Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0014516

Physical Location & Seq

Genomic Coordinates Reverse (-)

20155653 .. 20156576

Gene Structure 924 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG107900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 924 bp

ATGTCAGATGAAGCAATGGTGCTTTTTGATGGAATGAAAGAAGCAGGTGTTATCCCTGATAAAATCACACTGGTTGGAATGTTGTCTGCATGTGCTGCAATTGGTGCCCTAGATTTGGGGAGATGGATTGACAAATATGCATCTGAAAGGGACTTCCAACATGACATTTATGTTGCTACTGCATTAGTTGATATGTATGCTAAGTGTGGCAGCTTAGCCAATGCACTAAGAGTTTTTGAAGACATGCCCCAGAAAAATGAGGTTTCTTGGAATGCCATGATATCTGCCCTTGCTTTCCATGGGAGAGCCCATGAAGCAATATCCCTATTTGAGCGTATGACAGAAGAAGTTGGGGCTGCTCGGCCAAATGACATCACGTTTGTCGCAGTACTTTCTGCCTGTGTTCATGTTGGACTAGTCGATGAGGGTCGTCGGTTATTTGATTTAATGAGCTCATCATTTGGGCTGGTTCCAAAAGTAGAGCATTATTCTTGCATGGTTGACCTTTTGTCACGTGCAGGATGCGTACATGAAGCTTGGGATTTCATCAAGAAAATGCCTGAAAAACCAGATGAAGTTACACTGGGAGCGTTACTTGGTGCCTGTCGGAAATGTGGAAATGTAGACATCACTGAACAGGTAGTGCAGCTGCTTCTAGAATTGGAGCCTTCAAACTCCGGAAACTATGTTATCTCATCAAAGATCTATGCGGGCTTAAAAATGTGGGATGACTCAGCAAGGATGAGAGTGTTGATGAGACAAAGGGGTGTCAGCAAGACTCCTGGCTGTAGCTGGATTGAGACAGAGAATCAACTTCATGAGTTTCATGCCGGTGATAATTTAGAAGAGATCTCTCAAGTACTTAAAGTATTATATGAGGATTTGAAGGATGAAGGTTACATACCAAACATTAATGCTCTGTAG

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_2

Protein Analysis

307

Amino Acids

34.04

Weight (kDa)

4.92

Isoelectric Point (pI)

40.44

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	86 - 135	1.8e-08	PPR repeat family
PPR	PF01535	88 - 115	1.4e-07	PPR repeat
E_motif	PF20431	207 - 267	3.7e-18	E motif

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: OG0014516)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G34400
fragaria_vesca	FvH4_4g07550 FvH4_4g07550
malus_domestica	MD13G1244600.v1.1
prunus_persica	Prupe.1G079000_v2.0.a1
pyrus_communis	pycom13g21590
rosa_chinensis	RchiOBHm_Chr4g0400141
rosa_laevigata	RLG00000009209
rosa_multiflora	Rmu_sc0000037.1_g000017 Rmu_sc0023757.1_g000001
rosa_roxburghii	Rroxscaffold_5G00345110
rosa_rugosa	Rorug04G0022600 Rorug04G0022600 Rorug04G0022700
rosa_samantha	Rh4BG096600 Rh4CG107900
rosa_wichuraiana	Rw4G008190

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	35
Acc36I	ACCTGC	1 cut(s)	35
AccB1I	GGYRCC	2 cut(s)	104, 599
AccI	GTMKAC	1 cut(s)	624
AccIII	TCCGGA	1 cut(s)	677
AciI	CCGC	1 cut(s)	710
AcoI	YGGCCR	1 cut(s)	362
AcvI	CACGTG	1 cut(s)	515
AfaI	GTAC	3 cut(s)	390, 528, 861
AfiI	CCNNNNNNNGG	1 cut(s)	115
AgsI	TTSAA	3 cut(s)	239, 672, 886
AhdI	GACNNNNNGTC	1 cut(s)	508
AhlI	ACTAGT	1 cut(s)	415
AjnI	CCWGG	1 cut(s)	781
AluBI	AGCT	5 cut(s)	213, 453, 536, 649, 792
AluI	AGCT	5 cut(s)	213, 453, 536, 649, 792
Alw21I	GWGCWC	1 cut(s)	455
Alw26I	GTCTC	2 cut(s)	751, 794
Aor13HI	TCCGGA	1 cut(s)	677
AoxI	GGCC	1 cut(s)	362
ApeKI	GCWGC	5 cut(s)	95, 210, 356, 646, 649
ArsI	GACNNNNNNTTYG	2 cut(s)	362, 394
AseI	ATTAAT	1 cut(s)	912
AsuHPI	GGTGA	1 cut(s)	845
BaeGI	GKGCMC	1 cut(s)	109
BanI	GGYRCC	2 cut(s)	104, 599
BanII	GRGCYC	2 cut(s)	310, 455
BarI	GAAGNNNNNNTAC	2 cut(s)	885, 917
BbrPI	CACGTG	1 cut(s)	515
BbsI	GAAGAC	1 cut(s)	246
Bbv12I	GWGCWC	1 cut(s)	455
BbvI	GCAGC	5 cut(s)	82, 222, 343, 636, 658
BccI	CCATC	2 cut(s)	23, 117
BciT130I	CCWGG	1 cut(s)	783
BcoDI	GTCTC	2 cut(s)	751, 794
BcuI	ACTAGT	1 cut(s)	415
BfaI	CTAG	3 cut(s)	110, 416, 656
BfmI	CTRYAG	2 cut(s)	787, 920
BfuAI	ACCTGC	1 cut(s)	35
BglII	AGATCT	2 cut(s)	702, 849
BisI	GCNGC	5 cut(s)	96, 211, 357, 647, 650
BlpI	GCTNAGC	1 cut(s)	214
BlsI	GCNGC	5 cut(s)	97, 212, 358, 648, 651
BmcAI	AGTACT	2 cut(s)	390, 861
Bme1390I	CCNGG	1 cut(s)	783
BmeRI	GACNNNNNGTC	1 cut(s)	508
BmiI	GGNNCC	4 cut(s)	106, 471, 601, 666
BmrFI	CCNGG	1 cut(s)	783
BmrI	ACTGGG	1 cut(s)	593
BmsI	GCATC	2 cut(s)	149, 512
BmuI	ACTGGG	1 cut(s)	593
BpiI	GAAGAC	1 cut(s)	246
Bpu1102I	GCTNAGC	1 cut(s)	214
BpuEI	CTTGAG	1 cut(s)	840
BsaAI	YACGTR	1 cut(s)	515
BsaJI	CCNNGG	1 cut(s)	298
BsaWI	WCCGGW	1 cut(s)	677
Bsc4I	CCNNNNNNNGG	1 cut(s)	115
Bse118I	RCCGGY	1 cut(s)	830
Bse1I	ACTGG	2 cut(s)	75, 588
Bse3DI	GCAATG	1 cut(s)	21
BseAI	TCCGGA	1 cut(s)	677
BseBI	CCWGG	1 cut(s)	783
BseDI	CCNNGG	1 cut(s)	298
BseGI	GGATG	4 cut(s)	527, 733, 747, 895
BseLI	CCNNNNNNNGG	1 cut(s)	115
BseMI	GCAATG	1 cut(s)	21
BseMII	CTCAG	1 cut(s)	747
BseNI	ACTGG	2 cut(s)	75, 588
BseSI	GKGCMC	1 cut(s)	109
BseXI	GCAGC	5 cut(s)	82, 222, 343, 636, 658
BsgI	GTGCAG	2 cut(s)	537, 665
BshFI	GGCC	1 cut(s)	364
BshNI	GGYRCC	2 cut(s)	104, 599
BsiHKAI	GWGCWC	1 cut(s)	455
BsiSI	CCGG	2 cut(s)	678, 831
BslFI	GGGAC	1 cut(s)	164
BslI	CCNNNNNNNGG	1 cut(s)	115
BsmAI	GTCTC	2 cut(s)	751, 794
BsmFI	GGGAC	1 cut(s)	164
BsmI	GAATGC	1 cut(s)	277
BsnI	GGCC	1 cut(s)	364
Bsp1286I	GDGCHC	3 cut(s)	109, 310, 455
Bsp13I	TCCGGA	1 cut(s)	677
Bsp143I	GATC	2 cut(s)	702, 849
Bsp1720I	GCTNAGC	1 cut(s)	214
Bsp19I	CCATGG	1 cut(s)	298
BspACI	CCGC	1 cut(s)	710
BspANI	GGCC	1 cut(s)	364
BspCNI	CTCAG	1 cut(s)	746
BspEI	TCCGGA	1 cut(s)	677
BspHI	TCATGA	1 cut(s)	817
BspLI	GGNNCC	4 cut(s)	106, 471, 601, 666
BspMI	ACCTGC	1 cut(s)	35
BspT107I	GGYRCC	2 cut(s)	104, 599
BsrDI	GCAATG	1 cut(s)	21
BsrFI	RCCGGY	1 cut(s)	830
BsrI	ACTGG	2 cut(s)	75, 588
BssAI	RCCGGY	1 cut(s)	830
BssECI	CCNNGG	1 cut(s)	298
BssMI	GATC	2 cut(s)	702, 849
BssT1I	CCWWGG	1 cut(s)	298
Bst2UI	CCWGG	1 cut(s)	783
Bst6I	CTCTTC	1 cut(s)	840
BstAPI	GCANNNNNTGC	2 cut(s)	95, 104
BstBAI	YACGTR	1 cut(s)	515
BstC8I	GCNNGC	1 cut(s)	712
BstDEI	CTNAG	4 cut(s)	201, 214, 227, 733
BstDSI	CCRYGG	1 cut(s)	298
BstF5I	GGATG	4 cut(s)	527, 733, 747, 895
BstKTI	GATC	2 cut(s)	705, 852
BstMAI	GTCTC	2 cut(s)	751, 794
BstMBI	GATC	2 cut(s)	702, 849
BstMWI	GCNNNNNNNGC	3 cut(s)	95, 104, 314
BstNI	CCWGG	1 cut(s)	783
BstNSI	RCATGY	2 cut(s)	93, 247
BstSCI	CCNGG	1 cut(s)	781
BstSFI	CTRYAG	2 cut(s)	787, 920
BstSLI	GKGCMC	1 cut(s)	109
BstV1I	GCAGC	5 cut(s)	82, 222, 343, 636, 658
BstV2I	GAAGAC	1 cut(s)	246
BstX2I	RGATCY	2 cut(s)	702, 849
BstYI	RGATCY	2 cut(s)	702, 849
BsuRI	GGCC	1 cut(s)	364
BtgI	CCRYGG	1 cut(s)	298
BtsCI	GGATG	4 cut(s)	527, 733, 747, 895
BtsIMutI	CAGTG	3 cut(s)	68, 581, 630
BveI	ACCTGC	1 cut(s)	35
Cac8I	GCNNGC	1 cut(s)	712
CciI	TCATGA	1 cut(s)	817
Cfr10I	RCCGGY	1 cut(s)	830
Csp6I	GTAC	3 cut(s)	389, 527, 860
CviQI	GTAC	3 cut(s)	389, 527, 860
DdeI	CTNAG	4 cut(s)	201, 214, 227, 733
DpnI	GATC	2 cut(s)	704, 851
DpnII	GATC	2 cut(s)	702, 849
DriI	GACNNNNNGTC	1 cut(s)	508
EaeI	YGGCCR	1 cut(s)	362
Eam1104I	CTCTTC	1 cut(s)	840
Eam1105I	GACNNNNNGTC	1 cut(s)	508
EarI	CTCTTC	1 cut(s)	840
Ecl136II	GAGCTC	1 cut(s)	453
Eco130I	CCWWGG	1 cut(s)	298
Eco24I	GRGCYC	2 cut(s)	310, 455
Eco32I	GATATC	1 cut(s)	282
Eco53kI	GAGCTC	1 cut(s)	453
Eco72I	CACGTG	1 cut(s)	515
EcoICRI	GAGCTC	1 cut(s)	453
EcoRII	CCWGG	1 cut(s)	781
EcoRV	GATATC	1 cut(s)	282
EcoT14I	CCWWGG	1 cut(s)	298
EcoT22I	ATGCAT	1 cut(s)	142
EcoT38I	GRGCYC	2 cut(s)	310, 455
ErhI	CCWWGG	1 cut(s)	298
FaqI	GGGAC	1 cut(s)	164
FauI	CCCGC	1 cut(s)	703
FblI	GTMKAC	1 cut(s)	624
Fnu4HI	GCNGC	5 cut(s)	96, 211, 357, 647, 650
FokI	GGATG	4 cut(s)	534, 740, 754, 902
FriOI	GRGCYC	2 cut(s)	310, 455
Fsp4HI	GCNGC	5 cut(s)	96, 211, 357, 647, 650
FspBI	CTAG	3 cut(s)	110, 416, 656
GluI	GCNGC	5 cut(s)	96, 211, 357, 647, 650
HaeIII	GGCC	1 cut(s)	364
HapII	CCGG	2 cut(s)	678, 831
HincII	GTYRAC	1 cut(s)	502
HindII	GTYRAC	1 cut(s)	502
HindIII	AAGCTT	1 cut(s)	534
HinfI	GANTC	3 cut(s)	731, 778, 808
HpaII	CCGG	2 cut(s)	678, 831
HphI	GGTGA	1 cut(s)	845
Hpy166II	GTNNAC	2 cut(s)	502, 625
Hpy188I	TCNGA	3 cut(s)	7, 145, 609
Hpy188III	TCNNGA	4 cut(s)	550, 656, 678, 818
Hpy8I	GTNNAC	2 cut(s)	502, 625
Hpy99I	CGWCG	1 cut(s)	435
HpyAV	CCTTC	3 cut(s)	678, 880, 887
HpyCH4IV	ACGT	2 cut(s)	377, 514
HpyCH4V	TGCA	8 cut(s)	89, 98, 140, 182, 224, 495, 518, 646
HpyF10VI	GCNNNNNNNGC	3 cut(s)	95, 104, 314
HpyF3I	CTNAG	4 cut(s)	201, 214, 227, 733
HpySE526I	ACGT	2 cut(s)	377, 514
Kpn2I	TCCGGA	1 cut(s)	677
Kzo9I	GATC	2 cut(s)	702, 849
LmnI	GCTCC	2 cut(s)	587, 664
Lsp1109I	GCAGC	5 cut(s)	82, 222, 343, 636, 658
LweI	GCATC	2 cut(s)	149, 512
MaeI	CTAG	3 cut(s)	110, 416, 656
MaeII	ACGT	2 cut(s)	377, 514
MaeIII	GTNAC	4 cut(s)	510, 577, 591, 896
MalI	GATC	2 cut(s)	704, 851
MboI	GATC	2 cut(s)	702, 849
MboII	GAAGA	3 cut(s)	251, 356, 857
MfeI	CAATTG	1 cut(s)	99
MflI	RGATCY	2 cut(s)	702, 849
MhlI	GDGCHC	3 cut(s)	109, 310, 455
MluCI	AATT	3 cut(s)	99, 659, 838
MlyI	GAGTC	2 cut(s)	725, 772
MmeI	TCCRAC	4 cut(s)	55, 181, 391, 587
MnlI	CCTC	3 cut(s)	253, 418, 871
Mph1103I	ATGCAT	1 cut(s)	142
MroI	TCCGGA	1 cut(s)	677
MseI	TTAA	4 cut(s)	446, 716, 864, 912
MslI	CAYNNNNRTG	1 cut(s)	831
MspA1I	CMGCKG	1 cut(s)	649
MspI	CCGG	2 cut(s)	678, 831
MspR9I	CCNGG	1 cut(s)	783
MunI	CAATTG	1 cut(s)	99
Mva1269I	GAATGC	1 cut(s)	277
MvaI	CCWGG	1 cut(s)	783
MwoI	GCNNNNNNNGC	3 cut(s)	95, 104, 314
NcoI	CCATGG	1 cut(s)	298
NdeII	GATC	2 cut(s)	702, 849
NlaIV	GGNNCC	4 cut(s)	106, 471, 601, 666
NmeAIII	GCCGAG	1 cut(s)	340
NmuCI	GTSAC	1 cut(s)	510
NsiI	ATGCAT	1 cut(s)	142
NspI	RCATGY	2 cut(s)	93, 247
PagI	TCATGA	1 cut(s)	817
PaqCI	CACCTGC	1 cut(s)	35
PctI	GAATGC	1 cut(s)	277
PfeI	GAWTC	1 cut(s)	808
PkrI	GCNGC	5 cut(s)	97, 212, 358, 648, 651
PleI	GAGTC	2 cut(s)	725, 772
PmaCI	CACGTG	1 cut(s)	515
PmlI	CACGTG	1 cut(s)	515
PpsI	GAGTC	2 cut(s)	725, 772
Ppu21I	YACGTR	1 cut(s)	515
PshBI	ATTAAT	1 cut(s)	912
Psp124BI	GAGCTC	1 cut(s)	455
Psp6I	CCWGG	1 cut(s)	781
PspCI	CACGTG	1 cut(s)	515
PspGI	CCWGG	1 cut(s)	781
PspN4I	GGNNCC	4 cut(s)	106, 471, 601, 666
PsuI	RGATCY	2 cut(s)	702, 849
PvuII	CAGCTG	1 cut(s)	649
RsaI	GTAC	3 cut(s)	390, 528, 861
RsaNI	GTAC	3 cut(s)	389, 527, 860
RseI	CAYNNNNRTG	1 cut(s)	831
SacI	GAGCTC	1 cut(s)	455
SaqAI	TTAA	4 cut(s)	446, 716, 864, 912
SatI	GCNGC	5 cut(s)	96, 211, 357, 647, 650
Sau3AI	GATC	2 cut(s)	702, 849
ScaI	AGTACT	2 cut(s)	390, 861
SchI	GAGTC	2 cut(s)	725, 772
ScrFI	CCNGG	1 cut(s)	783
SduI	GDGCHC	3 cut(s)	109, 310, 455
SfaNI	GCATC	2 cut(s)	149, 512
SfcI	CTRYAG	2 cut(s)	787, 920
SmiMI	CAYNNNNRTG	1 cut(s)	831
SmlI	CTYRAG	1 cut(s)	855
SmoI	CTYRAG	1 cut(s)	855
SpeI	ACTAGT	1 cut(s)	415
Sse9I	AATT	3 cut(s)	99, 659, 838
SsiI	CCGC	1 cut(s)	710
SspMI	CTAG	3 cut(s)	110, 416, 656
SstI	GAGCTC	1 cut(s)	455
StyD4I	CCNGG	1 cut(s)	781
StyI	CCWWGG	1 cut(s)	298
TaiI	ACGT	2 cut(s)	380, 517
TaqI	TCGA	1 cut(s)	420
TasI	AATT	3 cut(s)	99, 659, 838
TatI	WGTACW	2 cut(s)	388, 859
TfiI	GAWTC	1 cut(s)	808
Tru1I	TTAA	4 cut(s)	446, 716, 864, 912
Tru9I	TTAA	4 cut(s)	446, 716, 864, 912
TscAI	CASTG	3 cut(s)	75, 588, 637
TseFI	GTSAC	1 cut(s)	510
TseI	GCWGC	5 cut(s)	95, 210, 356, 646, 649
Tsp45I	GTSAC	1 cut(s)	510
TspRI	CASTG	3 cut(s)	75, 588, 637
VspI	ATTAAT	1 cut(s)	912
XbaI	TCTAGA	1 cut(s)	655
XceI	RCATGY	2 cut(s)	93, 247
XmiI	GTMKAC	1 cut(s)	624
XspI	CTAG	3 cut(s)	110, 416, 656
ZrmI	AGTACT	2 cut(s)	390, 861
Zsp2I	ATGCAT	1 cut(s)	142

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