Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0000571

Physical Location & Seq

Genomic Coordinates Reverse (-)

16343893 .. 16344519

Gene Structure 627 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG106000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 627 bp

ATGACGAGTGGAAATGTTATGCTCAGGTCTAAGACTTGTAATGAATTGTTGAGTTTATTTTCGAAATTGAATCGAACCGAGAGGGCTTGGGTTTTGTATGCTGAGATGTTTAGGTTGAAGATCAAGTCCAGTGTTTGTACTTTTAACATCATGATTAATGTGTTGTGCAAAGAAGGCAAGTTGAACAAGGCAAAGGAGATTTTGGGGATTAAGCCTACTGTTGTTACTTACAATACTATCATTCATGGGTTTTGTTTGAGAGGTGGAGTTGGAGGGGCTCAGATGATCTTTAGTGCTATGAAAGGGAGAGGAGTTCAGCCGGATTCTTACACATATGGATTGCTTATTAATGGGATGTGTAAGGAGAGAAGACTGGATGAAGCGTCTGGTCTTTTTGATAAAATGCTGGAAATTGGGCTGCTTCCGAGTGCTGTTACTTATAACACATTGATTGACGGTTATTGCAATAACGGTGATCTAAACAGGGCTTTTGATTATAGAGATGAGATGGTGAAGAAGGGTATAATGCCGATGGTGTCAACTTACAATTTGTTGATTCATGAATTGTTCATGGAAGGTAGGGTGAGTGAAGCTGATTGTATGGTTCGAGAAATGGAAGATAAGTGA

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:0005737 GO:0005739 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:0044444 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_1 PPR_2 PPR_3 PPR_long

Protein Analysis

208

Amino Acids

23.47

Weight (kDa)

8.63

Isoelectric Point (pI)

28.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	12 - 57	9.2e-11	PPR repeat family
PPR_1	PF12854	42 - 68	5.7e-08	PPR repeat
PPR_3	PF13812	66 - 118	6.7e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	69 - 101	4.2e-10	PPR repeat
PPR_2	PF13041	72 - 121	1.8e-17	PPR repeat family
PPR_long	PF17177	93 - 186	3.4e-07	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	96 - 152	1e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	103 - 135	2.4e-12	PPR repeat
PPR	PF01535	110 - 140	1.7e-07	PPR repeat
PPR_2	PF13041	113 - 155	6.5e-13	PPR repeat family
PPR_3	PF13812	131 - 186	1.5e-10	Pentatricopeptide repeat domain
PPR_1	PF12854	139 - 171	5.2e-13	PPR repeat
PPR_2	PF13041	142 - 183	1.2e-13	PPR repeat family
PPR	PF01535	145 - 175	3.5e-10	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0000571)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G15630
fragaria_vesca	FvH4_2g07360
malus_domestica	MD02G1234600.v1.1
prunus_persica	Prupe.8G019300_v2.0.a1
pyrus_communis	pycom02g20240 pycom05g06440 pycom10g06900
rosa_chinensis	RchiOBHm_Chr2g0106031 RchiOBHm_Chr2g0124301 RchiOBHm_Chr2g0124591 RchiOBHm_Chr5g0034701 RchiOBHm_Chr6g0257571 RchiOBHm_Chr6g0259961 RchiOBHm_Chr6g0260151 RchiOBHm_Chr6g0260161 RchiOBHm_Chr6g0260361 RchiOBHm_Chr6g0260391 RchiOBHm_Chr6g0260531 RchiOBHm_Chr6g0260541 RchiOBHm_Chr6g0260661 RchiOBHm_Chr6g0260761 RchiOBHm_Chr6g0266771 RchiOBHm_Chr7g0210581 RchiOBHm_Chr7g0225201 RchiOBHm_Chr7g0225221
rosa_laevigata	RLG00000001833 RLG00000001834 RLG00000014081 RLG00000014490 RLG00000014495 RLG00000015073 RLG00000034098
rosa_multiflora	Rmu_sc0000414.1_g000008 Rmu_sc0000546.1_g000067 Rmu_sc0000588.1_g000057 Rmu_sc0000861.1_g000058 Rmu_sc0000861.1_g000059 Rmu_sc0002766.1_g000023 Rmu_sc0002968.1_g000001 Rmu_sc0003786.1_g000024 Rmu_sc0005472.1_g000021 Rmu_sc0010278.1_g000006 Rmu_sc0014629.1_g000014 Rmu_sc0036189.1_g000001
rosa_roxburghii	Rroxscaffold_3G00234010 Rroxscaffold_5G00368980 Rroxscaffold_7G00201460 Rroxscaffold_7G00207310 Rroxscaffold_7G00207360 Rroxscaffold_7G00207370 Rroxscaffold_7G00210730
rosa_rugosa	Rorug05G0196300 Rorug05G0359600 Rorug05G0591800 Rorug05G0592300 Rorug05G0592700 Rorug06G0023500 Rorug07G0228100
rosa_samantha	Rh2CG188200 Rh2DG333800 Rh4DG026900 Rh5CG249600 Rh6BG104200 Rh6BG104500 Rh6BG105900 Rh6BG106000 Rh6CG076700 Rh6CG097500 Rh6CG098200 Rh6CG100800 Rh6CG101000 Rh6CG101200 Rh6CG102400 Rh6CG144100 Rh6DG093200 Rh7AG375200 Rh7AG375300 Rh7BG360300
rosa_wichuraiana	Rw0G020720 Rw5G026430 Rw6G009370 Rw6G009450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	441
AfaI	GTAC	1 cut(s)	139
AgsI	TTSAA	3 cut(s)	70, 118, 184
AluBI	AGCT	1 cut(s)	593
AluI	AGCT	1 cut(s)	593
ApeKI	GCWGC	1 cut(s)	418
AseI	ATTAAT	2 cut(s)	156, 348
AsuHPI	GGTGA	3 cut(s)	485, 523, 595
AsuII	TTCGAA	1 cut(s)	62
BanII	GRGCYC	1 cut(s)	280
BbsI	GAAGAC	1 cut(s)	376
BbvI	GCAGC	1 cut(s)	405
BccI	CCATC	2 cut(s)	502, 526
BisI	GCNGC	1 cut(s)	419
BlsI	GCNGC	1 cut(s)	420
BpiI	GAAGAC	1 cut(s)	376
Bpu10I	CCTNAGC	1 cut(s)	23
Bpu14I	TTCGAA	1 cut(s)	62
Bse1I	ACTGG	2 cut(s)	129, 378
BseGI	GGATG	2 cut(s)	360, 382
BseMII	CTCAG	3 cut(s)	37, 93, 293
BseNI	ACTGG	2 cut(s)	129, 378
BseRI	GAGGAG	1 cut(s)	324
BseXI	GCAGC	1 cut(s)	405
BsiSI	CCGG	1 cut(s)	320
Bsp119I	TTCGAA	1 cut(s)	62
Bsp1286I	GDGCHC	1 cut(s)	280
Bsp143I	GATC	3 cut(s)	120, 285, 475
BspCNI	CTCAG	3 cut(s)	36, 94, 292
BspHI	TCATGA	2 cut(s)	150, 559
BspT104I	TTCGAA	1 cut(s)	62
BsrI	ACTGG	2 cut(s)	129, 378
BssMI	GATC	3 cut(s)	120, 285, 475
Bst4CI	ACNGT	3 cut(s)	220, 458, 473
BstBI	TTCGAA	1 cut(s)	62
BstDEI	CTNAG	4 cut(s)	23, 30, 102, 279
BstF5I	GGATG	2 cut(s)	360, 382
BstKTI	GATC	3 cut(s)	123, 288, 478
BstMBI	GATC	3 cut(s)	120, 285, 475
BstMWI	GCNNNNNNNGC	1 cut(s)	174
BstV1I	GCAGC	1 cut(s)	405
BstV2I	GAAGAC	1 cut(s)	376
BtsCI	GGATG	2 cut(s)	360, 382
BtsIMutI	CAGTG	1 cut(s)	136
CciI	TCATGA	2 cut(s)	150, 559
CseI	GACGC	1 cut(s)	372
Csp6I	GTAC	1 cut(s)	138
CviAII	CATG	4 cut(s)	151, 245, 560, 571
CviJI	RGCY	7 cut(s)	86, 214, 278, 319, 418, 488, 593
CviKI_1	RGCY	7 cut(s)	86, 214, 278, 319, 418, 488, 593
CviQI	GTAC	1 cut(s)	138
DdeI	CTNAG	4 cut(s)	23, 30, 102, 279
DpnI	GATC	3 cut(s)	122, 287, 477
DpnII	GATC	3 cut(s)	120, 285, 475
Eco24I	GRGCYC	1 cut(s)	280
EcoT38I	GRGCYC	1 cut(s)	280
FaeI	CATG	4 cut(s)	154, 248, 563, 574
FatI	CATG	4 cut(s)	150, 244, 559, 570
FauNDI	CATATG	1 cut(s)	334
Fnu4HI	GCNGC	1 cut(s)	419
FokI	GGATG	2 cut(s)	367, 389
FriOI	GRGCYC	1 cut(s)	280
Fsp4HI	GCNGC	1 cut(s)	419
GluI	GCNGC	1 cut(s)	419
HapII	CCGG	1 cut(s)	320
HgaI	GACGC	1 cut(s)	372
Hin1II	CATG	4 cut(s)	154, 248, 563, 574
HincII	GTYRAC	1 cut(s)	540
HindII	GTYRAC	1 cut(s)	540
HinfI	GANTC	3 cut(s)	70, 323, 556
HpaII	CCGG	1 cut(s)	320
HphI	GGTGA	3 cut(s)	485, 523, 595
Hpy166II	GTNNAC	1 cut(s)	540
Hpy188I	TCNGA	2 cut(s)	282, 426
Hpy188III	TCNNGA	3 cut(s)	151, 560, 608
Hpy8I	GTNNAC	1 cut(s)	540
HpyAV	CCTTC	3 cut(s)	167, 511, 569
HpyCH4III	ACNGT	3 cut(s)	220, 458, 473
HpyCH4V	TGCA	2 cut(s)	168, 465
HpyF10VI	GCNNNNNNNGC	1 cut(s)	174
HpyF3I	CTNAG	4 cut(s)	23, 30, 102, 279
Hsp92II	CATG	4 cut(s)	154, 248, 563, 574
Kzo9I	GATC	3 cut(s)	120, 285, 475
LpnPI	CCDG	7 cut(s)	10, 142, 333, 359, 372, 392, 469
Lsp1109I	GCAGC	1 cut(s)	405
MaeIII	GTNAC	2 cut(s)	223, 433
MalI	GATC	3 cut(s)	122, 287, 477
MboI	GATC	3 cut(s)	120, 285, 475
MboII	GAAGA	3 cut(s)	130, 381, 526
MhlI	GDGCHC	1 cut(s)	280
MluCI	AATT	5 cut(s)	44, 65, 411, 547, 563
MmeI	TCCRAC	1 cut(s)	250
MnlI	CCTC	4 cut(s)	75, 254, 266, 302
MseI	TTAA	4 cut(s)	144, 156, 210, 348
MspI	CCGG	1 cut(s)	320
MwoI	GCNNNNNNNGC	1 cut(s)	174
NdeI	CATATG	1 cut(s)	334
NdeII	GATC	3 cut(s)	120, 285, 475
NlaIII	CATG	4 cut(s)	154, 248, 563, 574
NspV	TTCGAA	1 cut(s)	62
PagI	TCATGA	2 cut(s)	150, 559
PfeI	GAWTC	3 cut(s)	70, 323, 556
PkrI	GCNGC	1 cut(s)	420
PshBI	ATTAAT	2 cut(s)	156, 348
PsiI	TTATAA	1 cut(s)	441
RsaI	GTAC	1 cut(s)	139
RsaNI	GTAC	1 cut(s)	138
SaqAI	TTAA	4 cut(s)	144, 156, 210, 348
SatI	GCNGC	1 cut(s)	419
Sau3AI	GATC	3 cut(s)	120, 285, 475
SduI	GDGCHC	1 cut(s)	280
SetI	ASST	5 cut(s)	29, 116, 265, 580, 595
SfuI	TTCGAA	1 cut(s)	62
Sse9I	AATT	5 cut(s)	44, 65, 411, 547, 563
TaaI	ACNGT	3 cut(s)	220, 458, 473
TaqI	TCGA	3 cut(s)	62, 73, 607
TasI	AATT	5 cut(s)	44, 65, 411, 547, 563
TatI	WGTACW	1 cut(s)	137
TfiI	GAWTC	3 cut(s)	70, 323, 556
Tru1I	TTAA	4 cut(s)	144, 156, 210, 348
Tru9I	TTAA	4 cut(s)	144, 156, 210, 348
TscAI	CASTG	1 cut(s)	136
TseI	GCWGC	1 cut(s)	418
TspDTI	ATGAA	7 cut(s)	57, 233, 314, 393, 548, 559, 576
TspRI	CASTG	1 cut(s)	136
VspI	ATTAAT	2 cut(s)	156, 348

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