Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0006694

Physical Location & Seq

Genomic Coordinates Forward (+)

12317205 .. 12318089

Gene Structure 885 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG074200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 885 bp

ATGCAGAGGCTGTTTGAGCCTGATGGGTATACAATGCAGAGTGTTATAAATGCTTGTGCTGGTTTGGGGGCTTTGGATTTGGGAATGTGGACTCATGCTTATGTGTTGAGGAAGTGTGATAATGCTGTAGCCAGCAATGTGTTGGTGAACTCTTCGTTGGTTGATATGTATTGCAAATGTGGGTCCTTGGATATGGCTCTCCAAGTGTTTGAGGGAATGCCGAAACGTGATGTGATTACATGGAATTATATGATTTTGGGATTTGCCATGCATGGAAAAGCTGAGGCAGCCTTAAAGTGTTTTGATCGTATGGTTAATATGGAGAGTTGTAAGCCAAATTCCATCACATTTGTTGGTGTTTTGAGTGCATGCAATCACAGAGGCATGGTTGACGAAGGTCGTAAGTTCTTTGATATGATGGTAAAAGAGTACAAGATTGAACCACGATTAGAGCATTACGGGTGCCTAGTTGATCTTCTTGCACGTGCTGGTTTCATTGACGAAGCTTTGAATTTGGTGACAACAATGCCTGTGAAGCCCGATGCTGTAATATGGAGGAGTCTTCTTGATGCCTGCAGTAGGCAACAGCATGCCAGCATTGAGCTAAGTGAAGAAGTGGCCAGGCAGATTCTTGAGTCTGGAGGAGAGGATGTTTCTAGTGGTGTTTATGTGTTATTGTCAAGAGTCTATGCTTCAGCTAGCCGCTGGAATGACGTCGGATCAATTCGGAAATTGATGACAGAGGAGGGTATAGCCAAAGAGCCTGGCTGTAGTTTAATAGACATAGATGGTATTACGCATGAATTCTTTGCCGGGGACACATCTCATCCTCATAGTAGAGAAATATATCAGGTCTTGGATGCGATGAAGGAAAGACTCAAATAG

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

294

Amino Acids

32.78

Weight (kDa)

5.42

Isoelectric Point (pI)

44.29

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	76 - 124	4e-10	PPR repeat family
E_motif	PF20431	197 - 260	1.2e-15	E motif
Eplus_motif	PF20430	266 - 287	8e-11	E+ motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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
AatII	GACGTC	1 cut(s)	717
AccB1I	GGYRCC	1 cut(s)	462
AccI	GTMKAC	1 cut(s)	29
AciI	CCGC	1 cut(s)	703
AclWI	GGATC	1 cut(s)	727
AcoI	YGGCCR	1 cut(s)	618
AcsI	RAATTY	3 cut(s)	337, 511, 803
AcuI	CTGAAG	1 cut(s)	678
AcvI	CACGTG	1 cut(s)	485
AcyI	GRCGYC	1 cut(s)	714
AfaI	GTAC	1 cut(s)	431
AfiI	CCNNNNNNNGG	1 cut(s)	579
AgsI	TTSAA	2 cut(s)	440, 511
AjnI	CCWGG	2 cut(s)	620, 763
AjuI	GAANNNNNNNTTGG	2 cut(s)	140, 172
AluBI	AGCT	4 cut(s)	281, 506, 604, 698
AluI	AGCT	4 cut(s)	281, 506, 604, 698
AlwI	GGATC	1 cut(s)	727
AlwNI	CAGNNNCTG	1 cut(s)	10
AoxI	GGCC	1 cut(s)	618
ApeKI	GCWGC	1 cut(s)	287
ApoI	RAATTY	3 cut(s)	337, 511, 803
AspS9I	GGNCC	1 cut(s)	183
AsuC2I	CCSGG	1 cut(s)	814
AsuHPI	GGTGA	2 cut(s)	157, 529
AsuNHI	GCTAGC	1 cut(s)	698
AvaII	GGWCC	1 cut(s)	183
BalI	TGGCCA	1 cut(s)	620
BanI	GGYRCC	1 cut(s)	462
BbrPI	CACGTG	1 cut(s)	485
BbsI	GAAGAC	1 cut(s)	554
BbvCI	CCTCAGC	1 cut(s)	282
BbvI	GCAGC	1 cut(s)	299
BccI	CCATC	4 cut(s)	17, 350, 412, 782
BciT130I	CCWGG	2 cut(s)	622, 765
BcnI	CCSGG	1 cut(s)	814
BfaI	CTAG	3 cut(s)	467, 657, 699
BfmI	CTRYAG	3 cut(s)	126, 574, 769
BisI	GCNGC	2 cut(s)	288, 703
BlsI	GCNGC	2 cut(s)	289, 704
Bme1390I	CCNGG	3 cut(s)	622, 765, 814
Bme18I	GGWCC	1 cut(s)	183
BmgT120I	GGNCC	1 cut(s)	183
BmiI	GGNNCC	2 cut(s)	184, 464
BmrFI	CCNGG	3 cut(s)	622, 765, 814
BmsI	GCATC	3 cut(s)	532, 559, 850
BmtI	GCTAGC	1 cut(s)	702
BoxI	GACNNNNGTC	1 cut(s)	396
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)	814
BsaAI	YACGTR	1 cut(s)	485
BsaHI	GRCGYC	1 cut(s)	714
BsaJI	CCNNGG	2 cut(s)	186, 813
BsaXI	ACNNNNNCTCC	2 cut(s)	636, 666
Bsc4I	CCNNNNNNNGG	1 cut(s)	579
Bse3DI	GCAATG	1 cut(s)	142
BseBI	CCWGG	2 cut(s)	622, 765
BseDI	CCNNGG	2 cut(s)	186, 813
BseGI	GGATG	3 cut(s)	655, 826, 865
BseLI	CCNNNNNNNGG	1 cut(s)	579
BseMI	GCAATG	1 cut(s)	142
BseMII	CTCAG	1 cut(s)	273
BseRI	GAGGAG	3 cut(s)	571, 657, 758
BseXI	GCAGC	1 cut(s)	299
BshFI	GGCC	1 cut(s)	620
BshNI	GGYRCC	1 cut(s)	462
BsiSI	CCGG	1 cut(s)	813
BslFI	GGGAC	1 cut(s)	830
BslI	CCNNNNNNNGG	1 cut(s)	579
BsmFI	GGGAC	1 cut(s)	830
BsmI	GAATGC	1 cut(s)	222
BsnI	GGCC	1 cut(s)	620
Bsp143I	GATC	3 cut(s)	304, 472, 719
BspACI	CCGC	1 cut(s)	703
BspANI	GGCC	1 cut(s)	620
BspCNI	CTCAG	1 cut(s)	274
BspLI	GGNNCC	2 cut(s)	184, 464
BspMAI	CTGCAG	1 cut(s)	578
BspOI	GCTAGC	1 cut(s)	702
BspPI	GGATC	1 cut(s)	727
BspT107I	GGYRCC	1 cut(s)	462
BsrDI	GCAATG	1 cut(s)	142
BssECI	CCNNGG	2 cut(s)	186, 813
BssMI	GATC	3 cut(s)	304, 472, 719
BssNAI	GTATAC	1 cut(s)	30
BssNI	GRCGYC	1 cut(s)	714
BssT1I	CCWWGG	1 cut(s)	186
Bst1107I	GTATAC	1 cut(s)	30
Bst2UI	CCWGG	2 cut(s)	622, 765
Bst6I	CTCTTC	1 cut(s)	157
BstACI	GRCGYC	1 cut(s)	714
BstBAI	YACGTR	1 cut(s)	485
BstC8I	GCNNGC	6 cut(s)	133, 370, 574, 591, 595, 700
BstDEI	CTNAG	2 cut(s)	282, 605
BstENI	CCTNNNNNAGG	1 cut(s)	577
BstF5I	GGATG	3 cut(s)	655, 826, 865
BstKTI	GATC	3 cut(s)	307, 475, 722
BstMBI	GATC	3 cut(s)	304, 472, 719
BstMWI	GCNNNNNNNGC	3 cut(s)	16, 287, 535
BstNI	CCWGG	2 cut(s)	622, 765
BstNSI	RCATGY	2 cut(s)	372, 593
BstPAI	GACNNNNGTC	1 cut(s)	396
BstSCI	CCNGG	3 cut(s)	620, 763, 812
BstSFI	CTRYAG	3 cut(s)	126, 574, 769
BstV1I	GCAGC	1 cut(s)	299
BstV2I	GAAGAC	1 cut(s)	554
BstZ17I	GTATAC	1 cut(s)	30
BsuRI	GGCC	1 cut(s)	620
BtgZI	GCGATG	1 cut(s)	878
BtsCI	GGATG	3 cut(s)	655, 826, 865
Cac8I	GCNNGC	6 cut(s)	133, 370, 574, 591, 595, 700
CaiI	CAGNNNCTG	1 cut(s)	10
Cfr13I	GGNCC	1 cut(s)	183
Csp6I	GTAC	1 cut(s)	430
CviAII	CATG	8 cut(s)	95, 240, 268, 272, 369, 385, 590, 800
CviQI	GTAC	1 cut(s)	430
DdeI	CTNAG	2 cut(s)	282, 605
DpnI	GATC	3 cut(s)	306, 474, 721
DpnII	GATC	3 cut(s)	304, 472, 719
EaeI	YGGCCR	1 cut(s)	618
Eam1104I	CTCTTC	1 cut(s)	157
EarI	CTCTTC	1 cut(s)	157
Eco130I	CCWWGG	1 cut(s)	186
Eco47I	GGWCC	1 cut(s)	183
Eco57I	CTGAAG	1 cut(s)	678
Eco72I	CACGTG	1 cut(s)	485
EcoNI	CCTNNNNNAGG	1 cut(s)	577
EcoO109I	RGGNCCY	1 cut(s)	183
EcoRI	GAATTC	1 cut(s)	803
EcoRII	CCWGG	2 cut(s)	620, 763
EcoT14I	CCWWGG	1 cut(s)	186
EcoT22I	ATGCAT	1 cut(s)	273
ErhI	CCWWGG	1 cut(s)	186
FaeI	CATG	8 cut(s)	98, 243, 271, 275, 372, 388, 593, 803
FaqI	GGGAC	1 cut(s)	830
FatI	CATG	8 cut(s)	94, 239, 267, 271, 368, 384, 589, 799
FblI	GTMKAC	1 cut(s)	29
Fnu4HI	GCNGC	2 cut(s)	288, 703
FokI	GGATG	3 cut(s)	662, 813, 872
Fsp4HI	GCNGC	2 cut(s)	288, 703
FspBI	CTAG	3 cut(s)	467, 657, 699
GluI	GCNGC	2 cut(s)	288, 703
GsuI	CTGGAG	1 cut(s)	660
HaeIII	GGCC	1 cut(s)	620
HapII	CCGG	1 cut(s)	813
Hin1I	GRCGYC	1 cut(s)	714
Hin1II	CATG	8 cut(s)	98, 243, 271, 275, 372, 388, 593, 803
HincII	GTYRAC	1 cut(s)	391
HindII	GTYRAC	1 cut(s)	391
HindIII	AAGCTT	1 cut(s)	504
HinfI	GANTC	6 cut(s)	91, 559, 628, 635, 684, 876
HpaII	CCGG	1 cut(s)	813
HphI	GGTGA	2 cut(s)	157, 529
Hpy166II	GTNNAC	4 cut(s)	30, 90, 148, 391
Hpy188I	TCNGA	2 cut(s)	719, 729
Hpy188III	TCNNGA	4 cut(s)	566, 632, 639, 681
Hpy8I	GTNNAC	4 cut(s)	30, 90, 148, 391
Hpy99I	CGWCG	1 cut(s)	719
HpyAV	CCTTC	2 cut(s)	389, 862
HpyCH4IV	ACGT	3 cut(s)	226, 484, 714
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)	226, 484, 714
Hsp92I	GRCGYC	1 cut(s)	714
Hsp92II	CATG	8 cut(s)	98, 243, 271, 275, 372, 388, 593, 803
Kzo9I	GATC	3 cut(s)	304, 472, 719
Lsp1109I	GCAGC	1 cut(s)	299
LweI	GCATC	3 cut(s)	532, 559, 850
MaeI	CTAG	3 cut(s)	467, 657, 699
MaeII	ACGT	3 cut(s)	226, 484, 714
MaeIII	GTNAC	1 cut(s)	517
MalI	GATC	3 cut(s)	306, 474, 721
MboI	GATC	3 cut(s)	304, 472, 719
MboII	GAAGA	4 cut(s)	144, 467, 554, 623
MlsI	TGGCCA	1 cut(s)	620
MluCI	AATT	6 cut(s)	244, 337, 511, 723, 731, 803
MluNI	TGGCCA	1 cut(s)	620
MlyI	GAGTC	5 cut(s)	85, 568, 644, 693, 870
MmeI	TCCRAC	1 cut(s)	697
Mox20I	TGGCCA	1 cut(s)	620
Mph1103I	ATGCAT	1 cut(s)	273
MscI	TGGCCA	1 cut(s)	620
MseI	TTAA	3 cut(s)	293, 315, 776
MslI	CAYNNNNRTG	1 cut(s)	99
Msp20I	TGGCCA	1 cut(s)	620
MspA1I	CMGCKG	1 cut(s)	705
MspI	CCGG	1 cut(s)	813
MspR9I	CCNGG	3 cut(s)	622, 765, 814
Mva1269I	GAATGC	1 cut(s)	222
MvaI	CCWGG	2 cut(s)	622, 765
MwoI	GCNNNNNNNGC	3 cut(s)	16, 287, 535
NciI	CCSGG	1 cut(s)	814
NdeII	GATC	3 cut(s)	304, 472, 719
NheI	GCTAGC	1 cut(s)	698
NlaIII	CATG	8 cut(s)	98, 243, 271, 275, 372, 388, 593, 803
NlaIV	GGNNCC	2 cut(s)	184, 464
NmuCI	GTSAC	1 cut(s)	517
NsiI	ATGCAT	1 cut(s)	273
NspI	RCATGY	2 cut(s)	372, 593
PaeI	GCATGC	2 cut(s)	372, 593
PctI	GAATGC	1 cut(s)	222
PfeI	GAWTC	1 cut(s)	628
PkrI	GCNGC	2 cut(s)	289, 704
PleI	GAGTC	5 cut(s)	85, 567, 643, 692, 870
PmaCI	CACGTG	1 cut(s)	485
PmlI	CACGTG	1 cut(s)	485
PpsI	GAGTC	5 cut(s)	85, 567, 643, 692, 870
Ppu21I	YACGTR	1 cut(s)	485
PpuMI	RGGWCCY	1 cut(s)	183
PshAI	GACNNNNGTC	1 cut(s)	396
PsiI	TTATAA	1 cut(s)	47
Psp5II	RGGWCCY	1 cut(s)	183
Psp6I	CCWGG	2 cut(s)	620, 763
PspCI	CACGTG	1 cut(s)	485
PspGI	CCWGG	2 cut(s)	620, 763
PspN4I	GGNNCC	2 cut(s)	184, 464
PspPI	GGNCC	1 cut(s)	183
PspPPI	RGGWCCY	1 cut(s)	183
PstI	CTGCAG	1 cut(s)	578
PstNI	CAGNNNCTG	1 cut(s)	10
RsaI	GTAC	1 cut(s)	431
RsaNI	GTAC	1 cut(s)	430
RseI	CAYNNNNRTG	1 cut(s)	99
SaqAI	TTAA	3 cut(s)	293, 315, 776
SatI	GCNGC	2 cut(s)	288, 703
Sau3AI	GATC	3 cut(s)	304, 472, 719
Sau96I	GGNCC	1 cut(s)	183
SchI	GAGTC	5 cut(s)	85, 568, 644, 693, 870
ScrFI	CCNGG	3 cut(s)	622, 765, 814
SetI	ASST	9 cut(s)	229, 283, 400, 487, 508, 606, 700, 717, 855
SfaNI	GCATC	3 cut(s)	532, 559, 850
SfcI	CTRYAG	3 cut(s)	126, 574, 769
SinI	GGWCC	1 cut(s)	183
SmiMI	CAYNNNNRTG	1 cut(s)	99
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, 723, 731, 803
SsiI	CCGC	1 cut(s)	703
SspMI	CTAG	3 cut(s)	467, 657, 699
StyD4I	CCNGG	3 cut(s)	620, 763, 812
StyI	CCWWGG	1 cut(s)	186
TaiI	ACGT	3 cut(s)	229, 487, 717
TasI	AATT	6 cut(s)	244, 337, 511, 723, 731, 803
TatI	WGTACW	1 cut(s)	429
TauI	GCSGC	1 cut(s)	705
TfiI	GAWTC	1 cut(s)	628
Tru1I	TTAA	3 cut(s)	293, 315, 776
Tru9I	TTAA	3 cut(s)	293, 315, 776
TseFI	GTSAC	1 cut(s)	517
TseI	GCWGC	1 cut(s)	287
Tsp45I	GTSAC	1 cut(s)	517
TspDTI	ATGAA	3 cut(s)	484, 816, 881
VpaK11BI	GGWCC	1 cut(s)	183
XagI	CCTNNNNNAGG	1 cut(s)	577
XapI	RAATTY	3 cut(s)	337, 511, 803
XceI	RCATGY	2 cut(s)	372, 593
XcmI	CCANNNNNNNNNTGG	1 cut(s)	139
XmiI	GTMKAC	1 cut(s)	29
XspI	CTAG	3 cut(s)	467, 657, 699
ZraI	GACGTC	1 cut(s)	715
Zsp2I	ATGCAT	1 cut(s)	273

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