Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0000643

Physical Location & Seq

Genomic Coordinates Forward (+)

26922962 .. 26937230

Gene Structure 14269 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG166400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 240 bp

ATGATGGAGGTACCCCAGCTCCATGGGTTCGGGCCTGCAGCCAATTGCTTATTAGAGGCATATAAGATGCTTTTGAAGGTGGCTCGTGCTTCTGCATTCTCTCTTGGACTCGTCTATGGAAGCATTAAGCTTAGGGTCCTCAAGACGCTCGTTCAGATGATGGCCACAGTTGTGAAGAGTTGTTTCTGTCCAGCATGCACCGTGGCTTATGATGGTACTACCCTGCATCAGATGAAGTAA

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

79

Amino Acids

8.6

Weight (kDa)

9.27

Isoelectric Point (pI)

38.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Plant_NMP1	PF06694	1 - 29	2.8e-11	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)	10
AccB1I	GGYRCC	1 cut(s)	10
AcoI	YGGCCR	1 cut(s)	162
AfaI	GTAC	2 cut(s)	12, 217
AgsI	TTSAA	1 cut(s)	76
AleI	CACNNNNGTG	1 cut(s)	170
AluBI	AGCT	2 cut(s)	19, 130
AluI	AGCT	2 cut(s)	19, 130
AoxI	GGCC	2 cut(s)	32, 162
ApeKI	GCWGC	1 cut(s)	38
Asp718I	GGTACC	1 cut(s)	10
AspS9I	GGNCC	2 cut(s)	32, 136
AvaII	GGWCC	1 cut(s)	136
BalI	TGGCCA	1 cut(s)	164
BanI	GGYRCC	1 cut(s)	10
BauI	CACGAG	1 cut(s)	84
BbvI	GCAGC	1 cut(s)	50
BccI	CCATC	2 cut(s)	154, 206
BfmI	CTRYAG	1 cut(s)	36
BisI	GCNGC	1 cut(s)	39
BlsI	GCNGC	1 cut(s)	40
Bme18I	GGWCC	1 cut(s)	136
BmgT120I	GGNCC	2 cut(s)	32, 136
BmiI	GGNNCC	2 cut(s)	12, 137
BmsI	GCATC	2 cut(s)	57, 235
Bpu10I	CCTNAGC	1 cut(s)	131
BpuEI	CTTGAG	1 cut(s)	125
BsaJI	CCNNGG	2 cut(s)	22, 201
BsaXI	ACNNNNNCTCC	1 cut(s)	33
BseDI	CCNNGG	2 cut(s)	22, 201
BseXI	GCAGC	1 cut(s)	50
BseYI	CCCAGC	1 cut(s)	15
BshFI	GGCC	2 cut(s)	34, 164
BshNI	GGYRCC	1 cut(s)	10
BsmI	GAATGC	1 cut(s)	95
BsnI	GGCC	2 cut(s)	34, 164
Bsp19I	CCATGG	1 cut(s)	22
BspANI	GGCC	2 cut(s)	34, 164
BspLI	GGNNCC	2 cut(s)	12, 137
BspMAI	CTGCAG	1 cut(s)	40
BspT107I	GGYRCC	1 cut(s)	10
BssECI	CCNNGG	2 cut(s)	22, 201
BssSI	CACGAG	1 cut(s)	84
BssT1I	CCWWGG	1 cut(s)	22
Bst2BI	CACGAG	1 cut(s)	84
Bst4CI	ACNGT	2 cut(s)	169, 202
Bst6I	CTCTTC	1 cut(s)	170
BstC8I	GCNNGC	2 cut(s)	36, 196
BstDEI	CTNAG	1 cut(s)	131
BstDSI	CCRYGG	2 cut(s)	22, 201
BstNSI	RCATGY	1 cut(s)	198
BstSFI	CTRYAG	1 cut(s)	36
BstV1I	GCAGC	1 cut(s)	50
BstXI	CCANNNNNNTGG	1 cut(s)	23
BsuRI	GGCC	2 cut(s)	34, 164
BtgI	CCRYGG	2 cut(s)	22, 201
Cac8I	GCNNGC	2 cut(s)	36, 196
Cfr13I	GGNCC	2 cut(s)	32, 136
CseI	GACGC	1 cut(s)	154
Csp6I	GTAC	2 cut(s)	11, 216
CviAII	CATG	2 cut(s)	23, 195
CviJI	RGCY	7 cut(s)	19, 34, 41, 83, 130, 164, 206
CviKI_1	RGCY	7 cut(s)	19, 34, 41, 83, 130, 164, 206
CviQI	GTAC	2 cut(s)	11, 216
DdeI	CTNAG	1 cut(s)	131
EaeI	YGGCCR	1 cut(s)	162
Eam1104I	CTCTTC	1 cut(s)	170
EarI	CTCTTC	1 cut(s)	170
Eco130I	CCWWGG	1 cut(s)	22
Eco47I	GGWCC	1 cut(s)	136
EcoO109I	RGGNCCY	1 cut(s)	136
EcoT14I	CCWWGG	1 cut(s)	22
ErhI	CCWWGG	1 cut(s)	22
FaeI	CATG	2 cut(s)	26, 198
FaiI	YATR	6 cut(s)	24, 61, 63, 117, 196, 210
FatI	CATG	2 cut(s)	22, 194
Fnu4HI	GCNGC	1 cut(s)	39
Fsp4HI	GCNGC	1 cut(s)	39
GluI	GCNGC	1 cut(s)	39
GsaI	CCCAGC	1 cut(s)	19
HaeIII	GGCC	2 cut(s)	34, 164
HgaI	GACGC	1 cut(s)	154
Hin1II	CATG	2 cut(s)	26, 198
HindIII	AAGCTT	1 cut(s)	128
HinfI	GANTC	1 cut(s)	108
Hpy188I	TCNGA	2 cut(s)	156, 231
Hpy188III	TCNNGA	1 cut(s)	142
HpyAV	CCTTC	1 cut(s)	70
HpyCH4III	ACNGT	2 cut(s)	169, 202
HpyCH4V	TGCA	4 cut(s)	38, 95, 198, 226
HpyF3I	CTNAG	1 cut(s)	131
Hsp92II	CATG	2 cut(s)	26, 198
KpnI	GGTACC	1 cut(s)	14
LmnI	GCTCC	1 cut(s)	24
LpnPI	CCDG	4 cut(s)	29, 48, 204, 236
Lsp1109I	GCAGC	1 cut(s)	50
LweI	GCATC	2 cut(s)	57, 235
MboII	GAAGA	1 cut(s)	187
MfeI	CAATTG	1 cut(s)	43
MlsI	TGGCCA	1 cut(s)	164
MluCI	AATT	1 cut(s)	43
MluNI	TGGCCA	1 cut(s)	164
MlyI	GAGTC	1 cut(s)	102
MnlI	CCTC	2 cut(s)	49, 149
Mox20I	TGGCCA	1 cut(s)	164
MscI	TGGCCA	1 cut(s)	164
MseI	TTAA	1 cut(s)	126
MslI	CAYNNNNRTG	1 cut(s)	170
Msp20I	TGGCCA	1 cut(s)	164
MunI	CAATTG	1 cut(s)	43
Mva1269I	GAATGC	1 cut(s)	95
NcoI	CCATGG	1 cut(s)	22
NlaIII	CATG	2 cut(s)	26, 198
NlaIV	GGNNCC	2 cut(s)	12, 137
NspI	RCATGY	1 cut(s)	198
OliI	CACNNNNGTG	1 cut(s)	170
PaeI	GCATGC	1 cut(s)	198
PctI	GAATGC	1 cut(s)	95
PkrI	GCNGC	1 cut(s)	40
PleI	GAGTC	1 cut(s)	102
PpsI	GAGTC	1 cut(s)	102
PpuMI	RGGWCCY	1 cut(s)	136
Psp5II	RGGWCCY	1 cut(s)	136
PspFI	CCCAGC	1 cut(s)	15
PspN4I	GGNNCC	2 cut(s)	12, 137
PspPI	GGNCC	2 cut(s)	32, 136
PspPPI	RGGWCCY	1 cut(s)	136
PstI	CTGCAG	1 cut(s)	40
RsaI	GTAC	2 cut(s)	12, 217
RsaNI	GTAC	2 cut(s)	11, 216
RseI	CAYNNNNRTG	1 cut(s)	170
SaqAI	TTAA	1 cut(s)	126
SatI	GCNGC	1 cut(s)	39
Sau96I	GGNCC	2 cut(s)	32, 136
SchI	GAGTC	1 cut(s)	102
SetI	ASST	4 cut(s)	12, 21, 81, 132
SfaNI	GCATC	2 cut(s)	57, 235
SfcI	CTRYAG	1 cut(s)	36
SinI	GGWCC	1 cut(s)	136
SmiMI	CAYNNNNRTG	1 cut(s)	170
SmlI	CTYRAG	1 cut(s)	140
SmoI	CTYRAG	1 cut(s)	140
SphI	GCATGC	1 cut(s)	198
Sse9I	AATT	1 cut(s)	43
StyI	CCWWGG	1 cut(s)	22
TaaI	ACNGT	2 cut(s)	169, 202
TasI	AATT	1 cut(s)	43
Tru1I	TTAA	1 cut(s)	126
Tru9I	TTAA	1 cut(s)	126
TseI	GCWGC	1 cut(s)	38
VpaK11BI	GGWCC	1 cut(s)	136
XceI	RCATGY	1 cut(s)	198

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