Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0016096

Physical Location & Seq

Genomic Coordinates Reverse (-)

49835264 .. 49836713

Gene Structure 1450 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG248800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1035 bp

ATGTACGGGAAGTGCAATGATGTCGGTGGCGCTCGGCGGGTTTTTGAGTTGACGGGTGGGAGGAATGTTGTTACTTGGACTTCCATTATTGCTGCTTATGCCCAGAACGGACGAGGCCAGGATGCGCTCCAGCTTTTTAGGGAATTTAATCGTGGGATGATGGAGCGTCCGAATCATTTCATGTTGGCTAGTGTTGTAAATGCTTGTGCGAGCTTGGGTCGTTTAGTTTCTGGCAAAGTTGCACATGGAGCAGTGATTCGCTGTGGACATGATCTGAATGATGTGATTGCGAGTGCATTGGTTGACATGTATGCTAAATGTGGGAGTGTTGAGTATTCTGACAAGGTTTTCAGGCGAATCCCAAATCCCTCTGTAATAGCCTACACTTCGATGATTGTGGCTGCTGCGAAGTATGGATTGGGGAAAATGTCCCTTCAACTCTTTGAAGAAATGATCGATAGAAGAATAAAACCCAATGATGTCACCTTTGTTGGTGTCTTGCATGCTTGTAGCCATGCAGGGCTTGTGGATGAAGGGCTCCAACACTATGAATCTATGTATGAGAAACATGGAATATCCCCAAATGCAAAGCATCATACTTGTATTGTTGACATGCTTGGTCGAACTGGCCGTCTCAATGAGGCGTACGAACTGGCCAAATCCATCCAAGCACAACCAAATCAACAAGCCTTGGTGTGGGGGACACTTCTTTCAGCTAGTAGGCTTCGTGGAAGGGTTGACATTGCTGTTGAAGCTAGTAGACGGCTAATAGATTCCAACCAACAGGTATCGGGTGCATATGTCACGTTGTCAAATGCTTATGCGTTGAGTGGAGAGTGGGAGACCGCTCATGGTCTTCGGTCAGAAATGAAGCGTACTGGGGTTAGGAAAGAACCCGGCTGCAGTTGGGTTGAGATTAAGGACTCAAATTATGTGTTCTATGCTGGAGATGTATCATCATGTGCACGCCGGAGTGAGGTGGTTACTTTGCTGAGGGAGTTGGAGGGTAAAATGAAACAAAGAGGATATCTTTGA

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

ko04141 map04141

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

344

Amino Acids

37.99

Weight (kDa)

9.03

Isoelectric Point (pI)

37.01

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	21 - 49	6.9e-06	PPR repeat family
PPR	PF01535	24 - 48	7.5e-06	PPR repeat
PPR_2	PF13041	123 - 171	2.7e-09	PPR repeat family
E_motif	PF20431	246 - 305	7.9e-15	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: OG0016096)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G15720
fragaria_vesca	FvH4_3g12520
malus_domestica	MD13G1170500.v1.1
prunus_persica	Prupe.1G138900_v2.0.a1
pyrus_communis	pycom13g14610
rosa_chinensis	RchiOBHm_Chr4g0421681
rosa_laevigata	RLG00000007659
rosa_multiflora	Rmu_sc0004533.1_g000011
rosa_roxburghii	Rroxscaffold_5G00363920
rosa_rugosa	Rorug04G0174600
rosa_samantha	Rh4AG233900 Rh4BG237000 Rh4CG248800
rosa_wichuraiana	Rw0G007720 Rw4G020010

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	848
AccI	GTMKAC	1 cut(s)	760
AciI	CCGC	2 cut(s)	37, 846
AcoI	YGGCCR	2 cut(s)	628, 654
AcsI	RAATTY	1 cut(s)	143
AfaI	GTAC	3 cut(s)	5, 647, 877
AfiI	CCNNNNNNNGG	2 cut(s)	696, 976
AflIII	ACRYGT	1 cut(s)	306
AgsI	TTSAA	3 cut(s)	437, 446, 752
AjnI	CCWGG	1 cut(s)	117
AjuI	GAANNNNNNNTTGG	2 cut(s)	401, 433
AluBI	AGCT	4 cut(s)	133, 213, 716, 755
AluI	AGCT	4 cut(s)	133, 213, 716, 755
Alw21I	GWGCWC	1 cut(s)	967
Alw26I	GTCTC	2 cut(s)	638, 836
Alw44I	GTGCAC	1 cut(s)	963
AoxI	GGCC	3 cut(s)	115, 628, 654
ApaLI	GTGCAC	1 cut(s)	963
ApeKI	GCWGC	4 cut(s)	92, 401, 404, 900
ApoI	RAATTY	1 cut(s)	143
ArsI	GACNNNNNNTTYG	2 cut(s)	616, 648
Asp700I	GAANNNNTTC	1 cut(s)	176
AspLEI	GCGC	2 cut(s)	32, 127
AsuC2I	CCSGG	1 cut(s)	897
AsuHPI	GGTGA	1 cut(s)	475
BaeGI	GKGCMC	1 cut(s)	967
BalI	TGGCCA	1 cut(s)	656
BanII	GRGCYC	1 cut(s)	540
BbsI	GAAGAC	1 cut(s)	848
Bbv12I	GWGCWC	1 cut(s)	967
BbvCI	CCTCAGC	1 cut(s)	992
BbvI	GCAGC	4 cut(s)	79, 388, 391, 887
BccI	CCATC	2 cut(s)	154, 671
BceAI	ACGGC	2 cut(s)	615, 779
BcgI	CGANNNNNNTGC	2 cut(s)	4, 38
BciT130I	CCWGG	1 cut(s)	119
BcnI	CCSGG	1 cut(s)	897
BcoDI	GTCTC	2 cut(s)	638, 836
BfaI	CTAG	3 cut(s)	189, 717, 756
BfmI	CTRYAG	1 cut(s)	901
BfoI	RGCGCY	1 cut(s)	33
BisI	GCNGC	4 cut(s)	93, 402, 405, 901
BlsI	GCNGC	4 cut(s)	94, 403, 406, 902
Bme1390I	CCNGG	2 cut(s)	119, 897
BmiI	GGNNCC	1 cut(s)	539
BmrFI	CCNGG	2 cut(s)	119, 897
BmrI	ACTGGG	1 cut(s)	888
BmsI	GCATC	2 cut(s)	112, 601
BmuI	ACTGGG	1 cut(s)	888
BpiI	GAAGAC	1 cut(s)	848
BpmI	CTGGAG	2 cut(s)	113, 966
Bpu10I	CCTNAGC	1 cut(s)	992
BpuMI	CCSGG	1 cut(s)	897
Bsa29I	ATCGAT	1 cut(s)	456
BsaI	GGTCTC	1 cut(s)	836
BsaJI	CCNNGG	1 cut(s)	690
Bsc4I	CCNNNNNNNGG	2 cut(s)	696, 976
Bse1I	ACTGG	3 cut(s)	631, 657, 883
Bse3DI	GCAATG	2 cut(s)	22, 741
BseBI	CCWGG	1 cut(s)	119
BseCI	ATCGAT	1 cut(s)	456
BseDI	CCNNGG	1 cut(s)	690
BseGI	GGATG	4 cut(s)	127, 162, 535, 663
BseLI	CCNNNNNNNGG	2 cut(s)	696, 976
BseMI	GCAATG	2 cut(s)	22, 741
BseMII	CTCAG	1 cut(s)	983
BseNI	ACTGG	3 cut(s)	631, 657, 883
BseSI	GKGCMC	1 cut(s)	967
BseXI	GCAGC	4 cut(s)	79, 388, 391, 887
BshFI	GGCC	3 cut(s)	117, 630, 656
BshVI	ATCGAT	1 cut(s)	456
BsiHKAI	GWGCWC	1 cut(s)	967
BsiSI	CCGG	2 cut(s)	897, 970
BsiWI	CGTACG	1 cut(s)	645
BslFI	GGGAC	2 cut(s)	415, 715
BslI	CCNNNNNNNGG	2 cut(s)	696, 976
BsmAI	GTCTC	2 cut(s)	638, 836
BsmBI	CGTCTC	1 cut(s)	638
BsmFI	GGGAC	2 cut(s)	415, 715
BsnI	GGCC	3 cut(s)	117, 630, 656
Bso31I	GGTCTC	1 cut(s)	836
Bsp1286I	GDGCHC	2 cut(s)	540, 967
Bsp143I	GATC	2 cut(s)	271, 453
BspACI	CCGC	2 cut(s)	37, 846
BspANI	GGCC	3 cut(s)	117, 630, 656
BspCNI	CTCAG	1 cut(s)	984
BspDI	ATCGAT	1 cut(s)	456
BspLI	GGNNCC	1 cut(s)	539
BspMAI	CTGCAG	1 cut(s)	905
BspTNI	GGTCTC	1 cut(s)	836
BsrBI	CCGCTC	1 cut(s)	848
BsrDI	GCAATG	2 cut(s)	22, 741
BsrI	ACTGG	3 cut(s)	631, 657, 883
BssECI	CCNNGG	1 cut(s)	690
BssMI	GATC	2 cut(s)	271, 453
BssT1I	CCWWGG	1 cut(s)	690
Bst2UI	CCWGG	1 cut(s)	119
BstC8I	GCNNGC	3 cut(s)	211, 504, 967
BstDEI	CTNAG	1 cut(s)	992
BstF5I	GGATG	4 cut(s)	127, 162, 535, 663
BstH2I	RGCGCY	1 cut(s)	33
BstHHI	GCGC	2 cut(s)	32, 127
BstKTI	GATC	2 cut(s)	274, 456
BstMAI	GTCTC	2 cut(s)	638, 836
BstMBI	GATC	2 cut(s)	271, 453
BstMWI	GCNNNNNNNGC	3 cut(s)	98, 248, 752
BstNI	CCWGG	1 cut(s)	119
BstNSI	RCATGY	3 cut(s)	310, 506, 616
BstSCI	CCNGG	2 cut(s)	117, 895
BstSFI	CTRYAG	1 cut(s)	901
BstSLI	GKGCMC	1 cut(s)	967
BstV1I	GCAGC	4 cut(s)	79, 388, 391, 887
BstV2I	GAAGAC	1 cut(s)	848
Bsu15I	ATCGAT	1 cut(s)	456
BsuRI	GGCC	3 cut(s)	117, 630, 656
BsuTUI	ATCGAT	1 cut(s)	456
BtsCI	GGATG	4 cut(s)	127, 162, 535, 663
BtsI	GCAGTG	1 cut(s)	258
BtsIMutI	CAGTG	1 cut(s)	258
Cac8I	GCNNGC	3 cut(s)	211, 504, 967
CfoI	GCGC	2 cut(s)	32, 127
ClaI	ATCGAT	1 cut(s)	456
CseI	GACGC	1 cut(s)	155
Csp6I	GTAC	3 cut(s)	4, 646, 876
CviQI	GTAC	3 cut(s)	4, 646, 876
DdeI	CTNAG	1 cut(s)	992
DpnI	GATC	2 cut(s)	273, 455
DpnII	GATC	2 cut(s)	271, 453
EaeI	YGGCCR	2 cut(s)	628, 654
Eco130I	CCWWGG	1 cut(s)	690
Eco24I	GRGCYC	1 cut(s)	540
Eco31I	GGTCTC	1 cut(s)	836
Eco32I	GATATC	1 cut(s)	1028
EcoRII	CCWGG	1 cut(s)	117
EcoRV	GATATC	1 cut(s)	1028
EcoT14I	CCWWGG	1 cut(s)	690
EcoT38I	GRGCYC	1 cut(s)	540
ErhI	CCWWGG	1 cut(s)	690
Esp3I	CGTCTC	1 cut(s)	638
FaqI	GGGAC	2 cut(s)	415, 715
FauI	CCCGC	1 cut(s)	30
FauNDI	CATATG	1 cut(s)	799
FblI	GTMKAC	1 cut(s)	760
Fnu4HI	GCNGC	4 cut(s)	93, 402, 405, 901
FokI	GGATG	4 cut(s)	134, 169, 542, 650
FriOI	GRGCYC	1 cut(s)	540
Fsp4HI	GCNGC	4 cut(s)	93, 402, 405, 901
FspBI	CTAG	3 cut(s)	189, 717, 756
GlaI	GCGC	2 cut(s)	31, 126
GluI	GCNGC	4 cut(s)	93, 402, 405, 901
GsuI	CTGGAG	2 cut(s)	113, 966
HaeII	RGCGCY	1 cut(s)	33
HaeIII	GGCC	3 cut(s)	117, 630, 656
HapII	CCGG	2 cut(s)	897, 970
HgaI	GACGC	1 cut(s)	155
HhaI	GCGC	2 cut(s)	32, 127
Hin6I	GCGC	2 cut(s)	30, 125
HinP1I	GCGC	2 cut(s)	30, 125
HincII	GTYRAC	4 cut(s)	51, 304, 610, 739
HindII	GTYRAC	4 cut(s)	51, 304, 610, 739
HinfI	GANTC	6 cut(s)	172, 256, 357, 551, 773, 923
HpaII	CCGG	2 cut(s)	897, 970
HphI	GGTGA	1 cut(s)	475
Hpy166II	GTNNAC	7 cut(s)	51, 266, 304, 610, 739, 761, 965
Hpy188I	TCNGA	4 cut(s)	171, 276, 340, 865
Hpy8I	GTNNAC	7 cut(s)	51, 266, 304, 610, 739, 761, 965
HpyAV	CCTTC	3 cut(s)	443, 527, 726
HpyCH4IV	ACGT	1 cut(s)	806
HpyCH4V	TGCA	9 cut(s)	15, 242, 296, 502, 518, 587, 797, 903, 965
HpyF10VI	GCNNNNNNNGC	3 cut(s)	98, 248, 752
HpyF3I	CTNAG	1 cut(s)	992
HpySE526I	ACGT	1 cut(s)	806
HspAI	GCGC	2 cut(s)	30, 125
Kzo9I	GATC	2 cut(s)	271, 453
LmnI	GCTCC	4 cut(s)	132, 163, 248, 543
Lsp1109I	GCAGC	4 cut(s)	79, 388, 391, 887
LweI	GCATC	2 cut(s)	112, 601
MaeI	CTAG	3 cut(s)	189, 717, 756
MaeII	ACGT	1 cut(s)	806
MaeIII	GTNAC	4 cut(s)	70, 481, 802, 982
MalI	GATC	2 cut(s)	273, 455
MbiI	CCGCTC	1 cut(s)	848
MboI	GATC	2 cut(s)	271, 453
MboII	GAAGA	3 cut(s)	458, 474, 848
MhlI	GDGCHC	2 cut(s)	540, 967
MlsI	TGGCCA	1 cut(s)	656
MluCI	AATT	2 cut(s)	143, 928
MluNI	TGGCCA	1 cut(s)	656
MlyI	GAGTC	1 cut(s)	917
MmeI	TCCRAC	3 cut(s)	565, 801, 981
MnlI	CCTC	8 cut(s)	54, 107, 379, 634, 970, 987, 997, 1016
Mox20I	TGGCCA	1 cut(s)	656
MroXI	GAANNNNTTC	1 cut(s)	176
MscI	TGGCCA	1 cut(s)	656
MseI	TTAA	2 cut(s)	147, 918
MslI	CAYNNNNRTG	1 cut(s)	389
Msp20I	TGGCCA	1 cut(s)	656
MspI	CCGG	2 cut(s)	897, 970
MspR9I	CCNGG	2 cut(s)	119, 897
MvaI	CCWGG	1 cut(s)	119
MwoI	GCNNNNNNNGC	3 cut(s)	98, 248, 752
NciI	CCSGG	1 cut(s)	897
NdeI	CATATG	1 cut(s)	799
NdeII	GATC	2 cut(s)	271, 453
NlaIV	GGNNCC	1 cut(s)	539
NmeAIII	GCCGAG	1 cut(s)	13
NmuCI	GTSAC	2 cut(s)	481, 802
NspI	RCATGY	3 cut(s)	310, 506, 616
PaeI	GCATGC	1 cut(s)	506
PciI	ACATGT	1 cut(s)	306
PcsI	WCGNNNNNNNCGW	1 cut(s)	628
PdmI	GAANNNNTTC	1 cut(s)	176
PfeI	GAWTC	5 cut(s)	172, 256, 357, 551, 773
Pfl23II	CGTACG	1 cut(s)	645
PkrI	GCNGC	4 cut(s)	94, 403, 406, 902
PleI	GAGTC	1 cut(s)	917
PpsI	GAGTC	1 cut(s)	917
PscI	ACATGT	1 cut(s)	306
Psp6I	CCWGG	1 cut(s)	117
PspGI	CCWGG	1 cut(s)	117
PspLI	CGTACG	1 cut(s)	645
PspN4I	GGNNCC	1 cut(s)	539
PstI	CTGCAG	1 cut(s)	905
RsaI	GTAC	3 cut(s)	5, 647, 877
RsaNI	GTAC	3 cut(s)	4, 646, 876
RseI	CAYNNNNRTG	1 cut(s)	389
SaqAI	TTAA	2 cut(s)	147, 918
SatI	GCNGC	4 cut(s)	93, 402, 405, 901
Sau3AI	GATC	2 cut(s)	271, 453
SchI	GAGTC	1 cut(s)	917
ScrFI	CCNGG	2 cut(s)	119, 897
SduI	GDGCHC	2 cut(s)	540, 967
SetI	ASST	9 cut(s)	135, 215, 348, 488, 718, 757, 789, 809, 981
SfaNI	GCATC	2 cut(s)	112, 601
SfcI	CTRYAG	1 cut(s)	901
SmiMI	CAYNNNNRTG	1 cut(s)	389
SphI	GCATGC	1 cut(s)	506
Sse9I	AATT	2 cut(s)	143, 928
SsiI	CCGC	2 cut(s)	37, 846
SspMI	CTAG	3 cut(s)	189, 717, 756
StyD4I	CCNGG	2 cut(s)	117, 895
StyI	CCWWGG	1 cut(s)	690
TaiI	ACGT	1 cut(s)	809
TaqI	TCGA	3 cut(s)	389, 456, 622
TaqII	GACCGA	1 cut(s)	849
TasI	AATT	2 cut(s)	143, 928
TfiI	GAWTC	5 cut(s)	172, 256, 357, 551, 773
Tru1I	TTAA	2 cut(s)	147, 918
Tru9I	TTAA	2 cut(s)	147, 918
TscAI	CASTG	1 cut(s)	258
TseFI	GTSAC	2 cut(s)	481, 802
TseI	GCWGC	4 cut(s)	92, 401, 404, 900
Tsp45I	GTSAC	2 cut(s)	481, 802
TspDTI	ATGAA	5 cut(s)	169, 546, 564, 884, 1028
TspGWI	ACGGA	1 cut(s)	123
TspRI	CASTG	1 cut(s)	258
VneI	GTGCAC	1 cut(s)	963
XapI	RAATTY	1 cut(s)	143
XceI	RCATGY	3 cut(s)	310, 506, 616
XmiI	GTMKAC	1 cut(s)	760
XmnI	GAANNNNTTC	1 cut(s)	176
XspI	CTAG	3 cut(s)	189, 717, 756

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