Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0003199

Physical Location & Seq

Genomic Coordinates Forward (+)

15729895 .. 15730521

Gene Structure 627 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG107400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 627 bp

ATGTATTCACGATGTGGTGCGATAGAGGAGGCGCAACCAATTTTTGATGAGATGAAATGGGAGAAAAATGTCATCTCGTGGAATGCAATGATCGGATGCTACGCATCTCATGGTTTTTCTGCAGAGGCTTTAGAGCTTTTCGCTTTGATGAAGAGGTTTAAGGTGCCACCTACTTATATAACATTTATTGCACTGTTGAATGCGTGTGCTCATGCAGGATTAGCTGAAGAAGGGCGGAGGCAATTTAATTCCATGATTAGTGACTTTGGTATTGAGCCACGAATTGAACAGTATGCATCCCTTGTGGACATAATTGGTTGGCATGGACAGCTTGAGGAGGCTATGGATTTGATCAATAGCATGTCATTTGAATTTGAAGCAGATAAGCCTGTGTGGGGAGCATTGTTAGGTGCCTGTAGAGTGCATAACAATGCAGAGTTGGCAAAAGTTGCAGCTGAAGCATTAATGAGACTTGAATCCGAATGCTCAGCTCCATATGTATTGTTATACAATATGTATGCTGATGCTGGGCAATGTGATGAAGCAGCAGCTGTGAGACTGCTGATGGATAATAACAAGATAATTAAGCAAAAAGGCTATAGTCAGGTAGATTTTTCCCAGTGCTGA

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: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: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

Protein Analysis

208

Amino Acids

23.29

Weight (kDa)

4.8

Isoelectric Point (pI)

46.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_3	PF13812	21 - 69	2.7e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	22 - 71	1.7e-10	PPR repeat family
PPR	PF01535	25 - 54	1.9e-07	PPR repeat
E_motif	PF20431	142 - 203	5.5e-11	E motif

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)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0003199)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G62260
fragaria_vesca	FvH4_2g07250
malus_domestica	MD10G1129300.v1.1
prunus_persica	Prupe.8G170100_v2.0.a1 Prupe.8G170100_v2.0.a1
pyrus_communis	pycom06g17110 pycom10g11090
rosa_chinensis	RchiOBHm_Chr6g0259851 RchiOBHm_Chr6g0279101
rosa_laevigata	RLG00000013168 RLG00000014504
rosa_multiflora	Rmu_co8522155.1_g000002 Rmu_sc0002080.1_g000004 Rmu_sc0009049.1_g000004 Rmu_sc0037609.1_g000001 Rmu_sc0037609.1_g000002 Rmu_sc0037609.1_g000003
rosa_roxburghii	Rroxscaffold_7G00189130 Rroxscaffold_7G00207040 Rroxscaffold_7G00207050 Rroxscaffold_7G00207060 Rroxscaffold_7G00207180 Rroxscaffold_7G00207190 Rroxscaffold_7G00207200
rosa_rugosa	Rorug05G0590700 Rorug05G0590800 Rorug06G0122200
rosa_samantha	Rh6AG107400 Rh6AG230900 Rh6BG102900 Rh6BG235800 Rh6DG090200 Rh6DG229500
rosa_wichuraiana	Rw0G019930 Rw0G021150 Rw6G009260 Rw6G020220

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	163, 410
AciI	CCGC	1 cut(s)	235
AcsI	RAATTY	1 cut(s)	371
AcuI	CTGAAG	2 cut(s)	246, 477
AdeI	CACNNNGTG	1 cut(s)	14
AfiI	CCNNNNNNNGG	1 cut(s)	395
AgsI	TTSAA	5 cut(s)	199, 287, 371, 377, 476
AluBI	AGCT	6 cut(s)	136, 224, 331, 455, 491, 551
AluI	AGCT	6 cut(s)	136, 224, 331, 455, 491, 551
Alw21I	GWGCWC	1 cut(s)	211
Alw26I	GTCTC	2 cut(s)	463, 550
AlwNI	CAGNNNCTG	1 cut(s)	551
ApeKI	GCWGC	3 cut(s)	452, 545, 548
ApoI	RAATTY	1 cut(s)	371
AseI	ATTAAT	1 cut(s)	464
AspLEI	GCGC	1 cut(s)	34
BanI	GGYRCC	2 cut(s)	163, 410
BauI	CACGAG	1 cut(s)	76
Bbv12I	GWGCWC	1 cut(s)	211
BbvI	GCAGC	3 cut(s)	464, 557, 560
BccI	CCATC	1 cut(s)	559
BclI	TGATCA	1 cut(s)	351
BcoDI	GTCTC	2 cut(s)	463, 550
BfmI	CTRYAG	3 cut(s)	120, 415, 598
BisI	GCNGC	3 cut(s)	453, 546, 549
BlpI	GCTNAGC	1 cut(s)	487
BlsI	GCNGC	3 cut(s)	454, 547, 550
BmiI	GGNNCC	2 cut(s)	165, 412
BmrI	ACTGGG	1 cut(s)	613
BmsI	GCATC	4 cut(s)	86, 113, 305, 514
BmuI	ACTGGG	1 cut(s)	613
Bpu1102I	GCTNAGC	1 cut(s)	487
BpuEI	CTTGAG	1 cut(s)	353
Bsc4I	CCNNNNNNNGG	1 cut(s)	395
Bse1I	ACTGG	1 cut(s)	619
Bse3DI	GCAATG	2 cut(s)	93, 539
BseGI	GGATG	2 cut(s)	101, 296
BseLI	CCNNNNNNNGG	1 cut(s)	395
BseMI	GCAATG	2 cut(s)	93, 539
BseMII	CTCAG	1 cut(s)	501
BseNI	ACTGG	1 cut(s)	619
BseRI	GAGGAG	2 cut(s)	41, 350
BseXI	GCAGC	3 cut(s)	464, 557, 560
BseYI	CCCAGC	1 cut(s)	527
BshNI	GGYRCC	2 cut(s)	163, 410
BsiHKAI	GWGCWC	1 cut(s)	211
BslI	CCNNNNNNNGG	1 cut(s)	395
BsmAI	GTCTC	2 cut(s)	463, 550
BsmI	GAATGC	3 cut(s)	88, 205, 488
Bsp1286I	GDGCHC	1 cut(s)	211
Bsp143I	GATC	2 cut(s)	90, 351
Bsp1720I	GCTNAGC	1 cut(s)	487
BspACI	CCGC	1 cut(s)	235
BspCNI	CTCAG	1 cut(s)	500
BspLI	GGNNCC	2 cut(s)	165, 412
BspMAI	CTGCAG	1 cut(s)	124
BspT107I	GGYRCC	2 cut(s)	163, 410
BsrDI	GCAATG	2 cut(s)	93, 539
BsrI	ACTGG	1 cut(s)	619
BssMI	GATC	2 cut(s)	90, 351
BssSI	CACGAG	1 cut(s)	76
Bst2BI	CACGAG	1 cut(s)	76
Bst4CI	ACNGT	2 cut(s)	195, 291
Bst6I	CTCTTC	1 cut(s)	146
BstAPI	GCANNNNNTGC	1 cut(s)	449
BstDEI	CTNAG	1 cut(s)	487
BstF5I	GGATG	2 cut(s)	101, 296
BstHHI	GCGC	1 cut(s)	34
BstKTI	GATC	2 cut(s)	93, 354
BstMAI	GTCTC	2 cut(s)	463, 550
BstMBI	GATC	2 cut(s)	90, 351
BstMWI	GCNNNNNNNGC	5 cut(s)	221, 328, 440, 449, 458
BstNSI	RCATGY	1 cut(s)	364
BstSFI	CTRYAG	3 cut(s)	120, 415, 598
BstV1I	GCAGC	3 cut(s)	464, 557, 560
BtsCI	GGATG	2 cut(s)	101, 296
BtsIMutI	CAGTG	2 cut(s)	191, 626
CaiI	CAGNNNCTG	1 cut(s)	551
CfoI	GCGC	1 cut(s)	34
CviAII	CATG	5 cut(s)	110, 212, 253, 323, 361
DdeI	CTNAG	1 cut(s)	487
DpnI	GATC	2 cut(s)	92, 353
DpnII	GATC	2 cut(s)	90, 351
DraIII	CACNNNGTG	1 cut(s)	14
Eam1104I	CTCTTC	1 cut(s)	146
EarI	CTCTTC	1 cut(s)	146
EciI	GGCGGA	1 cut(s)	250
Eco57I	CTGAAG	2 cut(s)	246, 477
EcoT22I	ATGCAT	1 cut(s)	298
FaeI	CATG	5 cut(s)	113, 215, 256, 326, 364
FatI	CATG	5 cut(s)	109, 211, 252, 322, 360
FauNDI	CATATG	1 cut(s)	496
FbaI	TGATCA	1 cut(s)	351
Fnu4HI	GCNGC	3 cut(s)	453, 546, 549
FokI	GGATG	2 cut(s)	108, 283
Fsp4HI	GCNGC	3 cut(s)	453, 546, 549
GlaI	GCGC	1 cut(s)	33
GluI	GCNGC	3 cut(s)	453, 546, 549
GsaI	CCCAGC	1 cut(s)	531
HhaI	GCGC	1 cut(s)	34
Hin1II	CATG	5 cut(s)	113, 215, 256, 326, 364
Hin6I	GCGC	1 cut(s)	32
HinP1I	GCGC	1 cut(s)	32
HinfI	GANTC	1 cut(s)	476
Hpy166II	GTNNAC	1 cut(s)	307
Hpy188I	TCNGA	2 cut(s)	95, 481
Hpy188III	TCNNGA	1 cut(s)	9
Hpy8I	GTNNAC	1 cut(s)	307
HpyAV	CCTTC	1 cut(s)	224
HpyCH4III	ACNGT	2 cut(s)	195, 291
HpyCH4V	TGCA	8 cut(s)	86, 122, 191, 215, 296, 424, 434, 452
HpyF10VI	GCNNNNNNNGC	5 cut(s)	221, 328, 440, 449, 458
HpyF3I	CTNAG	1 cut(s)	487
Hsp92II	CATG	5 cut(s)	113, 215, 256, 326, 364
HspAI	GCGC	1 cut(s)	32
Ksp22I	TGATCA	1 cut(s)	351
Kzo9I	GATC	2 cut(s)	90, 351
LmnI	GCTCC	2 cut(s)	398, 496
LpnPI	CCDG	5 cut(s)	201, 402, 427, 513, 590
Lsp1109I	GCAGC	3 cut(s)	464, 557, 560
LweI	GCATC	4 cut(s)	86, 113, 305, 514
MaeIII	GTNAC	1 cut(s)	260
MalI	GATC	2 cut(s)	92, 353
MboI	GATC	2 cut(s)	90, 351
MboII	GAAGA	2 cut(s)	163, 239
MhlI	GDGCHC	1 cut(s)	211
MluCI	AATT	7 cut(s)	39, 242, 247, 282, 312, 371, 582
MnlI	CCTC	7 cut(s)	19, 22, 118, 147, 231, 328, 331
Mph1103I	ATGCAT	1 cut(s)	298
MseI	TTAA	4 cut(s)	159, 246, 464, 585
MslI	CAYNNNNRTG	1 cut(s)	429
MspA1I	CMGCKG	2 cut(s)	455, 551
Mva1269I	GAATGC	3 cut(s)	88, 205, 488
MwoI	GCNNNNNNNGC	5 cut(s)	221, 328, 440, 449, 458
NdeI	CATATG	1 cut(s)	496
NdeII	GATC	2 cut(s)	90, 351
NlaIII	CATG	5 cut(s)	113, 215, 256, 326, 364
NlaIV	GGNNCC	2 cut(s)	165, 412
NmuCI	GTSAC	1 cut(s)	260
NsiI	ATGCAT	1 cut(s)	298
NspI	RCATGY	1 cut(s)	364
PctI	GAATGC	3 cut(s)	88, 205, 488
PfeI	GAWTC	1 cut(s)	476
PkrI	GCNGC	3 cut(s)	454, 547, 550
PshBI	ATTAAT	1 cut(s)	464
PspFI	CCCAGC	1 cut(s)	527
PspN4I	GGNNCC	2 cut(s)	165, 412
PstI	CTGCAG	1 cut(s)	124
PstNI	CAGNNNCTG	1 cut(s)	551
PvuII	CAGCTG	2 cut(s)	455, 551
RseI	CAYNNNNRTG	1 cut(s)	429
SaqAI	TTAA	4 cut(s)	159, 246, 464, 585
SatI	GCNGC	3 cut(s)	453, 546, 549
Sau3AI	GATC	2 cut(s)	90, 351
SduI	GDGCHC	1 cut(s)	211
SfaNI	GCATC	4 cut(s)	86, 113, 305, 514
SfcI	CTRYAG	3 cut(s)	120, 415, 598
SmiMI	CAYNNNNRTG	1 cut(s)	429
SmlI	CTYRAG	1 cut(s)	332
SmoI	CTYRAG	1 cut(s)	332
Sse9I	AATT	7 cut(s)	39, 242, 247, 282, 312, 371, 582
SsiI	CCGC	1 cut(s)	235
TaaI	ACNGT	2 cut(s)	195, 291
TasI	AATT	7 cut(s)	39, 242, 247, 282, 312, 371, 582
TfiI	GAWTC	1 cut(s)	476
Tru1I	TTAA	4 cut(s)	159, 246, 464, 585
Tru9I	TTAA	4 cut(s)	159, 246, 464, 585
TscAI	CASTG	2 cut(s)	198, 626
TseFI	GTSAC	1 cut(s)	260
TseI	GCWGC	3 cut(s)	452, 545, 548
Tsp45I	GTSAC	1 cut(s)	260
TspDTI	ATGAA	3 cut(s)	68, 164, 555
TspRI	CASTG	2 cut(s)	198, 626
VspI	ATTAAT	1 cut(s)	464
XapI	RAATTY	1 cut(s)	371
XceI	RCATGY	1 cut(s)	364
Zsp2I	ATGCAT	1 cut(s)	298

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