Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0001989

Physical Location & Seq

Genomic Coordinates Reverse (-)

13144843 .. 13148899

Gene Structure 4057 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG072300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 294 bp

ATGGGTTCCAGGCAATCCAGTATGATGGGTTCGTCTCAGGTCATGAGGGATAGCTCCATTTCTGTAGTCGCTTGTGTTCTGATTGTCGCTTTGGGTCCTATCCAATTCGGCTTCACTTCTGGATATTCTTCTCCGACTCAAGTAGCAATCATCGTTGATCTTGGACTCTTAGTGTCAGAGCATGGTTACAACCCAGATGAGGAGTATGCAGAGGTAGAATCCAGATTGCGTTCACATTTGGAATCTTTTCTAGAAACTACAAGATCATTCAATATGATTTACACCGAGGTGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000325 GO:0003674 GO:0005215 GO:0005351 GO:0005355 GO:0005402 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005774 GO:0005794 GO:0006810 GO:0006811 GO:0006812 GO:0008150 GO:0008324 GO:0008643 GO:0008645 GO:0009705 GO:0010029 GO:0010030 GO:0012505 GO:0015075 GO:0015077 GO:0015078 GO:0015144 GO:0015145 GO:0015149 GO:0015291 GO:0015293 GO:0015294 GO:0015295 GO:0015318 GO:0015672 GO:0015749 GO:0016020 GO:0022804 GO:0022857 GO:0022890 GO:0031090 GO:0033500 GO:0034219 GO:0034220 GO:0042592 GO:0042593 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044437 GO:0044444 GO:0044446 GO:0044464 GO:0046323 GO:0048518 GO:0048580 GO:0048582 GO:0048878 GO:0050789 GO:0050793 GO:0051094 GO:0051119 GO:0051179 GO:0051234 GO:0051239 GO:0051240 GO:0055085 GO:0065007 GO:0065008 GO:0071702 GO:0098588 GO:0098655 GO:0098660 GO:0098662 GO:0098805 GO:1900140 GO:1902600 GO:1904659 GO:2000026

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Sugar_tr

Protein Analysis

97

Amino Acids

10.64

Weight (kDa)

4.6

Isoelectric Point (pI)

52.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Plant_NMP1	PF06694	57 - 96	3.4e-13	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: OG0001989)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G19450 AT1G75220
fragaria_vesca	FvH4_2g39720 FvH4_2g39720
malus_domestica	MD08G1030900.v1.1 MD15G1026400.v1.1
prunus_persica	Prupe.1G378500_v2.0.a1 Prupe.1G378500_v2.0.a1 Prupe.1G378500_v2.0.a1
pyrus_communis	pycom08g02430 pycom15g02240
rosa_chinensis	RchiOBHm_Chr2g0113321 RchiOBHm_Chr6g0286231 RchiOBHm_Chr6g0301141
rosa_laevigata	RLG00000011274 RLG00000023030 RLG00000029784
rosa_multiflora	Rmu_sc0000163.1_g000001 Rmu_sc0003433.1_g000002
rosa_roxburghii	Rroxscaffold_172G00445490 Rroxscaffold_1G00005260 Rroxscaffold_2G00122730 Rroxscaffold_6G00422220 Rroxscaffold_7G00167120
rosa_rugosa	Rorug02G0291400 Rorug06G0302000
rosa_samantha	Rh1CG067500 Rh1DG072300 Rh2BG617500 Rh2CG245100 Rh3DG215300 Rh4AG195000 Rh4BG151200 Rh5DG350800 Rh6AG287900 Rh6AG415200 Rh6BG422100 Rh6CG295000 Rh6CG429700 Rh6DG287000 Rh6DG415000 Rh7DG331600
rosa_wichuraiana	Rw3G027690 Rw4G014840 Rw5G039560

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AfiI	CCNNNNNNNGG	1 cut(s)	199
AgsI	TTSAA	1 cut(s)	271
AjnI	CCWGG	1 cut(s)	8
AleI	CACNNNNGTG	1 cut(s)	287
AluBI	AGCT	1 cut(s)	54
AluI	AGCT	1 cut(s)	54
Alw26I	GTCTC	1 cut(s)	39
Asp700I	GAANNNNTTC	1 cut(s)	246
AspS9I	GGNCC	1 cut(s)	95
AvaII	GGWCC	1 cut(s)	95
BccI	CCATC	1 cut(s)	19
BciT130I	CCWGG	1 cut(s)	10
BcoDI	GTCTC	1 cut(s)	39
BfaI	CTAG	1 cut(s)	251
BfmI	CTRYAG	1 cut(s)	63
Bme1390I	CCNGG	1 cut(s)	10
Bme18I	GGWCC	1 cut(s)	95
BmgT120I	GGNCC	1 cut(s)	95
BmiI	GGNNCC	2 cut(s)	7, 96
BmrFI	CCNGG	1 cut(s)	10
BpuEI	CTTGAG	1 cut(s)	123
BsaJI	CCNNGG	1 cut(s)	285
Bsc4I	CCNNNNNNNGG	1 cut(s)	199
Bse1I	ACTGG	1 cut(s)	18
BseBI	CCWGG	1 cut(s)	10
BseDI	CCNNGG	1 cut(s)	285
BseLI	CCNNNNNNNGG	1 cut(s)	199
BseMII	CTCAG	1 cut(s)	50
BseNI	ACTGG	1 cut(s)	18
BseRI	GAGGAG	1 cut(s)	215
BslI	CCNNNNNNNGG	1 cut(s)	199
BsmAI	GTCTC	1 cut(s)	39
BsmBI	CGTCTC	1 cut(s)	39
Bsp143I	GATC	2 cut(s)	157, 263
BspCNI	CTCAG	1 cut(s)	49
BspHI	TCATGA	1 cut(s)	42
BspLI	GGNNCC	2 cut(s)	7, 96
BsrI	ACTGG	1 cut(s)	18
BssECI	CCNNGG	1 cut(s)	285
BssMI	GATC	2 cut(s)	157, 263
Bst2UI	CCWGG	1 cut(s)	10
BstDEI	CTNAG	2 cut(s)	36, 169
BstKTI	GATC	2 cut(s)	160, 266
BstMAI	GTCTC	1 cut(s)	39
BstMBI	GATC	2 cut(s)	157, 263
BstNI	CCWGG	1 cut(s)	10
BstSCI	CCNGG	1 cut(s)	8
BstSFI	CTRYAG	1 cut(s)	63
BstXI	CCANNNNNNTGG	1 cut(s)	25
CciI	TCATGA	1 cut(s)	42
Cfr13I	GGNCC	1 cut(s)	95
CviAII	CATG	2 cut(s)	43, 182
CviJI	RGCY	2 cut(s)	54, 111
CviKI_1	RGCY	2 cut(s)	54, 111
DdeI	CTNAG	2 cut(s)	36, 169
DpnI	GATC	2 cut(s)	159, 265
DpnII	GATC	2 cut(s)	157, 263
Eco47I	GGWCC	1 cut(s)	95
EcoO109I	RGGNCCY	1 cut(s)	95
EcoRII	CCWGG	1 cut(s)	8
Esp3I	CGTCTC	1 cut(s)	39
FaeI	CATG	2 cut(s)	46, 185
FaiI	YATR	5 cut(s)	23, 44, 183, 207, 275
FatI	CATG	2 cut(s)	42, 181
FspBI	CTAG	1 cut(s)	251
Hin1II	CATG	2 cut(s)	46, 185
HinfI	GANTC	4 cut(s)	136, 165, 218, 242
Hpy166II	GTNNAC	1 cut(s)	233
Hpy188I	TCNGA	3 cut(s)	81, 135, 178
Hpy188III	TCNNGA	4 cut(s)	43, 120, 222, 251
Hpy8I	GTNNAC	1 cut(s)	233
HpyCH4V	TGCA	1 cut(s)	209
HpyF3I	CTNAG	2 cut(s)	36, 169
Hsp92II	CATG	2 cut(s)	46, 185
Kzo9I	GATC	2 cut(s)	157, 263
LmnI	GCTCC	1 cut(s)	59
LpnPI	CCDG	6 cut(s)	22, 23, 31, 105, 207, 235
MaeI	CTAG	1 cut(s)	251
MaeIII	GTNAC	1 cut(s)	185
MalI	GATC	2 cut(s)	159, 265
MboI	GATC	2 cut(s)	157, 263
MboII	GAAGA	1 cut(s)	120
MluCI	AATT	1 cut(s)	104
MlyI	GAGTC	2 cut(s)	130, 159
MmeI	TCCRAC	1 cut(s)	158
MnlI	CCTC	4 cut(s)	39, 193, 205, 280
MroXI	GAANNNNTTC	1 cut(s)	246
MslI	CAYNNNNRTG	1 cut(s)	287
MspR9I	CCNGG	1 cut(s)	10
MvaI	CCWGG	1 cut(s)	10
NdeII	GATC	2 cut(s)	157, 263
NlaIII	CATG	2 cut(s)	46, 185
NlaIV	GGNNCC	2 cut(s)	7, 96
OliI	CACNNNNGTG	1 cut(s)	287
PagI	TCATGA	1 cut(s)	42
PdmI	GAANNNNTTC	1 cut(s)	246
PfeI	GAWTC	2 cut(s)	218, 242
PleI	GAGTC	2 cut(s)	130, 159
PpsI	GAGTC	2 cut(s)	130, 159
PpuMI	RGGWCCY	1 cut(s)	95
Psp5II	RGGWCCY	1 cut(s)	95
Psp6I	CCWGG	1 cut(s)	8
PspGI	CCWGG	1 cut(s)	8
PspN4I	GGNNCC	2 cut(s)	7, 96
PspPI	GGNCC	1 cut(s)	95
PspPPI	RGGWCCY	1 cut(s)	95
PsrI	GAACNNNNNNTAC	2 cut(s)	13, 45
RseI	CAYNNNNRTG	1 cut(s)	287
Sau3AI	GATC	2 cut(s)	157, 263
Sau96I	GGNCC	1 cut(s)	95
SchI	GAGTC	2 cut(s)	130, 159
ScrFI	CCNGG	1 cut(s)	10
SetI	ASST	4 cut(s)	42, 56, 216, 291
SfcI	CTRYAG	1 cut(s)	63
SinI	GGWCC	1 cut(s)	95
SmiMI	CAYNNNNRTG	1 cut(s)	287
SmlI	CTYRAG	1 cut(s)	138
SmoI	CTYRAG	1 cut(s)	138
Sse9I	AATT	1 cut(s)	104
SspMI	CTAG	1 cut(s)	251
StyD4I	CCNGG	1 cut(s)	8
TasI	AATT	1 cut(s)	104
TfiI	GAWTC	2 cut(s)	218, 242
VpaK11BI	GGWCC	1 cut(s)	95
XbaI	TCTAGA	1 cut(s)	250
XmnI	GAANNNNTTC	1 cut(s)	246
XspI	CTAG	1 cut(s)	251

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