Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0001002

Physical Location & Seq

Genomic Coordinates Reverse (-)

4384038 .. 4384328

Gene Structure 291 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0058100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 291 bp

ATGATCAAGAAAAGCCGAGTCGAAGAGGACTTGGGGGATGATGGAAACAATGTAGACTTTTCTTCACTAATCCAAGATATTATGGGGAGAAGAGGAAAGAGGCAATACAGGAATTATGGTGACGACGGCGATGATCGTGCTATGGTGTCTGGCTTTAATGATATTCTGAAAGAAGAGAGGAGGAGTGCAGAGATTGCGAGGAAGGAGGATGCAATAGAGGCTCTAAGGCTTGAGCAAGAAGCCAAAGAAGAGAGGTTGAGCATAGCAAAGAAGCAGAAGTTGAAGAATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001101 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0007275 GO:0008150 GO:0009719 GO:0009725 GO:0009737 GO:0009791 GO:0010033 GO:0010154 GO:0022414 GO:0032501 GO:0032502 GO:0033993 GO:0042221 GO:0044424 GO:0044444 GO:0044464 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050896 GO:0061458 GO:0097159 GO:0097305 GO:1901363 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

LEA_5

Protein Analysis

96

Amino Acids

11.1

Weight (kDa)

5.6

Isoelectric Point (pI)

57.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SPT2	PF08243	10 - 85	2.9e-14	SPT2 chromatin protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0001002)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G40170 AT3G51810 AT3G51810
fragaria_vesca	FvH4_6g11140 FvH4_6g11160 FvH4_6g11170 FvH4_6g11180 FvH4_7g24640
malus_domestica	MD00G1062000.v1.1 MD04G1121100.v1.1
prunus_persica	Prupe.2G252100_v2.0.a1 Prupe.6G280200_v2.0.a1 Prupe.6G280300_v2.0.a1
pyrus_communis	pycom12g16320
rosa_chinensis	RchiOBHm_Chr3g0462601 RchiOBHm_Chr3g0462611 RchiOBHm_Chr3g0462621
rosa_laevigata	RLG00000024845 RLG00000024846 RLG00000028989
rosa_multiflora	Rmu_co8007370.1_g000001 Rmu_co8521225.1_g000002 Rmu_sc0002882.1_g000003 Rmu_sc0002882.1_g000004 Rmu_sc0002882.1_g000006 Rmu_sc0002882.1_g000007 Rmu_sc0003624.1_g000025 Rmu_sc0003624.1_g000026 Rmu_sc0006766.1_g000011 Rmu_sc0015198.1_g000001
rosa_roxburghii	Rroxscaffold_3G00269140 Rroxscaffold_4G00286530 Rroxscaffold_4G00310890 Rroxscaffold_4G00310930 Rroxscaffold_6G00417350 Rroxscaffold_6G00417360 Rroxscaffold_6G00417370
rosa_rugosa	Rorug01G0357000 Rorug03G0057700 Rorug03G0057800 Rorug03G0057900 Rorug03G0058000 Rorug03G0058100 Rorug03G0058200
rosa_samantha	Rh1BG328500 Rh1CG341600 Rh1DG358800 Rh3AG115900 Rh3AG116000 Rh3AG116200 Rh3AG116300 Rh3BG119400 Rh3BG119500 Rh3BG119700 Rh3BG119800 Rh3CG122700 Rh3CG122800 Rh3CG123000 Rh3DG121500 Rh3DG121600 Rh3DG121700
rosa_wichuraiana	Rw3G009820

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	54
AgsI	TTSAA	1 cut(s)	283
AsuHPI	GGTGA	1 cut(s)	131
BccI	CCATC	1 cut(s)	35
BceAI	ACGGC	1 cut(s)	142
BcgI	CGANNNNNNTGC	2 cut(s)	119, 153
BclI	TGATCA	1 cut(s)	3
BmsI	GCATC	1 cut(s)	199
BpuEI	CTTGAG	1 cut(s)	251
BseGI	GGATG	2 cut(s)	43, 214
BseRI	GAGGAG	2 cut(s)	193, 196
BsgI	GTGCAG	1 cut(s)	207
Bsp143I	GATC	2 cut(s)	3, 133
BssMI	GATC	2 cut(s)	3, 133
Bst6I	CTCTTC	4 cut(s)	18, 85, 168, 243
BstAPI	GCANNNNNTGC	1 cut(s)	194
BstDEI	CTNAG	1 cut(s)	224
BstF5I	GGATG	2 cut(s)	43, 214
BstKTI	GATC	2 cut(s)	6, 136
BstMBI	GATC	2 cut(s)	3, 133
BstMWI	GCNNNNNNNGC	2 cut(s)	194, 218
BtgZI	GCGATG	1 cut(s)	144
BtsCI	GGATG	2 cut(s)	43, 214
CviJI	RGCY	5 cut(s)	15, 153, 221, 229, 242
CviKI_1	RGCY	5 cut(s)	15, 153, 221, 229, 242
DdeI	CTNAG	1 cut(s)	224
DpnI	GATC	2 cut(s)	5, 135
DpnII	GATC	2 cut(s)	3, 133
Eam1104I	CTCTTC	4 cut(s)	18, 85, 168, 243
EarI	CTCTTC	4 cut(s)	18, 85, 168, 243
FaiI	YATR	4 cut(s)	83, 117, 143, 263
FbaI	TGATCA	1 cut(s)	3
FblI	GTMKAC	1 cut(s)	54
FokI	GGATG	2 cut(s)	50, 221
HinfI	GANTC	1 cut(s)	18
HphI	GGTGA	1 cut(s)	131
Hpy166II	GTNNAC	1 cut(s)	55
Hpy188I	TCNGA	1 cut(s)	168
Hpy188III	TCNNGA	1 cut(s)	7
Hpy8I	GTNNAC	1 cut(s)	55
Hpy99I	CGWCG	1 cut(s)	128
HpyAV	CCTTC	1 cut(s)	196
HpyCH4V	TGCA	2 cut(s)	188, 212
HpyF10VI	GCNNNNNNNGC	2 cut(s)	194, 218
HpyF3I	CTNAG	1 cut(s)	224
Ksp22I	TGATCA	1 cut(s)	3
Kzo9I	GATC	2 cut(s)	3, 133
LpnPI	CCDG	2 cut(s)	94, 135
LweI	GCATC	1 cut(s)	199
MaeIII	GTNAC	1 cut(s)	119
MalI	GATC	2 cut(s)	5, 135
MboI	GATC	2 cut(s)	3, 133
MboII	GAAGA	5 cut(s)	35, 54, 102, 185, 260
MluCI	AATT	2 cut(s)	112, 286
MlyI	GAGTC	1 cut(s)	27
MnlI	CCTC	9 cut(s)	19, 86, 93, 171, 174, 192, 199, 211, 246
MseI	TTAA	1 cut(s)	156
MwoI	GCNNNNNNNGC	2 cut(s)	194, 218
NdeII	GATC	2 cut(s)	3, 133
NmeAIII	GCCGAG	1 cut(s)	41
NmuCI	GTSAC	1 cut(s)	119
PleI	GAGTC	1 cut(s)	26
PpsI	GAGTC	1 cut(s)	26
SaqAI	TTAA	1 cut(s)	156
Sau3AI	GATC	2 cut(s)	3, 133
SchI	GAGTC	1 cut(s)	27
SetI	ASST	1 cut(s)	257
SfaNI	GCATC	1 cut(s)	199
SmlI	CTYRAG	1 cut(s)	230
SmoI	CTYRAG	1 cut(s)	230
Sse9I	AATT	2 cut(s)	112, 286
TaqI	TCGA	1 cut(s)	21
TasI	AATT	2 cut(s)	112, 286
Tru1I	TTAA	1 cut(s)	156
Tru9I	TTAA	1 cut(s)	156
TseFI	GTSAC	1 cut(s)	119
Tsp45I	GTSAC	1 cut(s)	119
XmiI	GTMKAC	1 cut(s)	54

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