Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0002972

Physical Location & Seq

Genomic Coordinates Reverse (-)

12839570 .. 12840436

Gene Structure 867 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG081200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 765 bp

ATGTATGCACGGTGCGGCTCGCTAGGAGATGCACGCAAGGTGTTTGACGAAATGCCTCAAAGAAGTCTTGTTTCGTTCAATGCGCTGGCTGCAGCCTATTCCCGGAGTTCAGACACTGCCGGTTTGGCATTGACATTGCTAAAACAAATGGGAGTTGAATGTCTCAGGCCAAATGTTTCGACTTTCACGAGTGTGATACAAGCCTCATGTACTCTTGAGGATTGGTTGGTTGGCTCTTTGGTTCATGCACAAGTTGTGAAATGTGGGTTCTTGAATGAAGTGCATCTTCAGACAGCTCTGCTTGGGATGTATTCCAGCTGTAGGGATTTGGTATCTGCTAGCAGAGTTTTCGGAGGAATGGTTGATAGAGATGTTGTGGCTTGGAATTCGATGATTTTCGGGTATTTGAAGAATGGTAAGAACAAGGAAGGGCTTCATTTGTGTGATGGTATGTTGAGGACTGGAGTTATTCCTACTCAGTTCACATATTCAATGGTTTTGAATGTGTGTAGCAGATTGAGATATTTGAATCTGGGGAAAATCATCCATGCCCGAGTCATAGTTTCAAGCACACATGCTGATTTGGCTTTGGAGAATTCACTGCTTGGTATGTATTGTAACTCTGGTGACACCCAAGCAGCTTTTAGTGTGTTTAATAAAATGGACAGCCCGGATTTGGTTTCATGGAACACAATGATTGCTGGGTATTCAGAAAATGAGGATGGGGAAAAGGCGATGAATTTGTTTATGGAATCAAAGAGATGA

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

LRRNT_2 LRR_8 PPR PPR_2

Protein Analysis

254

Amino Acids

27.9

Weight (kDa)

6.94

Isoelectric Point (pI)

40.57

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	123 - 171	5.8e-12	PPR repeat family
PPR_2	PF13041	224 - 251	6.3e-06	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002972)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G50420 AT3G50420
fragaria_vesca	FvH4_1g14840
malus_domestica	MD06G1092000.v1.1 MD15G1276000.v1.1
prunus_persica	Prupe.7G142000_v2.0.a1
pyrus_communis	pycom06g08800 pycom15g23890
rosa_chinensis	RchiOBHm_Chr1g0329891 RchiOBHm_Chr2g0103801
rosa_laevigata	RLG00000017261 RLG00000017264 RLG00000029855 RLG00000029861
rosa_multiflora	Rmu_sc0000112.1_g000010 Rmu_sc0000112.1_g000024 Rmu_sc0000112.1_g000025 Rmu_sc0002081.1_g000002 Rmu_sc0002081.1_g000010 Rmu_sc0006774.1_g000014
rosa_roxburghii	Rroxscaffold_2G00139300 Rroxscaffold_2G00139350 Rroxscaffold_4G00320530
rosa_rugosa	Rorug01G0084100 Rorug02G0117300
rosa_samantha	Rh1AG102000 Rh1BG081200 Rh1CG097500 Rh1DG105100 Rh2AG166400 Rh2BG173600 Rh2CG172300 Rh2DG171800
rosa_wichuraiana	Rw0G002030 Rw0G006910 Rw1G008070 Rw1G008120 Rw2G013030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	15
AcsI	RAATTY	3 cut(s)	385, 595, 739
AcuI	CTGAAG	1 cut(s)	272
AfaI	GTAC	1 cut(s)	211
AfiI	CCNNNNNNNGG	3 cut(s)	102, 321, 676
AgsI	TTSAA	8 cut(s)	79, 158, 274, 409, 492, 502, 529, 567
AleI	CACNNNNGTG	1 cut(s)	191
AluBI	AGCT	3 cut(s)	296, 318, 641
AluI	AGCT	3 cut(s)	296, 318, 641
Alw26I	GTCTC	1 cut(s)	167
AlwNI	CAGNNNCTG	1 cut(s)	116
Ama87I	CYCGRG	1 cut(s)	552
AoxI	GGCC	1 cut(s)	167
ApeKI	GCWGC	3 cut(s)	89, 92, 638
ApoI	RAATTY	3 cut(s)	385, 595, 739
Asp700I	GAANNNNTTC	1 cut(s)	432
AspLEI	GCGC	1 cut(s)	85
AsuC2I	CCSGG	2 cut(s)	103, 671
AsuHPI	GGTGA	1 cut(s)	638
AsuNHI	GCTAGC	1 cut(s)	338
AvaI	CYCGRG	1 cut(s)	552
BauI	CACGAG	1 cut(s)	187
BbvI	GCAGC	3 cut(s)	76, 104, 650
BccI	CCATC	2 cut(s)	440, 716
BcgI	CGANNNNNNTGC	2 cut(s)	331, 365
BcnI	CCSGG	2 cut(s)	103, 671
BcoDI	GTCTC	1 cut(s)	167
BfaI	CTAG	2 cut(s)	23, 339
BfmI	CTRYAG	2 cut(s)	90, 319
BglI	GCCNNNNNGGC	1 cut(s)	125
BisI	GCNGC	4 cut(s)	16, 90, 93, 639
BlsI	GCNGC	4 cut(s)	17, 91, 94, 640
Bme1390I	CCNGG	2 cut(s)	103, 671
BmeT110I	CYCGRG	1 cut(s)	552
BmrFI	CCNGG	2 cut(s)	103, 671
BmsI	GCATC	2 cut(s)	19, 292
BmtI	GCTAGC	1 cut(s)	342
BpmI	CTGGAG	1 cut(s)	483
BpuEI	CTTGAG	1 cut(s)	236
BpuMI	CCSGG	2 cut(s)	103, 671
BsaXI	ACNNNNNCTCC	2 cut(s)	345, 375
Bsc4I	CCNNNNNNNGG	3 cut(s)	102, 321, 676
Bse118I	RCCGGY	1 cut(s)	119
Bse1I	ACTGG	1 cut(s)	466
Bse3DI	GCAATG	1 cut(s)	134
BseGI	GGATG	3 cut(s)	312, 543, 727
BseLI	CCNNNNNNNGG	3 cut(s)	102, 321, 676
BseMI	GCAATG	1 cut(s)	134
BseMII	CTCAG	2 cut(s)	178, 491
BseNI	ACTGG	1 cut(s)	466
BseXI	GCAGC	3 cut(s)	76, 104, 650
BseYI	CCCAGC	1 cut(s)	701
BshFI	GGCC	1 cut(s)	169
BsiHKCI	CYCGRG	1 cut(s)	552
BsiSI	CCGG	3 cut(s)	103, 120, 671
BslI	CCNNNNNNNGG	3 cut(s)	102, 321, 676
BsmAI	GTCTC	1 cut(s)	167
BsnI	GGCC	1 cut(s)	169
BsoBI	CYCGRG	1 cut(s)	552
BspACI	CCGC	1 cut(s)	15
BspANI	GGCC	1 cut(s)	169
BspCNI	CTCAG	2 cut(s)	177, 490
BspMAI	CTGCAG	1 cut(s)	94
BspOI	GCTAGC	1 cut(s)	342
BsrDI	GCAATG	1 cut(s)	134
BsrFI	RCCGGY	1 cut(s)	119
BsrI	ACTGG	1 cut(s)	466
BssAI	RCCGGY	1 cut(s)	119
BssSI	CACGAG	1 cut(s)	187
Bst2BI	CACGAG	1 cut(s)	187
Bst4CI	ACNGT	1 cut(s)	12
BstC8I	GCNNGC	4 cut(s)	20, 34, 87, 340
BstDEI	CTNAG	2 cut(s)	164, 477
BstF5I	GGATG	3 cut(s)	312, 543, 727
BstHHI	GCGC	1 cut(s)	85
BstMAI	GTCTC	1 cut(s)	167
BstMWI	GCNNNNNNNGC	3 cut(s)	89, 125, 584
BstNSI	RCATGY	1 cut(s)	578
BstSCI	CCNGG	2 cut(s)	101, 669
BstSFI	CTRYAG	2 cut(s)	90, 319
BstV1I	GCAGC	3 cut(s)	76, 104, 650
BsuRI	GGCC	1 cut(s)	169
BtgZI	GCGATG	1 cut(s)	749
BtsCI	GGATG	3 cut(s)	312, 543, 727
BtsI	GCAGTG	2 cut(s)	114, 599
BtsIMutI	CAGTG	2 cut(s)	114, 599
Cac8I	GCNNGC	4 cut(s)	20, 34, 87, 340
CaiI	CAGNNNCTG	1 cut(s)	116
CfoI	GCGC	1 cut(s)	85
Cfr10I	RCCGGY	1 cut(s)	119
Csp6I	GTAC	1 cut(s)	210
CviAII	CATG	5 cut(s)	207, 245, 548, 575, 684
CviQI	GTAC	1 cut(s)	210
DdeI	CTNAG	2 cut(s)	164, 477
Eco57I	CTGAAG	1 cut(s)	272
Eco88I	CYCGRG	1 cut(s)	552
EcoRI	GAATTC	2 cut(s)	385, 595
FaeI	CATG	5 cut(s)	210, 248, 551, 578, 687
FalI	AAGNNNNNCTT	2 cut(s)	270, 302
FatI	CATG	5 cut(s)	206, 244, 547, 574, 683
Fnu4HI	GCNGC	4 cut(s)	16, 90, 93, 639
FokI	GGATG	3 cut(s)	319, 530, 734
Fsp4HI	GCNGC	4 cut(s)	16, 90, 93, 639
FspBI	CTAG	2 cut(s)	23, 339
GlaI	GCGC	1 cut(s)	84
GluI	GCNGC	4 cut(s)	16, 90, 93, 639
GsaI	CCCAGC	1 cut(s)	705
GsuI	CTGGAG	1 cut(s)	483
HaeIII	GGCC	1 cut(s)	169
HapII	CCGG	3 cut(s)	103, 120, 671
HhaI	GCGC	1 cut(s)	85
Hin1II	CATG	5 cut(s)	210, 248, 551, 578, 687
Hin6I	GCGC	1 cut(s)	83
HinP1I	GCGC	1 cut(s)	83
HinfI	GANTC	3 cut(s)	529, 555, 752
HpaII	CCGG	3 cut(s)	103, 120, 671
HphI	GGTGA	1 cut(s)	638
Hpy166II	GTNNAC	1 cut(s)	483
Hpy188I	TCNGA	4 cut(s)	112, 291, 353, 712
Hpy188III	TCNNGA	3 cut(s)	187, 215, 271
Hpy8I	GTNNAC	1 cut(s)	483
HpyAV	CCTTC	1 cut(s)	422
HpyCH4III	ACNGT	1 cut(s)	12
HpyCH4V	TGCA	5 cut(s)	8, 32, 92, 248, 283
HpyF10VI	GCNNNNNNNGC	3 cut(s)	89, 125, 584
HpyF3I	CTNAG	2 cut(s)	164, 477
Hsp92II	CATG	5 cut(s)	210, 248, 551, 578, 687
HspAI	GCGC	1 cut(s)	83
Lsp1109I	GCAGC	3 cut(s)	76, 104, 650
LweI	GCATC	2 cut(s)	19, 292
MaeI	CTAG	2 cut(s)	23, 339
MaeIII	GTNAC	2 cut(s)	617, 626
MboII	GAAGA	2 cut(s)	278, 421
MluCI	AATT	3 cut(s)	385, 595, 739
MlyI	GAGTC	1 cut(s)	564
MnlI	CCTC	6 cut(s)	66, 211, 214, 347, 450, 712
MroXI	GAANNNNTTC	1 cut(s)	432
MseI	TTAA	1 cut(s)	654
MslI	CAYNNNNRTG	2 cut(s)	191, 441
MspA1I	CMGCKG	1 cut(s)	318
MspI	CCGG	3 cut(s)	103, 120, 671
MspR9I	CCNGG	2 cut(s)	103, 671
MwoI	GCNNNNNNNGC	3 cut(s)	89, 125, 584
NciI	CCSGG	2 cut(s)	103, 671
NheI	GCTAGC	1 cut(s)	338
NlaIII	CATG	5 cut(s)	210, 248, 551, 578, 687
NmuCI	GTSAC	1 cut(s)	626
NspI	RCATGY	1 cut(s)	578
OliI	CACNNNNGTG	1 cut(s)	191
PcsI	WCGNNNNNNNCGW	1 cut(s)	185
PdmI	GAANNNNTTC	1 cut(s)	432
PfeI	GAWTC	2 cut(s)	529, 752
PfoI	TCCNGGA	1 cut(s)	101
PkrI	GCNGC	4 cut(s)	17, 91, 94, 640
PleI	GAGTC	1 cut(s)	563
PpsI	GAGTC	1 cut(s)	563
PspFI	CCCAGC	1 cut(s)	701
PstI	CTGCAG	1 cut(s)	94
PstNI	CAGNNNCTG	1 cut(s)	116
PvuII	CAGCTG	1 cut(s)	318
RsaI	GTAC	1 cut(s)	211
RsaNI	GTAC	1 cut(s)	210
RseI	CAYNNNNRTG	2 cut(s)	191, 441
SaqAI	TTAA	1 cut(s)	654
SatI	GCNGC	4 cut(s)	16, 90, 93, 639
SchI	GAGTC	1 cut(s)	564
ScrFI	CCNGG	2 cut(s)	103, 671
SetI	ASST	4 cut(s)	42, 298, 320, 643
SfaNI	GCATC	2 cut(s)	19, 292
SfcI	CTRYAG	2 cut(s)	90, 319
SmiMI	CAYNNNNRTG	2 cut(s)	191, 441
SmlI	CTYRAG	1 cut(s)	215
SmoI	CTYRAG	1 cut(s)	215
Sse9I	AATT	3 cut(s)	385, 595, 739
SsiI	CCGC	1 cut(s)	15
SspMI	CTAG	2 cut(s)	23, 339
StyD4I	CCNGG	2 cut(s)	101, 669
TaaI	ACNGT	1 cut(s)	12
TaqI	TCGA	2 cut(s)	179, 389
TasI	AATT	3 cut(s)	385, 595, 739
TatI	WGTACW	1 cut(s)	209
TauI	GCSGC	1 cut(s)	18
TfiI	GAWTC	2 cut(s)	529, 752
Tru1I	TTAA	1 cut(s)	654
Tru9I	TTAA	1 cut(s)	654
TscAI	CASTG	2 cut(s)	121, 606
TseFI	GTSAC	1 cut(s)	626
TseI	GCWGC	3 cut(s)	89, 92, 638
Tsp45I	GTSAC	1 cut(s)	626
TspDTI	ATGAA	5 cut(s)	233, 291, 425, 672, 752
TspRI	CASTG	2 cut(s)	121, 606
XapI	RAATTY	3 cut(s)	385, 595, 739
XceI	RCATGY	1 cut(s)	578
XmnI	GAANNNNTTC	1 cut(s)	432
XspI	CTAG	2 cut(s)	23, 339

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