Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr1

Orthogroup ID

OG0008526

Physical Location & Seq

Genomic Coordinates Forward (+)

1009985 .. 1013826

Gene Structure 3842 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw1G000680.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 300 bp

ATGTCAGGGAGGAAAGAAACAGTGTTGGACTTGGCCAAGTTTGTGGACAAAGGTGTCCAAGTCAAGCTCACTGGTGGTAGACAAGTGACAGGGACTCTAAAAGGATATGATCAGTTGTTAAACCTTGTTCTGGATGAAGCAGTTGAATTTCTAAGAGATTCTGATGATCCGCTGAAGACTACTGACCAAACCAGGCGCCTTGGCCTAATTGTTTGTAGGGGAACTGCTGTGATGCTCGTGTCACCAACAGATGGTACAGATGAGATTGCTAACCCCTTTAGCCAGCCAGATGGGGCCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005684 GO:0005688 GO:0005689 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0030532 GO:0032991 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0071004 GO:0071010 GO:0071013 GO:0071704 GO:0090304 GO:0097525 GO:0097526 GO:0120114 GO:1901360 GO:1902494 GO:1990726 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03018 ko03040 map03018 map03040

Pfam Domains

Protein Families

LSM

Protein Analysis

99

Amino Acids

10.71

Weight (kDa)

4.79

Isoelectric Point (pI)

23.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LSM	PF01423	10 - 82	8.4e-21	LSM domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0008526)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G03870 AT2G03870
fragaria_vesca	FvH4_7g00800 FvH4_7g00800
malus_domestica	MD02G1314900.v1.1 MD07G1007200.v1.1
prunus_persica	Prupe.2G010100_v2.0.a1 Prupe.2G010100_v2.0.a1 Prupe.2G010100_v2.0.a1
pyrus_communis	pycom02g26390 pycom07g00570
rosa_chinensis	RchiOBHm_Chr1g0314961
rosa_multiflora	Rmu_sc0005168.1_g000014
rosa_roxburghii	Rroxscaffold_4G00331640
rosa_rugosa	Rorug01G0003600 Rorug01G0003700 Rorug01G0003800 Rorug01G0003900
rosa_samantha	Rh1AG014300 Rh1BG006100 Rh1CG012400 Rh1DG007900
rosa_wichuraiana	Rw1G000680

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	53
AccB1I	GGYRCC	1 cut(s)	195
AccB7I	CCANNNNNTGG	1 cut(s)	251
AccI	GTMKAC	1 cut(s)	79
AciI	CCGC	1 cut(s)	170
AclWI	GGATC	1 cut(s)	161
AcoI	YGGCCR	1 cut(s)	33
AcsI	RAATTY	1 cut(s)	146
AcuI	CTGAAG	1 cut(s)	194
AcyI	GRCGYC	1 cut(s)	196
AfaI	GTAC	1 cut(s)	256
AfiI	CCNNNNNNNGG	2 cut(s)	130, 251
AgsI	TTSAA	1 cut(s)	146
AjnI	CCWGG	1 cut(s)	191
AluBI	AGCT	1 cut(s)	67
AluI	AGCT	1 cut(s)	67
AlwI	GGATC	1 cut(s)	161
AoxI	GGCC	3 cut(s)	33, 202, 294
ApoI	RAATTY	1 cut(s)	146
AspLEI	GCGC	1 cut(s)	198
AspS9I	GGNCC	1 cut(s)	294
AsuHPI	GGTGA	1 cut(s)	234
BalI	TGGCCA	1 cut(s)	35
BanI	GGYRCC	1 cut(s)	195
BauI	CACGAG	1 cut(s)	236
BbsI	GAAGAC	1 cut(s)	182
BccI	CCATC	2 cut(s)	245, 284
BciT130I	CCWGG	1 cut(s)	193
BclI	TGATCA	1 cut(s)	109
BfoI	RGCGCY	1 cut(s)	199
Bme1390I	CCNGG	1 cut(s)	193
BmgT120I	GGNCC	1 cut(s)	294
BmiI	GGNNCC	2 cut(s)	197, 295
BmrFI	CCNGG	1 cut(s)	193
BmsI	GCATC	1 cut(s)	222
BpiI	GAAGAC	1 cut(s)	182
BsaHI	GRCGYC	1 cut(s)	196
BsaJI	CCNNGG	1 cut(s)	199
Bsc4I	CCNNNNNNNGG	2 cut(s)	130, 251
Bse1I	ACTGG	1 cut(s)	76
BseBI	CCWGG	1 cut(s)	193
BseDI	CCNNGG	1 cut(s)	199
BseGI	GGATG	1 cut(s)	139
BseLI	CCNNNNNNNGG	2 cut(s)	130, 251
BseNI	ACTGG	1 cut(s)	76
BshFI	GGCC	3 cut(s)	35, 204, 296
BshNI	GGYRCC	1 cut(s)	195
BslFI	GGGAC	1 cut(s)	106
BslI	CCNNNNNNNGG	2 cut(s)	130, 251
BsmFI	GGGAC	1 cut(s)	106
BsnI	GGCC	3 cut(s)	35, 204, 296
Bsp143I	GATC	2 cut(s)	109, 166
BspACI	CCGC	1 cut(s)	170
BspANI	GGCC	3 cut(s)	35, 204, 296
BspLI	GGNNCC	2 cut(s)	197, 295
BspPI	GGATC	1 cut(s)	161
BspT107I	GGYRCC	1 cut(s)	195
BsrI	ACTGG	1 cut(s)	76
BssECI	CCNNGG	1 cut(s)	199
BssMI	GATC	2 cut(s)	109, 166
BssNI	GRCGYC	1 cut(s)	196
BssSI	CACGAG	1 cut(s)	236
BssT1I	CCWWGG	1 cut(s)	199
Bst2BI	CACGAG	1 cut(s)	236
Bst2UI	CCWGG	1 cut(s)	193
Bst4CI	ACNGT	1 cut(s)	22
BstACI	GRCGYC	1 cut(s)	196
BstC8I	GCNNGC	1 cut(s)	284
BstDEI	CTNAG	1 cut(s)	152
BstF5I	GGATG	1 cut(s)	139
BstH2I	RGCGCY	1 cut(s)	199
BstHHI	GCGC	1 cut(s)	198
BstKTI	GATC	2 cut(s)	112, 169
BstMBI	GATC	2 cut(s)	109, 166
BstNI	CCWGG	1 cut(s)	193
BstSCI	CCNGG	1 cut(s)	191
BstV2I	GAAGAC	1 cut(s)	182
BstXI	CCANNNNNNTGG	2 cut(s)	43, 290
BsuRI	GGCC	3 cut(s)	35, 204, 296
BtsCI	GGATG	1 cut(s)	139
BtsIMutI	CAGTG	2 cut(s)	27, 69
Cac8I	GCNNGC	1 cut(s)	284
CfoI	GCGC	1 cut(s)	198
Cfr13I	GGNCC	1 cut(s)	294
Csp6I	GTAC	1 cut(s)	255
CviJI	RGCY	6 cut(s)	35, 67, 204, 282, 286, 296
CviKI_1	RGCY	6 cut(s)	35, 67, 204, 282, 286, 296
CviQI	GTAC	1 cut(s)	255
DdeI	CTNAG	1 cut(s)	152
DinI	GGCGCC	1 cut(s)	197
DpnI	GATC	2 cut(s)	111, 168
DpnII	GATC	2 cut(s)	109, 166
DrdI	GACNNNNNNGTC	1 cut(s)	53
DseDI	GACNNNNNNGTC	1 cut(s)	53
EaeI	YGGCCR	1 cut(s)	33
Eco130I	CCWWGG	1 cut(s)	199
Eco57I	CTGAAG	1 cut(s)	194
EcoO109I	RGGNCCY	1 cut(s)	294
EcoRII	CCWGG	1 cut(s)	191
EcoT14I	CCWWGG	1 cut(s)	199
EgeI	GGCGCC	1 cut(s)	197
EheI	GGCGCC	1 cut(s)	197
ErhI	CCWWGG	1 cut(s)	199
FaiI	YATR	1 cut(s)	108
FaqI	GGGAC	1 cut(s)	106
FbaI	TGATCA	1 cut(s)	109
FblI	GTMKAC	1 cut(s)	79
FokI	GGATG	1 cut(s)	146
GlaI	GCGC	1 cut(s)	197
HaeII	RGCGCY	1 cut(s)	199
HaeIII	GGCC	3 cut(s)	35, 204, 296
HhaI	GCGC	1 cut(s)	198
Hin1I	GRCGYC	1 cut(s)	196
Hin6I	GCGC	1 cut(s)	196
HinP1I	GCGC	1 cut(s)	196
HinfI	GANTC	2 cut(s)	94, 158
HphI	GGTGA	1 cut(s)	234
Hpy166II	GTNNAC	2 cut(s)	46, 80
Hpy188I	TCNGA	1 cut(s)	163
Hpy188III	TCNNGA	1 cut(s)	131
Hpy8I	GTNNAC	2 cut(s)	46, 80
HpyCH4III	ACNGT	1 cut(s)	22
HpyF3I	CTNAG	1 cut(s)	152
Hsp92I	GRCGYC	1 cut(s)	196
HspAI	GCGC	1 cut(s)	196
KasI	GGCGCC	1 cut(s)	195
Ksp22I	TGATCA	1 cut(s)	109
Kzo9I	GATC	2 cut(s)	109, 166
LpnPI	CCDG	6 cut(s)	57, 75, 116, 178, 205, 296
LweI	GCATC	1 cut(s)	222
MaeIII	GTNAC	2 cut(s)	85, 240
MalI	GATC	2 cut(s)	111, 168
MboI	GATC	2 cut(s)	109, 166
MboII	GAAGA	1 cut(s)	187
MlsI	TGGCCA	1 cut(s)	35
MluCI	AATT	2 cut(s)	146, 207
MluNI	TGGCCA	1 cut(s)	35
Mly113I	GGCGCC	1 cut(s)	196
MlyI	GAGTC	1 cut(s)	88
MmeI	TCCRAC	1 cut(s)	6
MnlI	CCTC	1 cut(s)	3
Mox20I	TGGCCA	1 cut(s)	35
MscI	TGGCCA	1 cut(s)	35
MseI	TTAA	1 cut(s)	119
Msp20I	TGGCCA	1 cut(s)	35
MspA1I	CMGCKG	1 cut(s)	172
MspR9I	CCNGG	1 cut(s)	193
MvaI	CCWGG	1 cut(s)	193
NarI	GGCGCC	1 cut(s)	196
NdeII	GATC	2 cut(s)	109, 166
NlaIV	GGNNCC	2 cut(s)	197, 295
NmuCI	GTSAC	2 cut(s)	85, 240
PfeI	GAWTC	1 cut(s)	158
PflMI	CCANNNNNTGG	1 cut(s)	251
PleI	GAGTC	1 cut(s)	88
PluTI	GGCGCC	1 cut(s)	199
PpsI	GAGTC	1 cut(s)	88
Psp6I	CCWGG	1 cut(s)	191
PspGI	CCWGG	1 cut(s)	191
PspN4I	GGNNCC	2 cut(s)	197, 295
PspPI	GGNCC	1 cut(s)	294
RsaI	GTAC	1 cut(s)	256
RsaNI	GTAC	1 cut(s)	255
SaqAI	TTAA	1 cut(s)	119
Sau3AI	GATC	2 cut(s)	109, 166
Sau96I	GGNCC	1 cut(s)	294
SchI	GAGTC	1 cut(s)	88
ScrFI	CCNGG	1 cut(s)	193
SetI	ASST	3 cut(s)	55, 69, 126
SfaNI	GCATC	1 cut(s)	222
SfoI	GGCGCC	1 cut(s)	197
Sse9I	AATT	2 cut(s)	146, 207
SsiI	CCGC	1 cut(s)	170
SspDI	GGCGCC	1 cut(s)	195
StyD4I	CCNGG	1 cut(s)	191
StyI	CCWWGG	1 cut(s)	199
TaaI	ACNGT	1 cut(s)	22
TasI	AATT	2 cut(s)	146, 207
TfiI	GAWTC	1 cut(s)	158
Tru1I	TTAA	1 cut(s)	119
Tru9I	TTAA	1 cut(s)	119
TscAI	CASTG	2 cut(s)	27, 76
TseFI	GTSAC	2 cut(s)	85, 240
Tsp45I	GTSAC	2 cut(s)	85, 240
TspDTI	ATGAA	1 cut(s)	150
TspRI	CASTG	2 cut(s)	27, 76
Van91I	CCANNNNNTGG	1 cut(s)	251
XapI	RAATTY	1 cut(s)	146
XmiI	GTMKAC	1 cut(s)	79

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