Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0015335

Physical Location & Seq

Genomic Coordinates Forward (+)

18172720 .. 18174757

Gene Structure 2038 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG190200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 903 bp

ATGCTCCGATTCGGCCACCCACCCAACGCTTTCACTTTCCCCTTCGCTCTCAAATCCTGCGCCGCCCTCTCCCTCCCTCTCACCGGTTCACTACTCCATTCCCACGTCGTCAAAACCGGGTGCGAGCCCGACCCCTTCGTACAAACCTCTTTGGTTTCCATGTACTGTAAATGCCGTTCGACCGATGACGCACGCAAGGTGTTCGATGAAAATCCCCACTCGAGGAAGCTGACTGTTTGCTACAATGCTTTGATATCTGGGCATGCTTCGAATTCGAAGTTTCGTGATGCGGTTTCGTTGTTTCGTCGAATGAGGGAGGAGGGCGTGGAGGTTAATTCAGTTACCATGCTGGGTTTGATTCCGGGGTGCGTGGCTCCGGTGCATTTGAGTCTTGGGATGTGCCTTCATGGTTCTAGTGTGAAGTGCGGTTTCGACGTTGATTTGTCTGTGAGGAATTGTTTGCTTACAATGGAGATGGAATATTGTGGTGTTTGCCCTGATCCTGTGACGCTTGTTGGCGTTCTATCGTCGTGTACTCACCTTGGTGCGCATGGCGTTGGACGTGAGGTAGAAAGACGGATAGAGTCTAGTGGATTTGGTTCCAATCCGTATTTGAAAAATGCTCTGATCAATATGTACGCTAGGTGTGGTAATTTGGTGAAGGCTCATGCTATTTTTGATGTCATGCCTGAAAAAAGCTTAGTTTCTTGGACAGCGATTATCGGTGGGTATGGGATGCACGGACATGGAGAGATTGCATTGGAGCTCTTCGAGGAAATGATCGCGACTGGAATCAGGCCTGACAAAGCCATGATAGGGAGTCTCTGCACTGGTTCTTGGGAAGAGGTAACTGGTTTTTTGCAGTCGAGAGCAGAAGCCATTCTTCATGGACTGCCCTGTTAG

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:0005739 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: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:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

300

Amino Acids

32.51

Weight (kDa)

6.66

Isoelectric Point (pI)

38.94

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	78 - 124	7.1e-11	PPR repeat family
PPR	PF01535	79 - 109	3.9e-08	PPR repeat
PPR_2	PF13041	233 - 269	2.4e-07	PPR repeat family
PPR	PF01535	235 - 264	1.3e-06	PPR repeat

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: OG0015335)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G11460
fragaria_vesca	FvH4_6g19130
malus_domestica	MD14G1027300.v1.1
prunus_persica	Prupe.7G104400_v2.0.a1
pyrus_communis	pycom14g02600
rosa_chinensis	RchiOBHm_Chr3g0474241
rosa_laevigata	RLG00000023936 RLG00000023939
rosa_multiflora	Rmu_sc0004507.1_g000021 Rmu_sc0015051.1_g000006
rosa_roxburghii	Rroxscaffold_6G00407410
rosa_rugosa	Rorug03G0139800
rosa_samantha	Rh3AG190200 Rh3BG219500 Rh3DG215000
rosa_wichuraiana	Rw3G017350

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	549
AccII	CGCG	1 cut(s)	785
AciI	CCGC	3 cut(s)	63, 290, 426
AclWI	GGATC	1 cut(s)	494
AcoI	YGGCCR	1 cut(s)	13
AcsI	RAATTY	1 cut(s)	271
AfaI	GTAC	4 cut(s)	141, 164, 535, 638
AfiI	CCNNNNNNNGG	3 cut(s)	83, 222, 816
AgeI	ACCGGT	1 cut(s)	83
AgsI	TTSAA	1 cut(s)	616
AjiI	CACGTC	2 cut(s)	106, 563
AleI	CACNNNNGTG	1 cut(s)	543
AluBI	AGCT	3 cut(s)	229, 699, 766
AluI	AGCT	3 cut(s)	229, 699, 766
Alw21I	GWGCWC	1 cut(s)	768
Alw26I	GTCTC	1 cut(s)	827
AlwI	GGATC	1 cut(s)	494
Ama87I	CYCGRG	1 cut(s)	220
AoxI	GGCC	2 cut(s)	13, 797
ApoI	RAATTY	1 cut(s)	271
AsiGI	ACCGGT	1 cut(s)	83
Asp700I	GAANNNNTTC	1 cut(s)	879
AspLEI	GCGC	2 cut(s)	62, 550
AsuC2I	CCSGG	2 cut(s)	118, 363
AsuHPI	GGTGA	3 cut(s)	73, 530, 670
AsuII	TTCGAA	2 cut(s)	269, 275
AvaI	CYCGRG	1 cut(s)	220
BanII	GRGCYC	2 cut(s)	129, 768
Bbv12I	GWGCWC	1 cut(s)	768
BccI	CCATC	1 cut(s)	469
BceAI	ACGGC	1 cut(s)	159
BcgI	CGANNNNNNTGC	2 cut(s)	184, 218
BclI	TGATCA	1 cut(s)	627
BcnI	CCSGG	2 cut(s)	118, 363
BcoDI	GTCTC	1 cut(s)	827
BfaI	CTAG	3 cut(s)	414, 588, 642
BisI	GCNGC	1 cut(s)	63
BlsI	GCNGC	1 cut(s)	64
Bme1390I	CCNGG	2 cut(s)	118, 363
BmeT110I	CYCGRG	1 cut(s)	220
BmgBI	CACGTC	2 cut(s)	106, 563
BmiI	GGNNCC	2 cut(s)	375, 601
BmrFI	CCNGG	2 cut(s)	118, 363
BmsI	GCATC	2 cut(s)	277, 726
Bpu14I	TTCGAA	2 cut(s)	269, 275
BpuMI	CCSGG	2 cut(s)	118, 363
BsaBI	GATNNNNATC	1 cut(s)	210
BsaJI	CCNNGG	2 cut(s)	362, 541
BsaWI	WCCGGW	2 cut(s)	83, 376
Bsc4I	CCNNNNNNNGG	3 cut(s)	83, 222, 816
Bse118I	RCCGGY	1 cut(s)	83
Bse1I	ACTGG	3 cut(s)	793, 835, 856
Bse8I	GATNNNNATC	1 cut(s)	210
BseDI	CCNNGG	2 cut(s)	362, 541
BseGI	GGATG	2 cut(s)	402, 741
BseJI	GATNNNNATC	1 cut(s)	210
BseLI	CCNNNNNNNGG	3 cut(s)	83, 222, 816
BseNI	ACTGG	3 cut(s)	793, 835, 856
BseRI	GAGGAG	1 cut(s)	332
BseYI	CCCAGC	1 cut(s)	349
BsgI	GTGCAG	1 cut(s)	811
Bsh1236I	CGCG	1 cut(s)	785
Bsh1285I	CGRYCG	1 cut(s)	183
BshFI	GGCC	2 cut(s)	15, 799
BshTI	ACCGGT	1 cut(s)	83
BsiEI	CGRYCG	1 cut(s)	183
BsiHKAI	GWGCWC	1 cut(s)	768
BsiHKCI	CYCGRG	1 cut(s)	220
BsiSI	CCGG	4 cut(s)	84, 117, 362, 377
BslI	CCNNNNNNNGG	3 cut(s)	83, 222, 816
BsmAI	GTCTC	1 cut(s)	827
BsnI	GGCC	2 cut(s)	15, 799
BsoBI	CYCGRG	1 cut(s)	220
Bsp119I	TTCGAA	2 cut(s)	269, 275
Bsp1286I	GDGCHC	2 cut(s)	129, 768
Bsp143I	GATC	3 cut(s)	499, 627, 780
Bsp68I	TCGCGA	1 cut(s)	785
BspACI	CCGC	3 cut(s)	63, 290, 426
BspANI	GGCC	2 cut(s)	15, 799
BspFNI	CGCG	1 cut(s)	785
BspLI	GGNNCC	2 cut(s)	375, 601
BspPI	GGATC	1 cut(s)	494
BspQI	GCTCTTC	1 cut(s)	773
BspT104I	TTCGAA	2 cut(s)	269, 275
BsrFI	RCCGGY	1 cut(s)	83
BsrI	ACTGG	3 cut(s)	793, 835, 856
BssAI	RCCGGY	1 cut(s)	83
BssECI	CCNNGG	2 cut(s)	362, 541
BssMI	GATC	3 cut(s)	499, 627, 780
BssT1I	CCWWGG	1 cut(s)	541
Bst4CI	ACNGT	2 cut(s)	167, 235
Bst6I	CTCTTC	2 cut(s)	773, 837
BstBI	TTCGAA	2 cut(s)	269, 275
BstC8I	GCNNGC	3 cut(s)	125, 193, 264
BstDEI	CTNAG	1 cut(s)	700
BstF5I	GGATG	2 cut(s)	402, 741
BstFNI	CGCG	1 cut(s)	785
BstHHI	GCGC	2 cut(s)	62, 550
BstKTI	GATC	3 cut(s)	502, 630, 783
BstMAI	GTCTC	1 cut(s)	827
BstMBI	GATC	3 cut(s)	499, 627, 780
BstMCI	CGRYCG	1 cut(s)	183
BstNSI	RCATGY	1 cut(s)	266
BstSCI	CCNGG	2 cut(s)	116, 361
BstUI	CGCG	1 cut(s)	785
BsuRI	GGCC	2 cut(s)	15, 799
BtrI	CACGTC	2 cut(s)	106, 563
BtsCI	GGATG	2 cut(s)	402, 741
BtsIMutI	CAGTG	1 cut(s)	828
BtuMI	TCGCGA	1 cut(s)	785
Cac8I	GCNNGC	3 cut(s)	125, 193, 264
CfoI	GCGC	2 cut(s)	62, 550
Cfr10I	RCCGGY	1 cut(s)	83
CseI	GACGC	2 cut(s)	197, 517
Csp6I	GTAC	4 cut(s)	140, 163, 534, 637
CspAI	ACCGGT	1 cut(s)	83
CviQI	GTAC	4 cut(s)	140, 163, 534, 637
DdeI	CTNAG	1 cut(s)	700
DpnI	GATC	3 cut(s)	501, 629, 782
DpnII	GATC	3 cut(s)	499, 627, 780
EaeI	YGGCCR	1 cut(s)	13
Eam1104I	CTCTTC	2 cut(s)	773, 837
EarI	CTCTTC	2 cut(s)	773, 837
Ecl136II	GAGCTC	1 cut(s)	766
Eco130I	CCWWGG	1 cut(s)	541
Eco147I	AGGCCT	1 cut(s)	799
Eco24I	GRGCYC	2 cut(s)	129, 768
Eco32I	GATATC	1 cut(s)	255
Eco53kI	GAGCTC	1 cut(s)	766
Eco88I	CYCGRG	1 cut(s)	220
EcoICRI	GAGCTC	1 cut(s)	766
EcoRI	GAATTC	1 cut(s)	271
EcoRV	GATATC	1 cut(s)	255
EcoT14I	CCWWGG	1 cut(s)	541
EcoT38I	GRGCYC	2 cut(s)	129, 768
ErhI	CCWWGG	1 cut(s)	541
FalI	AAGNNNNNCTT	2 cut(s)	867, 899
FbaI	TGATCA	1 cut(s)	627
Fnu4HI	GCNGC	1 cut(s)	63
FokI	GGATG	2 cut(s)	409, 748
FriOI	GRGCYC	2 cut(s)	129, 768
Fsp4HI	GCNGC	1 cut(s)	63
FspAI	RTGCGCAY	1 cut(s)	549
FspBI	CTAG	3 cut(s)	414, 588, 642
FspI	TGCGCA	1 cut(s)	549
GlaI	GCGC	2 cut(s)	61, 549
GluI	GCNGC	1 cut(s)	63
GsaI	CCCAGC	1 cut(s)	353
HaeIII	GGCC	2 cut(s)	15, 799
HapII	CCGG	4 cut(s)	84, 117, 362, 377
HgaI	GACGC	2 cut(s)	197, 517
HhaI	GCGC	2 cut(s)	62, 550
Hin6I	GCGC	2 cut(s)	60, 548
HinP1I	GCGC	2 cut(s)	60, 548
HindIII	AAGCTT	1 cut(s)	697
HinfI	GANTC	6 cut(s)	9, 358, 388, 584, 792, 820
HpaII	CCGG	4 cut(s)	84, 117, 362, 377
HphI	GGTGA	3 cut(s)	73, 530, 670
Hpy166II	GTNNAC	2 cut(s)	89, 534
Hpy188I	TCNGA	2 cut(s)	8, 627
Hpy188III	TCNNGA	3 cut(s)	284, 784, 867
Hpy8I	GTNNAC	2 cut(s)	89, 534
Hpy99I	CGWCG	4 cut(s)	110, 309, 437, 532
HpyAV	CCTTC	4 cut(s)	52, 145, 413, 655
HpyCH4III	ACNGT	2 cut(s)	167, 235
HpyCH4IV	ACGT	3 cut(s)	105, 435, 562
HpyCH4V	TGCA	5 cut(s)	382, 739, 758, 828, 862
HpyF3I	CTNAG	1 cut(s)	700
HpySE526I	ACGT	3 cut(s)	105, 435, 562
HspAI	GCGC	2 cut(s)	60, 548
Ksp22I	TGATCA	1 cut(s)	627
Kzo9I	GATC	3 cut(s)	499, 627, 780
LguI	GCTCTTC	1 cut(s)	773
LmnI	GCTCC	3 cut(s)	9, 379, 763
LweI	GCATC	2 cut(s)	277, 726
MaeI	CTAG	3 cut(s)	414, 588, 642
MaeII	ACGT	3 cut(s)	105, 435, 562
MaeIII	GTNAC	3 cut(s)	340, 505, 847
MalI	GATC	3 cut(s)	501, 629, 782
MboI	GATC	3 cut(s)	499, 627, 780
MboII	GAAGA	3 cut(s)	760, 854, 875
MhlI	GDGCHC	2 cut(s)	129, 768
MluCI	AATT	4 cut(s)	271, 334, 454, 652
MlyI	GAGTC	3 cut(s)	397, 593, 829
MmeI	TCCRAC	1 cut(s)	538
MroXI	GAANNNNTTC	1 cut(s)	879
MseI	TTAA	1 cut(s)	333
MslI	CAYNNNNRTG	2 cut(s)	543, 744
MspI	CCGG	4 cut(s)	84, 117, 362, 377
MspR9I	CCNGG	2 cut(s)	118, 363
MvnI	CGCG	1 cut(s)	785
NciI	CCSGG	2 cut(s)	118, 363
NdeII	GATC	3 cut(s)	499, 627, 780
NlaIV	GGNNCC	2 cut(s)	375, 601
NmuCI	GTSAC	1 cut(s)	505
NruI	TCGCGA	1 cut(s)	785
NsbI	TGCGCA	1 cut(s)	549
NspI	RCATGY	1 cut(s)	266
NspV	TTCGAA	2 cut(s)	269, 275
OliI	CACNNNNGTG	1 cut(s)	543
PaeI	GCATGC	1 cut(s)	266
PaeR7I	CTCGAG	1 cut(s)	220
PceI	AGGCCT	1 cut(s)	799
PciSI	GCTCTTC	1 cut(s)	773
PdmI	GAANNNNTTC	1 cut(s)	879
PfeI	GAWTC	3 cut(s)	9, 358, 792
PinAI	ACCGGT	1 cut(s)	83
PkrI	GCNGC	1 cut(s)	64
PleI	GAGTC	3 cut(s)	396, 592, 828
PpsI	GAGTC	3 cut(s)	396, 592, 828
Psp124BI	GAGCTC	1 cut(s)	768
PspFI	CCCAGC	1 cut(s)	349
PspN4I	GGNNCC	2 cut(s)	375, 601
PspXI	VCTCGAGB	1 cut(s)	220
PsrI	GAACNNNNNNTAC	2 cut(s)	160, 192
RruI	TCGCGA	1 cut(s)	785
RsaI	GTAC	4 cut(s)	141, 164, 535, 638
RsaNI	GTAC	4 cut(s)	140, 163, 534, 637
RseI	CAYNNNNRTG	2 cut(s)	543, 744
SacI	GAGCTC	1 cut(s)	768
SapI	GCTCTTC	1 cut(s)	773
SaqAI	TTAA	1 cut(s)	333
SatI	GCNGC	1 cut(s)	63
Sau3AI	GATC	3 cut(s)	499, 627, 780
SchI	GAGTC	3 cut(s)	397, 593, 829
ScrFI	CCNGG	2 cut(s)	118, 363
SduI	GDGCHC	2 cut(s)	129, 768
SfaNI	GCATC	2 cut(s)	277, 726
Sfr274I	CTCGAG	1 cut(s)	220
SfuI	TTCGAA	2 cut(s)	269, 275
SlaI	CTCGAG	1 cut(s)	220
SmiMI	CAYNNNNRTG	2 cut(s)	543, 744
SmlI	CTYRAG	1 cut(s)	220
SmoI	CTYRAG	1 cut(s)	220
SphI	GCATGC	1 cut(s)	266
Sse9I	AATT	4 cut(s)	271, 334, 454, 652
SseBI	AGGCCT	1 cut(s)	799
SsiI	CCGC	3 cut(s)	63, 290, 426
SspI	AATATT	1 cut(s)	482
SspMI	CTAG	3 cut(s)	414, 588, 642
SstI	GAGCTC	1 cut(s)	768
StuI	AGGCCT	1 cut(s)	799
StyD4I	CCNGG	2 cut(s)	116, 361
StyI	CCWWGG	1 cut(s)	541
TaaI	ACNGT	2 cut(s)	167, 235
TaiI	ACGT	3 cut(s)	108, 438, 565
TaqI	TCGA	9 cut(s)	179, 204, 221, 269, 275, 307, 432, 771, 866
TaqII	GACCGA	1 cut(s)	197
TasI	AATT	4 cut(s)	271, 334, 454, 652
TatI	WGTACW	2 cut(s)	162, 533
TauI	GCSGC	1 cut(s)	65
TfiI	GAWTC	3 cut(s)	9, 358, 792
Tru1I	TTAA	1 cut(s)	333
Tru9I	TTAA	1 cut(s)	333
TscAI	CASTG	1 cut(s)	835
TseFI	GTSAC	1 cut(s)	505
Tsp45I	GTSAC	1 cut(s)	505
TspDTI	ATGAA	3 cut(s)	222, 395, 875
TspGWI	ACGGA	3 cut(s)	592, 597, 756
TspRI	CASTG	1 cut(s)	835
XapI	RAATTY	1 cut(s)	271
XceI	RCATGY	1 cut(s)	266
XhoI	CTCGAG	1 cut(s)	220
XmnI	GAANNNNTTC	1 cut(s)	879
XspI	CTAG	3 cut(s)	414, 588, 642

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