Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0000643

Physical Location & Seq

Genomic Coordinates Forward (+)

15649872 .. 15654245

Gene Structure 4374 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG178200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 195 bp

ATGGATTTGGGGATTGGGGACGCTGCCGTGCCATCGTGGATATCGCCAATTTATTCTTTTTGTCTAGTTGTGGATATTGAAGGGAGAGAGGAAATACATCCCTGGACACACATGATGGAGGTACCCCAGCTCCATGGGTTTGGGCCTGCAGCCAATCGCTTATTGGAGGCATATAAGATGCTTTTGAAGGTATAG

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

64

Amino Acids

7.19

Weight (kDa)

5.04

Isoelectric Point (pI)

45.11

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Plant_NMP1	PF06694	30 - 64	3.7e-19	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)
Acc65I	GGTACC	1 cut(s)	121
AccB1I	GGYRCC	1 cut(s)	121
AfaI	GTAC	1 cut(s)	123
AgsI	TTSAA	2 cut(s)	80, 187
AjnI	CCWGG	1 cut(s)	101
AluBI	AGCT	1 cut(s)	130
AluI	AGCT	1 cut(s)	130
AoxI	GGCC	1 cut(s)	143
ApeKI	GCWGC	2 cut(s)	23, 149
Asp718I	GGTACC	1 cut(s)	121
AspS9I	GGNCC	1 cut(s)	143
BanI	GGYRCC	1 cut(s)	121
BbvI	GCAGC	2 cut(s)	10, 161
BccI	CCATC	2 cut(s)	40, 109
BceAI	ACGGC	1 cut(s)	11
BciT130I	CCWGG	1 cut(s)	103
BfaI	CTAG	1 cut(s)	65
BfmI	CTRYAG	1 cut(s)	147
BisI	GCNGC	2 cut(s)	24, 150
BlsI	GCNGC	2 cut(s)	25, 151
Bme1390I	CCNGG	1 cut(s)	103
BmgT120I	GGNCC	1 cut(s)	143
BmiI	GGNNCC	1 cut(s)	123
BmrFI	CCNGG	1 cut(s)	103
BmsI	GCATC	1 cut(s)	168
BsaJI	CCNNGG	2 cut(s)	101, 133
BsaXI	ACNNNNNCTCC	2 cut(s)	114, 144
BseBI	CCWGG	1 cut(s)	103
BseDI	CCNNGG	2 cut(s)	101, 133
BseGI	GGATG	1 cut(s)	97
BseXI	GCAGC	2 cut(s)	10, 161
BseYI	CCCAGC	1 cut(s)	126
BshFI	GGCC	1 cut(s)	145
BshNI	GGYRCC	1 cut(s)	121
BslFI	GGGAC	1 cut(s)	32
BsmFI	GGGAC	1 cut(s)	32
BsnI	GGCC	1 cut(s)	145
Bsp19I	CCATGG	1 cut(s)	133
BspANI	GGCC	1 cut(s)	145
BspLI	GGNNCC	1 cut(s)	123
BspMAI	CTGCAG	1 cut(s)	151
BspT107I	GGYRCC	1 cut(s)	121
BssECI	CCNNGG	2 cut(s)	101, 133
BssT1I	CCWWGG	1 cut(s)	133
Bst2UI	CCWGG	1 cut(s)	103
BstC8I	GCNNGC	1 cut(s)	147
BstDSI	CCRYGG	1 cut(s)	133
BstF5I	GGATG	1 cut(s)	97
BstNI	CCWGG	1 cut(s)	103
BstSCI	CCNGG	1 cut(s)	101
BstSFI	CTRYAG	1 cut(s)	147
BstV1I	GCAGC	2 cut(s)	10, 161
BstXI	CCANNNNNNTGG	2 cut(s)	134, 140
BsuRI	GGCC	1 cut(s)	145
BtgI	CCRYGG	1 cut(s)	133
BtsCI	GGATG	1 cut(s)	97
Cac8I	GCNNGC	1 cut(s)	147
Cfr13I	GGNCC	1 cut(s)	143
CseI	GACGC	1 cut(s)	29
Csp6I	GTAC	1 cut(s)	122
CviAII	CATG	2 cut(s)	112, 134
CviJI	RGCY	3 cut(s)	130, 145, 152
CviKI_1	RGCY	3 cut(s)	130, 145, 152
CviQI	GTAC	1 cut(s)	122
Eco130I	CCWWGG	1 cut(s)	133
Eco32I	GATATC	1 cut(s)	42
EcoRII	CCWGG	1 cut(s)	101
EcoRV	GATATC	1 cut(s)	42
EcoT14I	CCWWGG	1 cut(s)	133
ErhI	CCWWGG	1 cut(s)	133
FaeI	CATG	2 cut(s)	115, 137
FaiI	YATR	5 cut(s)	113, 135, 172, 174, 193
FaqI	GGGAC	1 cut(s)	32
FatI	CATG	2 cut(s)	111, 133
Fnu4HI	GCNGC	2 cut(s)	24, 150
FokI	GGATG	1 cut(s)	84
Fsp4HI	GCNGC	2 cut(s)	24, 150
FspBI	CTAG	1 cut(s)	65
GluI	GCNGC	2 cut(s)	24, 150
GsaI	CCCAGC	1 cut(s)	130
HaeIII	GGCC	1 cut(s)	145
HgaI	GACGC	1 cut(s)	29
Hin1II	CATG	2 cut(s)	115, 137
HpyAV	CCTTC	2 cut(s)	74, 181
HpyCH4V	TGCA	1 cut(s)	149
Hsp92II	CATG	2 cut(s)	115, 137
KpnI	GGTACC	1 cut(s)	125
LmnI	GCTCC	1 cut(s)	135
LpnPI	CCDG	4 cut(s)	88, 115, 140, 159
Lsp1109I	GCAGC	2 cut(s)	10, 161
LweI	GCATC	1 cut(s)	168
MaeI	CTAG	1 cut(s)	65
MluCI	AATT	1 cut(s)	48
MnlI	CCTC	3 cut(s)	82, 112, 160
MspR9I	CCNGG	1 cut(s)	103
MvaI	CCWGG	1 cut(s)	103
NcoI	CCATGG	1 cut(s)	133
NlaIII	CATG	2 cut(s)	115, 137
NlaIV	GGNNCC	1 cut(s)	123
PkrI	GCNGC	2 cut(s)	25, 151
Psp6I	CCWGG	1 cut(s)	101
PspFI	CCCAGC	1 cut(s)	126
PspGI	CCWGG	1 cut(s)	101
PspN4I	GGNNCC	1 cut(s)	123
PspPI	GGNCC	1 cut(s)	143
PstI	CTGCAG	1 cut(s)	151
RsaI	GTAC	1 cut(s)	123
RsaNI	GTAC	1 cut(s)	122
SatI	GCNGC	2 cut(s)	24, 150
Sau96I	GGNCC	1 cut(s)	143
ScrFI	CCNGG	1 cut(s)	103
SetI	ASST	3 cut(s)	123, 132, 192
SfaNI	GCATC	1 cut(s)	168
SfcI	CTRYAG	1 cut(s)	147
SgeI	CNNG	9 cut(s)	40, 48, 77, 114, 115, 124, 139, 146, 158
Sse9I	AATT	1 cut(s)	48
SspMI	CTAG	1 cut(s)	65
StyD4I	CCNGG	1 cut(s)	101
StyI	CCWWGG	1 cut(s)	133
TasI	AATT	1 cut(s)	48
TseI	GCWGC	2 cut(s)	23, 149
XcmI	CCANNNNNNNNNTGG	1 cut(s)	160
XspI	CTAG	1 cut(s)	65

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