Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0011932

Physical Location & Seq

Genomic Coordinates Reverse (-)

10975188 .. 10976138

Gene Structure 951 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00290450.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 759 bp

ATGGTGGGTATGGTCTCGGCTTGTAGCTTATTAAATGATCTAAATCATGGTACTTGTATTCATGGGCGAATTATAAAGAATGGGTTTGAACATGATGCACCTTTGAAAAATGCTCTTATTGGCATGTATAGCAAATGTGGTGACATTTCGTCGCCTGAATTTCTATTTAATAGAACAAAATTAATGAAAGATGTGGTATCCTGGAATGTAATGATTGCAGGATACATGCGTGGTGGATATGCCGGGGAAGCTATATCCGTGTTTCACAAGATGAAATTGGAGAACTGTCGGCCTAATTTAGTCACATTTGTTAGCATTTTTCCTGCAGTGGCATATCTAGCGCATTACGAGAGGGCATGGCTTTTCATGCCCGCATTATCCGAATGGAGCTGTATCCAACTTGATTCTCGTGTCATTCATCGGTCTCTTGTCCGCTTGCGACATGCGGGTTTGATAAAAGACGGAAAGGAAGTTTTTCAGGTCATGTGTGAAAAGCACCATCTTGAACTAGAGTTGGAACATTATGCTTGCATGGTAGATCTTCTAGGCCATGCTGGTTTCTTTGATGAAGCTTTAGATTTGATTAATACGATGCCCGTGGAGCCCGATGCTAGAGTCCGGGGAGCATTATTAGGGGCATGCGGGATGCATTCAAATGCAAAGTTGGGAGAAGTTGCGTTGAGTCATCTTGTTAACCTTGAGCCTACAAATGCAACCAATTACATAGCTTTATCAGATATACATGCACATTCTCGCTAG

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:0016071 GO:0016556 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

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

252

Amino Acids

28.08

Weight (kDa)

6.56

Isoelectric Point (pI)

40.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	60 - 107	4.5e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	63 - 108	3e-12	PPR repeat family
PPR	PF01535	66 - 96	2.4e-07	PPR repeat

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

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

Orthologous Genes (Group: OG0011932)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G39620 AT2G40720
fragaria_vesca	FvH4_7g21891
malus_domestica	MD07G1193300.v1.1
prunus_persica	Prupe.2G231000_v2.0.a1
pyrus_communis	pycom07g18250
rosa_chinensis	RchiOBHm_Chr1g0366141
rosa_laevigata	RLG00000027363
rosa_multiflora	Rmu_co8484073.1_g000001 Rmu_sc0003987.1_g000001
rosa_roxburghii	Rroxscaffold_4G00290450 Rroxscaffold_4G00290460
rosa_rugosa	Rorug01G0327800 Rorug01G0327900
rosa_samantha	Rh1AG335900 Rh1BG297300 Rh1CG313300 Rh1DG329100
rosa_wichuraiana	Rw1G029800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	74
AciI	CCGC	4 cut(s)	372, 433, 446, 642
AcsI	RAATTY	1 cut(s)	158
AfaI	GTAC	1 cut(s)	52
AgsI	TTSAA	4 cut(s)	89, 106, 506, 654
AhdI	GACNNNNNGTC	1 cut(s)	148
AjnI	CCWGG	1 cut(s)	200
AluBI	AGCT	5 cut(s)	27, 251, 390, 572, 728
AluI	AGCT	5 cut(s)	27, 251, 390, 572, 728
Alw26I	GTCTC	2 cut(s)	19, 429
AoxI	GGCC	2 cut(s)	290, 547
ApoI	RAATTY	1 cut(s)	158
AseI	ATTAAT	2 cut(s)	182, 585
Asp700I	GAANNNNTTC	1 cut(s)	474
AspLEI	GCGC	1 cut(s)	343
AsuC2I	CCSGG	2 cut(s)	244, 620
AsuHPI	GGTGA	1 cut(s)	152
BaeI	ACNNNNGTAYC	2 cut(s)	214, 247
BanII	GRGCYC	1 cut(s)	606
BauI	CACGAG	1 cut(s)	408
BccI	CCATC	1 cut(s)	507
BciT130I	CCWGG	1 cut(s)	202
BciVI	GTATCC	3 cut(s)	208, 215, 404
BcnI	CCSGG	2 cut(s)	244, 620
BcoDI	GTCTC	2 cut(s)	19, 429
BfaI	CTAG	5 cut(s)	338, 509, 545, 612, 757
BfmI	CTRYAG	1 cut(s)	324
BfuI	GTATCC	3 cut(s)	208, 215, 404
BglII	AGATCT	1 cut(s)	538
Bme1390I	CCNGG	3 cut(s)	202, 244, 620
BmeRI	GACNNNNNGTC	1 cut(s)	148
BmiI	GGNNCC	1 cut(s)	603
BmrFI	CCNGG	3 cut(s)	202, 244, 620
BmsI	GCATC	4 cut(s)	85, 582, 598, 636
BpuEI	CTTGAG	1 cut(s)	719
BpuMI	CCSGG	2 cut(s)	244, 620
BsaBI	GATNNNNATC	1 cut(s)	42
BsaI	GGTCTC	2 cut(s)	19, 429
BsaJI	CCNNGG	3 cut(s)	243, 597, 619
Bse8I	GATNNNNATC	1 cut(s)	42
BseBI	CCWGG	1 cut(s)	202
BseDI	CCNNGG	3 cut(s)	243, 597, 619
BseGI	GGATG	1 cut(s)	651
BseJI	GATNNNNATC	1 cut(s)	42
BshFI	GGCC	2 cut(s)	292, 549
BsiSI	CCGG	2 cut(s)	243, 619
BsmAI	GTCTC	2 cut(s)	19, 429
BsmI	GAATGC	1 cut(s)	649
BsnI	GGCC	2 cut(s)	292, 549
Bso31I	GGTCTC	2 cut(s)	19, 429
Bsp1286I	GDGCHC	1 cut(s)	606
Bsp143I	GATC	2 cut(s)	37, 538
BspACI	CCGC	4 cut(s)	372, 433, 446, 642
BspANI	GGCC	2 cut(s)	292, 549
BspLI	GGNNCC	1 cut(s)	603
BspMAI	CTGCAG	1 cut(s)	328
BspTNI	GGTCTC	2 cut(s)	19, 429
BssECI	CCNNGG	3 cut(s)	243, 597, 619
BssMI	GATC	2 cut(s)	37, 538
BssSI	CACGAG	1 cut(s)	408
Bst2BI	CACGAG	1 cut(s)	408
Bst2UI	CCWGG	1 cut(s)	202
Bst4CI	ACNGT	1 cut(s)	287
BstC8I	GCNNGC	4 cut(s)	372, 437, 529, 640
BstDSI	CCRYGG	1 cut(s)	597
BstF5I	GGATG	1 cut(s)	651
BstHHI	GCGC	1 cut(s)	343
BstKTI	GATC	2 cut(s)	40, 541
BstMAI	GTCTC	2 cut(s)	19, 429
BstMBI	GATC	2 cut(s)	37, 538
BstMWI	GCNNNNNNNGC	5 cut(s)	129, 248, 338, 367, 601
BstNI	CCWGG	1 cut(s)	202
BstNSI	RCATGY	5 cut(s)	127, 229, 446, 642, 746
BstSCI	CCNGG	3 cut(s)	200, 242, 618
BstSFI	CTRYAG	1 cut(s)	324
BstX2I	RGATCY	1 cut(s)	538
BstYI	RGATCY	1 cut(s)	538
BsuI	GTATCC	3 cut(s)	208, 215, 404
BsuRI	GGCC	2 cut(s)	292, 549
BtgI	CCRYGG	1 cut(s)	597
BtsCI	GGATG	1 cut(s)	651
BtsI	GCAGTG	1 cut(s)	333
BtsIMutI	CAGTG	1 cut(s)	333
Cac8I	GCNNGC	4 cut(s)	372, 437, 529, 640
CfoI	GCGC	1 cut(s)	343
Csp6I	GTAC	1 cut(s)	51
CviQI	GTAC	1 cut(s)	51
DpnI	GATC	2 cut(s)	39, 540
DpnII	GATC	2 cut(s)	37, 538
DriI	GACNNNNNGTC	1 cut(s)	148
Eam1105I	GACNNNNNGTC	1 cut(s)	148
Eco24I	GRGCYC	1 cut(s)	606
Eco31I	GGTCTC	2 cut(s)	19, 429
EcoRII	CCWGG	1 cut(s)	200
EcoT22I	ATGCAT	1 cut(s)	651
EcoT38I	GRGCYC	1 cut(s)	606
FauI	CCCGC	3 cut(s)	379, 439, 635
FokI	GGATG	1 cut(s)	658
FriOI	GRGCYC	1 cut(s)	606
FspBI	CTAG	5 cut(s)	338, 509, 545, 612, 757
GlaI	GCGC	1 cut(s)	342
HaeIII	GGCC	2 cut(s)	292, 549
HapII	CCGG	2 cut(s)	243, 619
HhaI	GCGC	1 cut(s)	343
Hin6I	GCGC	1 cut(s)	341
HinP1I	GCGC	1 cut(s)	341
HincII	GTYRAC	1 cut(s)	694
HindII	GTYRAC	1 cut(s)	694
HindIII	AAGCTT	1 cut(s)	570
HinfI	GANTC	3 cut(s)	404, 615, 682
HpaI	GTTAAC	1 cut(s)	694
HpaII	CCGG	2 cut(s)	243, 619
HphI	GGTGA	1 cut(s)	152
Hpy166II	GTNNAC	1 cut(s)	694
Hpy188I	TCNGA	2 cut(s)	382, 736
Hpy188III	TCNNGA	1 cut(s)	503
Hpy8I	GTNNAC	1 cut(s)	694
Hpy99I	CGWCG	1 cut(s)	154
HpyCH4III	ACNGT	1 cut(s)	287
HpyCH4V	TGCA	8 cut(s)	98, 218, 326, 531, 649, 659, 713, 746
HpyF10VI	GCNNNNNNNGC	5 cut(s)	129, 248, 338, 367, 601
HspAI	GCGC	1 cut(s)	341
KspAI	GTTAAC	1 cut(s)	694
Kzo9I	GATC	2 cut(s)	37, 538
LmnI	GCTCC	3 cut(s)	387, 601, 623
LpnPI	CCDG	9 cut(s)	168, 187, 204, 214, 256, 336, 464, 540, 632
LweI	GCATC	4 cut(s)	85, 582, 598, 636
MaeI	CTAG	5 cut(s)	338, 509, 545, 612, 757
MaeIII	GTNAC	2 cut(s)	140, 301
MalI	GATC	2 cut(s)	39, 540
MboI	GATC	2 cut(s)	37, 538
MboII	GAAGA	1 cut(s)	533
MflI	RGATCY	1 cut(s)	538
MhlI	GDGCHC	1 cut(s)	606
MluCI	AATT	6 cut(s)	69, 158, 179, 275, 295, 718
MlyI	GAGTC	2 cut(s)	624, 691
MmeI	TCCRAC	2 cut(s)	421, 495
MnlI	CCTC	1 cut(s)	345
Mph1103I	ATGCAT	1 cut(s)	651
MroXI	GAANNNNTTC	1 cut(s)	474
MseI	TTAA	5 cut(s)	32, 168, 182, 585, 693
MslI	CAYNNNNRTG	1 cut(s)	654
MspI	CCGG	2 cut(s)	243, 619
MspR9I	CCNGG	3 cut(s)	202, 244, 620
Mva1269I	GAATGC	1 cut(s)	649
MvaI	CCWGG	1 cut(s)	202
MwoI	GCNNNNNNNGC	5 cut(s)	129, 248, 338, 367, 601
NciI	CCSGG	2 cut(s)	244, 620
NdeII	GATC	2 cut(s)	37, 538
NlaIV	GGNNCC	1 cut(s)	603
NmuCI	GTSAC	2 cut(s)	140, 301
NsiI	ATGCAT	1 cut(s)	651
NspI	RCATGY	5 cut(s)	127, 229, 446, 642, 746
PaeI	GCATGC	1 cut(s)	642
PctI	GAATGC	1 cut(s)	649
PdmI	GAANNNNTTC	1 cut(s)	474
PfeI	GAWTC	1 cut(s)	404
PfoI	TCCNGGA	1 cut(s)	200
PleI	GAGTC	2 cut(s)	623, 690
PpsI	GAGTC	2 cut(s)	623, 690
PshBI	ATTAAT	2 cut(s)	182, 585
PsiI	TTATAA	1 cut(s)	74
Psp6I	CCWGG	1 cut(s)	200
PspGI	CCWGG	1 cut(s)	200
PspN4I	GGNNCC	1 cut(s)	603
PstI	CTGCAG	1 cut(s)	328
PsuI	RGATCY	1 cut(s)	538
RsaI	GTAC	1 cut(s)	52
RsaNI	GTAC	1 cut(s)	51
RseI	CAYNNNNRTG	1 cut(s)	654
SaqAI	TTAA	5 cut(s)	32, 168, 182, 585, 693
Sau3AI	GATC	2 cut(s)	37, 538
SchI	GAGTC	2 cut(s)	624, 691
ScrFI	CCNGG	3 cut(s)	202, 244, 620
SduI	GDGCHC	1 cut(s)	606
SetI	ASST	8 cut(s)	29, 103, 253, 392, 483, 574, 699, 730
SfaNI	GCATC	4 cut(s)	85, 582, 598, 636
SfcI	CTRYAG	1 cut(s)	324
SmiMI	CAYNNNNRTG	1 cut(s)	654
SmlI	CTYRAG	1 cut(s)	698
SmoI	CTYRAG	1 cut(s)	698
SphI	GCATGC	1 cut(s)	642
Sse9I	AATT	6 cut(s)	69, 158, 179, 275, 295, 718
SsiI	CCGC	4 cut(s)	372, 433, 446, 642
SspMI	CTAG	5 cut(s)	338, 509, 545, 612, 757
StyD4I	CCNGG	3 cut(s)	200, 242, 618
TaaI	ACNGT	1 cut(s)	287
TaqII	GACCGA	1 cut(s)	411
TasI	AATT	6 cut(s)	69, 158, 179, 275, 295, 718
TfiI	GAWTC	1 cut(s)	404
Tru1I	TTAA	5 cut(s)	32, 168, 182, 585, 693
Tru9I	TTAA	5 cut(s)	32, 168, 182, 585, 693
TscAI	CASTG	1 cut(s)	333
TseFI	GTSAC	2 cut(s)	140, 301
Tsp45I	GTSAC	2 cut(s)	140, 301
TspDTI	ATGAA	6 cut(s)	50, 200, 287, 355, 407, 582
TspGWI	ACGGA	2 cut(s)	247, 477
TspRI	CASTG	1 cut(s)	333
VspI	ATTAAT	2 cut(s)	182, 585
XapI	RAATTY	1 cut(s)	158
XceI	RCATGY	5 cut(s)	127, 229, 446, 642, 746
XmnI	GAANNNNTTC	1 cut(s)	474
XspI	CTAG	5 cut(s)	338, 509, 545, 612, 757
Zsp2I	ATGCAT	1 cut(s)	651

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