Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0000643

Physical Location & Seq

Genomic Coordinates Reverse (-)

31451205 .. 31459314

Gene Structure 8110 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG164400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 261 bp

ATGGTGAAGAAGAATAAGTGGGAGCATGGAGGATTTGGCATGATGTTTCAGAGCTGGAACAAAGGCTTACAGAACAATCAAAGATACTCTCAAGTCTTCAACAACAGGTTGATGATTTGGCATCAAAGGCATGATGTTTCTGAGCTGGAGCAAAAGCTTACAGAACAATCAAAGATACTCTCAAGTCTTCAACAAAAGGTTGATGATTTGGCATCAAAGCATGCTTACAACCCAGATGAGGAGTATGCAGGGGTAGAATAG

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

86

Amino Acids

10.21

Weight (kDa)

6.91

Isoelectric Point (pI)

53.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Plant_NMP1	PF06694	44 - 86	7.5e-14	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)

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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)
AfiI	CCNNNNNNNGG	1 cut(s)	238
AgsI	TTSAA	2 cut(s)	100, 191
AluBI	AGCT	3 cut(s)	54, 145, 157
AluI	AGCT	3 cut(s)	54, 145, 157
AsuHPI	GGTGA	1 cut(s)	16
BbsI	GAAGAC	2 cut(s)	88, 179
BmsI	GCATC	2 cut(s)	130, 221
BpiI	GAAGAC	2 cut(s)	88, 179
BpmI	CTGGAG	1 cut(s)	167
BpuEI	CTTGAG	2 cut(s)	75, 166
Bsc4I	CCNNNNNNNGG	1 cut(s)	238
BseLI	CCNNNNNNNGG	1 cut(s)	238
BseMII	CTCAG	1 cut(s)	132
BseRI	GAGGAG	1 cut(s)	254
BslI	CCNNNNNNNGG	1 cut(s)	238
BspCNI	CTCAG	1 cut(s)	133
BstC8I	GCNNGC	1 cut(s)	222
BstDEI	CTNAG	1 cut(s)	141
BstMWI	GCNNNNNNNGC	1 cut(s)	127
BstNSI	RCATGY	1 cut(s)	224
BstV2I	GAAGAC	2 cut(s)	88, 179
Cac8I	GCNNGC	1 cut(s)	222
CviAII	CATG	4 cut(s)	26, 40, 131, 221
CviJI	RGCY	4 cut(s)	54, 66, 145, 157
CviKI_1	RGCY	4 cut(s)	54, 66, 145, 157
DdeI	CTNAG	1 cut(s)	141
FaeI	CATG	4 cut(s)	29, 43, 134, 224
FaiI	YATR	5 cut(s)	27, 41, 132, 222, 246
FatI	CATG	4 cut(s)	25, 39, 130, 220
GsuI	CTGGAG	1 cut(s)	167
Hin1II	CATG	4 cut(s)	29, 43, 134, 224
HindIII	AAGCTT	1 cut(s)	155
HphI	GGTGA	1 cut(s)	16
Hpy188I	TCNGA	2 cut(s)	51, 142
HpyCH4V	TGCA	1 cut(s)	248
HpyF10VI	GCNNNNNNNGC	1 cut(s)	127
HpyF3I	CTNAG	1 cut(s)	141
Hsp92II	CATG	4 cut(s)	29, 43, 134, 224
LmnI	GCTCC	2 cut(s)	22, 148
LpnPI	CCDG	5 cut(s)	40, 91, 131, 234, 246
LweI	GCATC	2 cut(s)	130, 221
MboII	GAAGA	4 cut(s)	19, 22, 88, 179
MnlI	CCTC	2 cut(s)	23, 232
MwoI	GCNNNNNNNGC	1 cut(s)	127
NlaIII	CATG	4 cut(s)	29, 43, 134, 224
NspI	RCATGY	1 cut(s)	224
PaeI	GCATGC	1 cut(s)	224
SetI	ASST	5 cut(s)	56, 110, 147, 159, 201
SfaNI	GCATC	2 cut(s)	130, 221
SmlI	CTYRAG	2 cut(s)	90, 181
SmoI	CTYRAG	2 cut(s)	90, 181
SphI	GCATGC	1 cut(s)	224
XceI	RCATGY	1 cut(s)	224

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