Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0011933

Physical Location & Seq

Genomic Coordinates Reverse (-)

38052885 .. 38053910

Gene Structure 1026 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG340200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1026 bp

ATGCCTCAACGAAATGTTGTTTCTTGGAACTCATTGATTGCAAGTTTTGTTCGACGAGACCGAGTGTTTGAGTCACTCGAGTGTTTTAGAAGGATGCAAGGAGAGGGGATGGGGTTCACTTGGGTCACCCTCACGACAGTGTTACCAATATGTGCTAGACTGACTGCACTATATAGTGGGAAGGAGATACATGCCCTGATAGTCAAGTCCACCAAGAGACCTGATGTCCCTGTACTGAACTCACTCATGGACATGTATGCAAAATGCGGAGCGATTGATTACTGTAAGAGGGTGTTTGACAATATGCACTGTAAAGATTTGACATCTAGGAATACTGTTCTTACAGGGTATGCGGTGAATGGGTTTATTGAACAAGGCATGATATTGTTTGATCAGATGGTAGAGTCTGGAATCAGACCAGATGGAGTGACCTTTATAGCTCTGTTATCTGGCTGTAGCCATGCGGGGCTTACTGACCAAGGACGGAGATTGTTTGATAAAATGAAGTTGGGTTATGGCATATCCCCCACTGTTGAGCATTATGGTTGTCTTGTAGATCTCTTGGGAAGAGCTGGTAGAATTGAGGAGGCCTTAGATGTAGTGGAAAACATGCCTGTGAAGCCGTCTGGAAGCATATGGGGTTCATTACTCAACTCATGCTGGCTCCAAGGCAAAGTTGCTCTTGCGGAGCGTGCTGCAATGGAGTTGTTTGAGCTTGAACCTAACAATCCTGGGAACTATGTGGTGCTCTCAAATGTTTATGCAAATGCAGGGATGTGGGAGGGCGTCAATAGGGTTCGAGAACTTATGAAGGAGAGGGGACTTGAAAAGGAGGCTGGATGCAGTTGGTTGCAAATAGGGAGTAGGATCCACACATTTGTAGTGGGTGGGGGTTTTCAGTTTTGTAATTCAGTTGAGTTTAAGAAAGTTTGGAATGAATTGACAGATGCTATGGAAGAGGTTGGGTATATTGCTGACACAAGTGTTGTCTTACATGATGTAAATGAAGAAGTGAAATCGATGTAG

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:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016553 GO:0016554 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1900865 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

341

Amino Acids

38.03

Weight (kDa)

5.78

Isoelectric Point (pI)

41.53

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR	PF01535	7 - 36	9.5e-06	PPR repeat
PPR_2	PF13041	109 - 153	2.2e-08	PPR repeat family
PPR_3	PF13812	129 - 189	1.7e-07	Pentatricopeptide repeat domain
E_motif	PF20431	226 - 285	3.1e-22	E motif

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: OG0011933)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G14330
fragaria_vesca	FvH4_1g28620
malus_domestica	MD17G1262400.v1.1
prunus_persica	Prupe.3G163800_v2.0.a1
pyrus_communis	pycom17g26230
rosa_chinensis	RchiOBHm_Chr3g0492571
rosa_laevigata	RLG00000022759
rosa_multiflora	Rmu_sc0000831.1_g000061 Rmu_sc0008694.1_g000001
rosa_roxburghii	Rroxscaffold_4G00325000 Rroxscaffold_4G00325010
rosa_rugosa	Rorug03G0254500
rosa_samantha	Rh3BG340900 Rh3BG341000 Rh3BG341100 Rh3CG338400 Rh3DG340200 Rh3DG340300 Rh5BG302200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	4 cut(s)	267, 353, 464, 686
AclWI	GGATC	2 cut(s)	862, 875
AcyI	GRCGYC	1 cut(s)	786
AfaI	GTAC	1 cut(s)	234
AflIII	ACRYGT	1 cut(s)	252
AgsI	TTSAA	3 cut(s)	371, 719, 827
AhdI	GACNNNNNGTC	1 cut(s)	224
AjnI	CCWGG	1 cut(s)	730
AleI	CACNNNNGTG	2 cut(s)	79, 137
AluBI	AGCT	3 cut(s)	440, 572, 715
AluI	AGCT	3 cut(s)	440, 572, 715
Alw21I	GWGCWC	1 cut(s)	750
Alw26I	GTCTC	2 cut(s)	51, 211
AlwI	GGATC	2 cut(s)	862, 875
Ama87I	CYCGRG	1 cut(s)	77
AoxI	GGCC	1 cut(s)	588
ApeKI	GCWGC	1 cut(s)	695
ArsI	GACNNNNNNTTYG	2 cut(s)	50, 82
AsuHPI	GGTGA	2 cut(s)	118, 367
AvaI	CYCGRG	1 cut(s)	77
BamHI	GGATCC	1 cut(s)	867
Bbv12I	GWGCWC	1 cut(s)	750
BbvI	GCAGC	1 cut(s)	682
BccI	CCATC	3 cut(s)	103, 391, 416
BceAI	ACGGC	1 cut(s)	607
BciT130I	CCWGG	1 cut(s)	732
BclI	TGATCA	1 cut(s)	391
BcoDI	GTCTC	2 cut(s)	51, 211
BfaI	CTAG	2 cut(s)	156, 327
BfmI	CTRYAG	1 cut(s)	454
BglII	AGATCT	1 cut(s)	556
BisI	GCNGC	1 cut(s)	696
BlsI	GCNGC	1 cut(s)	697
Bme1390I	CCNGG	1 cut(s)	732
BmeRI	GACNNNNNGTC	1 cut(s)	224
BmeT110I	CYCGRG	1 cut(s)	77
BmiI	GGNNCC	2 cut(s)	665, 869
BmrFI	CCNGG	1 cut(s)	732
BmsI	GCATC	3 cut(s)	84, 830, 937
Bsa29I	ATCGAT	1 cut(s)	1019
BsaHI	GRCGYC	1 cut(s)	786
BsaI	GGTCTC	2 cut(s)	51, 211
BsaJI	CCNNGG	3 cut(s)	478, 667, 731
Bse3DI	GCAATG	1 cut(s)	705
BseBI	CCWGG	1 cut(s)	732
BseCI	ATCGAT	1 cut(s)	1019
BseDI	CCNNGG	3 cut(s)	478, 667, 731
BseGI	GGATG	4 cut(s)	99, 114, 780, 845
BseMI	GCAATG	1 cut(s)	705
BseRI	GAGGAG	1 cut(s)	599
BseXI	GCAGC	1 cut(s)	682
BsgI	GTGCAG	1 cut(s)	150
BshFI	GGCC	1 cut(s)	590
BshVI	ATCGAT	1 cut(s)	1019
BsiHKAI	GWGCWC	1 cut(s)	750
BsiHKCI	CYCGRG	1 cut(s)	77
BslFI	GGGAC	2 cut(s)	212, 834
BsmAI	GTCTC	2 cut(s)	51, 211
BsmFI	GGGAC	2 cut(s)	212, 834
BsnI	GGCC	1 cut(s)	590
Bso31I	GGTCTC	2 cut(s)	51, 211
BsoBI	CYCGRG	1 cut(s)	77
Bsp1286I	GDGCHC	1 cut(s)	750
Bsp143I	GATC	3 cut(s)	391, 556, 867
BspACI	CCGC	4 cut(s)	267, 353, 464, 686
BspANI	GGCC	1 cut(s)	590
BspDI	ATCGAT	1 cut(s)	1019
BspLI	GGNNCC	2 cut(s)	665, 869
BspPI	GGATC	2 cut(s)	862, 875
BspQI	GCTCTTC	1 cut(s)	562
BspTNI	GGTCTC	2 cut(s)	51, 211
BsrDI	GCAATG	1 cut(s)	705
BssECI	CCNNGG	3 cut(s)	478, 667, 731
BssMI	GATC	3 cut(s)	391, 556, 867
BssNI	GRCGYC	1 cut(s)	786
BssT1I	CCWWGG	2 cut(s)	478, 667
Bst2UI	CCWGG	1 cut(s)	732
Bst4CI	ACNGT	5 cut(s)	139, 284, 311, 337, 532
Bst6I	CTCTTC	2 cut(s)	562, 951
BstACI	GRCGYC	1 cut(s)	786
BstC8I	GCNNGC	2 cut(s)	662, 693
BstDEI	CTNAG	1 cut(s)	592
BstEII	GGTNACC	1 cut(s)	124
BstF5I	GGATG	4 cut(s)	99, 114, 780, 845
BstKTI	GATC	3 cut(s)	394, 559, 870
BstMAI	GTCTC	2 cut(s)	51, 211
BstMBI	GATC	3 cut(s)	391, 556, 867
BstMWI	GCNNNNNNNGC	2 cut(s)	619, 692
BstNI	CCWGG	1 cut(s)	732
BstNSI	RCATGY	3 cut(s)	194, 256, 613
BstPI	GGTNACC	1 cut(s)	124
BstSCI	CCNGG	1 cut(s)	730
BstSFI	CTRYAG	1 cut(s)	454
BstV1I	GCAGC	1 cut(s)	682
BstX2I	RGATCY	2 cut(s)	556, 867
BstYI	RGATCY	2 cut(s)	556, 867
Bsu15I	ATCGAT	1 cut(s)	1019
BsuRI	GGCC	1 cut(s)	590
BsuTUI	ATCGAT	1 cut(s)	1019
BtsCI	GGATG	4 cut(s)	99, 114, 780, 845
BtsIMutI	CAGTG	3 cut(s)	144, 307, 528
Cac8I	GCNNGC	2 cut(s)	662, 693
ClaI	ATCGAT	1 cut(s)	1019
CseI	GACGC	1 cut(s)	775
Csp6I	GTAC	1 cut(s)	233
CviAII	CATG	8 cut(s)	191, 247, 253, 379, 461, 610, 657, 995
CviQI	GTAC	1 cut(s)	233
DdeI	CTNAG	1 cut(s)	592
DpnI	GATC	3 cut(s)	393, 558, 869
DpnII	GATC	3 cut(s)	391, 556, 867
DriI	GACNNNNNGTC	1 cut(s)	224
Eam1104I	CTCTTC	2 cut(s)	562, 951
Eam1105I	GACNNNNNGTC	1 cut(s)	224
EarI	CTCTTC	2 cut(s)	562, 951
Eco130I	CCWWGG	2 cut(s)	478, 667
Eco147I	AGGCCT	1 cut(s)	590
Eco31I	GGTCTC	2 cut(s)	51, 211
Eco88I	CYCGRG	1 cut(s)	77
Eco91I	GGTNACC	1 cut(s)	124
EcoO65I	GGTNACC	1 cut(s)	124
EcoRII	CCWGG	1 cut(s)	730
EcoT14I	CCWWGG	2 cut(s)	478, 667
ErhI	CCWWGG	2 cut(s)	478, 667
FaeI	CATG	8 cut(s)	194, 250, 256, 382, 464, 613, 660, 998
FalI	AAGNNNNNCTT	2 cut(s)	666, 698
FaqI	GGGAC	2 cut(s)	212, 834
FatI	CATG	8 cut(s)	190, 246, 252, 378, 460, 609, 656, 994
FauI	CCCGC	1 cut(s)	457
FauNDI	CATATG	1 cut(s)	635
FbaI	TGATCA	1 cut(s)	391
Fnu4HI	GCNGC	1 cut(s)	696
FokI	GGATG	4 cut(s)	106, 121, 787, 852
Fsp4HI	GCNGC	1 cut(s)	696
FspBI	CTAG	2 cut(s)	156, 327
GluI	GCNGC	1 cut(s)	696
HaeIII	GGCC	1 cut(s)	590
HgaI	GACGC	1 cut(s)	775
Hin1I	GRCGYC	1 cut(s)	786
Hin1II	CATG	8 cut(s)	194, 250, 256, 382, 464, 613, 660, 998
HinfI	GANTC	3 cut(s)	71, 404, 411
HphI	GGTGA	2 cut(s)	118, 367
Hpy166II	GTNNAC	2 cut(s)	117, 210
Hpy188I	TCNGA	2 cut(s)	396, 416
Hpy188III	TCNNGA	4 cut(s)	133, 408, 627, 800
Hpy8I	GTNNAC	2 cut(s)	117, 210
Hpy99I	CGWCG	1 cut(s)	57
HpyAV	CCTTC	3 cut(s)	84, 175, 805
HpyCH4III	ACNGT	5 cut(s)	139, 284, 311, 337, 532
HpyF10VI	GCNNNNNNNGC	2 cut(s)	619, 692
HpyF3I	CTNAG	1 cut(s)	592
Hsp92I	GRCGYC	1 cut(s)	786
Hsp92II	CATG	8 cut(s)	194, 250, 256, 382, 464, 613, 660, 998
Ksp22I	TGATCA	1 cut(s)	391
Kzo9I	GATC	3 cut(s)	391, 556, 867
LguI	GCTCTTC	1 cut(s)	562
LmnI	GCTCC	3 cut(s)	269, 669, 688
Lsp1109I	GCAGC	1 cut(s)	682
LweI	GCATC	3 cut(s)	84, 830, 937
MaeI	CTAG	2 cut(s)	156, 327
MaeIII	GTNAC	4 cut(s)	72, 124, 141, 427
MalI	GATC	3 cut(s)	393, 558, 869
MboI	GATC	3 cut(s)	391, 556, 867
MboII	GAAGA	3 cut(s)	579, 968, 1019
MflI	RGATCY	2 cut(s)	556, 867
MhlI	GDGCHC	1 cut(s)	750
MluCI	AATT	3 cut(s)	579, 907, 938
MlyI	GAGTC	2 cut(s)	80, 413
MseI	TTAA	1 cut(s)	921
MslI	CAYNNNNRTG	4 cut(s)	79, 137, 251, 614
MspR9I	CCNGG	1 cut(s)	732
MvaI	CCWGG	1 cut(s)	732
MwoI	GCNNNNNNNGC	2 cut(s)	619, 692
NdeI	CATATG	1 cut(s)	635
NdeII	GATC	3 cut(s)	391, 556, 867
NlaIII	CATG	8 cut(s)	194, 250, 256, 382, 464, 613, 660, 998
NlaIV	GGNNCC	2 cut(s)	665, 869
NmuCI	GTSAC	3 cut(s)	72, 124, 427
NspI	RCATGY	3 cut(s)	194, 256, 613
OliI	CACNNNNGTG	2 cut(s)	79, 137
PaeR7I	CTCGAG	1 cut(s)	77
PceI	AGGCCT	1 cut(s)	590
PciI	ACATGT	1 cut(s)	252
PciSI	GCTCTTC	1 cut(s)	562
PcsI	WCGNNNNNNNCGW	1 cut(s)	58
PfeI	GAWTC	1 cut(s)	411
PkrI	GCNGC	1 cut(s)	697
PleI	GAGTC	2 cut(s)	79, 412
PpsI	GAGTC	2 cut(s)	79, 412
PscI	ACATGT	1 cut(s)	252
Psp6I	CCWGG	1 cut(s)	730
PspEI	GGTNACC	1 cut(s)	124
PspGI	CCWGG	1 cut(s)	730
PspN4I	GGNNCC	2 cut(s)	665, 869
PspXI	VCTCGAGB	1 cut(s)	77
PsuI	RGATCY	2 cut(s)	556, 867
RsaI	GTAC	1 cut(s)	234
RsaNI	GTAC	1 cut(s)	233
RseI	CAYNNNNRTG	4 cut(s)	79, 137, 251, 614
SapI	GCTCTTC	1 cut(s)	562
SaqAI	TTAA	1 cut(s)	921
SatI	GCNGC	1 cut(s)	696
Sau3AI	GATC	3 cut(s)	391, 556, 867
SchI	GAGTC	2 cut(s)	80, 413
ScrFI	CCNGG	1 cut(s)	732
SduI	GDGCHC	1 cut(s)	750
SetI	ASST	7 cut(s)	223, 434, 442, 574, 717, 724, 963
SfaNI	GCATC	3 cut(s)	84, 830, 937
SfcI	CTRYAG	1 cut(s)	454
Sfr274I	CTCGAG	1 cut(s)	77
SlaI	CTCGAG	1 cut(s)	77
SmiMI	CAYNNNNRTG	4 cut(s)	79, 137, 251, 614
SmlI	CTYRAG	1 cut(s)	77
SmoI	CTYRAG	1 cut(s)	77
Sse9I	AATT	3 cut(s)	579, 907, 938
SseBI	AGGCCT	1 cut(s)	590
SsiI	CCGC	4 cut(s)	267, 353, 464, 686
SspMI	CTAG	2 cut(s)	156, 327
StuI	AGGCCT	1 cut(s)	590
StyD4I	CCNGG	1 cut(s)	730
StyI	CCWWGG	2 cut(s)	478, 667
TaaI	ACNGT	5 cut(s)	139, 284, 311, 337, 532
TaqI	TCGA	4 cut(s)	52, 78, 799, 1019
TaqII	GACCGA	1 cut(s)	75
TasI	AATT	3 cut(s)	579, 907, 938
TatI	WGTACW	1 cut(s)	232
TfiI	GAWTC	1 cut(s)	411
Tru1I	TTAA	1 cut(s)	921
Tru9I	TTAA	1 cut(s)	921
TscAI	CASTG	3 cut(s)	144, 314, 535
TseFI	GTSAC	3 cut(s)	72, 124, 427
TseI	GCWGC	1 cut(s)	695
Tsp45I	GTSAC	3 cut(s)	72, 124, 427
TspDTI	ATGAA	5 cut(s)	518, 633, 824, 951, 1020
TspGWI	ACGGA	1 cut(s)	499
TspRI	CASTG	3 cut(s)	144, 314, 535
XceI	RCATGY	3 cut(s)	194, 256, 613
XhoI	CTCGAG	1 cut(s)	77
XspI	CTAG	2 cut(s)	156, 327

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