Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7A

Orthogroup ID

OG0001535

Physical Location & Seq

Genomic Coordinates Forward (+)

56726163 .. 56726958

Gene Structure 796 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7AG421600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 684 bp

ATGTGGTCAGTGCAGGCTTCCAAGACACGGCTCTTCTCCTCACTGCCATCTATTACTTCTCTCTCGAATGTAGAAACCCATTTGAGAGCTCTTTTGGAGGACCCAGATCCTAAAATTTCACAGGCAATTTCGATTTTTCATCATGCCATACATTCCAACCGCTTGCCTTCAGGTTCAGCCGCGGCCTGCAATTTTCTCATAGACACTCTCTCAAGGTCGAAAAATTATGAACTAGCATTCTCAGTTTATACTAAGATGACCAAGGTTGGTATTTTTACAAGCTTTGTATCATTGAGTTGTTTGGTTTCATATTTTGTCAATACCCGTATGCCCGAATTTGCACATGGGGTTTTCGGCTTGGTATTAAAGCGCGGATTTCAGTTAAATGAGTGTGTTATGAATCTTGCATTAAAGGGTTTTTGTTCGAATGATGAAGTTGACAAGGCAATCGAGTTGTTTAGAGTAATGGGAAGACATTTTGTAACGCCTGGCATTCGTAGTTATAACATTCTTATAGATGGACTTTGCAAAGCAAAAAGGTTGAAAGAAGCAGTGGAATTGTTGGTTGATATGGAGGTGTCAGATTCTGAACCGAATGTGGTAACATACAGCACAATGATTAATGGATTTTGTAAACAGGGTAGAGTGGACAAGGCCATGGGTTTCTTGGGGGAGATGAAGTAA

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_1 PPR_2 PPR_3

Protein Analysis

227

Amino Acids

25.29

Weight (kDa)

8.72

Isoelectric Point (pI)

31.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPR_24	PF23276	110 - 222	1.6e-07	Fungal tetratrico peptide repeats
PPR_2	PF13041	129 - 177	4.7e-11	PPR repeat family
PPR_1	PF12854	162 - 192	1.8e-10	PPR repeat
PPR_2	PF13041	163 - 212	1.1e-17	PPR repeat family
PPR	PF01535	167 - 193	3.9e-07	PPR repeat
PPR_1	PF12854	197 - 227	1.7e-15	PPR repeat
PPR_2	PF13041	198 - 227	2.1e-09	PPR repeat family
PPR	PF01535	201 - 227	6.5e-09	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0001535)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G28010
fragaria_vesca	FvH4_3g35120 FvH4_3g35120 FvH4_3g35120 FvH4_3g35120 FvH4_3g35120 FvH4_5g33200 FvH4_5g33200 FvH4_5g33200
malus_domestica	MD08G1215500.v1.1 MD15G1399800.v1.1 MD15G1400000.v1.1
prunus_persica	Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1 Prupe.1G547200_v2.0.a1
pyrus_communis	pycom08g18660 pycom15g35860
rosa_chinensis	RchiOBHm_Chr5g0048941 RchiOBHm_Chr7g0231581
rosa_laevigata	RLG00000001411 RLG00000001412 RLG00000034570
rosa_multiflora	Rmu_sc0007946.1_g000003
rosa_roxburghii	Rroxscaffold_1G00032970 Rroxscaffold_3G00229080
rosa_rugosa	Rorug05G0241400 Rorug07G0267200 Rorug07G0267300
rosa_samantha	Rh5AG321400 Rh5CG357100 Rh5DG343500 Rh7AG421600 Rh7AG421700 Rh7AG421900 Rh7BG396300 Rh7CG441900 Rh7CG442200 Rh7DG414300
rosa_wichuraiana	Rw5G030330 Rw7G034790 Rw7G034880 Rw7G034900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	504
AccII	CGCG	2 cut(s)	182, 372
AciI	CCGC	4 cut(s)	160, 180, 182, 372
AclWI	GGATC	1 cut(s)	101
AcsI	RAATTY	2 cut(s)	114, 335
AcuI	CTGAAG	1 cut(s)	153
AfiI	CCNNNNNNNGG	1 cut(s)	27
AgsI	TTSAA	1 cut(s)	544
AjnI	CCWGG	1 cut(s)	487
AluBI	AGCT	2 cut(s)	89, 282
AluI	AGCT	2 cut(s)	89, 282
Alw21I	GWGCWC	1 cut(s)	91
AlwI	GGATC	1 cut(s)	101
AlwNI	CAGNNNCTG	1 cut(s)	587
AoxI	GGCC	2 cut(s)	183, 654
ApoI	RAATTY	2 cut(s)	114, 335
AseI	ATTAAT	1 cut(s)	621
AspLEI	GCGC	1 cut(s)	372
AspS9I	GGNCC	1 cut(s)	100
AsuII	TTCGAA	1 cut(s)	425
AvaII	GGWCC	1 cut(s)	100
BanII	GRGCYC	1 cut(s)	91
BbsI	GAAGAC	1 cut(s)	478
Bbv12I	GWGCWC	1 cut(s)	91
BccI	CCATC	2 cut(s)	55, 512
BceAI	ACGGC	1 cut(s)	44
BciT130I	CCWGG	1 cut(s)	489
BfaI	CTAG	1 cut(s)	233
BisI	GCNGC	2 cut(s)	180, 183
BlsI	GCNGC	2 cut(s)	181, 184
Bme1390I	CCNGG	1 cut(s)	489
Bme18I	GGWCC	1 cut(s)	100
BmgT120I	GGNCC	1 cut(s)	100
BmiI	GGNNCC	1 cut(s)	102
BmrFI	CCNGG	1 cut(s)	489
BpiI	GAAGAC	1 cut(s)	478
Bpu14I	TTCGAA	1 cut(s)	425
BpuEI	CTTGAG	1 cut(s)	196
BsaJI	CCNNGG	3 cut(s)	180, 261, 657
BsaXI	ACNNNNNCTCC	1 cut(s)	665
Bsc4I	CCNNNNNNNGG	1 cut(s)	27
BseBI	CCWGG	1 cut(s)	489
BseDI	CCNNGG	3 cut(s)	180, 261, 657
BseLI	CCNNNNNNNGG	1 cut(s)	27
BseMII	CTCAG	1 cut(s)	255
BseRI	GAGGAG	1 cut(s)	28
BsgI	GTGCAG	1 cut(s)	32
Bsh1236I	CGCG	2 cut(s)	182, 372
BshFI	GGCC	2 cut(s)	185, 656
BsiHKAI	GWGCWC	1 cut(s)	91
BslI	CCNNNNNNNGG	1 cut(s)	27
BsmI	GAATGC	2 cut(s)	236, 492
BsnI	GGCC	2 cut(s)	185, 656
Bsp119I	TTCGAA	1 cut(s)	425
Bsp1286I	GDGCHC	1 cut(s)	91
Bsp143I	GATC	1 cut(s)	106
Bsp19I	CCATGG	1 cut(s)	657
BspACI	CCGC	4 cut(s)	160, 180, 182, 372
BspANI	GGCC	2 cut(s)	185, 656
BspCNI	CTCAG	1 cut(s)	254
BspFNI	CGCG	2 cut(s)	182, 372
BspLI	GGNNCC	1 cut(s)	102
BspPI	GGATC	1 cut(s)	101
BspQI	GCTCTTC	1 cut(s)	38
BspT104I	TTCGAA	1 cut(s)	425
BssECI	CCNNGG	3 cut(s)	180, 261, 657
BssMI	GATC	1 cut(s)	106
BssT1I	CCWWGG	2 cut(s)	261, 657
Bst2UI	CCWGG	1 cut(s)	489
Bst6I	CTCTTC	1 cut(s)	38
BstBI	TTCGAA	1 cut(s)	425
BstC8I	GCNNGC	3 cut(s)	15, 164, 187
BstDEI	CTNAG	2 cut(s)	241, 252
BstDSI	CCRYGG	2 cut(s)	180, 657
BstFNI	CGCG	2 cut(s)	182, 372
BstHHI	GCGC	1 cut(s)	372
BstKTI	GATC	1 cut(s)	109
BstMBI	GATC	1 cut(s)	106
BstNI	CCWGG	1 cut(s)	489
BstSCI	CCNGG	1 cut(s)	487
BstUI	CGCG	2 cut(s)	182, 372
BstV2I	GAAGAC	1 cut(s)	478
BstX2I	RGATCY	1 cut(s)	106
BstYI	RGATCY	1 cut(s)	106
BsuRI	GGCC	2 cut(s)	185, 656
BtgI	CCRYGG	2 cut(s)	180, 657
BtsI	GCAGTG	2 cut(s)	41, 558
BtsIMutI	CAGTG	3 cut(s)	15, 41, 558
Cac8I	GCNNGC	3 cut(s)	15, 164, 187
CaiI	CAGNNNCTG	1 cut(s)	587
CfoI	GCGC	1 cut(s)	372
Cfr13I	GGNCC	1 cut(s)	100
Cfr42I	CCGCGG	1 cut(s)	183
CviAII	CATG	3 cut(s)	143, 344, 658
CviJI	RGCY	8 cut(s)	17, 31, 89, 179, 185, 282, 357, 656
CviKI_1	RGCY	8 cut(s)	17, 31, 89, 179, 185, 282, 357, 656
DdeI	CTNAG	2 cut(s)	241, 252
DpnI	GATC	1 cut(s)	108
DpnII	GATC	1 cut(s)	106
Eam1104I	CTCTTC	1 cut(s)	38
EarI	CTCTTC	1 cut(s)	38
Ecl136II	GAGCTC	1 cut(s)	89
Eco130I	CCWWGG	2 cut(s)	261, 657
Eco24I	GRGCYC	1 cut(s)	91
Eco47I	GGWCC	1 cut(s)	100
Eco53kI	GAGCTC	1 cut(s)	89
Eco57I	CTGAAG	1 cut(s)	153
EcoICRI	GAGCTC	1 cut(s)	89
EcoO109I	RGGNCCY	1 cut(s)	100
EcoRII	CCWGG	1 cut(s)	487
EcoT14I	CCWWGG	2 cut(s)	261, 657
EcoT38I	GRGCYC	1 cut(s)	91
ErhI	CCWWGG	2 cut(s)	261, 657
FaeI	CATG	3 cut(s)	146, 347, 661
FatI	CATG	3 cut(s)	142, 343, 657
Fnu4HI	GCNGC	2 cut(s)	180, 183
FriOI	GRGCYC	1 cut(s)	91
Fsp4HI	GCNGC	2 cut(s)	180, 183
FspBI	CTAG	1 cut(s)	233
GlaI	GCGC	1 cut(s)	371
GluI	GCNGC	2 cut(s)	180, 183
HaeIII	GGCC	2 cut(s)	185, 656
HhaI	GCGC	1 cut(s)	372
Hin1II	CATG	3 cut(s)	146, 347, 661
Hin6I	GCGC	1 cut(s)	370
HinP1I	GCGC	1 cut(s)	370
HincII	GTYRAC	1 cut(s)	439
HindII	GTYRAC	1 cut(s)	439
HindIII	AAGCTT	1 cut(s)	280
HinfI	GANTC	2 cut(s)	400, 584
Hpy166II	GTNNAC	3 cut(s)	439, 635, 649
Hpy188I	TCNGA	2 cut(s)	583, 589
Hpy188III	TCNNGA	1 cut(s)	64
Hpy8I	GTNNAC	3 cut(s)	439, 635, 649
HpyAV	CCTTC	1 cut(s)	177
HpyCH4V	TGCA	5 cut(s)	13, 189, 341, 407, 528
HpyF3I	CTNAG	2 cut(s)	241, 252
Hsp92II	CATG	3 cut(s)	146, 347, 661
HspAI	GCGC	1 cut(s)	370
KspI	CCGCGG	1 cut(s)	183
Kzo9I	GATC	1 cut(s)	106
LguI	GCTCTTC	1 cut(s)	38
LpnPI	CCDG	7 cut(s)	107, 117, 156, 199, 474, 501, 623
MaeI	CTAG	1 cut(s)	233
MaeIII	GTNAC	2 cut(s)	481, 601
MalI	GATC	1 cut(s)	108
MboI	GATC	1 cut(s)	106
MboII	GAAGA	2 cut(s)	25, 483
MflI	RGATCY	1 cut(s)	106
MhlI	GDGCHC	1 cut(s)	91
MluCI	AATT	6 cut(s)	114, 126, 190, 223, 335, 557
MmeI	TCCRAC	1 cut(s)	180
MnlI	CCTC	3 cut(s)	49, 91, 568
MseI	TTAA	4 cut(s)	365, 383, 410, 621
MspA1I	CMGCKG	1 cut(s)	182
MspR9I	CCNGG	1 cut(s)	489
Mva1269I	GAATGC	2 cut(s)	236, 492
MvaI	CCWGG	1 cut(s)	489
MvnI	CGCG	2 cut(s)	182, 372
NcoI	CCATGG	1 cut(s)	657
NdeII	GATC	1 cut(s)	106
NlaIII	CATG	3 cut(s)	146, 347, 661
NlaIV	GGNNCC	1 cut(s)	102
NspV	TTCGAA	1 cut(s)	425
PciSI	GCTCTTC	1 cut(s)	38
PctI	GAATGC	2 cut(s)	236, 492
PfeI	GAWTC	2 cut(s)	400, 584
PkrI	GCNGC	2 cut(s)	181, 184
PpuMI	RGGWCCY	1 cut(s)	100
PshBI	ATTAAT	1 cut(s)	621
PsiI	TTATAA	1 cut(s)	504
Psp124BI	GAGCTC	1 cut(s)	91
Psp5II	RGGWCCY	1 cut(s)	100
Psp6I	CCWGG	1 cut(s)	487
PspGI	CCWGG	1 cut(s)	487
PspN4I	GGNNCC	1 cut(s)	102
PspPI	GGNCC	1 cut(s)	100
PspPPI	RGGWCCY	1 cut(s)	100
PstNI	CAGNNNCTG	1 cut(s)	587
PsuI	RGATCY	1 cut(s)	106
SacI	GAGCTC	1 cut(s)	91
SacII	CCGCGG	1 cut(s)	183
SapI	GCTCTTC	1 cut(s)	38
SaqAI	TTAA	4 cut(s)	365, 383, 410, 621
SatI	GCNGC	2 cut(s)	180, 183
Sau3AI	GATC	1 cut(s)	106
Sau96I	GGNCC	1 cut(s)	100
ScrFI	CCNGG	1 cut(s)	489
SduI	GDGCHC	1 cut(s)	91
SetI	ASST	7 cut(s)	91, 175, 218, 267, 284, 542, 579
Sfr303I	CCGCGG	1 cut(s)	183
SfuI	TTCGAA	1 cut(s)	425
SgrBI	CCGCGG	1 cut(s)	183
SinI	GGWCC	1 cut(s)	100
SmlI	CTYRAG	1 cut(s)	211
SmoI	CTYRAG	1 cut(s)	211
Sse9I	AATT	6 cut(s)	114, 126, 190, 223, 335, 557
SsiI	CCGC	4 cut(s)	160, 180, 182, 372
SspMI	CTAG	1 cut(s)	233
SstI	GAGCTC	1 cut(s)	91
StyD4I	CCNGG	1 cut(s)	487
StyI	CCWWGG	2 cut(s)	261, 657
TaqI	TCGA	5 cut(s)	65, 131, 218, 425, 450
TasI	AATT	6 cut(s)	114, 126, 190, 223, 335, 557
TauI	GCSGC	2 cut(s)	182, 185
TfiI	GAWTC	2 cut(s)	400, 584
Tru1I	TTAA	4 cut(s)	365, 383, 410, 621
Tru9I	TTAA	4 cut(s)	365, 383, 410, 621
TscAI	CASTG	3 cut(s)	15, 48, 558
TspDTI	ATGAA	5 cut(s)	128, 243, 297, 413, 447
TspRI	CASTG	3 cut(s)	15, 48, 558
VpaK11BI	GGWCC	1 cut(s)	100
VspI	ATTAAT	1 cut(s)	621
XapI	RAATTY	2 cut(s)	114, 335
XcmI	CCANNNNNNNNNTGG	1 cut(s)	664
XspI	CTAG	1 cut(s)	233

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