYNNNNRTG	2 cut(s)	279, 469
Msp20I	TGGCCA	1 cut(s)	287
MspI	CCGG	4 cut(s)	151, 393, 408, 667
MspR9I	CCNGG	3 cut(s)	376, 394, 409
MunI	CAATTG	1 cut(s)	209
Mva1269I	GAATGC	1 cut(s)	685
MvaI	CCWGG	1 cut(s)	376
MwoI	GCNNNNNNNGC	2 cut(s)	482, 788
NciI	CCSGG	2 cut(s)	394, 409
NdeII	GATC	1 cut(s)	803
NlaIII	CATG	9 cut(s)	53, 87, 204, 305, 471, 512, 650, 712, 818
NmuCI	GTSAC	3 cut(s)	370, 548, 574
NspI	RCATGY	1 cut(s)	712
PciSI	GCTCTTC	1 cut(s)	112
PctI	GAATGC	1 cut(s)	685
PfeI	GAWTC	1 cut(s)	269
PinAI	ACCGGT	1 cut(s)	666
PkrI	GCNGC	4 cut(s)	91, 94, 104, 487
Ppu21I	YACGTR	1 cut(s)	277
PshAI	GACNNNNGTC	1 cut(s)	581
Psp124BI	GAGCTC	1 cut(s)	690
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	3 cut(s)	162, 205, 694
RsaNI	GTAC	3 cut(s)	161, 204, 693
RseI	CAYNNNNRTG	2 cut(s)	279, 469
SacI	GAGCTC	1 cut(s)	690
SapI	GCTCTTC	1 cut(s)	112
SaqAI	TTAA	1 cut(s)	255
SatI	GCNGC	4 cut(s)	90, 93, 103, 486
Sau3AI	GATC	1 cut(s)	803
Sau96I	GGNCC	2 cut(s)	87, 405
ScrFI	CCNGG	3 cut(s)	376, 394, 409
SduI	GDGCHC	3 cut(s)	368, 607, 690
SfaNI	GCATC	2 cut(s)	319, 750
SfcI	CTRYAG	1 cut(s)	579
SinI	GGWCC	1 cut(s)	405
SmiMI	CAYNNNNRTG	2 cut(s)	279, 469
Sse9I	AATT	1 cut(s)	209
SsiI	CCGC	2 cut(s)	90, 683
SstI	GAGCTC	1 cut(s)	690
StyD4I	CCNGG	3 cut(s)	374, 392, 407
TaaI	ACNGT	3 cut(s)	342, 370, 697
TaiI	ACGT	2 cut(s)	279, 312
TaqI	TCGA	3 cut(s)	168, 345, 401
TasI	AATT	1 cut(s)	209
TauI	GCSGC	1 cut(s)	92
TfiI	GAWTC	1 cut(s)	269
Tru1I	TTAA	1 cut(s)	255
Tru9I	TTAA	1 cut(s)	255
TscAI	CASTG	1 cut(s)	456
TseFI	GTSAC	3 cut(s)	370, 548, 574
TseI	GCWGC	3 cut(s)	92, 102, 485
Tsp45I	GTSAC	3 cut(s)	370, 548, 574
TspDTI	ATGAA	3 cut(s)	453, 635, 692
TspRI	CASTG	1 cut(s)	456
VpaK11BI	GGWCC	1 cut(s)	405
XceI	RCATGY	1 cut(s)	712

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