Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0000643

Physical Location & Seq

Genomic Coordinates Reverse (-)

17258389 .. 17261785

Gene Structure 3397 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00231870.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 309 bp

ATGATGTTTCGAGCTGGAAAAAATGCTTACGAACAATCAAAGATACTCTCAAGTCTTCAACAACAGTTTGATGATTTGGCATCAAAGCATGCTTACAACCCGGATGAGAAGTATGCAGAGAATAATATGTTTAAATGGAGCAGCGAAGGCATTAACCATAAAGCACAGATGCGAAGGATGCAGTTTGATCATTCCTTTGTCCAGAAATTACAAGGGAAGTCCACGAAACTTTTGGGAGATCTTTTCTGGCGACTTACTTGGAGTTTTTCTCAAATGTTGTTGATCAATCTAGAAGATATGATGTCATAG

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

102

Amino Acids

12.1

Weight (kDa)

8.96

Isoelectric Point (pI)

41.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Plant_NMP1	PF06694	10 - 42	9.3e-08	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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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)
AgsI	TTSAA	1 cut(s)	59
AluBI	AGCT	1 cut(s)	14
AluI	AGCT	1 cut(s)	14
ApeKI	GCWGC	1 cut(s)	141
AsuC2I	CCSGG	1 cut(s)	101
BbsI	GAAGAC	1 cut(s)	47
BbvI	GCAGC	1 cut(s)	153
BclI	TGATCA	2 cut(s)	187, 282
BcnI	CCSGG	1 cut(s)	101
BfaI	CTAG	1 cut(s)	290
BglII	AGATCT	1 cut(s)	238
BisI	GCNGC	1 cut(s)	142
BlsI	GCNGC	1 cut(s)	143
Bme1390I	CCNGG	1 cut(s)	101
BmrFI	CCNGG	1 cut(s)	101
BmsI	GCATC	3 cut(s)	89, 159, 168
BpiI	GAAGAC	1 cut(s)	47
BplI	GAGNNNNNCTC	2 cut(s)	253, 285
BpuEI	CTTGAG	1 cut(s)	34
BpuMI	CCSGG	1 cut(s)	101
BseGI	GGATG	2 cut(s)	109, 183
BseXI	GCAGC	1 cut(s)	153
BsiSI	CCGG	1 cut(s)	101
Bsp143I	GATC	3 cut(s)	187, 238, 282
BssMI	GATC	3 cut(s)	187, 238, 282
Bst4CI	ACNGT	1 cut(s)	66
BstC8I	GCNNGC	1 cut(s)	90
BstF5I	GGATG	2 cut(s)	109, 183
BstKTI	GATC	3 cut(s)	190, 241, 285
BstMBI	GATC	3 cut(s)	187, 238, 282
BstMWI	GCNNNNNNNGC	2 cut(s)	147, 178
BstNSI	RCATGY	1 cut(s)	92
BstSCI	CCNGG	1 cut(s)	99
BstV1I	GCAGC	1 cut(s)	153
BstV2I	GAAGAC	1 cut(s)	47
BstX2I	RGATCY	1 cut(s)	238
BstYI	RGATCY	1 cut(s)	238
BtsCI	GGATG	2 cut(s)	109, 183
Cac8I	GCNNGC	1 cut(s)	90
CviAII	CATG	1 cut(s)	89
CviJI	RGCY	1 cut(s)	14
CviKI_1	RGCY	1 cut(s)	14
DpnI	GATC	3 cut(s)	189, 240, 284
DpnII	GATC	3 cut(s)	187, 238, 282
DraI	TTTAAA	1 cut(s)	133
FaeI	CATG	1 cut(s)	92
FaiI	YATR	6 cut(s)	90, 114, 128, 159, 299, 307
FatI	CATG	1 cut(s)	88
FbaI	TGATCA	2 cut(s)	187, 282
Fnu4HI	GCNGC	1 cut(s)	142
FokI	GGATG	2 cut(s)	116, 190
Fsp4HI	GCNGC	1 cut(s)	142
FspBI	CTAG	1 cut(s)	290
GluI	GCNGC	1 cut(s)	142
HapII	CCGG	1 cut(s)	101
Hin1II	CATG	1 cut(s)	92
HpaII	CCGG	1 cut(s)	101
Hpy166II	GTNNAC	1 cut(s)	222
Hpy188III	TCNNGA	2 cut(s)	202, 290
Hpy8I	GTNNAC	1 cut(s)	222
HpyAV	CCTTC	2 cut(s)	140, 168
HpyCH4III	ACNGT	1 cut(s)	66
HpyCH4V	TGCA	2 cut(s)	116, 181
HpyF10VI	GCNNNNNNNGC	2 cut(s)	147, 178
Hsp92II	CATG	1 cut(s)	92
Ksp22I	TGATCA	2 cut(s)	187, 282
Kzo9I	GATC	3 cut(s)	187, 238, 282
LmnI	GCTCC	1 cut(s)	138
LpnPI	CCDG	3 cut(s)	114, 215, 232
Lsp1109I	GCAGC	1 cut(s)	153
LweI	GCATC	3 cut(s)	89, 159, 168
MaeI	CTAG	1 cut(s)	290
MalI	GATC	3 cut(s)	189, 240, 284
MboI	GATC	3 cut(s)	187, 238, 282
MboII	GAAGA	2 cut(s)	47, 305
MflI	RGATCY	1 cut(s)	238
MluCI	AATT	1 cut(s)	206
MseI	TTAA	2 cut(s)	132, 153
MspI	CCGG	1 cut(s)	101
MspR9I	CCNGG	1 cut(s)	101
MwoI	GCNNNNNNNGC	2 cut(s)	147, 178
NciI	CCSGG	1 cut(s)	101
NdeII	GATC	3 cut(s)	187, 238, 282
NlaIII	CATG	1 cut(s)	92
NspI	RCATGY	1 cut(s)	92
PaeI	GCATGC	1 cut(s)	92
PkrI	GCNGC	1 cut(s)	143
PsuI	RGATCY	1 cut(s)	238
SaqAI	TTAA	2 cut(s)	132, 153
SatI	GCNGC	1 cut(s)	142
Sau3AI	GATC	3 cut(s)	187, 238, 282
ScrFI	CCNGG	1 cut(s)	101
SetI	ASST	1 cut(s)	16
SfaNI	GCATC	3 cut(s)	89, 159, 168
SmlI	CTYRAG	1 cut(s)	49
SmoI	CTYRAG	1 cut(s)	49
SphI	GCATGC	1 cut(s)	92
Sse9I	AATT	1 cut(s)	206
SspMI	CTAG	1 cut(s)	290
StyD4I	CCNGG	1 cut(s)	99
TaaI	ACNGT	1 cut(s)	66
TaqI	TCGA	1 cut(s)	10
TasI	AATT	1 cut(s)	206
Tru1I	TTAA	2 cut(s)	132, 153
Tru9I	TTAA	2 cut(s)	132, 153
TseI	GCWGC	1 cut(s)	141
XbaI	TCTAGA	1 cut(s)	289
XceI	RCATGY	1 cut(s)	92
XcmI	CCANNNNNNNNNTGG	1 cut(s)	229
XspI	CTAG	1 cut(s)	290

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