Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0001526

Physical Location & Seq

Genomic Coordinates Reverse (-)

1021460 .. 1029132

Gene Structure 7673 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG006500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 570 bp

ATGGCCTCACTCTTAAGCTCAACCCAACCACTTCCACCGGCGTTTAACAGAGGACCGTCTCCGGCCACCAAACCAGCAACTCTTCGGGCACAGACGAAGCCCCATGCTCAACCCACTAGTAATACCAGTGCAGATAACAATGCTAGACTGGCAGTAACACAGAGAAAAGCAGTAGAGCTTCAGAGGCTGAAAGATAAGGAGGCCAAGGACAGAAAGGAGGAGACCAACAAGAAGATAGCTTCTCGGAAAGCAATTTCGGTCGTTTTGCGGAGAGAAGCTACCGAATCCCACATCGAGAAGATGAAAGGCTCCAGGAGACTGCTTCCGAGGATTGTGCTCGAAGCCCTCCATCAGAGAATCACTGCTCTGCGGTGGGAGTCTGCTCTCAAGGTTTTTGAACTACTACAAGAGCAGCTTTGGTACCGGCCCAATCCTGGTAAGAGTCTAGAGAGGATGTTATTTCAAATTGAATTCCATGTAACGTTTATTCAGTTTCCGAGGATTGTTGGATTATATATGACAACTCATTACCAAAAGAGTCAGTTGAATAGATACGAGGTCTATCTATAA

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

189

Amino Acids

21.86

Weight (kDa)

10.42

Isoelectric Point (pI)

54.02

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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)

Image

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Publication-ready

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Orthologous Genes (Group: OG0001526)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G48730
fragaria_vesca	FvH4_5g33190
malus_domestica	MD10G1163400.v1.1
prunus_persica	Prupe.8G201700_v2.0.a1 Prupe.8G201700_v2.0.a1 Prupe.8G201700_v2.0.a1
pyrus_communis	pycom10g14080
rosa_chinensis	RchiOBHm_Chr1g0373361 RchiOBHm_Chr7g0231531
rosa_laevigata	RLG00000001413 RLG00000008268
rosa_multiflora	Rmu_sc0001565.1_g000030 Rmu_sc0003505.1_g000027 Rmu_sc0005399.1_g000019 Rmu_sc0011314.1_g000012 Rmu_sc0012399.1_g000004 Rmu_sc0013558.1_g000012 Rmu_sc0028716.1_g000001
rosa_roxburghii	Rroxscaffold_1G00016380 Rroxscaffold_1G00029710 Rroxscaffold_3G00229090
rosa_rugosa	Rorug07G0267100 Rorug07G0267100
rosa_samantha	Rh1AG365000 Rh1CG099500 Rh2AG510800 Rh2BG430100 Rh2BG476000 Rh2CG061700 Rh2CG496000 Rh2DG388600 Rh2DG440000 Rh2DG484700 Rh4BG006500 Rh4DG135300 Rh5AG195600 Rh5AG195700 Rh5CG115300 Rh6AG146300 Rh7AG421500 Rh7BG396200 Rh7CG441800 Rh7DG259000 Rh7DG414200
rosa_wichuraiana	Rw0G012110 Rw6G012720 Rw6G032340 Rw6G045030 Rw7G034780 Rw7G034910 Rw7G034940

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	420
AccB1I	GGYRCC	1 cut(s)	420
AciI	CCGC	2 cut(s)	268, 370
AclI	AACGTT	1 cut(s)	482
AcoI	YGGCCR	1 cut(s)	63
AcsI	RAATTY	1 cut(s)	470
AcuI	CTGAAG	1 cut(s)	164
AfaI	GTAC	1 cut(s)	422
AfiI	CCNNNNNNNGG	1 cut(s)	434
AflII	CTTAAG	1 cut(s)	13
AgsI	TTSAA	4 cut(s)	398, 464, 470, 547
AhlI	ACTAGT	1 cut(s)	116
AjnI	CCWGG	2 cut(s)	311, 433
AluBI	AGCT	5 cut(s)	18, 178, 239, 278, 415
AluI	AGCT	5 cut(s)	18, 178, 239, 278, 415
Alw21I	GWGCWC	1 cut(s)	339
Alw26I	GTCTC	3 cut(s)	63, 215, 310
AlwNI	CAGNNNCTG	1 cut(s)	187
AoxI	GGCC	4 cut(s)	3, 63, 201, 425
ApeKI	GCWGC	1 cut(s)	412
ApoI	RAATTY	1 cut(s)	470
Asp718I	GGTACC	1 cut(s)	420
AspS9I	GGNCC	2 cut(s)	53, 426
AvaII	GGWCC	1 cut(s)	53
BaeGI	GKGCMC	1 cut(s)	91
BanI	GGYRCC	1 cut(s)	420
Bbv12I	GWGCWC	1 cut(s)	339
BbvI	GCAGC	1 cut(s)	424
BccI	CCATC	1 cut(s)	357
BcgI	CGANNNNNNTGC	2 cut(s)	316, 350
BciT130I	CCWGG	2 cut(s)	313, 435
BcoDI	GTCTC	3 cut(s)	63, 215, 310
BcuI	ACTAGT	1 cut(s)	116
BfaI	CTAG	3 cut(s)	117, 144, 446
BfrI	CTTAAG	1 cut(s)	13
BisI	GCNGC	1 cut(s)	413
BlsI	GCNGC	1 cut(s)	414
Bme1390I	CCNGG	2 cut(s)	313, 435
Bme18I	GGWCC	1 cut(s)	53
BmgT120I	GGNCC	2 cut(s)	53, 426
BmiI	GGNNCC	2 cut(s)	310, 422
BmrFI	CCNGG	2 cut(s)	313, 435
BpmI	CTGGAG	1 cut(s)	295
BpuEI	CTTGAG	1 cut(s)	371
BsaI	GGTCTC	1 cut(s)	215
BsaJI	CCNNGG	3 cut(s)	204, 326, 497
Bsc4I	CCNNNNNNNGG	1 cut(s)	434
Bse118I	RCCGGY	2 cut(s)	37, 423
Bse1I	ACTGG	2 cut(s)	126, 153
BseBI	CCWGG	2 cut(s)	313, 435
BseDI	CCNNGG	3 cut(s)	204, 326, 497
BseGI	GGATG	1 cut(s)	459
BseLI	CCNNNNNNNGG	1 cut(s)	434
BseNI	ACTGG	2 cut(s)	126, 153
BseRI	GAGGAG	1 cut(s)	233
BseSI	GKGCMC	1 cut(s)	91
BseXI	GCAGC	1 cut(s)	424
BsgI	GTGCAG	1 cut(s)	150
Bsh1285I	CGRYCG	1 cut(s)	261
BshFI	GGCC	4 cut(s)	5, 65, 203, 427
BshNI	GGYRCC	1 cut(s)	420
BsiEI	CGRYCG	1 cut(s)	261
BsiHKAI	GWGCWC	1 cut(s)	339
BsiSI	CCGG	3 cut(s)	38, 62, 424
BslI	CCNNNNNNNGG	1 cut(s)	434
BsmAI	GTCTC	3 cut(s)	63, 215, 310
BsmBI	CGTCTC	1 cut(s)	63
BsnI	GGCC	4 cut(s)	5, 65, 203, 427
Bso31I	GGTCTC	1 cut(s)	215
Bsp1286I	GDGCHC	2 cut(s)	91, 339
BspACI	CCGC	2 cut(s)	268, 370
BspANI	GGCC	4 cut(s)	5, 65, 203, 427
BspLI	GGNNCC	2 cut(s)	310, 422
BspT107I	GGYRCC	1 cut(s)	420
BspTI	CTTAAG	1 cut(s)	13
BspTNI	GGTCTC	1 cut(s)	215
BsrFI	RCCGGY	2 cut(s)	37, 423
BsrI	ACTGG	2 cut(s)	126, 153
BssAI	RCCGGY	2 cut(s)	37, 423
BssECI	CCNNGG	3 cut(s)	204, 326, 497
BssT1I	CCWWGG	1 cut(s)	204
Bst2UI	CCWGG	2 cut(s)	313, 435
Bst4CI	ACNGT	1 cut(s)	57
Bst6I	CTCTTC	1 cut(s)	87
BstAFI	CTTAAG	1 cut(s)	13
BstF5I	GGATG	1 cut(s)	459
BstMAI	GTCTC	3 cut(s)	63, 215, 310
BstMCI	CGRYCG	1 cut(s)	261
BstMWI	GCNNNNNNNGC	2 cut(s)	149, 184
BstNI	CCWGG	2 cut(s)	313, 435
BstSCI	CCNGG	2 cut(s)	311, 433
BstSLI	GKGCMC	1 cut(s)	91
BstV1I	GCAGC	1 cut(s)	424
BsuRI	GGCC	4 cut(s)	5, 65, 203, 427
BtsCI	GGATG	1 cut(s)	459
BtsI	GCAGTG	1 cut(s)	360
BtsIMutI	CAGTG	2 cut(s)	133, 360
CaiI	CAGNNNCTG	1 cut(s)	187
Cfr10I	RCCGGY	2 cut(s)	37, 423
Cfr13I	GGNCC	2 cut(s)	53, 426
Csp6I	GTAC	1 cut(s)	421
CviAII	CATG	2 cut(s)	104, 476
CviQI	GTAC	1 cut(s)	421
EaeI	YGGCCR	1 cut(s)	63
Eam1104I	CTCTTC	1 cut(s)	87
EarI	CTCTTC	1 cut(s)	87
Eco130I	CCWWGG	1 cut(s)	204
Eco31I	GGTCTC	1 cut(s)	215
Eco47I	GGWCC	1 cut(s)	53
Eco57I	CTGAAG	1 cut(s)	164
EcoRI	GAATTC	1 cut(s)	470
EcoRII	CCWGG	2 cut(s)	311, 433
EcoT14I	CCWWGG	1 cut(s)	204
ErhI	CCWWGG	1 cut(s)	204
Esp3I	CGTCTC	1 cut(s)	63
FaeI	CATG	2 cut(s)	107, 479
FaiI	YATR	6 cut(s)	105, 477, 514, 516, 518, 568
FalI	AAGNNNNNCTT	2 cut(s)	399, 431
FatI	CATG	2 cut(s)	103, 475
Fnu4HI	GCNGC	1 cut(s)	413
FokI	GGATG	1 cut(s)	466
Fsp4HI	GCNGC	1 cut(s)	413
FspBI	CTAG	3 cut(s)	117, 144, 446
GluI	GCNGC	1 cut(s)	413
GsuI	CTGGAG	1 cut(s)	295
HaeIII	GGCC	4 cut(s)	5, 65, 203, 427
HapII	CCGG	3 cut(s)	38, 62, 424
Hin1II	CATG	2 cut(s)	107, 479
HinfI	GANTC	5 cut(s)	284, 357, 377, 442, 538
HpaII	CCGG	3 cut(s)	38, 62, 424
Hpy188I	TCNGA	5 cut(s)	183, 246, 327, 354, 498
Hpy188III	TCNNGA	2 cut(s)	295, 446
HpyCH4III	ACNGT	1 cut(s)	57
HpyCH4IV	ACGT	1 cut(s)	482
HpyCH4V	TGCA	1 cut(s)	131
HpyF10VI	GCNNNNNNNGC	2 cut(s)	149, 184
HpySE526I	ACGT	1 cut(s)	482
Hsp92II	CATG	2 cut(s)	107, 479
KpnI	GGTACC	1 cut(s)	424
LmnI	GCTCC	1 cut(s)	314
Lsp1109I	GCAGC	1 cut(s)	424
MaeI	CTAG	3 cut(s)	117, 144, 446
MaeII	ACGT	1 cut(s)	482
MaeIII	GTNAC	2 cut(s)	154, 478
MboII	GAAGA	3 cut(s)	74, 244, 310
MhlI	GDGCHC	2 cut(s)	91, 339
MluCI	AATT	3 cut(s)	252, 465, 470
MlyI	GAGTC	3 cut(s)	386, 451, 547
MmeI	TCCRAC	1 cut(s)	487
MseI	TTAA	2 cut(s)	14, 45
MspCI	CTTAAG	1 cut(s)	13
MspI	CCGG	3 cut(s)	38, 62, 424
MspR9I	CCNGG	2 cut(s)	313, 435
MvaI	CCWGG	2 cut(s)	313, 435
MwoI	GCNNNNNNNGC	2 cut(s)	149, 184
NlaIII	CATG	2 cut(s)	107, 479
NlaIV	GGNNCC	2 cut(s)	310, 422
PfeI	GAWTC	2 cut(s)	284, 357
PfoI	TCCNGGA	1 cut(s)	311
PkrI	GCNGC	1 cut(s)	414
PleI	GAGTC	3 cut(s)	385, 450, 546
PpsI	GAGTC	3 cut(s)	385, 450, 546
Psp1406I	AACGTT	1 cut(s)	482
Psp6I	CCWGG	2 cut(s)	311, 433
PspGI	CCWGG	2 cut(s)	311, 433
PspN4I	GGNNCC	2 cut(s)	310, 422
PspPI	GGNCC	2 cut(s)	53, 426
PstNI	CAGNNNCTG	1 cut(s)	187
RsaI	GTAC	1 cut(s)	422
RsaNI	GTAC	1 cut(s)	421
SaqAI	TTAA	2 cut(s)	14, 45
SatI	GCNGC	1 cut(s)	413
Sau96I	GGNCC	2 cut(s)	53, 426
SchI	GAGTC	3 cut(s)	386, 451, 547
ScrFI	CCNGG	2 cut(s)	313, 435
SduI	GDGCHC	2 cut(s)	91, 339
SetI	ASST	8 cut(s)	20, 180, 241, 280, 393, 417, 485, 561
SgrAI	CRCCGGYG	1 cut(s)	37
SinI	GGWCC	1 cut(s)	53
SmlI	CTYRAG	2 cut(s)	13, 386
SmoI	CTYRAG	2 cut(s)	13, 386
SpeI	ACTAGT	1 cut(s)	116
Sse9I	AATT	3 cut(s)	252, 465, 470
SsiI	CCGC	2 cut(s)	268, 370
SspMI	CTAG	3 cut(s)	117, 144, 446
StyD4I	CCNGG	2 cut(s)	311, 433
StyI	CCWWGG	1 cut(s)	204
TaaI	ACNGT	1 cut(s)	57
TaiI	ACGT	1 cut(s)	485
TaqI	TCGA	2 cut(s)	294, 339
TaqII	GACCGA	1 cut(s)	247
TasI	AATT	3 cut(s)	252, 465, 470
TfiI	GAWTC	2 cut(s)	284, 357
Tru1I	TTAA	2 cut(s)	14, 45
Tru9I	TTAA	2 cut(s)	14, 45
TscAI	CASTG	2 cut(s)	133, 367
TseI	GCWGC	1 cut(s)	412
TspDTI	ATGAA	1 cut(s)	317
TspRI	CASTG	2 cut(s)	133, 367
Vha464I	CTTAAG	1 cut(s)	13
VpaK11BI	GGWCC	1 cut(s)	53
XapI	RAATTY	1 cut(s)	470
XbaI	TCTAGA	1 cut(s)	445
XspI	CTAG	3 cut(s)	117, 144, 446

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