Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0010406

Physical Location & Seq

Genomic Coordinates Reverse (-)

44533063 .. 44536235

Gene Structure 3173 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG254700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 657 bp

ATGGAGGGCTTGAAGGTTTCCGATACCAATATGAAAGTGTTTCTGCACCCATCGAAGGGCGGCGACATCGACGGTGCAATTCATCACCAGCTGAGCTCCATGATTTTCAAGTTTGATGATAATTTGGATGGTGTCTTAGTTGCTTATAAGTTTGACGTTTCATCCAAGGATGCAAAGATTCTGAATGGTGTTCATCCTTATTTTACTGTGAGCATAAGAGCGACTTTGTTACTTTTCTCTCCAAAGCCAAATATGCTTGTAGAAGGCAAGGTGGTGAAAGTCACCCGAGGATCCATATCTGTCATTGTTCTTGGCTTTTCATGTGCCTTCATAAAAGATGAAGATATTCGCGAAGAGTTTAAGTATAAATATAAACGTGGCAAGCAAGTATATATTAGCAGATATCAGAAGCGGCATGTGATAAAAGTTGGAACCATGATACGACTTTCAGTCAACAGTTTGGATGTGGAGACACTGCACATATATGGTTCTTTGCGTCCAGCTCACACTGGGAGCATTCGCTTTTTAGATAAAAATGTGGAAGATGATGGACTTACAGACAGGTTTTTACTAATCTTGGAATTCTATAAGTTGAAAGAGTTCATTCTTTGTTTTTTTTTTTCTTTGATCAATAAGTTTAAACTTACTTTTCATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003824 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005736 GO:0006139 GO:0006351 GO:0006360 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044452 GO:0044464 GO:0046483 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097659 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 map00230 map00240 map01100 map03020

Pfam Domains

Protein Families

S1 SHS2_Rpb7-N

Protein Analysis

218

Amino Acids

25.01

Weight (kDa)

9.36

Isoelectric Point (pI)

21.21

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

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: OG0010406)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G75670 AT1G75670 AT1G75670
fragaria_vesca	FvH4_2g17590
malus_domestica	MD05G1155200.v1.1 MD10G1149500.v1.1
prunus_persica	Prupe.8G188100_v2.0.a1 Prupe.8G188100_v2.0.a1 Prupe.8G188100_v2.0.a1
pyrus_communis	pycom05g14860
rosa_chinensis	RchiOBHm_Chr6g0282531
rosa_laevigata	RLG00000012887
rosa_multiflora	Rmu_sc0000283.1_g000008 Rmu_sc0005697.1_g000028
rosa_roxburghii	Rroxscaffold_7G00186290
rosa_rugosa	Rorug06G0147300
rosa_samantha	Rh6AG260500 Rh6BG263600 Rh6CG262800 Rh6DG254700
rosa_wichuraiana	Rw6G022530

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	147
AccII	CGCG	1 cut(s)	351
AciI	CCGC	2 cut(s)	60, 412
AclWI	GGATC	2 cut(s)	285, 298
AcsI	RAATTY	1 cut(s)	581
AfiI	CCNNNNNNNGG	2 cut(s)	55, 56
AgsI	TTSAA	3 cut(s)	13, 109, 595
AhdI	GACNNNNNGTC	1 cut(s)	449
AluBI	AGCT	3 cut(s)	91, 96, 503
AluI	AGCT	3 cut(s)	91, 96, 503
Alw21I	GWGCWC	1 cut(s)	98
Alw26I	GTCTC	1 cut(s)	464
AlwI	GGATC	2 cut(s)	285, 298
Ama87I	CYCGRG	1 cut(s)	285
ApoI	RAATTY	1 cut(s)	581
Asp700I	GAANNNNTTC	2 cut(s)	345, 599
AsuHPI	GGTGA	3 cut(s)	77, 274, 286
AvaI	CYCGRG	1 cut(s)	285
BamHI	GGATCC	1 cut(s)	290
BanII	GRGCYC	1 cut(s)	98
Bbv12I	GWGCWC	1 cut(s)	98
BccI	CCATC	3 cut(s)	58, 122, 542
BclI	TGATCA	1 cut(s)	627
BcoDI	GTCTC	1 cut(s)	464
BisI	GCNGC	2 cut(s)	61, 413
BlpI	GCTNAGC	1 cut(s)	92
BlsI	GCNGC	2 cut(s)	62, 414
BmeRI	GACNNNNNGTC	1 cut(s)	449
BmeT110I	CYCGRG	1 cut(s)	285
BmiI	GGNNCC	2 cut(s)	292, 433
BmrI	ACTGGG	1 cut(s)	519
BmsI	GCATC	1 cut(s)	160
BmuI	ACTGGG	1 cut(s)	519
Bpu1102I	GCTNAGC	1 cut(s)	92
BsaBI	GATNNNNATC	1 cut(s)	295
BsaJI	CCNNGG	2 cut(s)	165, 286
Bsc4I	CCNNNNNNNGG	2 cut(s)	55, 56
Bse1I	ACTGG	1 cut(s)	514
Bse8I	GATNNNNATC	1 cut(s)	295
BseDI	CCNNGG	2 cut(s)	165, 286
BseGI	GGATG	5 cut(s)	133, 161, 175, 193, 469
BseJI	GATNNNNATC	1 cut(s)	295
BseLI	CCNNNNNNNGG	2 cut(s)	55, 56
BseMII	CTCAG	1 cut(s)	83
BseNI	ACTGG	1 cut(s)	514
BsgI	GTGCAG	2 cut(s)	29, 461
Bsh1236I	CGCG	1 cut(s)	351
BsiHKAI	GWGCWC	1 cut(s)	98
BsiHKCI	CYCGRG	1 cut(s)	285
BslI	CCNNNNNNNGG	2 cut(s)	55, 56
BsmAI	GTCTC	1 cut(s)	464
BsmI	GAATGC	1 cut(s)	516
BsoBI	CYCGRG	1 cut(s)	285
Bsp1286I	GDGCHC	1 cut(s)	98
Bsp143I	GATC	2 cut(s)	290, 627
Bsp1720I	GCTNAGC	1 cut(s)	92
Bsp68I	TCGCGA	1 cut(s)	351
BspACI	CCGC	2 cut(s)	60, 412
BspCNI	CTCAG	1 cut(s)	84
BspFNI	CGCG	1 cut(s)	351
BspLI	GGNNCC	2 cut(s)	292, 433
BspPI	GGATC	2 cut(s)	285, 298
BsrI	ACTGG	1 cut(s)	514
BssECI	CCNNGG	2 cut(s)	165, 286
BssMI	GATC	2 cut(s)	290, 627
BssT1I	CCWWGG	1 cut(s)	165
Bst4CI	ACNGT	3 cut(s)	74, 208, 458
Bst6I	CTCTTC	1 cut(s)	348
BstC8I	GCNNGC	1 cut(s)	383
BstDEI	CTNAG	2 cut(s)	92, 136
BstF5I	GGATG	5 cut(s)	133, 161, 175, 193, 469
BstFNI	CGCG	1 cut(s)	351
BstKTI	GATC	2 cut(s)	293, 630
BstMAI	GTCTC	1 cut(s)	464
BstMBI	GATC	2 cut(s)	290, 627
BstMWI	GCNNNNNNNGC	1 cut(s)	253
BstNSI	RCATGY	1 cut(s)	419
BstUI	CGCG	1 cut(s)	351
BstX2I	RGATCY	1 cut(s)	290
BstYI	RGATCY	1 cut(s)	290
BtsCI	GGATG	5 cut(s)	133, 161, 175, 193, 469
BtsI	GCAGTG	1 cut(s)	473
BtsIMutI	CAGTG	2 cut(s)	473, 507
BtuMI	TCGCGA	1 cut(s)	351
Cac8I	GCNNGC	1 cut(s)	383
CseI	GACGC	1 cut(s)	485
CviAII	CATG	4 cut(s)	100, 321, 416, 436
CviJI	RGCY	6 cut(s)	9, 91, 96, 247, 315, 503
CviKI_1	RGCY	6 cut(s)	9, 91, 96, 247, 315, 503
DdeI	CTNAG	2 cut(s)	92, 136
DpnI	GATC	2 cut(s)	292, 629
DpnII	GATC	2 cut(s)	290, 627
DraI	TTTAAA	1 cut(s)	640
DriI	GACNNNNNGTC	1 cut(s)	449
Eam1104I	CTCTTC	1 cut(s)	348
Eam1105I	GACNNNNNGTC	1 cut(s)	449
EarI	CTCTTC	1 cut(s)	348
Ecl136II	GAGCTC	1 cut(s)	96
Eco130I	CCWWGG	1 cut(s)	165
Eco24I	GRGCYC	1 cut(s)	98
Eco32I	GATATC	1 cut(s)	404
Eco53kI	GAGCTC	1 cut(s)	96
Eco88I	CYCGRG	1 cut(s)	285
EcoICRI	GAGCTC	1 cut(s)	96
EcoRI	GAATTC	1 cut(s)	581
EcoRV	GATATC	1 cut(s)	404
EcoT14I	CCWWGG	1 cut(s)	165
EcoT38I	GRGCYC	1 cut(s)	98
ErhI	CCWWGG	1 cut(s)	165
FaeI	CATG	4 cut(s)	103, 324, 419, 439
FalI	AAGNNNNNCTT	2 cut(s)	208, 240
FatI	CATG	4 cut(s)	99, 320, 415, 435
FbaI	TGATCA	1 cut(s)	627
Fnu4HI	GCNGC	2 cut(s)	61, 413
FokI	GGATG	5 cut(s)	140, 148, 180, 182, 476
FriOI	GRGCYC	1 cut(s)	98
Fsp4HI	GCNGC	2 cut(s)	61, 413
GluI	GCNGC	2 cut(s)	61, 413
HgaI	GACGC	1 cut(s)	485
Hin1II	CATG	4 cut(s)	103, 324, 419, 439
HincII	GTYRAC	1 cut(s)	454
HindII	GTYRAC	1 cut(s)	454
HinfI	GANTC	1 cut(s)	178
HphI	GGTGA	3 cut(s)	77, 274, 286
Hpy166II	GTNNAC	1 cut(s)	454
Hpy188I	TCNGA	3 cut(s)	22, 183, 408
Hpy188III	TCNNGA	1 cut(s)	350
Hpy8I	GTNNAC	1 cut(s)	454
Hpy99I	CGWCG	1 cut(s)	74
HpyAV	CCTTC	4 cut(s)	7, 49, 257, 337
HpyCH4III	ACNGT	3 cut(s)	74, 208, 458
HpyCH4IV	ACGT	2 cut(s)	156, 376
HpyCH4V	TGCA	4 cut(s)	46, 77, 173, 478
HpyF10VI	GCNNNNNNNGC	1 cut(s)	253
HpyF3I	CTNAG	2 cut(s)	92, 136
HpySE526I	ACGT	2 cut(s)	156, 376
Hsp92II	CATG	4 cut(s)	103, 324, 419, 439
Ksp22I	TGATCA	1 cut(s)	627
Kzo9I	GATC	2 cut(s)	290, 627
LmnI	GCTCC	2 cut(s)	101, 513
LpnPI	CCDG	4 cut(s)	101, 495, 513, 547
LweI	GCATC	1 cut(s)	160
MaeII	ACGT	2 cut(s)	156, 376
MaeIII	GTNAC	2 cut(s)	228, 280
MalI	GATC	2 cut(s)	292, 629
MboI	GATC	2 cut(s)	290, 627
MboII	GAAGA	3 cut(s)	353, 365, 554
MflI	RGATCY	1 cut(s)	290
MhlI	GDGCHC	1 cut(s)	98
MluCI	AATT	3 cut(s)	78, 121, 581
MmeI	TCCRAC	1 cut(s)	409
MnlI	CCTC	1 cut(s)	281
MroXI	GAANNNNTTC	2 cut(s)	345, 599
MseI	TTAA	2 cut(s)	360, 639
MslI	CAYNNNNRTG	1 cut(s)	483
MspA1I	CMGCKG	1 cut(s)	91
MssI	GTTTAAAC	1 cut(s)	640
Mva1269I	GAATGC	1 cut(s)	516
MvnI	CGCG	1 cut(s)	351
MwoI	GCNNNNNNNGC	1 cut(s)	253
NdeII	GATC	2 cut(s)	290, 627
NlaIII	CATG	4 cut(s)	103, 324, 419, 439
NlaIV	GGNNCC	2 cut(s)	292, 433
NmuCI	GTSAC	1 cut(s)	280
NruI	TCGCGA	1 cut(s)	351
NspI	RCATGY	1 cut(s)	419
PctI	GAATGC	1 cut(s)	516
PdmI	GAANNNNTTC	2 cut(s)	345, 599
PfeI	GAWTC	1 cut(s)	178
PkrI	GCNGC	2 cut(s)	62, 414
PmeI	GTTTAAAC	1 cut(s)	640
PsiI	TTATAA	1 cut(s)	147
Psp124BI	GAGCTC	1 cut(s)	98
PspN4I	GGNNCC	2 cut(s)	292, 433
PsuI	RGATCY	1 cut(s)	290
PvuII	CAGCTG	1 cut(s)	91
RruI	TCGCGA	1 cut(s)	351
RseI	CAYNNNNRTG	1 cut(s)	483
SacI	GAGCTC	1 cut(s)	98
SaqAI	TTAA	2 cut(s)	360, 639
SatI	GCNGC	2 cut(s)	61, 413
Sau3AI	GATC	2 cut(s)	290, 627
SduI	GDGCHC	1 cut(s)	98
SetI	ASST	8 cut(s)	18, 93, 98, 159, 273, 379, 505, 566
SfaNI	GCATC	1 cut(s)	160
SmiMI	CAYNNNNRTG	1 cut(s)	483
Sse9I	AATT	3 cut(s)	78, 121, 581
SsiI	CCGC	2 cut(s)	60, 412
SstI	GAGCTC	1 cut(s)	98
StyI	CCWWGG	1 cut(s)	165
TaaI	ACNGT	3 cut(s)	74, 208, 458
TaiI	ACGT	2 cut(s)	159, 379
TaqI	TCGA	2 cut(s)	53, 69
TasI	AATT	3 cut(s)	78, 121, 581
TauI	GCSGC	2 cut(s)	63, 415
TfiI	GAWTC	1 cut(s)	178
Tru1I	TTAA	2 cut(s)	360, 639
Tru9I	TTAA	2 cut(s)	360, 639
TscAI	CASTG	2 cut(s)	480, 514
TseFI	GTSAC	1 cut(s)	280
Tsp45I	GTSAC	1 cut(s)	280
TspDTI	ATGAA	9 cut(s)	47, 71, 150, 182, 309, 319, 354, 592, 641
TspRI	CASTG	2 cut(s)	480, 514
XapI	RAATTY	1 cut(s)	581
XceI	RCATGY	1 cut(s)	419
XmnI	GAANNNNTTC	2 cut(s)	345, 599

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