Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0001513

Physical Location & Seq

Genomic Coordinates Forward (+)

49088832 .. 49090961

Gene Structure 2130 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00118030.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 624 bp

ATGAAGGAAGCTGGTATTGACCCGGATTTGGTTTCTTACAATACAGTGATAAACCATGTGAGGAAGTTTGGGGAAGTTGATATGTGCTTGTTGTATTTCAAGGAAATGTGTGAAAAGGGTGTTCGGCTTGATTTGCTTACTTACACCGCGGTCATTGATGGGTTGGGGAGGTCGGGAGACATTGAGGAGTCGTTGAAGTTGTTTGGTGAGATGAAGGAGAGGCGGATTCGGCCTTCGTTGTATCTTTATAGAGCAGTGATTAGTAATTTGAAGAAGATGGGGAAGGTGGAGATGGCGGCGAGTTTTATGGAGGAGATGAATTCGTGTGCTTCAAGTCTTCGTGCTAGTCGTAAATCGAATAAATGCGAGTTTGATGATTTGGCATCAAAGCATGCTTACAACCCGGATGAGAAGTATGCAGAGCTTTTGGAGAAGCTGATCAATGGTATGAGATGGTGGACGATCGTGGATCGTATTTTGGGCTCCGTGAAGACGCAGCGGGATTGGAGGTTAGAAGAATCGAGCGGTGATCGTGCGGCTCGGAATTCTGTTGGATTGAAGAAGTTGATAATTCGTTTTGTGGTTGTTTGGAGAAAAGAAAAAGGAAGGATTCTGATCGTGTAA

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: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

PPR PPR_2 PPR_3

Protein Analysis

207

Amino Acids

23.88

Weight (kDa)

9.2

Isoelectric Point (pI)

27.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	8 - 56	2.8e-11	PPR repeat family
PPR_3	PF13812	33 - 88	6.4e-10	Pentatricopeptide repeat domain
PPR_1	PF12854	39 - 72	1.5e-07	PPR repeat
PPR_2	PF13041	45 - 90	3.2e-09	PPR repeat family
PPR	PF01535	47 - 76	8.6e-09	PPR repeat

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)

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Publication-ready

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Orthologous Genes (Group: OG0001513)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G11900
fragaria_vesca	FvH4_6g24020 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44590 FvH4_6g44670 FvH4_6g44670 FvH4_6g44670
malus_domestica	MD14G1065400.v1.1 MD17G1084400.v1.1
prunus_persica	Prupe.3G231200_v2.0.a1
pyrus_communis	pycom17g08150
rosa_chinensis	RchiOBHm_Chr1g0342741 RchiOBHm_Chr1g0342831 RchiOBHm_Chr2g0161831
rosa_laevigata	RLG00000021301 RLG00000029118 RLG00000029172 RLG00000029191
rosa_multiflora	Rmu_co8023038.1_g000001 Rmu_sc0001993.1_g000024 Rmu_sc0004502.1_g000002 Rmu_sc0011563.1_g000011
rosa_roxburghii	Rroxscaffold_2G00088520 Rroxscaffold_2G00088540 Rroxscaffold_2G00118030 Rroxscaffold_3G00231880 Rroxscaffold_4G00313190 Rroxscaffold_4G00313220 Rroxscaffold_7G00197130
rosa_rugosa	Rorug01G0146200.1 Rorug02G0492600
rosa_samantha	Rh1AG162400 Rh1AG162900 Rh1AG163800 Rh1AG164600 Rh1BG129700 Rh1CG152900 Rh1CG153400 Rh2AG558200 Rh2AG558300 Rh2CG541900 Rh2CG542300 Rh2DG581000 Rh2DG581900 Rh3CG249700
rosa_wichuraiana	Rw1G013300 Rw1G013340 Rw1G013680

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	525
AccII	CGCG	1 cut(s)	149
AciI	CCGC	7 cut(s)	147, 149, 223, 296, 499, 525, 536
AclWI	GGATC	1 cut(s)	477
AcsI	RAATTY	2 cut(s)	319, 544
AfiI	CCNNNNNNNGG	1 cut(s)	28
AgsI	TTSAA	5 cut(s)	100, 196, 271, 333, 559
AluBI	AGCT	3 cut(s)	11, 424, 436
AluI	AGCT	3 cut(s)	11, 424, 436
Alw26I	GTCTC	1 cut(s)	171
AlwI	GGATC	1 cut(s)	477
AoxI	GGCC	1 cut(s)	230
ApeKI	GCWGC	1 cut(s)	496
ApoI	RAATTY	2 cut(s)	319, 544
AsuC2I	CCSGG	2 cut(s)	23, 404
AsuHPI	GGTGA	2 cut(s)	218, 539
BanII	GRGCYC	1 cut(s)	485
BbsI	GAAGAC	2 cut(s)	329, 497
BbvI	GCAGC	1 cut(s)	508
BccI	CCATC	4 cut(s)	152, 271, 286, 447
BclI	TGATCA	1 cut(s)	438
BcnI	CCSGG	2 cut(s)	23, 404
BcoDI	GTCTC	1 cut(s)	171
BfaI	CTAG	1 cut(s)	345
BisI	GCNGC	3 cut(s)	297, 497, 537
BlsI	GCNGC	3 cut(s)	298, 498, 538
Bme1390I	CCNGG	2 cut(s)	23, 404
BmiI	GGNNCC	1 cut(s)	484
BmrFI	CCNGG	2 cut(s)	23, 404
BmsI	GCATC	1 cut(s)	392
BpiI	GAAGAC	2 cut(s)	329, 497
BpuMI	CCSGG	2 cut(s)	23, 404
BsaBI	GATNNNNATC	1 cut(s)	614
BsaJI	CCNNGG	1 cut(s)	147
Bsc4I	CCNNNNNNNGG	1 cut(s)	28
Bse8I	GATNNNNATC	1 cut(s)	614
BseDI	CCNNGG	1 cut(s)	147
BseGI	GGATG	1 cut(s)	412
BseJI	GATNNNNATC	1 cut(s)	614
BseLI	CCNNNNNNNGG	1 cut(s)	28
BseRI	GAGGAG	2 cut(s)	200, 326
BseXI	GCAGC	1 cut(s)	508
Bsh1236I	CGCG	1 cut(s)	149
Bsh1285I	CGRYCG	1 cut(s)	465
BshFI	GGCC	1 cut(s)	232
BsiEI	CGRYCG	1 cut(s)	465
BsiSI	CCGG	2 cut(s)	23, 404
BslI	CCNNNNNNNGG	1 cut(s)	28
BsmAI	GTCTC	1 cut(s)	171
BsnI	GGCC	1 cut(s)	232
Bsp1286I	GDGCHC	1 cut(s)	485
Bsp143I	GATC	5 cut(s)	438, 462, 469, 529, 615
BspACI	CCGC	7 cut(s)	147, 149, 223, 296, 499, 525, 536
BspANI	GGCC	1 cut(s)	232
BspFNI	CGCG	1 cut(s)	149
BspLI	GGNNCC	1 cut(s)	484
BspPI	GGATC	1 cut(s)	477
BsrBI	CCGCTC	1 cut(s)	525
BssECI	CCNNGG	1 cut(s)	147
BssMI	GATC	5 cut(s)	438, 462, 469, 529, 615
Bst4CI	ACNGT	1 cut(s)	46
BstC8I	GCNNGC	1 cut(s)	393
BstDSI	CCRYGG	1 cut(s)	147
BstF5I	GGATG	1 cut(s)	412
BstFNI	CGCG	1 cut(s)	149
BstKTI	GATC	5 cut(s)	441, 465, 472, 532, 618
BstMAI	GTCTC	1 cut(s)	171
BstMBI	GATC	5 cut(s)	438, 462, 469, 529, 615
BstMCI	CGRYCG	1 cut(s)	465
BstMWI	GCNNNNNNNGC	2 cut(s)	133, 229
BstNSI	RCATGY	1 cut(s)	395
BstSCI	CCNGG	2 cut(s)	21, 402
BstUI	CGCG	1 cut(s)	149
BstV1I	GCAGC	1 cut(s)	508
BstV2I	GAAGAC	2 cut(s)	329, 497
BsuRI	GGCC	1 cut(s)	232
BtgI	CCRYGG	1 cut(s)	147
BtsCI	GGATG	1 cut(s)	412
BtsI	GCAGTG	1 cut(s)	261
BtsIMutI	CAGTG	2 cut(s)	51, 261
Cac8I	GCNNGC	1 cut(s)	393
Cfr42I	CCGCGG	1 cut(s)	150
CseI	GACGC	1 cut(s)	502
CviAII	CATG	2 cut(s)	56, 392
CviJI	RGCY	7 cut(s)	11, 127, 232, 424, 436, 483, 539
CviKI_1	RGCY	7 cut(s)	11, 127, 232, 424, 436, 483, 539
DpnI	GATC	5 cut(s)	440, 464, 471, 531, 617
DpnII	GATC	5 cut(s)	438, 462, 469, 529, 615
EciI	GGCGGA	1 cut(s)	238
Eco24I	GRGCYC	1 cut(s)	485
EcoRI	GAATTC	2 cut(s)	319, 544
EcoT38I	GRGCYC	1 cut(s)	485
FaeI	CATG	2 cut(s)	59, 395
FaiI	YATR	7 cut(s)	57, 83, 249, 308, 393, 417, 449
FatI	CATG	2 cut(s)	55, 391
FauI	CCCGC	1 cut(s)	492
FbaI	TGATCA	1 cut(s)	438
Fnu4HI	GCNGC	3 cut(s)	297, 497, 537
FokI	GGATG	1 cut(s)	419
FriOI	GRGCYC	1 cut(s)	485
Fsp4HI	GCNGC	3 cut(s)	297, 497, 537
FspBI	CTAG	1 cut(s)	345
GluI	GCNGC	3 cut(s)	297, 497, 537
HaeIII	GGCC	1 cut(s)	232
HapII	CCGG	2 cut(s)	23, 404
HgaI	GACGC	1 cut(s)	502
Hin1II	CATG	2 cut(s)	59, 395
HinfI	GANTC	4 cut(s)	188, 226, 518, 610
HpaII	CCGG	2 cut(s)	23, 404
HphI	GGTGA	2 cut(s)	218, 539
Hpy166II	GTNNAC	1 cut(s)	459
Hpy188I	TCNGA	2 cut(s)	543, 615
Hpy188III	TCNNGA	1 cut(s)	174
Hpy8I	GTNNAC	1 cut(s)	459
HpyAV	CCTTC	4 cut(s)	208, 243, 277, 600
HpyCH4III	ACNGT	1 cut(s)	46
HpyCH4V	TGCA	1 cut(s)	419
HpyF10VI	GCNNNNNNNGC	2 cut(s)	133, 229
Hsp92II	CATG	2 cut(s)	59, 395
Ksp22I	TGATCA	1 cut(s)	438
KspI	CCGCGG	1 cut(s)	150
Kzo9I	GATC	5 cut(s)	438, 462, 469, 529, 615
LmnI	GCTCC	1 cut(s)	488
LpnPI	CCDG	2 cut(s)	36, 417
Lsp1109I	GCAGC	1 cut(s)	508
LweI	GCATC	1 cut(s)	392
MaeI	CTAG	1 cut(s)	345
MalI	GATC	5 cut(s)	440, 464, 471, 531, 617
MbiI	CCGCTC	1 cut(s)	525
MboI	GATC	5 cut(s)	438, 462, 469, 529, 615
MboII	GAAGA	6 cut(s)	283, 286, 329, 502, 527, 571
MhlI	GDGCHC	1 cut(s)	485
MluCI	AATT	4 cut(s)	265, 319, 544, 570
MlyI	GAGTC	1 cut(s)	197
MmeI	TCCRAC	1 cut(s)	532
MnlI	CCTC	6 cut(s)	54, 162, 178, 213, 304, 501
MspA1I	CMGCKG	2 cut(s)	149, 499
MspI	CCGG	2 cut(s)	23, 404
MspR9I	CCNGG	2 cut(s)	23, 404
MvnI	CGCG	1 cut(s)	149
MwoI	GCNNNNNNNGC	2 cut(s)	133, 229
NciI	CCSGG	2 cut(s)	23, 404
NdeII	GATC	5 cut(s)	438, 462, 469, 529, 615
NlaIII	CATG	2 cut(s)	59, 395
NlaIV	GGNNCC	1 cut(s)	484
NspI	RCATGY	1 cut(s)	395
PaeI	GCATGC	1 cut(s)	395
PcsI	WCGNNNNNNNCGW	1 cut(s)	346
PfeI	GAWTC	3 cut(s)	226, 518, 610
PkrI	GCNGC	3 cut(s)	298, 498, 538
Ple19I	CGATCG	1 cut(s)	465
PleI	GAGTC	1 cut(s)	196
PpsI	GAGTC	1 cut(s)	196
PspN4I	GGNNCC	1 cut(s)	484
PvuI	CGATCG	1 cut(s)	465
SacII	CCGCGG	1 cut(s)	150
SatI	GCNGC	3 cut(s)	297, 497, 537
Sau3AI	GATC	5 cut(s)	438, 462, 469, 529, 615
SchI	GAGTC	1 cut(s)	197
ScrFI	CCNGG	2 cut(s)	23, 404
SduI	GDGCHC	1 cut(s)	485
SetI	ASST	6 cut(s)	13, 173, 288, 426, 438, 512
SfaNI	GCATC	1 cut(s)	392
Sfr303I	CCGCGG	1 cut(s)	150
SgrBI	CCGCGG	1 cut(s)	150
SphI	GCATGC	1 cut(s)	395
Sse9I	AATT	4 cut(s)	265, 319, 544, 570
SsiI	CCGC	7 cut(s)	147, 149, 223, 296, 499, 525, 536
SspMI	CTAG	1 cut(s)	345
StyD4I	CCNGG	2 cut(s)	21, 402
TaaI	ACNGT	1 cut(s)	46
TaqI	TCGA	2 cut(s)	356, 521
TasI	AATT	4 cut(s)	265, 319, 544, 570
TauI	GCSGC	2 cut(s)	299, 539
TfiI	GAWTC	3 cut(s)	226, 518, 610
TscAI	CASTG	2 cut(s)	51, 261
TseI	GCWGC	1 cut(s)	496
TspDTI	ATGAA	3 cut(s)	17, 227, 332
TspGWI	ACGGA	1 cut(s)	475
TspRI	CASTG	2 cut(s)	51, 261
XapI	RAATTY	2 cut(s)	319, 544
XceI	RCATGY	1 cut(s)	395
XspI	CTAG	1 cut(s)	345

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