Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0002155

Physical Location & Seq

Genomic Coordinates Forward (+)

9601970 .. 9604920

Gene Structure 2951 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0118400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 390 bp

ATGGGAAGGCTGTTTCTGCTGACTCTTGAAGGACACGTCTATAGCTGCAAGTACTGCAGAACCCATCTTGCTCTTGCTGATGACATTCTCTCTCGGTCTTTTCACTGCAGGCATGGAAAGGCTTATCTTTTCGATAATGTTGTAAATGTCACAGATGGAGAGAAAGAAGAGCGGATCATGATAACAGGACTGCATACTGTTGTTGACATCTTTTGTGTTTCATGTGGCTCAATTGTGGGGTGGAAATATGAGGCTGCACATGAGAAAAGCCAGAAGTACAAGGAGGGGAAATTTATCCTTGAGAGATTCAAGATTCTTGGTCCTGATGGAAGCAACTACTCGATAGCTCAGGAAGCTCATATTGGTGGAAGTGATGGTGATGATGCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009451 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0016070 GO:0016787 GO:0016788 GO:0022414 GO:0032501 GO:0032502 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0061458 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

129

Amino Acids

14.44

Weight (kDa)

6.14

Isoelectric Point (pI)

24.41

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Yippee-Mis18	PF03226	13 - 105	1.2e-13	Yippee zinc-binding/DNA-binding /Mis18, centromere assembly

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0002155)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g17371
rosa_chinensis	RchiOBHm_Chr3g0471371 RchiOBHm_Chr3g0471581
rosa_laevigata	RLG00000010740 RLG00000015053 RLG00000024155 RLG00000024164 RLG00000024165 RLG00000024167 RLG00000024171 RLG00000024183
rosa_multiflora	Rmu_sc0005634.1_g000007 Rmu_sc0006582.1_g000002 Rmu_sc0006582.1_g000017 Rmu_sc0010513.1_g000002
rosa_roxburghii	Rroxscaffold_6G00409790 Rroxscaffold_6G00409870 Rroxscaffold_6G00410010 Rroxscaffold_7G00161210
rosa_rugosa	Rorug03G0118400
rosa_samantha	Rh3AG168200 Rh3AG168600 Rh3AG168800 Rh3BG192600 Rh3BG193800 Rh3BG194100 Rh3BG194400 Rh3BG194600 Rh3CG182900 Rh3CG184700 Rh3CG184800 Rh3CG185000 Rh3CG185200 Rh3CG185300 Rh3DG180200 Rh3DG180400 Rh3DG180800 Rh3DG181000 Rh3DG181700 Rh3DG183000 Rh6AG466900 Rh6DG468700
rosa_wichuraiana	Rw3G015740 Rw6G040700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	172
AciI	CCGC	1 cut(s)	172
AclWI	GGATC	1 cut(s)	182
AcsI	RAATTY	1 cut(s)	290
AfaI	GTAC	2 cut(s)	53, 278
AflIII	ACRYGT	1 cut(s)	34
AgsI	TTSAA	2 cut(s)	29, 310
AjiI	CACGTC	1 cut(s)	37
AjuI	GAANNNNNNNTTGG	2 cut(s)	345, 377
AluBI	AGCT	3 cut(s)	45, 347, 356
AluI	AGCT	3 cut(s)	45, 347, 356
AlwI	GGATC	1 cut(s)	182
ApeKI	GCWGC	2 cut(s)	45, 254
ApoI	RAATTY	1 cut(s)	290
AspS9I	GGNCC	1 cut(s)	320
AsuHPI	GGTGA	1 cut(s)	389
AvaII	GGWCC	1 cut(s)	320
BbvI	GCAGC	2 cut(s)	32, 241
BccI	CCATC	4 cut(s)	72, 149, 320, 368
BfmI	CTRYAG	3 cut(s)	40, 55, 106
BisI	GCNGC	2 cut(s)	46, 255
BlsI	GCNGC	2 cut(s)	47, 256
BmcAI	AGTACT	1 cut(s)	53
Bme18I	GGWCC	1 cut(s)	320
BmgBI	CACGTC	1 cut(s)	37
BmgT120I	GGNCC	1 cut(s)	320
BmsI	GCATC	1 cut(s)	373
Bpu10I	CCTNAGC	1 cut(s)	348
BpuEI	CTTGAG	1 cut(s)	320
BseMII	CTCAG	1 cut(s)	362
BseXI	GCAGC	2 cut(s)	32, 241
BsgI	GTGCAG	1 cut(s)	240
Bsp143I	GATC	1 cut(s)	174
BspACI	CCGC	1 cut(s)	172
BspCNI	CTCAG	1 cut(s)	361
BspHI	TCATGA	1 cut(s)	177
BspMAI	CTGCAG	2 cut(s)	59, 110
BspPI	GGATC	1 cut(s)	182
BspQI	GCTCTTC	1 cut(s)	162
BsrBI	CCGCTC	1 cut(s)	172
BssMI	GATC	1 cut(s)	174
Bst4CI	ACNGT	1 cut(s)	199
Bst6I	CTCTTC	1 cut(s)	162
BstAPI	GCANNNNNTGC	1 cut(s)	54
BstC8I	GCNNGC	1 cut(s)	110
BstDEI	CTNAG	1 cut(s)	348
BstKTI	GATC	1 cut(s)	177
BstMBI	GATC	1 cut(s)	174
BstMWI	GCNNNNNNNGC	3 cut(s)	16, 54, 353
BstSFI	CTRYAG	3 cut(s)	40, 55, 106
BstV1I	GCAGC	2 cut(s)	32, 241
BtrI	CACGTC	1 cut(s)	37
BtsI	GCAGTG	1 cut(s)	103
BtsIMutI	CAGTG	1 cut(s)	103
Cac8I	GCNNGC	1 cut(s)	110
CciI	TCATGA	1 cut(s)	177
Cfr13I	GGNCC	1 cut(s)	320
Csp6I	GTAC	2 cut(s)	52, 277
CviAII	CATG	4 cut(s)	113, 178, 222, 260
CviJI	RGCY	8 cut(s)	10, 45, 122, 228, 254, 270, 347, 356
CviKI_1	RGCY	8 cut(s)	10, 45, 122, 228, 254, 270, 347, 356
CviQI	GTAC	2 cut(s)	52, 277
DdeI	CTNAG	1 cut(s)	348
DpnI	GATC	1 cut(s)	176
DpnII	GATC	1 cut(s)	174
Eam1104I	CTCTTC	1 cut(s)	162
EarI	CTCTTC	1 cut(s)	162
Eco47I	GGWCC	1 cut(s)	320
FaeI	CATG	4 cut(s)	116, 181, 225, 263
FaiI	YATR	8 cut(s)	42, 114, 179, 195, 223, 249, 261, 360
FatI	CATG	4 cut(s)	112, 177, 221, 259
Fnu4HI	GCNGC	2 cut(s)	46, 255
Fsp4HI	GCNGC	2 cut(s)	46, 255
GluI	GCNGC	2 cut(s)	46, 255
Hin1II	CATG	4 cut(s)	116, 181, 225, 263
HincII	GTYRAC	1 cut(s)	205
HindII	GTYRAC	1 cut(s)	205
HinfI	GANTC	3 cut(s)	22, 306, 313
HphI	GGTGA	1 cut(s)	389
Hpy166II	GTNNAC	1 cut(s)	205
Hpy188III	TCNNGA	5 cut(s)	26, 178, 310, 323, 350
Hpy8I	GTNNAC	1 cut(s)	205
HpyAV	CCTTC	1 cut(s)	23
HpyCH4III	ACNGT	1 cut(s)	199
HpyCH4IV	ACGT	1 cut(s)	36
HpyCH4V	TGCA	5 cut(s)	48, 57, 108, 193, 257
HpyF10VI	GCNNNNNNNGC	3 cut(s)	16, 54, 353
HpyF3I	CTNAG	1 cut(s)	348
HpySE526I	ACGT	1 cut(s)	36
Hsp92II	CATG	4 cut(s)	116, 181, 225, 263
Kzo9I	GATC	1 cut(s)	174
LguI	GCTCTTC	1 cut(s)	162
LpnPI	CCDG	5 cut(s)	94, 171, 284, 335, 336
Lsp1109I	GCAGC	2 cut(s)	32, 241
LweI	GCATC	1 cut(s)	373
MaeII	ACGT	1 cut(s)	36
MaeIII	GTNAC	1 cut(s)	148
MalI	GATC	1 cut(s)	176
MbiI	CCGCTC	1 cut(s)	172
MboI	GATC	1 cut(s)	174
MboII	GAAGA	1 cut(s)	179
MfeI	CAATTG	1 cut(s)	231
MluCI	AATT	2 cut(s)	231, 290
MlyI	GAGTC	1 cut(s)	16
MnlI	CCTC	2 cut(s)	244, 277
MslI	CAYNNNNRTG	1 cut(s)	363
MunI	CAATTG	1 cut(s)	231
MwoI	GCNNNNNNNGC	3 cut(s)	16, 54, 353
NdeII	GATC	1 cut(s)	174
NlaIII	CATG	4 cut(s)	116, 181, 225, 263
NmuCI	GTSAC	1 cut(s)	148
PagI	TCATGA	1 cut(s)	177
PciSI	GCTCTTC	1 cut(s)	162
PfeI	GAWTC	2 cut(s)	306, 313
PkrI	GCNGC	2 cut(s)	47, 256
PleI	GAGTC	1 cut(s)	16
PpsI	GAGTC	1 cut(s)	16
PspPI	GGNCC	1 cut(s)	320
PstI	CTGCAG	2 cut(s)	59, 110
RsaI	GTAC	2 cut(s)	53, 278
RsaNI	GTAC	2 cut(s)	52, 277
RseI	CAYNNNNRTG	1 cut(s)	363
SapI	GCTCTTC	1 cut(s)	162
SatI	GCNGC	2 cut(s)	46, 255
Sau3AI	GATC	1 cut(s)	174
Sau96I	GGNCC	1 cut(s)	320
ScaI	AGTACT	1 cut(s)	53
SchI	GAGTC	1 cut(s)	16
SetI	ASST	4 cut(s)	39, 47, 349, 358
SfaNI	GCATC	1 cut(s)	373
SfcI	CTRYAG	3 cut(s)	40, 55, 106
SinI	GGWCC	1 cut(s)	320
SmiMI	CAYNNNNRTG	1 cut(s)	363
SmlI	CTYRAG	1 cut(s)	299
SmoI	CTYRAG	1 cut(s)	299
Sse9I	AATT	2 cut(s)	231, 290
SsiI	CCGC	1 cut(s)	172
TaaI	ACNGT	1 cut(s)	199
TaiI	ACGT	1 cut(s)	39
TaqI	TCGA	2 cut(s)	132, 341
TaqII	GACCGA	1 cut(s)	84
TasI	AATT	2 cut(s)	231, 290
TatI	WGTACW	2 cut(s)	51, 276
TfiI	GAWTC	2 cut(s)	306, 313
TscAI	CASTG	1 cut(s)	110
TseFI	GTSAC	1 cut(s)	148
TseI	GCWGC	2 cut(s)	45, 254
Tsp45I	GTSAC	1 cut(s)	148
TspDTI	ATGAA	1 cut(s)	210
TspRI	CASTG	1 cut(s)	110
VpaK11BI	GGWCC	1 cut(s)	320
XapI	RAATTY	1 cut(s)	290
ZrmI	AGTACT	1 cut(s)	53

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