Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0003945

Physical Location & Seq

Genomic Coordinates Forward (+)

46789113 .. 46789706

Gene Structure 594 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG368600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 594 bp

ATGACCAAGGCAGCAGACGATCCGACCCACTGTGAGTTCGCCTCTGACTTGGAGAAAATATACAGAATATTACGCAAATTCCACTCCCGGGTCCCCAAACTAGAGCTCGCTCTACATCAATCCGGCGTCATTTTGCACTCCGACTTAACCGAGCGAGTGCTGTCTCGGTGCTCGCTCTATATTGTGGGGTATAACAATTTGCTTGGTGAGTATGCTCAGGCTGAGATGGTGGTTGATGCGTATGAGCTGTTGAAGGAGCTGAGGAGGAAGGGTTGTGAGTCCAATGCGGGTTCGTATACGACTATGATTCAGGTACTTGGCGGGCAGGAGAAGATGGAGGAGGCGCTGAGGGTGTTTGTGGAGATGGAGAGGAGTGGTTGTGAGGTTGATGTTGTGACTTCTACTTTGATTAGTGGATTTTGTAAGTGGGGGAAGATTGTGAGGAGTTATGAGATTTTGGAGAGTATAATAAGGAAAGGGTTTACGCTGAGTCAAATGACTTACTTGCAAATTATGTTGGCTCATGAGAAGAAGGAAGACTTGGAGGAGTGTATAATTGATGAGGCAGGTGAGGAAGATTGGTTGCATGCCTGA

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

197

Amino Acids

22.52

Weight (kDa)

5.14

Isoelectric Point (pI)

37.55

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	61 - 106	6.9e-10	PPR repeat family
PPR_2	PF13041	96 - 142	8.6e-12	PPR repeat family
PPR	PF01535	98 - 127	1.1e-06	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0003945)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g05081
malus_domestica	MD10G1101700.v1.1
pyrus_communis	pycom09g04910 pycom15g38900
rosa_chinensis	RchiOBHm_Chr2g0123831 RchiOBHm_Chr4g0385181 RchiOBHm_Chr5g0064611
rosa_laevigata	RLG00000008165 RLG00000018415 RLG00000019614
rosa_multiflora	Rmu_sc0000571.1_g000023 Rmu_sc0001609.1_g000009 Rmu_sc0002893.1_g000021 Rmu_sc0003314.1_g000036 Rmu_sc0004010.1_g000014 Rmu_sc0008955.1_g000004 Rmu_sc0026245.1_g000002 Rmu_sc0027612.1_g000001
rosa_roxburghii	Rroxscaffold_5G00379810 Rroxscaffold_7G00189080
rosa_rugosa	Rorug03G0223000 Rorug06G0045100
rosa_samantha	Rh1CG355700 Rh1DG373200 Rh2BG315600 Rh3BG307100 Rh3CG368600 Rh3DG369600 Rh6BG404300 Rh6DG233700 Rh6DG396800 Rh6DG396900 Rh7AG211300 Rh7CG234500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	557
Acc36I	ACCTGC	1 cut(s)	557
AccI	GTMKAC	1 cut(s)	296
AciI	CCGC	2 cut(s)	287, 321
AclWI	GGATC	1 cut(s)	14
AcsI	RAATTY	1 cut(s)	77
AcyI	GRCGYC	1 cut(s)	126
AfaI	GTAC	1 cut(s)	315
AfiI	CCNNNNNNNGG	1 cut(s)	88
AgsI	TTSAA	1 cut(s)	253
AjuI	GAANNNNNNNTTGG	2 cut(s)	524, 556
AluBI	AGCT	3 cut(s)	106, 247, 259
AluI	AGCT	3 cut(s)	106, 247, 259
Alw21I	GWGCWC	2 cut(s)	108, 173
Alw26I	GTCTC	1 cut(s)	168
AlwI	GGATC	1 cut(s)	14
Ama87I	CYCGRG	1 cut(s)	87
ApeKI	GCWGC	1 cut(s)	11
ApoI	RAATTY	1 cut(s)	77
ArsI	GACNNNNNNTTYG	2 cut(s)	388, 420
AspLEI	GCGC	1 cut(s)	346
AspS9I	GGNCC	1 cut(s)	91
AsuC2I	CCSGG	2 cut(s)	88, 89
AsuHPI	GGTGA	2 cut(s)	218, 581
AvaI	CYCGRG	1 cut(s)	87
AvaII	GGWCC	1 cut(s)	91
BanII	GRGCYC	1 cut(s)	108
BbsI	GAAGAC	1 cut(s)	543
Bbv12I	GWGCWC	2 cut(s)	108, 173
BbvCI	CCTCAGC	2 cut(s)	260, 347
BbvI	GCAGC	1 cut(s)	23
BccI	CCATC	3 cut(s)	220, 328, 358
BcnI	CCSGG	2 cut(s)	88, 89
BcoDI	GTCTC	1 cut(s)	168
BfaI	CTAG	1 cut(s)	101
BfoI	RGCGCY	1 cut(s)	347
BfuAI	ACCTGC	1 cut(s)	557
BisI	GCNGC	1 cut(s)	12
BlsI	GCNGC	1 cut(s)	13
Bme1390I	CCNGG	2 cut(s)	88, 89
Bme18I	GGWCC	1 cut(s)	91
BmeT110I	CYCGRG	1 cut(s)	87
BmgT120I	GGNCC	1 cut(s)	91
BmiI	GGNNCC	2 cut(s)	92, 93
BmrFI	CCNGG	2 cut(s)	88, 89
BmsI	GCATC	1 cut(s)	226
BpiI	GAAGAC	1 cut(s)	543
BplI	GAGNNNNNCTC	2 cut(s)	26, 58
Bpu10I	CCTNAGC	3 cut(s)	216, 260, 347
BpuMI	CCSGG	2 cut(s)	88, 89
BsaHI	GRCGYC	1 cut(s)	126
BsaJI	CCNNGG	2 cut(s)	6, 87
BsaXI	ACNNNNNCTCC	4 cut(s)	256, 286, 364, 394
Bsc4I	CCNNNNNNNGG	1 cut(s)	88
BseDI	CCNNGG	2 cut(s)	6, 87
BseLI	CCNNNNNNNGG	1 cut(s)	88
BseMII	CTCAG	5 cut(s)	213, 230, 251, 338, 479
BseRI	GAGGAG	5 cut(s)	277, 353, 385, 457, 560
BseXI	GCAGC	1 cut(s)	23
BsiHKAI	GWGCWC	2 cut(s)	108, 173
BsiHKCI	CYCGRG	1 cut(s)	87
BsiSI	CCGG	2 cut(s)	88, 123
BslFI	GGGAC	1 cut(s)	77
BslI	CCNNNNNNNGG	1 cut(s)	88
BsmAI	GTCTC	1 cut(s)	168
BsmFI	GGGAC	1 cut(s)	77
BsoBI	CYCGRG	1 cut(s)	87
Bsp1286I	GDGCHC	2 cut(s)	108, 173
Bsp143I	GATC	1 cut(s)	19
BspACI	CCGC	2 cut(s)	287, 321
BspCNI	CTCAG	5 cut(s)	214, 229, 252, 339, 480
BspHI	TCATGA	1 cut(s)	523
BspLI	GGNNCC	2 cut(s)	92, 93
BspMI	ACCTGC	1 cut(s)	557
BspPI	GGATC	1 cut(s)	14
BssECI	CCNNGG	2 cut(s)	6, 87
BssMI	GATC	1 cut(s)	19
BssNAI	GTATAC	1 cut(s)	297
BssNI	GRCGYC	1 cut(s)	126
BssT1I	CCWWGG	1 cut(s)	6
Bst1107I	GTATAC	1 cut(s)	297
Bst4CI	ACNGT	1 cut(s)	32
BstACI	GRCGYC	1 cut(s)	126
BstC8I	GCNNGC	4 cut(s)	108, 173, 323, 588
BstDEI	CTNAG	5 cut(s)	216, 222, 260, 347, 488
BstH2I	RGCGCY	1 cut(s)	347
BstHHI	GCGC	1 cut(s)	346
BstKTI	GATC	1 cut(s)	22
BstMAI	GTCTC	1 cut(s)	168
BstMBI	GATC	1 cut(s)	19
BstNSI	RCATGY	1 cut(s)	590
BstSCI	CCNGG	2 cut(s)	86, 87
BstV1I	GCAGC	1 cut(s)	23
BstV2I	GAAGAC	1 cut(s)	543
BstZ17I	GTATAC	1 cut(s)	297
BtsIMutI	CAGTG	1 cut(s)	28
BveI	ACCTGC	1 cut(s)	557
Cac8I	GCNNGC	4 cut(s)	108, 173, 323, 588
CciI	TCATGA	1 cut(s)	523
CfoI	GCGC	1 cut(s)	346
Cfr13I	GGNCC	1 cut(s)	91
Cfr9I	CCCGGG	1 cut(s)	87
CseI	GACGC	1 cut(s)	115
Csp6I	GTAC	1 cut(s)	314
CviAII	CATG	2 cut(s)	524, 587
CviJI	RGCY	5 cut(s)	106, 221, 247, 259, 521
CviKI_1	RGCY	5 cut(s)	106, 221, 247, 259, 521
CviQI	GTAC	1 cut(s)	314
DdeI	CTNAG	5 cut(s)	216, 222, 260, 347, 488
DpnI	GATC	1 cut(s)	21
DpnII	GATC	1 cut(s)	19
Ecl136II	GAGCTC	1 cut(s)	106
Eco130I	CCWWGG	1 cut(s)	6
Eco24I	GRGCYC	1 cut(s)	108
Eco47I	GGWCC	1 cut(s)	91
Eco53kI	GAGCTC	1 cut(s)	106
Eco88I	CYCGRG	1 cut(s)	87
EcoICRI	GAGCTC	1 cut(s)	106
EcoO109I	RGGNCCY	1 cut(s)	91
EcoT14I	CCWWGG	1 cut(s)	6
EcoT38I	GRGCYC	1 cut(s)	108
ErhI	CCWWGG	1 cut(s)	6
FaeI	CATG	2 cut(s)	527, 590
FalI	AAGNNNNNCTT	2 cut(s)	524, 556
FaqI	GGGAC	1 cut(s)	77
FatI	CATG	2 cut(s)	523, 586
FauI	CCCGC	2 cut(s)	280, 314
FblI	GTMKAC	1 cut(s)	296
Fnu4HI	GCNGC	1 cut(s)	12
FriOI	GRGCYC	1 cut(s)	108
Fsp4HI	GCNGC	1 cut(s)	12
FspBI	CTAG	1 cut(s)	101
GlaI	GCGC	1 cut(s)	345
GluI	GCNGC	1 cut(s)	12
HaeII	RGCGCY	1 cut(s)	347
HapII	CCGG	2 cut(s)	88, 123
HgaI	GACGC	1 cut(s)	115
HhaI	GCGC	1 cut(s)	346
Hin1I	GRCGYC	1 cut(s)	126
Hin1II	CATG	2 cut(s)	527, 590
Hin6I	GCGC	1 cut(s)	344
HinP1I	GCGC	1 cut(s)	344
HinfI	GANTC	3 cut(s)	278, 307, 490
HpaII	CCGG	2 cut(s)	88, 123
HphI	GGTGA	2 cut(s)	218, 581
Hpy166II	GTNNAC	2 cut(s)	297, 483
Hpy188I	TCNGA	3 cut(s)	24, 46, 142
Hpy188III	TCNNGA	1 cut(s)	524
Hpy8I	GTNNAC	2 cut(s)	297, 483
HpyAV	CCTTC	3 cut(s)	247, 262, 526
HpyCH4III	ACNGT	1 cut(s)	32
HpyCH4V	TGCA	3 cut(s)	136, 508, 586
HpyF3I	CTNAG	5 cut(s)	216, 222, 260, 347, 488
Hsp92I	GRCGYC	1 cut(s)	126
Hsp92II	CATG	2 cut(s)	527, 590
HspAI	GCGC	1 cut(s)	344
KflI	GGGWCCC	1 cut(s)	91
Kzo9I	GATC	1 cut(s)	19
LmnI	GCTCC	1 cut(s)	256
LpnPI	CCDG	6 cut(s)	101, 136, 203, 296, 311, 552
Lsp1109I	GCAGC	1 cut(s)	23
LweI	GCATC	1 cut(s)	226
MaeI	CTAG	1 cut(s)	101
MaeIII	GTNAC	1 cut(s)	394
MalI	GATC	1 cut(s)	21
MboI	GATC	1 cut(s)	19
MboII	GAAGA	5 cut(s)	343, 445, 541, 548, 587
MhlI	GDGCHC	2 cut(s)	108, 173
MluCI	AATT	4 cut(s)	77, 196, 510, 555
MlyI	GAGTC	2 cut(s)	287, 499
MmeI	TCCRAC	2 cut(s)	47, 165
MseI	TTAA	1 cut(s)	146
MspI	CCGG	2 cut(s)	88, 123
MspR9I	CCNGG	2 cut(s)	88, 89
NciI	CCSGG	2 cut(s)	88, 89
NdeII	GATC	1 cut(s)	19
NlaIII	CATG	2 cut(s)	527, 590
NlaIV	GGNNCC	2 cut(s)	92, 93
NmuCI	GTSAC	1 cut(s)	394
NspI	RCATGY	1 cut(s)	590
PaeI	GCATGC	1 cut(s)	590
PagI	TCATGA	1 cut(s)	523
PaqCI	CACCTGC	1 cut(s)	557
PfeI	GAWTC	1 cut(s)	307
PkrI	GCNGC	1 cut(s)	13
PleI	GAGTC	2 cut(s)	286, 498
PpsI	GAGTC	2 cut(s)	286, 498
PpuMI	RGGWCCY	1 cut(s)	91
Psp124BI	GAGCTC	1 cut(s)	108
Psp5II	RGGWCCY	1 cut(s)	91
PspN4I	GGNNCC	2 cut(s)	92, 93
PspPI	GGNCC	1 cut(s)	91
PspPPI	RGGWCCY	1 cut(s)	91
RsaI	GTAC	1 cut(s)	315
RsaNI	GTAC	1 cut(s)	314
SacI	GAGCTC	1 cut(s)	108
SaqAI	TTAA	1 cut(s)	146
SatI	GCNGC	1 cut(s)	12
Sau3AI	GATC	1 cut(s)	19
Sau96I	GGNCC	1 cut(s)	91
SchI	GAGTC	2 cut(s)	287, 499
ScrFI	CCNGG	2 cut(s)	88, 89
SduI	GDGCHC	2 cut(s)	108, 173
SetI	ASST	6 cut(s)	108, 249, 261, 315, 387, 571
SfaNI	GCATC	1 cut(s)	226
SinI	GGWCC	1 cut(s)	91
SmaI	CCCGGG	1 cut(s)	89
SphI	GCATGC	1 cut(s)	590
Sse9I	AATT	4 cut(s)	77, 196, 510, 555
SsiI	CCGC	2 cut(s)	287, 321
SspI	AATATT	1 cut(s)	69
SspMI	CTAG	1 cut(s)	101
SstI	GAGCTC	1 cut(s)	108
StyD4I	CCNGG	2 cut(s)	86, 87
StyI	CCWWGG	1 cut(s)	6
TaaI	ACNGT	1 cut(s)	32
TasI	AATT	4 cut(s)	77, 196, 510, 555
TfiI	GAWTC	1 cut(s)	307
Tru1I	TTAA	1 cut(s)	146
Tru9I	TTAA	1 cut(s)	146
TscAI	CASTG	1 cut(s)	35
TseFI	GTSAC	1 cut(s)	394
TseI	GCWGC	1 cut(s)	11
Tsp45I	GTSAC	1 cut(s)	394
TspMI	CCCGGG	1 cut(s)	87
TspRI	CASTG	1 cut(s)	35
VpaK11BI	GGWCC	1 cut(s)	91
XapI	RAATTY	1 cut(s)	77
XceI	RCATGY	1 cut(s)	590
XmaI	CCCGGG	1 cut(s)	87
XmiI	GTMKAC	1 cut(s)	296
XspI	CTAG	1 cut(s)	101

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