Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0000643

Physical Location & Seq

Genomic Coordinates Reverse (-)

17330403 .. 17335084

Gene Structure 4682 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00396080.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 450 bp

ATGTCGTCCCCGCACGTCTTCCTCCGGAACCGCCGGAGGCAGCCATGGTTCTCACGACTAAGCTTTGCCGCTTCGGTGGTGCCAAGATCTACCCCGGCAATTGGTTCTCTTCACTGTGCTTTGACTAATACATGCATCCCTATGTCTCACACTTGCTCCCTTACGCAGGGTGTTCATGATTTTGTTTTTGCATTACGAGACAAGTCTTGCGGTAGAATCTCACCAAAACAGCATGCTTACAACCCAAATGAGGAGTTTGCAGATGTGGAATCCACATTGCGTTCACATTTGGAATCTTTTCTAGAAACTGCAAGATCATTCAATATGATTTACACCAAGGAAATATGTCCCTGGACACACATGATGGAGGTACCCCAGCTCCATGGGTTCGGGCCTGCAGCCAATCGCTTATTGGAGGCATATAAGATGCTTTTGAAGGTATCTCATTGA

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

149

Amino Acids

16.96

Weight (kDa)

9.17

Isoelectric Point (pI)

58.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Plant_NMP1	PF06694	77 - 147	2.8e-38	Plant nuclear matrix protein 1 (NMP1)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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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: 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)	370
AccB1I	GGYRCC	2 cut(s)	79, 370
AccIII	TCCGGA	1 cut(s)	24
AciI	CCGC	4 cut(s)	11, 31, 69, 210
AfaI	GTAC	1 cut(s)	372
AfiI	CCNNNNNNNGG	3 cut(s)	101, 166, 250
AgsI	TTSAA	2 cut(s)	322, 436
AjiI	CACGTC	1 cut(s)	16
AjnI	CCWGG	1 cut(s)	350
AluBI	AGCT	2 cut(s)	63, 379
AluI	AGCT	2 cut(s)	63, 379
Alw26I	GTCTC	2 cut(s)	150, 192
Aor13HI	TCCGGA	1 cut(s)	24
AoxI	GGCC	1 cut(s)	392
ApeKI	GCWGC	2 cut(s)	40, 398
Asp700I	GAANNNNTTC	1 cut(s)	297
Asp718I	GGTACC	1 cut(s)	370
AspS9I	GGNCC	1 cut(s)	392
AsuC2I	CCSGG	1 cut(s)	95
AsuHPI	GGTGA	1 cut(s)	213
BanI	GGYRCC	2 cut(s)	79, 370
BbsI	GAAGAC	1 cut(s)	10
BbvI	GCAGC	2 cut(s)	52, 410
BccI	CCATC	1 cut(s)	358
BciT130I	CCWGG	1 cut(s)	352
BcnI	CCSGG	1 cut(s)	95
BcoDI	GTCTC	2 cut(s)	150, 192
BfaI	CTAG	1 cut(s)	302
BfmI	CTRYAG	1 cut(s)	396
BglII	AGATCT	1 cut(s)	86
BisI	GCNGC	3 cut(s)	41, 69, 399
BlsI	GCNGC	3 cut(s)	42, 70, 400
Bme1390I	CCNGG	2 cut(s)	95, 352
BmgBI	CACGTC	1 cut(s)	16
BmgT120I	GGNCC	1 cut(s)	392
BmiI	GGNNCC	3 cut(s)	29, 81, 372
BmrFI	CCNGG	2 cut(s)	95, 352
BmsI	GCATC	2 cut(s)	144, 417
BpiI	GAAGAC	1 cut(s)	10
BpuMI	CCSGG	1 cut(s)	95
BsaJI	CCNNGG	5 cut(s)	44, 93, 336, 350, 382
BsaWI	WCCGGW	1 cut(s)	24
BsaXI	ACNNNNNCTCC	4 cut(s)	140, 170, 363, 393
Bsc4I	CCNNNNNNNGG	3 cut(s)	101, 166, 250
Bse3DI	GCAATG	1 cut(s)	275
BseAI	TCCGGA	1 cut(s)	24
BseBI	CCWGG	1 cut(s)	352
BseDI	CCNNGG	5 cut(s)	44, 93, 336, 350, 382
BseGI	GGATG	1 cut(s)	135
BseLI	CCNNNNNNNGG	3 cut(s)	101, 166, 250
BseMI	GCAATG	1 cut(s)	275
BseRI	GAGGAG	1 cut(s)	266
BseXI	GCAGC	2 cut(s)	52, 410
BseYI	CCCAGC	1 cut(s)	375
BshFI	GGCC	1 cut(s)	394
BshNI	GGYRCC	2 cut(s)	79, 370
BsiSI	CCGG	3 cut(s)	25, 34, 95
BslFI	GGGAC	1 cut(s)	333
BslI	CCNNNNNNNGG	3 cut(s)	101, 166, 250
BsmAI	GTCTC	2 cut(s)	150, 192
BsmFI	GGGAC	1 cut(s)	333
BsnI	GGCC	1 cut(s)	394
Bsp13I	TCCGGA	1 cut(s)	24
Bsp143I	GATC	2 cut(s)	86, 314
Bsp19I	CCATGG	2 cut(s)	44, 382
BspACI	CCGC	4 cut(s)	11, 31, 69, 210
BspANI	GGCC	1 cut(s)	394
BspEI	TCCGGA	1 cut(s)	24
BspHI	TCATGA	1 cut(s)	175
BspLI	GGNNCC	3 cut(s)	29, 81, 372
BspMAI	CTGCAG	1 cut(s)	400
BspT107I	GGYRCC	2 cut(s)	79, 370
BsrDI	GCAATG	1 cut(s)	275
BssECI	CCNNGG	5 cut(s)	44, 93, 336, 350, 382
BssMI	GATC	2 cut(s)	86, 314
BssT1I	CCWWGG	3 cut(s)	44, 336, 382
Bst2UI	CCWGG	1 cut(s)	352
Bst4CI	ACNGT	1 cut(s)	116
Bst6I	CTCTTC	1 cut(s)	114
BstC8I	GCNNGC	2 cut(s)	234, 396
BstDEI	CTNAG	1 cut(s)	59
BstDSI	CCRYGG	2 cut(s)	44, 382
BstENI	CCTNNNNNAGG	1 cut(s)	164
BstF5I	GGATG	1 cut(s)	135
BstKTI	GATC	2 cut(s)	89, 317
BstMAI	GTCTC	2 cut(s)	150, 192
BstMBI	GATC	2 cut(s)	86, 314
BstNI	CCWGG	1 cut(s)	352
BstNSI	RCATGY	2 cut(s)	135, 236
BstSCI	CCNGG	2 cut(s)	93, 350
BstSFI	CTRYAG	1 cut(s)	396
BstV1I	GCAGC	2 cut(s)	52, 410
BstV2I	GAAGAC	1 cut(s)	10
BstX2I	RGATCY	1 cut(s)	86
BstXI	CCANNNNNNTGG	1 cut(s)	383
BstYI	RGATCY	1 cut(s)	86
BsuRI	GGCC	1 cut(s)	394
BtgI	CCRYGG	2 cut(s)	44, 382
BtrI	CACGTC	1 cut(s)	16
BtsCI	GGATG	1 cut(s)	135
BtsIMutI	CAGTG	1 cut(s)	112
Cac8I	GCNNGC	2 cut(s)	234, 396
CciI	TCATGA	1 cut(s)	175
Cfr13I	GGNCC	1 cut(s)	392
Csp6I	GTAC	1 cut(s)	371
CviAII	CATG	6 cut(s)	45, 132, 176, 233, 361, 383
CviJI	RGCY	5 cut(s)	43, 63, 379, 394, 401
CviKI_1	RGCY	5 cut(s)	43, 63, 379, 394, 401
CviQI	GTAC	1 cut(s)	371
DdeI	CTNAG	1 cut(s)	59
DpnI	GATC	2 cut(s)	88, 316
DpnII	GATC	2 cut(s)	86, 314
Eam1104I	CTCTTC	1 cut(s)	114
EarI	CTCTTC	1 cut(s)	114
Eco130I	CCWWGG	3 cut(s)	44, 336, 382
EcoNI	CCTNNNNNAGG	1 cut(s)	164
EcoRII	CCWGG	1 cut(s)	350
EcoT14I	CCWWGG	3 cut(s)	44, 336, 382
EcoT22I	ATGCAT	1 cut(s)	137
ErhI	CCWWGG	3 cut(s)	44, 336, 382
FaeI	CATG	6 cut(s)	48, 135, 179, 236, 364, 386
FaqI	GGGAC	1 cut(s)	333
FatI	CATG	6 cut(s)	44, 131, 175, 232, 360, 382
FauI	CCCGC	1 cut(s)	18
Fnu4HI	GCNGC	3 cut(s)	41, 69, 399
FokI	GGATG	1 cut(s)	122
Fsp4HI	GCNGC	3 cut(s)	41, 69, 399
FspBI	CTAG	1 cut(s)	302
GluI	GCNGC	3 cut(s)	41, 69, 399
GsaI	CCCAGC	1 cut(s)	379
HaeIII	GGCC	1 cut(s)	394
HapII	CCGG	3 cut(s)	25, 34, 95
Hin1II	CATG	6 cut(s)	48, 135, 179, 236, 364, 386
HindIII	AAGCTT	1 cut(s)	61
HinfI	GANTC	3 cut(s)	216, 269, 293
HpaII	CCGG	3 cut(s)	25, 34, 95
HphI	GGTGA	1 cut(s)	213
Hpy166II	GTNNAC	1 cut(s)	284
Hpy188III	TCNNGA	4 cut(s)	25, 54, 176, 302
Hpy8I	GTNNAC	1 cut(s)	284
HpyAV	CCTTC	1 cut(s)	430
HpyCH4III	ACNGT	1 cut(s)	116
HpyCH4IV	ACGT	1 cut(s)	15
HpyCH4V	TGCA	5 cut(s)	135, 191, 260, 311, 398
HpyF3I	CTNAG	1 cut(s)	59
HpySE526I	ACGT	1 cut(s)	15
Hsp92II	CATG	6 cut(s)	48, 135, 179, 236, 364, 386
Kpn2I	TCCGGA	1 cut(s)	24
KpnI	GGTACC	1 cut(s)	374
Kzo9I	GATC	2 cut(s)	86, 314
LmnI	GCTCC	2 cut(s)	161, 384
LpnPI	CCDG	8 cut(s)	38, 47, 108, 152, 337, 364, 389, 408
Lsp1109I	GCAGC	2 cut(s)	52, 410
LweI	GCATC	2 cut(s)	144, 417
MaeI	CTAG	1 cut(s)	302
MaeII	ACGT	1 cut(s)	15
MalI	GATC	2 cut(s)	88, 316
MboI	GATC	2 cut(s)	86, 314
MboII	GAAGA	2 cut(s)	10, 101
MfeI	CAATTG	1 cut(s)	99
MflI	RGATCY	1 cut(s)	86
MluCI	AATT	1 cut(s)	99
MnlI	CCTC	5 cut(s)	30, 32, 244, 361, 409
Mph1103I	ATGCAT	1 cut(s)	137
MroI	TCCGGA	1 cut(s)	24
MroXI	GAANNNNTTC	1 cut(s)	297
MslI	CAYNNNNRTG	1 cut(s)	140
MspI	CCGG	3 cut(s)	25, 34, 95
MspR9I	CCNGG	2 cut(s)	95, 352
MunI	CAATTG	1 cut(s)	99
MvaI	CCWGG	1 cut(s)	352
NciI	CCSGG	1 cut(s)	95
NcoI	CCATGG	2 cut(s)	44, 382
NdeII	GATC	2 cut(s)	86, 314
NlaIII	CATG	6 cut(s)	48, 135, 179, 236, 364, 386
NlaIV	GGNNCC	3 cut(s)	29, 81, 372
NsiI	ATGCAT	1 cut(s)	137
NspI	RCATGY	2 cut(s)	135, 236
PaeI	GCATGC	1 cut(s)	236
PagI	TCATGA	1 cut(s)	175
PdmI	GAANNNNTTC	1 cut(s)	297
PfeI	GAWTC	3 cut(s)	216, 269, 293
PkrI	GCNGC	3 cut(s)	42, 70, 400
Psp6I	CCWGG	1 cut(s)	350
PspFI	CCCAGC	1 cut(s)	375
PspGI	CCWGG	1 cut(s)	350
PspN4I	GGNNCC	3 cut(s)	29, 81, 372
PspPI	GGNCC	1 cut(s)	392
PstI	CTGCAG	1 cut(s)	400
PsuI	RGATCY	1 cut(s)	86
RsaI	GTAC	1 cut(s)	372
RsaNI	GTAC	1 cut(s)	371
RseI	CAYNNNNRTG	1 cut(s)	140
SatI	GCNGC	3 cut(s)	41, 69, 399
Sau3AI	GATC	2 cut(s)	86, 314
Sau96I	GGNCC	1 cut(s)	392
ScrFI	CCNGG	2 cut(s)	95, 352
SetI	ASST	5 cut(s)	18, 65, 372, 381, 441
SfaNI	GCATC	2 cut(s)	144, 417
SfcI	CTRYAG	1 cut(s)	396
SmiMI	CAYNNNNRTG	1 cut(s)	140
SphI	GCATGC	1 cut(s)	236
Sse9I	AATT	1 cut(s)	99
SsiI	CCGC	4 cut(s)	11, 31, 69, 210
SspMI	CTAG	1 cut(s)	302
StyD4I	CCNGG	2 cut(s)	93, 350
StyI	CCWWGG	3 cut(s)	44, 336, 382
TaaI	ACNGT	1 cut(s)	116
TaiI	ACGT	1 cut(s)	18
TasI	AATT	1 cut(s)	99
TauI	GCSGC	1 cut(s)	71
TfiI	GAWTC	3 cut(s)	216, 269, 293
TscAI	CASTG	1 cut(s)	119
TseI	GCWGC	2 cut(s)	40, 398
TspDTI	ATGAA	1 cut(s)	164
TspRI	CASTG	1 cut(s)	119
XagI	CCTNNNNNAGG	1 cut(s)	164
XbaI	TCTAGA	1 cut(s)	301
XceI	RCATGY	2 cut(s)	135, 236
XcmI	CCANNNNNNNNNTGG	1 cut(s)	409
XmnI	GAANNNNTTC	1 cut(s)	297
XspI	CTAG	1 cut(s)	302
Zsp2I	ATGCAT	1 cut(s)	137

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