Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0001989

Physical Location & Seq

Genomic Coordinates Reverse (-)

13908260 .. 13912462

Gene Structure 4203 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG067500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 444 bp

ATGAGGAAGAGTGGGCTGGTGGTGGAGGAGATGGCGGCCAAAGAGGGTGGTGAGAGTGCGAGCGGCTGCTGGGTTTCAGGGAGGAAAGTGGTGAAGAAGGGAGGGATATCAGGAAGCCGTTCCTGCATACTGGGAGCTGGTACCGGATGGGTTCCAGGCAATCCATCTGGATATTCTTCTCCGACTCAAGTAGCAATCATCGTTGATCTTGGACTCTTAGTGTCAGAGTCTTGTGGTTCAGTATTCTCCTTTTGGTTCTTTATCAAATGTGGGTGCCATGGTGGGGCTATAGCCAGTGGTCAGATTTCTGAGTATATTGGGCGCAAAGGGCATGGTTACAACCCAGATGAGGAGTATGCAGAGGTAGAATCCAGATTGCGTTCACATTTGGAATCTTTTCTAGAAACTACAAGATCATTCAATATGATTTACACCGAGGTGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005819 GO:0005856 GO:0005874 GO:0005876 GO:0008017 GO:0008092 GO:0009524 GO:0015630 GO:0015631 GO:0043226 GO:0043228 GO:0043229 GO:0043232 GO:0044422 GO:0044424 GO:0044430 GO:0044444 GO:0044446 GO:0044464 GO:0051011 GO:0099080 GO:0099081 GO:0099512 GO:0099513

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Plant_NMP1

Protein Analysis

147

Amino Acids

15.67

Weight (kDa)

6.29

Isoelectric Point (pI)

43.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Plant_NMP1	PF06694	111 - 146	1.2e-11	Plant nuclear matrix protein 1 (NMP1)

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: OG0001989)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G19450 AT1G75220
fragaria_vesca	FvH4_2g39720 FvH4_2g39720
malus_domestica	MD08G1030900.v1.1 MD15G1026400.v1.1
prunus_persica	Prupe.1G378500_v2.0.a1 Prupe.1G378500_v2.0.a1 Prupe.1G378500_v2.0.a1
pyrus_communis	pycom08g02430 pycom15g02240
rosa_chinensis	RchiOBHm_Chr2g0113321 RchiOBHm_Chr6g0286231 RchiOBHm_Chr6g0301141
rosa_laevigata	RLG00000011274 RLG00000023030 RLG00000029784
rosa_multiflora	Rmu_sc0000163.1_g000001 Rmu_sc0003433.1_g000002
rosa_roxburghii	Rroxscaffold_172G00445490 Rroxscaffold_1G00005260 Rroxscaffold_2G00122730 Rroxscaffold_6G00422220 Rroxscaffold_7G00167120
rosa_rugosa	Rorug02G0291400 Rorug06G0302000
rosa_samantha	Rh1CG067500 Rh1DG072300 Rh2BG617500 Rh2CG245100 Rh3DG215300 Rh4AG195000 Rh4BG151200 Rh5DG350800 Rh6AG287900 Rh6AG415200 Rh6BG422100 Rh6CG295000 Rh6CG429700 Rh6DG287000 Rh6DG415000 Rh7DG331600
rosa_wichuraiana	Rw3G027690 Rw4G014840 Rw5G039560

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	140
AccB1I	GGYRCC	2 cut(s)	140, 273
AccBSI	CCGCTC	1 cut(s)	63
AciI	CCGC	2 cut(s)	35, 63
AcoI	YGGCCR	1 cut(s)	36
AfaI	GTAC	1 cut(s)	142
AfiI	CCNNNNNNNGG	2 cut(s)	283, 349
AgsI	TTSAA	1 cut(s)	421
AjnI	CCWGG	1 cut(s)	154
AleI	CACNNNNGTG	1 cut(s)	437
AluBI	AGCT	1 cut(s)	137
AluI	AGCT	1 cut(s)	137
AoxI	GGCC	1 cut(s)	36
ApeKI	GCWGC	1 cut(s)	66
Asp700I	GAANNNNTTC	2 cut(s)	118, 396
Asp718I	GGTACC	1 cut(s)	140
AspLEI	GCGC	1 cut(s)	324
AsuHPI	GGTGA	2 cut(s)	62, 103
BanI	GGYRCC	2 cut(s)	140, 273
BbvI	GCAGC	1 cut(s)	53
BccI	CCATC	3 cut(s)	25, 141, 172
BceAI	ACGGC	1 cut(s)	102
BciT130I	CCWGG	1 cut(s)	156
BfaI	CTAG	1 cut(s)	401
BfmI	CTRYAG	1 cut(s)	288
BisI	GCNGC	3 cut(s)	36, 64, 67
BlsI	GCNGC	3 cut(s)	37, 65, 68
Bme1390I	CCNGG	1 cut(s)	156
BmiI	GGNNCC	3 cut(s)	142, 153, 275
BmrFI	CCNGG	1 cut(s)	156
BmrI	ACTGGG	1 cut(s)	140
BmuI	ACTGGG	1 cut(s)	140
BpuEI	CTTGAG	1 cut(s)	171
BsaJI	CCNNGG	2 cut(s)	277, 435
BsaWI	WCCGGW	1 cut(s)	143
Bsc4I	CCNNNNNNNGG	2 cut(s)	283, 349
Bse1I	ACTGG	2 cut(s)	135, 294
BseBI	CCWGG	1 cut(s)	156
BseDI	CCNNGG	2 cut(s)	277, 435
BseGI	GGATG	1 cut(s)	152
BseLI	CCNNNNNNNGG	2 cut(s)	283, 349
BseMII	CTCAG	1 cut(s)	300
BseNI	ACTGG	2 cut(s)	135, 294
BseRI	GAGGAG	2 cut(s)	41, 365
BseXI	GCAGC	1 cut(s)	53
BseYI	CCCAGC	1 cut(s)	69
BshFI	GGCC	1 cut(s)	38
BshNI	GGYRCC	2 cut(s)	140, 273
BsiSI	CCGG	1 cut(s)	144
BslI	CCNNNNNNNGG	2 cut(s)	283, 349
BsnI	GGCC	1 cut(s)	38
Bsp143I	GATC	2 cut(s)	205, 413
Bsp19I	CCATGG	1 cut(s)	277
BspACI	CCGC	2 cut(s)	35, 63
BspANI	GGCC	1 cut(s)	38
BspCNI	CTCAG	1 cut(s)	301
BspLI	GGNNCC	3 cut(s)	142, 153, 275
BspT107I	GGYRCC	2 cut(s)	140, 273
BsrBI	CCGCTC	1 cut(s)	63
BsrI	ACTGG	2 cut(s)	135, 294
BssECI	CCNNGG	2 cut(s)	277, 435
BssMI	GATC	2 cut(s)	205, 413
BssT1I	CCWWGG	1 cut(s)	277
Bst2UI	CCWGG	1 cut(s)	156
Bst6I	CTCTTC	1 cut(s)	2
BstC8I	GCNNGC	1 cut(s)	61
BstDEI	CTNAG	2 cut(s)	217, 309
BstDSI	CCRYGG	1 cut(s)	277
BstF5I	GGATG	1 cut(s)	152
BstHHI	GCGC	1 cut(s)	324
BstKTI	GATC	2 cut(s)	208, 416
BstMBI	GATC	2 cut(s)	205, 413
BstMWI	GCNNNNNNNGC	2 cut(s)	123, 328
BstNI	CCWGG	1 cut(s)	156
BstSCI	CCNGG	1 cut(s)	154
BstSFI	CTRYAG	1 cut(s)	288
BstV1I	GCAGC	1 cut(s)	53
BsuRI	GGCC	1 cut(s)	38
BtgI	CCRYGG	1 cut(s)	277
BtsCI	GGATG	1 cut(s)	152
BtsIMutI	CAGTG	1 cut(s)	301
Cac8I	GCNNGC	1 cut(s)	61
CfoI	GCGC	1 cut(s)	324
Csp6I	GTAC	1 cut(s)	141
CspCI	CAANNNNNGTGG	2 cut(s)	28, 63
CviAII	CATG	2 cut(s)	278, 332
CviJI	RGCY	7 cut(s)	16, 38, 66, 117, 137, 287, 293
CviKI_1	RGCY	7 cut(s)	16, 38, 66, 117, 137, 287, 293
CviQI	GTAC	1 cut(s)	141
DdeI	CTNAG	2 cut(s)	217, 309
DpnI	GATC	2 cut(s)	207, 415
DpnII	GATC	2 cut(s)	205, 413
EaeI	YGGCCR	1 cut(s)	36
Eam1104I	CTCTTC	1 cut(s)	2
EarI	CTCTTC	1 cut(s)	2
Eco130I	CCWWGG	1 cut(s)	277
Eco32I	GATATC	1 cut(s)	108
EcoRII	CCWGG	1 cut(s)	154
EcoRV	GATATC	1 cut(s)	108
EcoT14I	CCWWGG	1 cut(s)	277
ErhI	CCWWGG	1 cut(s)	277
FaeI	CATG	2 cut(s)	281, 335
FaiI	YATR	7 cut(s)	128, 279, 290, 315, 333, 357, 425
FatI	CATG	2 cut(s)	277, 331
Fnu4HI	GCNGC	3 cut(s)	36, 64, 67
FokI	GGATG	1 cut(s)	159
Fsp4HI	GCNGC	3 cut(s)	36, 64, 67
FspBI	CTAG	1 cut(s)	401
GlaI	GCGC	1 cut(s)	323
GluI	GCNGC	3 cut(s)	36, 64, 67
GsaI	CCCAGC	1 cut(s)	73
HaeIII	GGCC	1 cut(s)	38
HapII	CCGG	1 cut(s)	144
HhaI	GCGC	1 cut(s)	324
Hin1II	CATG	2 cut(s)	281, 335
Hin6I	GCGC	1 cut(s)	322
HinP1I	GCGC	1 cut(s)	322
HinfI	GANTC	5 cut(s)	184, 213, 227, 368, 392
HpaII	CCGG	1 cut(s)	144
HphI	GGTGA	2 cut(s)	62, 103
Hpy166II	GTNNAC	1 cut(s)	383
Hpy188I	TCNGA	4 cut(s)	183, 226, 303, 310
Hpy188III	TCNNGA	4 cut(s)	111, 168, 372, 401
Hpy8I	GTNNAC	1 cut(s)	383
HpyAV	CCTTC	1 cut(s)	91
HpyCH4V	TGCA	2 cut(s)	126, 359
HpyF10VI	GCNNNNNNNGC	2 cut(s)	123, 328
HpyF3I	CTNAG	2 cut(s)	217, 309
Hsp92II	CATG	2 cut(s)	281, 335
HspAI	GCGC	1 cut(s)	322
KpnI	GGTACC	1 cut(s)	144
Kzo9I	GATC	2 cut(s)	205, 413
LmnI	GCTCC	1 cut(s)	134
Lsp1109I	GCAGC	1 cut(s)	53
MaeI	CTAG	1 cut(s)	401
MaeIII	GTNAC	1 cut(s)	335
MalI	GATC	2 cut(s)	207, 415
MbiI	CCGCTC	1 cut(s)	63
MboI	GATC	2 cut(s)	205, 413
MboII	GAAGA	3 cut(s)	19, 106, 168
MlyI	GAGTC	3 cut(s)	178, 207, 236
MmeI	TCCRAC	1 cut(s)	206
MnlI	CCTC	7 cut(s)	19, 37, 75, 95, 343, 355, 430
MroXI	GAANNNNTTC	2 cut(s)	118, 396
MslI	CAYNNNNRTG	1 cut(s)	437
MspI	CCGG	1 cut(s)	144
MspR9I	CCNGG	1 cut(s)	156
MvaI	CCWGG	1 cut(s)	156
MwoI	GCNNNNNNNGC	2 cut(s)	123, 328
NcoI	CCATGG	1 cut(s)	277
NdeII	GATC	2 cut(s)	205, 413
NlaIII	CATG	2 cut(s)	281, 335
NlaIV	GGNNCC	3 cut(s)	142, 153, 275
OliI	CACNNNNGTG	1 cut(s)	437
PdmI	GAANNNNTTC	2 cut(s)	118, 396
PfeI	GAWTC	2 cut(s)	368, 392
PkrI	GCNGC	3 cut(s)	37, 65, 68
PleI	GAGTC	3 cut(s)	178, 207, 235
PpsI	GAGTC	3 cut(s)	178, 207, 235
Psp6I	CCWGG	1 cut(s)	154
PspFI	CCCAGC	1 cut(s)	69
PspGI	CCWGG	1 cut(s)	154
PspN4I	GGNNCC	3 cut(s)	142, 153, 275
RsaI	GTAC	1 cut(s)	142
RsaNI	GTAC	1 cut(s)	141
RseI	CAYNNNNRTG	1 cut(s)	437
SatI	GCNGC	3 cut(s)	36, 64, 67
Sau3AI	GATC	2 cut(s)	205, 413
SchI	GAGTC	3 cut(s)	178, 207, 236
ScrFI	CCNGG	1 cut(s)	156
SetI	ASST	3 cut(s)	139, 366, 441
SfcI	CTRYAG	1 cut(s)	288
SmiMI	CAYNNNNRTG	1 cut(s)	437
SmlI	CTYRAG	1 cut(s)	186
SmoI	CTYRAG	1 cut(s)	186
SsiI	CCGC	2 cut(s)	35, 63
SspMI	CTAG	1 cut(s)	401
StyD4I	CCNGG	1 cut(s)	154
StyI	CCWWGG	1 cut(s)	277
TauI	GCSGC	2 cut(s)	38, 66
TfiI	GAWTC	2 cut(s)	368, 392
TscAI	CASTG	1 cut(s)	301
TseI	GCWGC	1 cut(s)	66
TspRI	CASTG	1 cut(s)	301
XbaI	TCTAGA	1 cut(s)	400
XmnI	GAANNNNTTC	2 cut(s)	118, 396
XspI	CTAG	1 cut(s)	401

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