Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0008101

Physical Location & Seq

Genomic Coordinates Reverse (-)

1028744 .. 1029319

Gene Structure 576 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG008600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 576 bp

ATGATAGCAACTTACGCTCAAAATGGATCTGCAGCGGAGGGGTTGAATTGTTTTAATCTCATGAGAAGGGCTGGAGTTTATCCTGATGTTGGTACTCTTGTGTCTTTGCTTCAAGTTTGCGAGAATTTAGGTTTAGGGAATCTAGCACAGGGCGTCCATGGTTTAATTATCAAGTGTGGTCTTAGTGCAAATGTCAGAGTTGCAACGGGAGTTCTAGATTTGTATACGAAGTTGGGGCGATTAGATTATTCACTAAAGGTTTTCAAGGAGGTAATTGATCCGGATAAAGCAGCTTGGACTGCAATGCTTGCATGTTATGCTACGCATGGGTATGGACGAGAAGCTATGGAGATCTTTGAAAGCATGGTTAGGAAAGGTGTGCAGCCTGATCACGTCACCTTCACTCACTTGTTAAGTGCTTGTAGCCATTCAGGACTAATTAAGGAAGGGAGGAATTACTTCAACATTATGTCTGAAGTTTATGGAGTAGAGCCTAGGTTGGATCACTATTCATGCATGGTTGATCTTCTGGGTCGCTCTGGACTTCTGAATGATGCTTACGAGCTGATTAAATGA

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

DYW_deaminase PPR PPR_2

Protein Analysis

191

Amino Acids

20.93

Weight (kDa)

6.29

Isoelectric Point (pI)

25.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	94 - 142	6.5e-13	PPR repeat family
PPR	PF01535	98 - 127	4.3e-07	PPR repeat
PPR_3	PF13812	118 - 178	1.7e-07	Pentatricopeptide repeat domain

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: OG0008101)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G40410
fragaria_vesca	FvH4_2g00730
malus_domestica	MD05G1003000.v1.1 MD10G1003900.v1.1
prunus_persica	Prupe.8G006400_v2.0.a1
rosa_chinensis	RchiOBHm_Chr6g0251111
rosa_laevigata	RLG00000015483
rosa_multiflora	Rmu_co8188818.1_g000001 Rmu_co8231405.1_g000001 Rmu_sc0002219.1_g000009 Rmu_sc0002219.1_g000010 Rmu_sc0002219.1_g000016 Rmu_sc0002219.1_g000017 Rmu_sc0002960.1_g000013 Rmu_sc0011355.1_g000002
rosa_roxburghii	Rroxscaffold_7G00217030
rosa_rugosa	Rorug05G0500400 Rorug05G0500500
rosa_samantha	Rh6AG008600 Rh6AG008700 Rh6AG009100 Rh6BG002600 Rh6DG006400
rosa_wichuraiana	Rw6G000930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	224
AccIII	TCCGGA	1 cut(s)	280
AciI	CCGC	1 cut(s)	35
AclWI	GGATC	3 cut(s)	34, 272, 510
AcsI	RAATTY	1 cut(s)	124
AcuI	CTGAAG	1 cut(s)	495
AcyI	GRCGYC	1 cut(s)	153
AfaI	GTAC	1 cut(s)	94
AfiI	CCNNNNNNNGG	1 cut(s)	89
AgsI	TTSAA	5 cut(s)	46, 113, 265, 359, 463
AjiI	CACGTC	1 cut(s)	394
AluBI	AGCT	3 cut(s)	293, 344, 565
AluI	AGCT	3 cut(s)	293, 344, 565
AlwI	GGATC	3 cut(s)	34, 272, 510
Aor13HI	TCCGGA	1 cut(s)	280
ApeKI	GCWGC	3 cut(s)	32, 290, 382
ApoI	RAATTY	1 cut(s)	124
Asp700I	GAANNNNTTC	1 cut(s)	458
AspA2I	CCTAGG	1 cut(s)	494
AsuHPI	GGTGA	1 cut(s)	388
AvrII	CCTAGG	1 cut(s)	494
BaeI	ACNNNNGTAYC	2 cut(s)	84, 117
BbvI	GCAGC	3 cut(s)	44, 302, 394
BclI	TGATCA	1 cut(s)	388
BfaI	CTAG	3 cut(s)	143, 215, 495
BfmI	CTRYAG	1 cut(s)	30
BglII	AGATCT	1 cut(s)	351
BisI	GCNGC	3 cut(s)	33, 291, 383
BlnI	CCTAGG	1 cut(s)	494
BlsI	GCNGC	3 cut(s)	34, 292, 384
BmgBI	CACGTC	1 cut(s)	394
BmsI	GCATC	1 cut(s)	544
BpmI	CTGGAG	1 cut(s)	93
BsaHI	GRCGYC	1 cut(s)	153
BsaJI	CCNNGG	2 cut(s)	157, 494
BsaWI	WCCGGW	1 cut(s)	280
Bsc4I	CCNNNNNNNGG	1 cut(s)	89
Bse3DI	GCAATG	1 cut(s)	309
BseAI	TCCGGA	1 cut(s)	280
BseDI	CCNNGG	2 cut(s)	157, 494
BseLI	CCNNNNNNNGG	1 cut(s)	89
BseMI	GCAATG	1 cut(s)	309
BseXI	GCAGC	3 cut(s)	44, 302, 394
BsgI	GTGCAG	1 cut(s)	401
BsiSI	CCGG	1 cut(s)	281
BslI	CCNNNNNNNGG	1 cut(s)	89
Bsp13I	TCCGGA	1 cut(s)	280
Bsp143I	GATC	6 cut(s)	26, 277, 351, 388, 502, 523
Bsp19I	CCATGG	1 cut(s)	157
BspACI	CCGC	1 cut(s)	35
BspEI	TCCGGA	1 cut(s)	280
BspHI	TCATGA	1 cut(s)	60
BspMAI	CTGCAG	1 cut(s)	34
BspPI	GGATC	3 cut(s)	34, 272, 510
BsrDI	GCAATG	1 cut(s)	309
BssECI	CCNNGG	2 cut(s)	157, 494
BssMI	GATC	6 cut(s)	26, 277, 351, 388, 502, 523
BssNAI	GTATAC	1 cut(s)	225
BssNI	GRCGYC	1 cut(s)	153
BssT1I	CCWWGG	2 cut(s)	157, 494
Bst1107I	GTATAC	1 cut(s)	225
BstACI	GRCGYC	1 cut(s)	153
BstAPI	GCANNNNNTGC	2 cut(s)	308, 317
BstC8I	GCNNGC	1 cut(s)	309
BstDEI	CTNAG	1 cut(s)	182
BstDSI	CCRYGG	1 cut(s)	157
BstKTI	GATC	6 cut(s)	29, 280, 354, 391, 505, 526
BstMBI	GATC	6 cut(s)	26, 277, 351, 388, 502, 523
BstMWI	GCNNNNNNNGC	4 cut(s)	14, 299, 308, 317
BstNSI	RCATGY	1 cut(s)	315
BstSFI	CTRYAG	1 cut(s)	30
BstV1I	GCAGC	3 cut(s)	44, 302, 394
BstX2I	RGATCY	2 cut(s)	26, 351
BstYI	RGATCY	2 cut(s)	26, 351
BstZ17I	GTATAC	1 cut(s)	225
BtgI	CCRYGG	1 cut(s)	157
BtrI	CACGTC	1 cut(s)	394
Cac8I	GCNNGC	1 cut(s)	309
CciI	TCATGA	1 cut(s)	60
CseI	GACGC	1 cut(s)	142
Csp6I	GTAC	1 cut(s)	93
CviAII	CATG	7 cut(s)	61, 158, 312, 326, 364, 513, 517
CviJI	RGCY	7 cut(s)	71, 293, 344, 385, 426, 493, 565
CviKI_1	RGCY	7 cut(s)	71, 293, 344, 385, 426, 493, 565
CviQI	GTAC	1 cut(s)	93
DdeI	CTNAG	1 cut(s)	182
DpnI	GATC	6 cut(s)	28, 279, 353, 390, 504, 525
DpnII	GATC	6 cut(s)	26, 277, 351, 388, 502, 523
Eco130I	CCWWGG	2 cut(s)	157, 494
Eco57I	CTGAAG	1 cut(s)	495
EcoT14I	CCWWGG	2 cut(s)	157, 494
EcoT22I	ATGCAT	1 cut(s)	518
ErhI	CCWWGG	2 cut(s)	157, 494
FaeI	CATG	7 cut(s)	64, 161, 315, 329, 367, 516, 520
FatI	CATG	7 cut(s)	60, 157, 311, 325, 363, 512, 516
FbaI	TGATCA	1 cut(s)	388
FblI	GTMKAC	1 cut(s)	224
Fnu4HI	GCNGC	3 cut(s)	33, 291, 383
Fsp4HI	GCNGC	3 cut(s)	33, 291, 383
FspBI	CTAG	3 cut(s)	143, 215, 495
GluI	GCNGC	3 cut(s)	33, 291, 383
GsuI	CTGGAG	1 cut(s)	93
HapII	CCGG	1 cut(s)	281
HgaI	GACGC	1 cut(s)	142
Hin1I	GRCGYC	1 cut(s)	153
Hin1II	CATG	7 cut(s)	64, 161, 315, 329, 367, 516, 520
HinfI	GANTC	1 cut(s)	139
HpaII	CCGG	1 cut(s)	281
HphI	GGTGA	1 cut(s)	388
Hpy166II	GTNNAC	1 cut(s)	225
Hpy188I	TCNGA	3 cut(s)	197, 475, 549
Hpy188III	TCNNGA	6 cut(s)	61, 83, 215, 281, 432, 540
Hpy8I	GTNNAC	1 cut(s)	225
HpyAV	CCTTC	3 cut(s)	60, 409, 440
HpyCH4IV	ACGT	1 cut(s)	393
HpyCH4V	TGCA	7 cut(s)	32, 188, 203, 302, 311, 382, 516
HpyF10VI	GCNNNNNNNGC	4 cut(s)	14, 299, 308, 317
HpyF3I	CTNAG	1 cut(s)	182
HpySE526I	ACGT	1 cut(s)	393
Hsp92I	GRCGYC	1 cut(s)	153
Hsp92II	CATG	7 cut(s)	64, 161, 315, 329, 367, 516, 520
Kpn2I	TCCGGA	1 cut(s)	280
Ksp22I	TGATCA	1 cut(s)	388
Kzo9I	GATC	6 cut(s)	26, 277, 351, 388, 502, 523
LpnPI	CCDG	8 cut(s)	57, 96, 134, 294, 399, 417, 515, 525
Lsp1109I	GCAGC	3 cut(s)	44, 302, 394
LweI	GCATC	1 cut(s)	544
MaeI	CTAG	3 cut(s)	143, 215, 495
MaeII	ACGT	1 cut(s)	393
MaeIII	GTNAC	1 cut(s)	394
MalI	GATC	6 cut(s)	28, 279, 353, 390, 504, 525
MboI	GATC	6 cut(s)	26, 277, 351, 388, 502, 523
MboII	GAAGA	1 cut(s)	518
MflI	RGATCY	2 cut(s)	26, 351
MluCI	AATT	6 cut(s)	46, 124, 165, 273, 438, 454
MmeI	TCCRAC	1 cut(s)	480
MnlI	CCTC	3 cut(s)	31, 262, 444
Mph1103I	ATGCAT	1 cut(s)	518
MroI	TCCGGA	1 cut(s)	280
MroXI	GAANNNNTTC	1 cut(s)	458
MseI	TTAA	5 cut(s)	54, 164, 413, 441, 570
MslI	CAYNNNNRTG	1 cut(s)	330
MspA1I	CMGCKG	1 cut(s)	35
MspI	CCGG	1 cut(s)	281
MwoI	GCNNNNNNNGC	4 cut(s)	14, 299, 308, 317
NcoI	CCATGG	1 cut(s)	157
NdeII	GATC	6 cut(s)	26, 277, 351, 388, 502, 523
NlaIII	CATG	7 cut(s)	64, 161, 315, 329, 367, 516, 520
NmuCI	GTSAC	1 cut(s)	394
NsiI	ATGCAT	1 cut(s)	518
NspI	RCATGY	1 cut(s)	315
PagI	TCATGA	1 cut(s)	60
PdmI	GAANNNNTTC	1 cut(s)	458
PfeI	GAWTC	1 cut(s)	139
PkrI	GCNGC	3 cut(s)	34, 292, 384
PstI	CTGCAG	1 cut(s)	34
PsuI	RGATCY	2 cut(s)	26, 351
RsaI	GTAC	1 cut(s)	94
RsaNI	GTAC	1 cut(s)	93
RseI	CAYNNNNRTG	1 cut(s)	330
SaqAI	TTAA	5 cut(s)	54, 164, 413, 441, 570
SatI	GCNGC	3 cut(s)	33, 291, 383
Sau3AI	GATC	6 cut(s)	26, 277, 351, 388, 502, 523
SfaNI	GCATC	1 cut(s)	544
SfcI	CTRYAG	1 cut(s)	30
SmiMI	CAYNNNNRTG	1 cut(s)	330
Sse9I	AATT	6 cut(s)	46, 124, 165, 273, 438, 454
SsiI	CCGC	1 cut(s)	35
SspMI	CTAG	3 cut(s)	143, 215, 495
StyI	CCWWGG	2 cut(s)	157, 494
TaiI	ACGT	1 cut(s)	396
TasI	AATT	6 cut(s)	46, 124, 165, 273, 438, 454
TfiI	GAWTC	1 cut(s)	139
Tru1I	TTAA	5 cut(s)	54, 164, 413, 441, 570
Tru9I	TTAA	5 cut(s)	54, 164, 413, 441, 570
TseFI	GTSAC	1 cut(s)	394
TseI	GCWGC	3 cut(s)	32, 290, 382
Tsp45I	GTSAC	1 cut(s)	394
TspDTI	ATGAA	1 cut(s)	501
XapI	RAATTY	1 cut(s)	124
XbaI	TCTAGA	1 cut(s)	214
XceI	RCATGY	1 cut(s)	315
XmaJI	CCTAGG	1 cut(s)	494
XmiI	GTMKAC	1 cut(s)	224
XmnI	GAANNNNTTC	1 cut(s)	458
XspI	CTAG	3 cut(s)	143, 215, 495
Zsp2I	ATGCAT	1 cut(s)	518

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