Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0000643

Physical Location & Seq

Genomic Coordinates Reverse (-)

33662267 .. 33667916

Gene Structure 5650 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG151800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 414 bp

ATGAAGAAGAGGTGGGAGATTCCTAGTGAGGTGGTGGTGTTCCAGGGTTTGGAGGAGGACGGTGTTGCTGAAATGGTATCGATGAGCAGGCATGATGTTTCAGAGCTGGAACAAAGGCTTACAGAACAATCAAAGATACTCTCAAGTCTTCAACAACAGGTTGATGATTTGGCATCAAAGCATGCTTACAACCCAGATGAGGAGTATGCAGAGGTAGAATCCAGATTGCGTTCACATTTGGAATCTTTTCTAGAAACTGCAAGATCATTCAATATGATTTACACCAAGGATATACGTCCCTGGACACACATGATGGAGGTACCCCAGCTCCATGGGTTCGGGCCAGCTGCCAATCGCTTGTTGGAGGCATATAATGATGCTTTTGAAGTTCCTAGGGAACTTGAGGAATCTTAG

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

137

Amino Acids

15.94

Weight (kDa)

4.72

Isoelectric Point (pI)

67.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Plant_NMP1	PF06694	31 - 130	5.9e-51	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: OG0000643)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G28230
fragaria_vesca	FvH4_3g16300 FvH4_6g12751 FvH4_6g44570 FvH4_6g44594 FvH4_7g07660
malus_domestica	MD09G1096400.v1.1 MD17G1084500.v1.1
prunus_persica	Prupe.3G231100_v2.0.a1
pyrus_communis	pycom09g02090 pycom17g08160
rosa_chinensis	RchiOBHm_Chr1g0342751 RchiOBHm_Chr2g0157591 RchiOBHm_Chr2g0161781 RchiOBHm_Chr3g0469881
rosa_laevigata	RLG00000007135 RLG00000010298 RLG00000021299 RLG00000021302 RLG00000029173 RLG00000029192
rosa_multiflora	Rmu_sc0000173.1_g000045 Rmu_sc0001403.1_g000033 Rmu_sc0001403.1_g000034 Rmu_sc0001993.1_g000002 Rmu_sc0001993.1_g000020 Rmu_sc0003662.1_g000014 Rmu_sc0011563.1_g000010 Rmu_sc0012276.1_g000010 Rmu_sc0026352.1_g000003
rosa_roxburghii	Rroxscaffold_1G00038970 Rroxscaffold_2G00088610 Rroxscaffold_3G00231870 Rroxscaffold_4G00288710 Rroxscaffold_4G00313230 Rroxscaffold_6G00396080 Rroxscaffold_7G00184860
rosa_rugosa	Rorug01G0146100.1 Rorug02G0491800 Rorug02G0492600 Rorug03G0291200 Rorug05G0303900 Rorug05G0335100 Rorug05G0335200
rosa_samantha	Rh1AG028300 Rh1AG137400 Rh1AG162800 Rh1AG163600 Rh1AG163700 Rh1AG164400 Rh1AG164500 Rh1BG129500 Rh1BG129600 Rh1CG025800 Rh1CG129600 Rh1CG151800 Rh1CG152300 Rh1CG152800 Rh1CG153300 Rh1DG044700 Rh1DG133100 Rh2AG558000 Rh2BG571600 Rh2CG541700 Rh2DG549600 Rh2DG580500 Rh3BG178200 Rh3CG168900 Rh3DG076100 Rh3DG260000 Rh5AG515900 Rh6BG166400 Rh6DG108300 Rh7AG194200 Rh7DG200800 Rh7DG369800
rosa_wichuraiana	Rw2G046170

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	319
AccB1I	GGYRCC	1 cut(s)	319
AccB7I	CCANNNNNTGG	1 cut(s)	49
AfaI	GTAC	1 cut(s)	321
AfiI	CCNNNNNNNGG	2 cut(s)	49, 199
AgsI	TTSAA	3 cut(s)	152, 271, 386
AjnI	CCWGG	2 cut(s)	42, 299
AluBI	AGCT	3 cut(s)	106, 328, 347
AluI	AGCT	3 cut(s)	106, 328, 347
AoxI	GGCC	1 cut(s)	341
ApeKI	GCWGC	1 cut(s)	347
Asp700I	GAANNNNTTC	1 cut(s)	246
Asp718I	GGTACC	1 cut(s)	319
AspA2I	CCTAGG	1 cut(s)	392
AspS9I	GGNCC	1 cut(s)	341
AvrII	CCTAGG	1 cut(s)	392
BanI	GGYRCC	1 cut(s)	319
BbsI	GAAGAC	1 cut(s)	140
BbvI	GCAGC	1 cut(s)	334
BccI	CCATC	1 cut(s)	307
BciT130I	CCWGG	2 cut(s)	44, 301
BfaI	CTAG	3 cut(s)	24, 251, 393
BisI	GCNGC	1 cut(s)	348
BlnI	CCTAGG	1 cut(s)	392
BlsI	GCNGC	1 cut(s)	349
Bme1390I	CCNGG	2 cut(s)	44, 301
BmgT120I	GGNCC	1 cut(s)	341
BmiI	GGNNCC	1 cut(s)	321
BmrFI	CCNGG	2 cut(s)	44, 301
BmsI	GCATC	2 cut(s)	182, 367
BpiI	GAAGAC	1 cut(s)	140
BpuEI	CTTGAG	1 cut(s)	127
Bsa29I	ATCGAT	1 cut(s)	80
BsaJI	CCNNGG	5 cut(s)	43, 285, 299, 331, 392
BsaXI	ACNNNNNCTCC	2 cut(s)	312, 342
Bsc4I	CCNNNNNNNGG	2 cut(s)	49, 199
BseBI	CCWGG	2 cut(s)	44, 301
BseCI	ATCGAT	1 cut(s)	80
BseDI	CCNNGG	5 cut(s)	43, 285, 299, 331, 392
BseLI	CCNNNNNNNGG	2 cut(s)	49, 199
BseRI	GAGGAG	2 cut(s)	68, 215
BseXI	GCAGC	1 cut(s)	334
BseYI	CCCAGC	1 cut(s)	324
BshFI	GGCC	1 cut(s)	343
BshNI	GGYRCC	1 cut(s)	319
BshVI	ATCGAT	1 cut(s)	80
BslFI	GGGAC	1 cut(s)	282
BslI	CCNNNNNNNGG	2 cut(s)	49, 199
BsmFI	GGGAC	1 cut(s)	282
BsnI	GGCC	1 cut(s)	343
Bsp143I	GATC	1 cut(s)	263
Bsp19I	CCATGG	1 cut(s)	331
BspANI	GGCC	1 cut(s)	343
BspDI	ATCGAT	1 cut(s)	80
BspLI	GGNNCC	1 cut(s)	321
BspT107I	GGYRCC	1 cut(s)	319
BssECI	CCNNGG	5 cut(s)	43, 285, 299, 331, 392
BssMI	GATC	1 cut(s)	263
BssT1I	CCWWGG	3 cut(s)	285, 331, 392
Bst2UI	CCWGG	2 cut(s)	44, 301
Bst4CI	ACNGT	1 cut(s)	62
Bst6I	CTCTTC	1 cut(s)	2
BstC8I	GCNNGC	3 cut(s)	89, 183, 345
BstDEI	CTNAG	1 cut(s)	411
BstDSI	CCRYGG	1 cut(s)	331
BstKTI	GATC	1 cut(s)	266
BstMBI	GATC	1 cut(s)	263
BstNI	CCWGG	2 cut(s)	44, 301
BstNSI	RCATGY	1 cut(s)	185
BstSCI	CCNGG	2 cut(s)	42, 299
BstV1I	GCAGC	1 cut(s)	334
BstV2I	GAAGAC	1 cut(s)	140
BstXI	CCANNNNNNTGG	1 cut(s)	332
Bsu15I	ATCGAT	1 cut(s)	80
BsuRI	GGCC	1 cut(s)	343
BsuTUI	ATCGAT	1 cut(s)	80
BtgI	CCRYGG	1 cut(s)	331
Cac8I	GCNNGC	3 cut(s)	89, 183, 345
Cfr13I	GGNCC	1 cut(s)	341
ClaI	ATCGAT	1 cut(s)	80
Csp6I	GTAC	1 cut(s)	320
CviAII	CATG	4 cut(s)	92, 182, 310, 332
CviJI	RGCY	5 cut(s)	106, 118, 328, 343, 347
CviKI_1	RGCY	5 cut(s)	106, 118, 328, 343, 347
CviQI	GTAC	1 cut(s)	320
DdeI	CTNAG	1 cut(s)	411
DpnI	GATC	1 cut(s)	265
DpnII	GATC	1 cut(s)	263
Eam1104I	CTCTTC	1 cut(s)	2
EarI	CTCTTC	1 cut(s)	2
Eco130I	CCWWGG	3 cut(s)	285, 331, 392
EcoRII	CCWGG	2 cut(s)	42, 299
EcoT14I	CCWWGG	3 cut(s)	285, 331, 392
ErhI	CCWWGG	3 cut(s)	285, 331, 392
FaeI	CATG	4 cut(s)	95, 185, 313, 335
FaiI	YATR	9 cut(s)	93, 183, 207, 275, 293, 311, 333, 370, 372
FaqI	GGGAC	1 cut(s)	282
FatI	CATG	4 cut(s)	91, 181, 309, 331
Fnu4HI	GCNGC	1 cut(s)	348
Fsp4HI	GCNGC	1 cut(s)	348
FspBI	CTAG	3 cut(s)	24, 251, 393
GluI	GCNGC	1 cut(s)	348
GsaI	CCCAGC	1 cut(s)	328
HaeIII	GGCC	1 cut(s)	343
Hin1II	CATG	4 cut(s)	95, 185, 313, 335
HinfI	GANTC	4 cut(s)	19, 218, 242, 407
Hpy166II	GTNNAC	1 cut(s)	233
Hpy188I	TCNGA	1 cut(s)	103
Hpy188III	TCNNGA	2 cut(s)	222, 251
Hpy8I	GTNNAC	1 cut(s)	233
HpyCH4III	ACNGT	1 cut(s)	62
HpyCH4IV	ACGT	1 cut(s)	295
HpyCH4V	TGCA	2 cut(s)	209, 260
HpyF3I	CTNAG	1 cut(s)	411
HpySE526I	ACGT	1 cut(s)	295
Hsp92II	CATG	4 cut(s)	95, 185, 313, 335
KpnI	GGTACC	1 cut(s)	323
Kzo9I	GATC	1 cut(s)	263
LmnI	GCTCC	1 cut(s)	333
Lsp1109I	GCAGC	1 cut(s)	334
LweI	GCATC	2 cut(s)	182, 367
MaeI	CTAG	3 cut(s)	24, 251, 393
MaeII	ACGT	1 cut(s)	295
MalI	GATC	1 cut(s)	265
MboI	GATC	1 cut(s)	263
MboII	GAAGA	3 cut(s)	16, 19, 140
MmeI	TCCRAC	1 cut(s)	342
MnlI	CCTC	9 cut(s)	3, 22, 46, 49, 193, 205, 310, 358, 397
MroXI	GAANNNNTTC	1 cut(s)	246
MspA1I	CMGCKG	1 cut(s)	347
MspR9I	CCNGG	2 cut(s)	44, 301
MvaI	CCWGG	2 cut(s)	44, 301
NcoI	CCATGG	1 cut(s)	331
NdeII	GATC	1 cut(s)	263
NlaIII	CATG	4 cut(s)	95, 185, 313, 335
NlaIV	GGNNCC	1 cut(s)	321
NspI	RCATGY	1 cut(s)	185
PaeI	GCATGC	1 cut(s)	185
PdmI	GAANNNNTTC	1 cut(s)	246
PfeI	GAWTC	4 cut(s)	19, 218, 242, 407
PflMI	CCANNNNNTGG	1 cut(s)	49
PkrI	GCNGC	1 cut(s)	349
Psp6I	CCWGG	2 cut(s)	42, 299
PspFI	CCCAGC	1 cut(s)	324
PspGI	CCWGG	2 cut(s)	42, 299
PspN4I	GGNNCC	1 cut(s)	321
PspPI	GGNCC	1 cut(s)	341
PvuII	CAGCTG	1 cut(s)	347
RsaI	GTAC	1 cut(s)	321
RsaNI	GTAC	1 cut(s)	320
SatI	GCNGC	1 cut(s)	348
Sau3AI	GATC	1 cut(s)	263
Sau96I	GGNCC	1 cut(s)	341
ScrFI	CCNGG	2 cut(s)	44, 301
SetI	ASST	9 cut(s)	14, 33, 108, 162, 216, 298, 321, 330, 349
SfaNI	GCATC	2 cut(s)	182, 367
SmlI	CTYRAG	2 cut(s)	142, 401
SmoI	CTYRAG	2 cut(s)	142, 401
SphI	GCATGC	1 cut(s)	185
SspMI	CTAG	3 cut(s)	24, 251, 393
StyD4I	CCNGG	2 cut(s)	42, 299
StyI	CCWWGG	3 cut(s)	285, 331, 392
TaaI	ACNGT	1 cut(s)	62
TaiI	ACGT	1 cut(s)	298
TaqI	TCGA	1 cut(s)	80
TfiI	GAWTC	4 cut(s)	19, 218, 242, 407
TseI	GCWGC	1 cut(s)	347
TspDTI	ATGAA	1 cut(s)	17
Van91I	CCANNNNNTGG	1 cut(s)	49
XbaI	TCTAGA	1 cut(s)	250
XceI	RCATGY	1 cut(s)	185
XcmI	CCANNNNNNNNNTGG	1 cut(s)	358
XmaJI	CCTAGG	1 cut(s)	392
XmnI	GAANNNNTTC	1 cut(s)	246
XspI	CTAG	3 cut(s)	24, 251, 393

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