Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0006694

Physical Location & Seq

Genomic Coordinates Forward (+)

12229726 .. 12230616

Gene Structure 891 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG073400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 891 bp

ATGCAGAGGCTGTTTGAGCCTGATGGGTATACAATGCAGTGTGTTATAAATGCTTGGGCTGGTTTGGGGGCTTTGGATTTGGGAATGTGGGCTCACGCTTATGTGTTGAGGAAGTGTGATAATGCTGTAGCCACCAACGTGTTGGTGAACTCTTCGTTGGTTGATATGTATTGCAAATGTGGGTCCTTGGATATGGCTCTCCAAGTGTTTGAGGGAATGAATAAACGTGATGTGATTACATGGAATTATATGATTCTGGGATTTGCCATGCATGGAAAAGCTGAGGCAGCTTTAAAGTGTTTTGATCGTATGGTTAATATGGAGAGTTGTAGGCCAAATTCAATCACATTCGTTGGTGTTTTGAGTGCATGCAGTCACAGGGGCATGGTTAACGAAGGTCGTAAGTTCTTTGATGTGATGGTAAAAGAGTACAAGATTGAACCACGATTAGAGCACTACGGGTGCCTAGTTGATCTTCTTGCACGTGCTGGTTTCATTGATGAAGCTTTGAATTTGGTGACAACAATGCCCATGAAGCCTGATGCCGTAATATGGAGGAGTCTTCTTGATGCTTGCAGTAAGCAACAGCATGCTAGTATTGAGCTAAGTGAAGAAGTGGCCGGGCAGATCCTTGAGTCTGGAGAAGAGGATGTTTCTAGAGGTGTTTATGTGCTATTGTCAAGAGTCTATGCTTCTGCTTCAGCTAGCCGCTGGAATGATGTCGGATCAATTTGGAAATTGATGACAGAGGAGGGTACAGCCAAAGAGCTTGGCTGTAGTTTAATAGACATAGATGGTATTACGCATGAATTTTTTGCTGGGGACACATCTCATCCTTGTAGTAGAGAAATGTATCAGTTGCTGGATGCGATGAAGGAAAGACTCGAATAG

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:0005737 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009507 GO:0009536 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0016556 GO:0016787 GO:0016788 GO:0031425 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 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

296

Amino Acids

33.09

Weight (kDa)

5.1

Isoelectric Point (pI)

38.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	76 - 125	5.9e-10	PPR repeat family
E_motif	PF20431	197 - 262	3.3e-09	E motif
Eplus_motif	PF20430	268 - 289	1.1e-07	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: OG0006694)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G59720
fragaria_vesca	FvH4_7g03570
malus_domestica	MD13G1081600.v1.1
prunus_persica	Prupe.1G265300_v2.0.a1
pyrus_communis	pycom13g07040
rosa_chinensis	RchiOBHm_Chr1g0325991 RchiOBHm_Chr1g0326081 RchiOBHm_Chr1g0326151
rosa_laevigata	RLG00000030090
rosa_multiflora	Rmu_sc0000028.1_g000011 Rmu_sc0003356.1_g000004 Rmu_sc0011910.1_g000008
rosa_roxburghii	Rroxscaffold_4G00324040
rosa_rugosa	Rorug01G0056800 Rorug01G0056900 Rorug01G0057000 Rorug01G0057100 Rorug01G0057200 Rorug01G0057300
rosa_samantha	Rh1AG073400 Rh1AG074200 Rh1BG059700 Rh1CG073000
rosa_wichuraiana	Rw0G003160 Rw0G020760 Rw1G005950

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	47
AccB1I	GGYRCC	1 cut(s)	462
AccI	GTMKAC	1 cut(s)	29
AciI	CCGC	1 cut(s)	709
AclWI	GGATC	2 cut(s)	622, 733
AcoI	YGGCCR	1 cut(s)	618
AcsI	RAATTY	3 cut(s)	337, 511, 809
AcuI	CTGAAG	1 cut(s)	684
AcvI	CACGTG	1 cut(s)	485
AfaI	GTAC	2 cut(s)	431, 757
AfiI	CCNNNNNNNGG	1 cut(s)	552
AflIII	ACRYGT	1 cut(s)	138
AgsI	TTSAA	3 cut(s)	342, 440, 511
AjuI	GAANNNNNNNTTGG	2 cut(s)	140, 172
AleI	CACNNNNGTG	1 cut(s)	137
AluBI	AGCT	6 cut(s)	281, 290, 506, 604, 704, 769
AluI	AGCT	6 cut(s)	281, 290, 506, 604, 704, 769
Alw21I	GWGCWC	1 cut(s)	456
AlwI	GGATC	2 cut(s)	622, 733
AlwNI	CAGNNNCTG	2 cut(s)	10, 862
AoxI	GGCC	2 cut(s)	332, 618
ApeKI	GCWGC	1 cut(s)	287
ApoI	RAATTY	3 cut(s)	337, 511, 809
AspS9I	GGNCC	1 cut(s)	183
AsuC2I	CCSGG	1 cut(s)	622
AsuHPI	GGTGA	2 cut(s)	157, 529
AsuNHI	GCTAGC	1 cut(s)	704
AvaII	GGWCC	1 cut(s)	183
BanI	GGYRCC	1 cut(s)	462
BanII	GRGCYC	1 cut(s)	94
BbrPI	CACGTG	1 cut(s)	485
BbsI	GAAGAC	1 cut(s)	554
Bbv12I	GWGCWC	1 cut(s)	456
BbvCI	CCTCAGC	1 cut(s)	282
BbvI	GCAGC	1 cut(s)	299
BccI	CCATC	3 cut(s)	17, 412, 788
BceAI	ACGGC	1 cut(s)	530
BcnI	CCSGG	1 cut(s)	622
BfaI	CTAG	4 cut(s)	467, 594, 657, 705
BfmI	CTRYAG	2 cut(s)	126, 775
BisI	GCNGC	2 cut(s)	288, 709
BlsI	GCNGC	2 cut(s)	289, 710
Bme1390I	CCNGG	1 cut(s)	622
Bme18I	GGWCC	1 cut(s)	183
BmgT120I	GGNCC	1 cut(s)	183
BmiI	GGNNCC	2 cut(s)	184, 464
BmrFI	CCNGG	1 cut(s)	622
BmsI	GCATC	3 cut(s)	532, 559, 856
BmtI	GCTAGC	1 cut(s)	708
BpiI	GAAGAC	1 cut(s)	554
BpmI	CTGGAG	1 cut(s)	660
Bpu10I	CCTNAGC	1 cut(s)	282
BpuEI	CTTGAG	1 cut(s)	653
BpuMI	CCSGG	1 cut(s)	622
BsaAI	YACGTR	1 cut(s)	485
BsaJI	CCNNGG	1 cut(s)	186
Bsc4I	CCNNNNNNNGG	1 cut(s)	552
BseDI	CCNNGG	1 cut(s)	186
BseGI	GGATG	3 cut(s)	655, 832, 871
BseLI	CCNNNNNNNGG	1 cut(s)	552
BseMII	CTCAG	1 cut(s)	273
BseRI	GAGGAG	2 cut(s)	571, 764
BseXI	GCAGC	1 cut(s)	299
BseYI	CCCAGC	1 cut(s)	818
BshFI	GGCC	2 cut(s)	334, 620
BshNI	GGYRCC	1 cut(s)	462
BsiHKAI	GWGCWC	1 cut(s)	456
BsiSI	CCGG	1 cut(s)	621
BslFI	GGGAC	1 cut(s)	836
BslI	CCNNNNNNNGG	1 cut(s)	552
BsmFI	GGGAC	1 cut(s)	836
BsnI	GGCC	2 cut(s)	334, 620
Bsp1286I	GDGCHC	2 cut(s)	94, 456
Bsp143I	GATC	4 cut(s)	304, 472, 627, 725
BspACI	CCGC	1 cut(s)	709
BspANI	GGCC	2 cut(s)	334, 620
BspCNI	CTCAG	1 cut(s)	274
BspLI	GGNNCC	2 cut(s)	184, 464
BspOI	GCTAGC	1 cut(s)	708
BspPI	GGATC	2 cut(s)	622, 733
BspT107I	GGYRCC	1 cut(s)	462
BssECI	CCNNGG	1 cut(s)	186
BssMI	GATC	4 cut(s)	304, 472, 627, 725
BssNAI	GTATAC	1 cut(s)	30
BssT1I	CCWWGG	1 cut(s)	186
Bst1107I	GTATAC	1 cut(s)	30
Bst6I	CTCTTC	2 cut(s)	157, 639
BstBAI	YACGTR	1 cut(s)	485
BstC8I	GCNNGC	4 cut(s)	370, 574, 591, 706
BstDEI	CTNAG	2 cut(s)	282, 605
BstF5I	GGATG	3 cut(s)	655, 832, 871
BstKTI	GATC	4 cut(s)	307, 475, 630, 728
BstMBI	GATC	4 cut(s)	304, 472, 627, 725
BstMWI	GCNNNNNNNGC	3 cut(s)	16, 287, 535
BstNSI	RCATGY	2 cut(s)	372, 593
BstSCI	CCNGG	1 cut(s)	620
BstSFI	CTRYAG	2 cut(s)	126, 775
BstV1I	GCAGC	1 cut(s)	299
BstV2I	GAAGAC	1 cut(s)	554
BstX2I	RGATCY	1 cut(s)	627
BstXI	CCANNNNNNTGG	1 cut(s)	142
BstYI	RGATCY	1 cut(s)	627
BstZ17I	GTATAC	1 cut(s)	30
BsuRI	GGCC	2 cut(s)	334, 620
BtgZI	GCGATG	1 cut(s)	884
BtsCI	GGATG	3 cut(s)	655, 832, 871
BtsI	GCAGTG	1 cut(s)	44
BtsIMutI	CAGTG	1 cut(s)	44
Cac8I	GCNNGC	4 cut(s)	370, 574, 591, 706
CaiI	CAGNNNCTG	2 cut(s)	10, 862
Cfr13I	GGNCC	1 cut(s)	183
Csp6I	GTAC	2 cut(s)	430, 756
CviAII	CATG	8 cut(s)	240, 268, 272, 369, 385, 532, 590, 806
CviQI	GTAC	2 cut(s)	430, 756
DdeI	CTNAG	2 cut(s)	282, 605
DpnI	GATC	4 cut(s)	306, 474, 629, 727
DpnII	GATC	4 cut(s)	304, 472, 627, 725
DraI	TTTAAA	1 cut(s)	294
EaeI	YGGCCR	1 cut(s)	618
Eam1104I	CTCTTC	2 cut(s)	157, 639
EarI	CTCTTC	2 cut(s)	157, 639
Eco130I	CCWWGG	1 cut(s)	186
Eco24I	GRGCYC	1 cut(s)	94
Eco47I	GGWCC	1 cut(s)	183
Eco57I	CTGAAG	1 cut(s)	684
Eco72I	CACGTG	1 cut(s)	485
EcoO109I	RGGNCCY	1 cut(s)	183
EcoT14I	CCWWGG	1 cut(s)	186
EcoT22I	ATGCAT	1 cut(s)	273
EcoT38I	GRGCYC	1 cut(s)	94
ErhI	CCWWGG	1 cut(s)	186
FaeI	CATG	8 cut(s)	243, 271, 275, 372, 388, 535, 593, 809
FaqI	GGGAC	1 cut(s)	836
FatI	CATG	8 cut(s)	239, 267, 271, 368, 384, 531, 589, 805
FblI	GTMKAC	1 cut(s)	29
Fnu4HI	GCNGC	2 cut(s)	288, 709
FokI	GGATG	3 cut(s)	662, 819, 878
FriOI	GRGCYC	1 cut(s)	94
Fsp4HI	GCNGC	2 cut(s)	288, 709
FspBI	CTAG	4 cut(s)	467, 594, 657, 705
GluI	GCNGC	2 cut(s)	288, 709
GsaI	CCCAGC	1 cut(s)	822
GsuI	CTGGAG	1 cut(s)	660
HaeIII	GGCC	2 cut(s)	334, 620
HapII	CCGG	1 cut(s)	621
Hin1II	CATG	8 cut(s)	243, 271, 275, 372, 388, 535, 593, 809
HincII	GTYRAC	1 cut(s)	391
HindII	GTYRAC	1 cut(s)	391
HindIII	AAGCTT	1 cut(s)	504
HinfI	GANTC	5 cut(s)	253, 559, 635, 684, 882
HpaI	GTTAAC	1 cut(s)	391
HpaII	CCGG	1 cut(s)	621
HphI	GGTGA	2 cut(s)	157, 529
Hpy166II	GTNNAC	3 cut(s)	30, 148, 391
Hpy188I	TCNGA	1 cut(s)	725
Hpy188III	TCNNGA	4 cut(s)	566, 639, 657, 681
Hpy8I	GTNNAC	3 cut(s)	30, 148, 391
HpyAV	CCTTC	2 cut(s)	389, 868
HpyCH4IV	ACGT	3 cut(s)	138, 226, 484
HpyCH4V	TGCA	8 cut(s)	4, 37, 174, 271, 368, 372, 482, 576
HpyF10VI	GCNNNNNNNGC	3 cut(s)	16, 287, 535
HpyF3I	CTNAG	2 cut(s)	282, 605
HpySE526I	ACGT	3 cut(s)	138, 226, 484
Hsp92II	CATG	8 cut(s)	243, 271, 275, 372, 388, 535, 593, 809
KspAI	GTTAAC	1 cut(s)	391
Kzo9I	GATC	4 cut(s)	304, 472, 627, 725
Lsp1109I	GCAGC	1 cut(s)	299
LweI	GCATC	3 cut(s)	532, 559, 856
MaeI	CTAG	4 cut(s)	467, 594, 657, 705
MaeII	ACGT	3 cut(s)	138, 226, 484
MaeIII	GTNAC	2 cut(s)	374, 517
MalI	GATC	4 cut(s)	306, 474, 629, 727
MboI	GATC	4 cut(s)	304, 472, 627, 725
MboII	GAAGA	5 cut(s)	144, 467, 554, 623, 656
MflI	RGATCY	1 cut(s)	627
MhlI	GDGCHC	2 cut(s)	94, 456
MluCI	AATT	6 cut(s)	244, 337, 511, 729, 737, 809
MlyI	GAGTC	4 cut(s)	568, 644, 693, 876
MmeI	TCCRAC	1 cut(s)	703
MnlI	CCTC	8 cut(s)	102, 205, 277, 549, 640, 653, 742, 745
Mph1103I	ATGCAT	1 cut(s)	273
MseI	TTAA	4 cut(s)	293, 315, 390, 782
MslI	CAYNNNNRTG	2 cut(s)	99, 137
MspA1I	CMGCKG	1 cut(s)	711
MspI	CCGG	1 cut(s)	621
MspR9I	CCNGG	1 cut(s)	622
MwoI	GCNNNNNNNGC	3 cut(s)	16, 287, 535
NciI	CCSGG	1 cut(s)	622
NdeII	GATC	4 cut(s)	304, 472, 627, 725
NheI	GCTAGC	1 cut(s)	704
NlaIII	CATG	8 cut(s)	243, 271, 275, 372, 388, 535, 593, 809
NlaIV	GGNNCC	2 cut(s)	184, 464
NmuCI	GTSAC	2 cut(s)	374, 517
NsiI	ATGCAT	1 cut(s)	273
NspI	RCATGY	2 cut(s)	372, 593
OliI	CACNNNNGTG	1 cut(s)	137
PaeI	GCATGC	2 cut(s)	372, 593
PfeI	GAWTC	1 cut(s)	253
PkrI	GCNGC	2 cut(s)	289, 710
PleI	GAGTC	4 cut(s)	567, 643, 692, 876
PmaCI	CACGTG	1 cut(s)	485
PmlI	CACGTG	1 cut(s)	485
PpsI	GAGTC	4 cut(s)	567, 643, 692, 876
Ppu21I	YACGTR	1 cut(s)	485
PpuMI	RGGWCCY	1 cut(s)	183
PsiI	TTATAA	1 cut(s)	47
Psp5II	RGGWCCY	1 cut(s)	183
PspCI	CACGTG	1 cut(s)	485
PspFI	CCCAGC	1 cut(s)	818
PspN4I	GGNNCC	2 cut(s)	184, 464
PspPI	GGNCC	1 cut(s)	183
PspPPI	RGGWCCY	1 cut(s)	183
PstNI	CAGNNNCTG	2 cut(s)	10, 862
PsuI	RGATCY	1 cut(s)	627
RsaI	GTAC	2 cut(s)	431, 757
RsaNI	GTAC	2 cut(s)	430, 756
RseI	CAYNNNNRTG	2 cut(s)	99, 137
SaqAI	TTAA	4 cut(s)	293, 315, 390, 782
SatI	GCNGC	2 cut(s)	288, 709
Sau3AI	GATC	4 cut(s)	304, 472, 627, 725
Sau96I	GGNCC	1 cut(s)	183
SchI	GAGTC	4 cut(s)	568, 644, 693, 876
ScrFI	CCNGG	1 cut(s)	622
SduI	GDGCHC	2 cut(s)	94, 456
SfaNI	GCATC	3 cut(s)	532, 559, 856
SfcI	CTRYAG	2 cut(s)	126, 775
SinI	GGWCC	1 cut(s)	183
SmiMI	CAYNNNNRTG	2 cut(s)	99, 137
SmlI	CTYRAG	1 cut(s)	632
SmoI	CTYRAG	1 cut(s)	632
SphI	GCATGC	2 cut(s)	372, 593
Sse9I	AATT	6 cut(s)	244, 337, 511, 729, 737, 809
SsiI	CCGC	1 cut(s)	709
SspMI	CTAG	4 cut(s)	467, 594, 657, 705
StyD4I	CCNGG	1 cut(s)	620
StyI	CCWWGG	1 cut(s)	186
TaiI	ACGT	3 cut(s)	141, 229, 487
TaqI	TCGA	1 cut(s)	885
TasI	AATT	6 cut(s)	244, 337, 511, 729, 737, 809
TatI	WGTACW	1 cut(s)	429
TauI	GCSGC	1 cut(s)	711
TfiI	GAWTC	1 cut(s)	253
Tru1I	TTAA	4 cut(s)	293, 315, 390, 782
Tru9I	TTAA	4 cut(s)	293, 315, 390, 782
TscAI	CASTG	1 cut(s)	44
TseFI	GTSAC	2 cut(s)	374, 517
TseI	GCWGC	1 cut(s)	287
Tsp45I	GTSAC	2 cut(s)	374, 517
TspDTI	ATGAA	6 cut(s)	233, 484, 516, 548, 822, 887
TspRI	CASTG	1 cut(s)	44
VpaK11BI	GGWCC	1 cut(s)	183
XapI	RAATTY	3 cut(s)	337, 511, 809
XbaI	TCTAGA	1 cut(s)	656
XceI	RCATGY	2 cut(s)	372, 593
XcmI	CCANNNNNNNNNTGG	1 cut(s)	139
XmiI	GTMKAC	1 cut(s)	29
XspI	CTAG	4 cut(s)	467, 594, 657, 705
Zsp2I	ATGCAT	1 cut(s)	273

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