Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0013080

Physical Location & Seq

Genomic Coordinates Reverse (-)

13822588 .. 13823748

Gene Structure 1161 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG075700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1050 bp

ATGTACTCCAAGTGCAACCAAATGGGTGATGCCGTCTCTACCTTTTACTATAAGTTCCATGATCACAATGAGTCATTGCCGGGTTCACAGCAAATGGGTTGGCTAAAAAATGGATTTGAATTCTATAAAAGAATGCGGTTGGCAGGTGTTGTGCCAGATAAGTTTACGTTTCCATGTGCTATCAGAGCTTGTTGTGGGGTACTGGAGGTTTTGAAGGTTCATCCCTTGGTGGTTAAACTTGGGTTGGAATTAGATGTATATGTTGGTAGTGCTTTGGTGAATACATATTTGAAATCTGTGTTAGTGGAGGAGGCACAGAAAGTGTTTGAGGAGTTGCCTCCTAGAGATGATGTGCTTTGGAATGAAATGGTTAATGGTTTTGCACAGATTGGATGTTTTGATGAGGCTTTGGTTGTCTTTAGGGTAATGGGTGAGGAAAGGGTTGAGCCTAGCAGGTTTACGGTAACTGGGGTATTGTCGATCTTCGCCATGATGGGAGATTTTGACAATGGGAGAGCAGTGCATGGGTTTGTTTTGAAAATGGCTTATGATTCACATTTTGAGGTTTCAAATGCATTGATCGACATGTATGGAAAATGCAAGCTTACAGAAGATGCATTAGATATTTTCGAGATGATGATTGATAAAATGTTAGGTGCTGGGGTTCTACCTGATCTGGTGACCATCACGATAGTTGTTCCAGCGTGCTCTTATCTAGCAGCTTTGATGTATGGTAGAGAGATTCATGGATATATGATTAAAAATGAGATTGGTAAGGATGTGAATAAGGAAGATGTTAACGATGTGCTAATGACCAATGCGATCATGGACATGTACACAAAATGTGGGAGCATGAGAAATGCTTATATGGTTTTTTATTTGATGAAATATAAGGATGTGGCGTCATGGAACATCATGATCATGGGTTATGGCATGCACGGCAATGCTAATGAGGCGTTGGATATGTTTTCTCGCACGTGTGGGGCACAGATTGAGGTTGATGAGGTCACTTTTGTTGGGGTTTTGTCTGCATGCAGGGTTAGTGAGTGA

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

DYW_deaminase PPR PPR_2

Protein Analysis

349

Amino Acids

39.23

Weight (kDa)

5.0

Isoelectric Point (pI)

37.79

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	116 - 160	9.6e-06	PPR repeat family
PPR_2	PF13041	298 - 345	1.8e-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: OG0013080)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G14730
malus_domestica	MD05G1289700.v1.1
prunus_persica	Prupe.4G076000_v2.0.a1
pyrus_communis	pycom05g26680
rosa_chinensis	RchiOBHm_Chr7g0219901
rosa_laevigata	RLG00000009523 RLG00000031996
rosa_multiflora	Rmu_sc0004521.1_g000007
rosa_roxburghii	Rroxscaffold_1G00063400
rosa_rugosa	Rorug05G0007900
rosa_samantha	Rh4BG067800 Rh4CG075700 Rh5AG101900 Rh5AG102300 Rh5BG098600 Rh5CG110800 Rh5DG097900
rosa_wichuraiana	Rw5G008930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	134
Acc36I	ACCTGC	2 cut(s)	134, 444
AciI	CCGC	1 cut(s)	136
AcsI	RAATTY	1 cut(s)	119
AcvI	CACGTG	1 cut(s)	978
AcyI	GRCGYC	1 cut(s)	902
AfaI	GTAC	3 cut(s)	5, 201, 836
AflIII	ACRYGT	3 cut(s)	585, 831, 977
AgsI	TTSAA	5 cut(s)	119, 214, 292, 538, 570
AluBI	AGCT	3 cut(s)	188, 604, 722
AluI	AGCT	3 cut(s)	188, 604, 722
Alw21I	GWGCWC	1 cut(s)	710
Alw26I	GTCTC	1 cut(s)	40
ApeKI	GCWGC	1 cut(s)	719
ApoI	RAATTY	1 cut(s)	119
AsuC2I	CCSGG	1 cut(s)	81
AsuHPI	GGTGA	4 cut(s)	38, 289, 443, 691
BaeGI	GKGCMC	1 cut(s)	988
BbrPI	CACGTG	1 cut(s)	978
Bbv12I	GWGCWC	1 cut(s)	710
BbvI	GCAGC	1 cut(s)	731
BccI	CCATC	2 cut(s)	487, 692
BceAI	ACGGC	2 cut(s)	17, 955
BclI	TGATCA	2 cut(s)	61, 918
BcnI	CCSGG	1 cut(s)	81
BcoDI	GTCTC	1 cut(s)	40
BfaI	CTAG	3 cut(s)	342, 450, 716
BfuAI	ACCTGC	2 cut(s)	134, 444
BisI	GCNGC	1 cut(s)	720
BlsI	GCNGC	1 cut(s)	721
Bme1390I	CCNGG	1 cut(s)	81
BmrFI	CCNGG	1 cut(s)	81
BmrI	ACTGGG	1 cut(s)	477
BmsI	GCATC	2 cut(s)	19, 604
BmuI	ACTGGG	1 cut(s)	477
BpmI	CTGGAG	1 cut(s)	224
BpuMI	CCSGG	1 cut(s)	81
BsaAI	YACGTR	1 cut(s)	978
BsaHI	GRCGYC	1 cut(s)	902
BsaJI	CCNNGG	1 cut(s)	225
Bse1I	ACTGG	2 cut(s)	207, 472
Bse3DI	GCAATG	2 cut(s)	74, 949
BseDI	CCNNGG	1 cut(s)	225
BseGI	GGATG	4 cut(s)	220, 398, 784, 901
BseMI	GCAATG	2 cut(s)	74, 949
BseNI	ACTGG	2 cut(s)	207, 472
BseRI	GAGGAG	2 cut(s)	323, 344
BseSI	GKGCMC	1 cut(s)	988
BseXI	GCAGC	1 cut(s)	731
BseYI	CCCAGC	1 cut(s)	659
BsiHKAI	GWGCWC	1 cut(s)	710
BsiSI	CCGG	1 cut(s)	80
BsmAI	GTCTC	1 cut(s)	40
BsmBI	CGTCTC	1 cut(s)	40
BsmI	GAATGC	1 cut(s)	138
Bsp1286I	GDGCHC	2 cut(s)	710, 988
Bsp1407I	TGTACA	1 cut(s)	834
Bsp143I	GATC	6 cut(s)	61, 480, 579, 673, 822, 918
BspACI	CCGC	1 cut(s)	136
BspHI	TCATGA	1 cut(s)	915
BspMI	ACCTGC	2 cut(s)	134, 444
BsrDI	GCAATG	2 cut(s)	74, 949
BsrGI	TGTACA	1 cut(s)	834
BsrI	ACTGG	2 cut(s)	207, 472
BssECI	CCNNGG	1 cut(s)	225
BssMI	GATC	6 cut(s)	61, 480, 579, 673, 822, 918
BssNI	GRCGYC	1 cut(s)	902
BssT1I	CCWWGG	1 cut(s)	225
Bst4CI	ACNGT	1 cut(s)	463
BstACI	GRCGYC	1 cut(s)	902
BstAUI	TGTACA	1 cut(s)	834
BstBAI	YACGTR	1 cut(s)	978
BstC8I	GCNNGC	4 cut(s)	602, 706, 935, 1033
BstEII	GGTNACC	1 cut(s)	679
BstF5I	GGATG	4 cut(s)	220, 398, 784, 901
BstKTI	GATC	6 cut(s)	64, 483, 582, 676, 825, 921
BstMAI	GTCTC	1 cut(s)	40
BstMBI	GATC	6 cut(s)	61, 480, 579, 673, 822, 918
BstMWI	GCNNNNNNNGC	3 cut(s)	185, 939, 953
BstNSI	RCATGY	4 cut(s)	589, 835, 937, 1035
BstPI	GGTNACC	1 cut(s)	679
BstSCI	CCNGG	1 cut(s)	79
BstSLI	GKGCMC	1 cut(s)	988
BstV1I	GCAGC	1 cut(s)	731
BtsCI	GGATG	4 cut(s)	220, 398, 784, 901
BtsI	GCAGTG	1 cut(s)	525
BtsIMutI	CAGTG	1 cut(s)	525
BveI	ACCTGC	2 cut(s)	134, 444
Cac8I	GCNNGC	4 cut(s)	602, 706, 935, 1033
CciI	TCATGA	1 cut(s)	915
CseI	GACGC	1 cut(s)	891
Csp6I	GTAC	3 cut(s)	4, 200, 835
CviJI	RGCY	7 cut(s)	103, 188, 407, 448, 545, 604, 722
CviKI_1	RGCY	7 cut(s)	103, 188, 407, 448, 545, 604, 722
CviQI	GTAC	3 cut(s)	4, 200, 835
DpnI	GATC	6 cut(s)	63, 482, 581, 675, 824, 920
DpnII	GATC	6 cut(s)	61, 480, 579, 673, 822, 918
Eco130I	CCWWGG	1 cut(s)	225
Eco72I	CACGTG	1 cut(s)	978
Eco91I	GGTNACC	1 cut(s)	679
EcoO65I	GGTNACC	1 cut(s)	679
EcoRI	GAATTC	1 cut(s)	119
EcoT14I	CCWWGG	1 cut(s)	225
EcoT22I	ATGCAT	2 cut(s)	577, 619
ErhI	CCWWGG	1 cut(s)	225
Esp3I	CGTCTC	1 cut(s)	40
FbaI	TGATCA	2 cut(s)	61, 918
Fnu4HI	GCNGC	1 cut(s)	720
FokI	GGATG	4 cut(s)	207, 405, 791, 908
Fsp4HI	GCNGC	1 cut(s)	720
FspBI	CTAG	3 cut(s)	342, 450, 716
GluI	GCNGC	1 cut(s)	720
GsaI	CCCAGC	1 cut(s)	663
GsuI	CTGGAG	1 cut(s)	224
HapII	CCGG	1 cut(s)	80
HgaI	GACGC	1 cut(s)	891
Hin1I	GRCGYC	1 cut(s)	902
HincII	GTYRAC	1 cut(s)	799
HindII	GTYRAC	1 cut(s)	799
HindIII	AAGCTT	1 cut(s)	602
HinfI	GANTC	3 cut(s)	71, 551, 742
HpaI	GTTAAC	1 cut(s)	799
HpaII	CCGG	1 cut(s)	80
HphI	GGTGA	4 cut(s)	38, 289, 443, 691
Hpy166II	GTNNAC	5 cut(s)	86, 165, 459, 799, 837
Hpy188I	TCNGA	1 cut(s)	185
Hpy188III	TCNNGA	3 cut(s)	631, 688, 916
Hpy8I	GTNNAC	5 cut(s)	86, 165, 459, 799, 837
HpyAV	CCTTC	1 cut(s)	208
HpyCH4III	ACNGT	1 cut(s)	463
HpyCH4IV	ACGT	2 cut(s)	167, 977
HpyCH4V	TGCA	9 cut(s)	15, 383, 523, 575, 600, 617, 937, 1031, 1035
HpyF10VI	GCNNNNNNNGC	3 cut(s)	185, 939, 953
HpySE526I	ACGT	2 cut(s)	167, 977
Hsp92I	GRCGYC	1 cut(s)	902
Ksp22I	TGATCA	2 cut(s)	61, 918
KspAI	GTTAAC	1 cut(s)	799
Kzo9I	GATC	6 cut(s)	61, 480, 579, 673, 822, 918
LmnI	GCTCC	1 cut(s)	849
Lsp1109I	GCAGC	1 cut(s)	731
LweI	GCATC	2 cut(s)	19, 604
MaeI	CTAG	3 cut(s)	342, 450, 716
MaeII	ACGT	2 cut(s)	167, 977
MaeIII	GTNAC	3 cut(s)	463, 679, 1006
MalI	GATC	6 cut(s)	63, 482, 581, 675, 824, 920
MboI	GATC	6 cut(s)	61, 480, 579, 673, 822, 918
MboII	GAAGA	3 cut(s)	475, 623, 803
MhlI	GDGCHC	2 cut(s)	710, 988
MluCI	AATT	2 cut(s)	119, 248
MlyI	GAGTC	1 cut(s)	80
MmeI	TCCRAC	2 cut(s)	225, 939
Mph1103I	ATGCAT	2 cut(s)	577, 619
MseI	TTAA	4 cut(s)	234, 372, 759, 798
MslI	CAYNNNNRTG	3 cut(s)	830, 920, 942
MspI	CCGG	1 cut(s)	80
MspR9I	CCNGG	1 cut(s)	81
Mva1269I	GAATGC	1 cut(s)	138
MwoI	GCNNNNNNNGC	3 cut(s)	185, 939, 953
NciI	CCSGG	1 cut(s)	81
NdeII	GATC	6 cut(s)	61, 480, 579, 673, 822, 918
NmuCI	GTSAC	2 cut(s)	679, 1006
NsiI	ATGCAT	2 cut(s)	577, 619
NspI	RCATGY	4 cut(s)	589, 835, 937, 1035
PaeI	GCATGC	2 cut(s)	937, 1035
PagI	TCATGA	1 cut(s)	915
PaqCI	CACCTGC	1 cut(s)	134
PciI	ACATGT	2 cut(s)	585, 831
PctI	GAATGC	1 cut(s)	138
PfeI	GAWTC	2 cut(s)	551, 742
PkrI	GCNGC	1 cut(s)	721
PleI	GAGTC	1 cut(s)	79
PmaCI	CACGTG	1 cut(s)	978
PmlI	CACGTG	1 cut(s)	978
PpsI	GAGTC	1 cut(s)	79
Ppu21I	YACGTR	1 cut(s)	978
PscI	ACATGT	2 cut(s)	585, 831
PspCI	CACGTG	1 cut(s)	978
PspEI	GGTNACC	1 cut(s)	679
PspFI	CCCAGC	1 cut(s)	659
RsaI	GTAC	3 cut(s)	5, 201, 836
RsaNI	GTAC	3 cut(s)	4, 200, 835
RseI	CAYNNNNRTG	3 cut(s)	830, 920, 942
SaqAI	TTAA	4 cut(s)	234, 372, 759, 798
SatI	GCNGC	1 cut(s)	720
Sau3AI	GATC	6 cut(s)	61, 480, 579, 673, 822, 918
SchI	GAGTC	1 cut(s)	80
ScrFI	CCNGG	1 cut(s)	81
SduI	GDGCHC	2 cut(s)	710, 988
SfaNI	GCATC	2 cut(s)	19, 604
SmiMI	CAYNNNNRTG	3 cut(s)	830, 920, 942
SphI	GCATGC	2 cut(s)	937, 1035
Sse9I	AATT	2 cut(s)	119, 248
SsiI	CCGC	1 cut(s)	136
SspMI	CTAG	3 cut(s)	342, 450, 716
StyD4I	CCNGG	1 cut(s)	79
StyI	CCWWGG	1 cut(s)	225
TaaI	ACNGT	1 cut(s)	463
TaiI	ACGT	2 cut(s)	170, 980
TaqI	TCGA	3 cut(s)	479, 582, 630
TasI	AATT	2 cut(s)	119, 248
TatI	WGTACW	2 cut(s)	3, 834
TfiI	GAWTC	2 cut(s)	551, 742
Tru1I	TTAA	4 cut(s)	234, 372, 759, 798
Tru9I	TTAA	4 cut(s)	234, 372, 759, 798
TscAI	CASTG	1 cut(s)	525
TseFI	GTSAC	2 cut(s)	679, 1006
TseI	GCWGC	1 cut(s)	719
Tsp45I	GTSAC	2 cut(s)	679, 1006
TspDTI	ATGAA	4 cut(s)	209, 378, 734, 899
TspRI	CASTG	1 cut(s)	525
XapI	RAATTY	1 cut(s)	119
XceI	RCATGY	4 cut(s)	589, 835, 937, 1035
XcmI	CCANNNNNNNNNTGG	1 cut(s)	823
XspI	CTAG	3 cut(s)	342, 450, 716
Zsp2I	ATGCAT	2 cut(s)	577, 619

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