Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000007

Orthogroup ID

OG0000643

Physical Location & Seq

Genomic Coordinates Forward (+)

24175964 .. 24178915

Gene Structure 2952 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_7G00184860.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 315 bp

ATGTCGTCTCGACACGTCTTCCTCCGGAACCGCCGGAGGCAGCCATGGTTCTCACGACTAAGCTTTGCTGCTTCGGTGGCGCCAAGATCTACCCTGCATGCTTACAACCCACATGAGAAGTATGCAGATGTGGAATCCACATTGCGTTCGCATTTGGAATCTTTTCTAGAAACTGCAAGATCATTCAATATGATTTACACCAAGGAAATACGTCCCTGGACACACATGATGGAGGTACCCCAGCTCCATGGGTTCGGGCCTGCAGCCAATCGCTTATTGGAGGCATATAAGATGCTTTTGAAGGTATCTCATTGA

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

104

Amino Acids

12.27

Weight (kDa)

10.4

Isoelectric Point (pI)

66.51

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Plant_NMP1	PF06694	30 - 102	5.6e-39	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

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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)	235
AccB1I	GGYRCC	2 cut(s)	79, 235
AccIII	TCCGGA	1 cut(s)	24
AciI	CCGC	1 cut(s)	31
AcyI	GRCGYC	1 cut(s)	80
AfaI	GTAC	1 cut(s)	237
AflIII	ACRYGT	1 cut(s)	13
AgsI	TTSAA	2 cut(s)	187, 301
AjiI	CACGTC	1 cut(s)	16
AjnI	CCWGG	1 cut(s)	215
AluBI	AGCT	2 cut(s)	63, 244
AluI	AGCT	2 cut(s)	63, 244
Alw26I	GTCTC	1 cut(s)	12
Aor13HI	TCCGGA	1 cut(s)	24
AoxI	GGCC	1 cut(s)	257
ApeKI	GCWGC	3 cut(s)	40, 68, 263
Asp700I	GAANNNNTTC	1 cut(s)	162
Asp718I	GGTACC	1 cut(s)	235
AspLEI	GCGC	1 cut(s)	82
AspS9I	GGNCC	1 cut(s)	257
BanI	GGYRCC	2 cut(s)	79, 235
BbsI	GAAGAC	1 cut(s)	10
BbvI	GCAGC	3 cut(s)	52, 55, 275
BccI	CCATC	1 cut(s)	223
BciT130I	CCWGG	1 cut(s)	217
BcoDI	GTCTC	1 cut(s)	12
BfaI	CTAG	1 cut(s)	167
BfmI	CTRYAG	1 cut(s)	261
BfoI	RGCGCY	1 cut(s)	83
BglII	AGATCT	1 cut(s)	86
BisI	GCNGC	3 cut(s)	41, 69, 264
BlsI	GCNGC	3 cut(s)	42, 70, 265
Bme1390I	CCNGG	1 cut(s)	217
BmgBI	CACGTC	1 cut(s)	16
BmgT120I	GGNCC	1 cut(s)	257
BmiI	GGNNCC	3 cut(s)	29, 81, 237
BmrFI	CCNGG	1 cut(s)	217
BmsI	GCATC	1 cut(s)	282
BpiI	GAAGAC	1 cut(s)	10
BsaHI	GRCGYC	1 cut(s)	80
BsaJI	CCNNGG	4 cut(s)	44, 201, 215, 247
BsaWI	WCCGGW	1 cut(s)	24
BsaXI	ACNNNNNCTCC	2 cut(s)	228, 258
Bse3DI	GCAATG	1 cut(s)	140
BseAI	TCCGGA	1 cut(s)	24
BseBI	CCWGG	1 cut(s)	217
BseDI	CCNNGG	4 cut(s)	44, 201, 215, 247
BseMI	GCAATG	1 cut(s)	140
BseXI	GCAGC	3 cut(s)	52, 55, 275
BseYI	CCCAGC	1 cut(s)	240
BshFI	GGCC	1 cut(s)	259
BshNI	GGYRCC	2 cut(s)	79, 235
BsiSI	CCGG	2 cut(s)	25, 34
BslFI	GGGAC	1 cut(s)	198
BsmAI	GTCTC	1 cut(s)	12
BsmBI	CGTCTC	1 cut(s)	12
BsmFI	GGGAC	1 cut(s)	198
BsnI	GGCC	1 cut(s)	259
Bsp13I	TCCGGA	1 cut(s)	24
Bsp143I	GATC	2 cut(s)	86, 179
Bsp19I	CCATGG	2 cut(s)	44, 247
BspACI	CCGC	1 cut(s)	31
BspANI	GGCC	1 cut(s)	259
BspEI	TCCGGA	1 cut(s)	24
BspLI	GGNNCC	3 cut(s)	29, 81, 237
BspMAI	CTGCAG	1 cut(s)	265
BspT107I	GGYRCC	2 cut(s)	79, 235
BsrDI	GCAATG	1 cut(s)	140
BssECI	CCNNGG	4 cut(s)	44, 201, 215, 247
BssMI	GATC	2 cut(s)	86, 179
BssNI	GRCGYC	1 cut(s)	80
BssT1I	CCWWGG	3 cut(s)	44, 201, 247
Bst2UI	CCWGG	1 cut(s)	217
BstACI	GRCGYC	1 cut(s)	80
BstC8I	GCNNGC	2 cut(s)	99, 261
BstDEI	CTNAG	1 cut(s)	59
BstDSI	CCRYGG	2 cut(s)	44, 247
BstH2I	RGCGCY	1 cut(s)	83
BstHHI	GCGC	1 cut(s)	82
BstKTI	GATC	2 cut(s)	89, 182
BstMAI	GTCTC	1 cut(s)	12
BstMBI	GATC	2 cut(s)	86, 179
BstMWI	GCNNNNNNNGC	1 cut(s)	77
BstNI	CCWGG	1 cut(s)	217
BstNSI	RCATGY	1 cut(s)	101
BstSCI	CCNGG	1 cut(s)	215
BstSFI	CTRYAG	1 cut(s)	261
BstV1I	GCAGC	3 cut(s)	52, 55, 275
BstV2I	GAAGAC	1 cut(s)	10
BstX2I	RGATCY	1 cut(s)	86
BstXI	CCANNNNNNTGG	1 cut(s)	248
BstYI	RGATCY	1 cut(s)	86
BsuRI	GGCC	1 cut(s)	259
BtgI	CCRYGG	2 cut(s)	44, 247
BtrI	CACGTC	1 cut(s)	16
Cac8I	GCNNGC	2 cut(s)	99, 261
CfoI	GCGC	1 cut(s)	82
Cfr13I	GGNCC	1 cut(s)	257
Csp6I	GTAC	1 cut(s)	236
CviAII	CATG	5 cut(s)	45, 98, 113, 226, 248
CviJI	RGCY	5 cut(s)	43, 63, 244, 259, 266
CviKI_1	RGCY	5 cut(s)	43, 63, 244, 259, 266
CviQI	GTAC	1 cut(s)	236
DdeI	CTNAG	1 cut(s)	59
DinI	GGCGCC	1 cut(s)	81
DpnI	GATC	2 cut(s)	88, 181
DpnII	GATC	2 cut(s)	86, 179
Eco130I	CCWWGG	3 cut(s)	44, 201, 247
EcoRII	CCWGG	1 cut(s)	215
EcoT14I	CCWWGG	3 cut(s)	44, 201, 247
EgeI	GGCGCC	1 cut(s)	81
EheI	GGCGCC	1 cut(s)	81
ErhI	CCWWGG	3 cut(s)	44, 201, 247
Esp3I	CGTCTC	1 cut(s)	12
FaeI	CATG	5 cut(s)	48, 101, 116, 229, 251
FaiI	YATR	9 cut(s)	46, 99, 114, 123, 191, 227, 249, 286, 288
FaqI	GGGAC	1 cut(s)	198
FatI	CATG	5 cut(s)	44, 97, 112, 225, 247
Fnu4HI	GCNGC	3 cut(s)	41, 69, 264
Fsp4HI	GCNGC	3 cut(s)	41, 69, 264
FspBI	CTAG	1 cut(s)	167
GlaI	GCGC	1 cut(s)	81
GluI	GCNGC	3 cut(s)	41, 69, 264
GsaI	CCCAGC	1 cut(s)	244
HaeII	RGCGCY	1 cut(s)	83
HaeIII	GGCC	1 cut(s)	259
HapII	CCGG	2 cut(s)	25, 34
HhaI	GCGC	1 cut(s)	82
Hin1I	GRCGYC	1 cut(s)	80
Hin1II	CATG	5 cut(s)	48, 101, 116, 229, 251
Hin6I	GCGC	1 cut(s)	80
HinP1I	GCGC	1 cut(s)	80
HindIII	AAGCTT	1 cut(s)	61
HinfI	GANTC	2 cut(s)	134, 158
HpaII	CCGG	2 cut(s)	25, 34
Hpy188III	TCNNGA	4 cut(s)	9, 25, 54, 167
HpyAV	CCTTC	1 cut(s)	295
HpyCH4IV	ACGT	2 cut(s)	15, 211
HpyCH4V	TGCA	4 cut(s)	97, 125, 176, 263
HpyF10VI	GCNNNNNNNGC	1 cut(s)	77
HpyF3I	CTNAG	1 cut(s)	59
HpySE526I	ACGT	2 cut(s)	15, 211
Hsp92I	GRCGYC	1 cut(s)	80
Hsp92II	CATG	5 cut(s)	48, 101, 116, 229, 251
HspAI	GCGC	1 cut(s)	80
KasI	GGCGCC	1 cut(s)	79
Kpn2I	TCCGGA	1 cut(s)	24
KpnI	GGTACC	1 cut(s)	239
Kzo9I	GATC	2 cut(s)	86, 179
LmnI	GCTCC	1 cut(s)	249
LpnPI	CCDG	7 cut(s)	38, 47, 107, 202, 229, 254, 273
Lsp1109I	GCAGC	3 cut(s)	52, 55, 275
LweI	GCATC	1 cut(s)	282
MaeI	CTAG	1 cut(s)	167
MaeII	ACGT	2 cut(s)	15, 211
MalI	GATC	2 cut(s)	88, 181
MboI	GATC	2 cut(s)	86, 179
MboII	GAAGA	1 cut(s)	10
MflI	RGATCY	1 cut(s)	86
Mly113I	GGCGCC	1 cut(s)	80
MnlI	CCTC	4 cut(s)	30, 32, 226, 274
MroI	TCCGGA	1 cut(s)	24
MroXI	GAANNNNTTC	1 cut(s)	162
MspI	CCGG	2 cut(s)	25, 34
MspR9I	CCNGG	1 cut(s)	217
MvaI	CCWGG	1 cut(s)	217
MwoI	GCNNNNNNNGC	1 cut(s)	77
NarI	GGCGCC	1 cut(s)	80
NcoI	CCATGG	2 cut(s)	44, 247
NdeII	GATC	2 cut(s)	86, 179
NlaIII	CATG	5 cut(s)	48, 101, 116, 229, 251
NlaIV	GGNNCC	3 cut(s)	29, 81, 237
NspI	RCATGY	1 cut(s)	101
PaeI	GCATGC	1 cut(s)	101
PdmI	GAANNNNTTC	1 cut(s)	162
PfeI	GAWTC	2 cut(s)	134, 158
PkrI	GCNGC	3 cut(s)	42, 70, 265
PluTI	GGCGCC	1 cut(s)	83
Psp6I	CCWGG	1 cut(s)	215
PspFI	CCCAGC	1 cut(s)	240
PspGI	CCWGG	1 cut(s)	215
PspN4I	GGNNCC	3 cut(s)	29, 81, 237
PspPI	GGNCC	1 cut(s)	257
PstI	CTGCAG	1 cut(s)	265
PsuI	RGATCY	1 cut(s)	86
RsaI	GTAC	1 cut(s)	237
RsaNI	GTAC	1 cut(s)	236
SatI	GCNGC	3 cut(s)	41, 69, 264
Sau3AI	GATC	2 cut(s)	86, 179
Sau96I	GGNCC	1 cut(s)	257
ScrFI	CCNGG	1 cut(s)	217
SetI	ASST	6 cut(s)	18, 65, 214, 237, 246, 306
SfaNI	GCATC	1 cut(s)	282
SfcI	CTRYAG	1 cut(s)	261
SfoI	GGCGCC	1 cut(s)	81
SphI	GCATGC	1 cut(s)	101
SsiI	CCGC	1 cut(s)	31
SspDI	GGCGCC	1 cut(s)	79
SspMI	CTAG	1 cut(s)	167
StyD4I	CCNGG	1 cut(s)	215
StyI	CCWWGG	3 cut(s)	44, 201, 247
TaiI	ACGT	2 cut(s)	18, 214
TaqI	TCGA	1 cut(s)	10
TfiI	GAWTC	2 cut(s)	134, 158
TseI	GCWGC	3 cut(s)	40, 68, 263
XbaI	TCTAGA	1 cut(s)	166
XceI	RCATGY	1 cut(s)	101
XcmI	CCANNNNNNNNNTGG	1 cut(s)	274
XmnI	GAANNNNTTC	1 cut(s)	162
XspI	CTAG	1 cut(s)	167

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