Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0017087

Physical Location & Seq

Genomic Coordinates Reverse (-)

84271017 .. 84273609

Gene Structure 2593 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00146380.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 378 bp

ATGTCGTGGGCAGGCCCAGAAGACTCTCTCCTCTCCACTTCTCTGGCGAGCTATCTTGACAAAAAGCTTCTTGTCTTATTGCGAGATGGGCGAAAGCTCTTGGGGTTACTACGATCTTTTGACCAGTTTGCTAATGTTGTGCTTGAAGGTGCATGTGAACGAGTTATTGTCGGTGATCTTTATTGTGACATCCCATTAGGTCTGTATGTAATCCGTGGGGAGAATGTAGTCTTAATTGGAGAACTGGAATTGAATAAAGAGGAGCTTCCCCCCGCATATGACTCTGGTACCCGAAGCAGAGATAAAAAGGGCTCAGAAAGCAGAGAGGGATGCTTCAGACTTAAAAGGCTCCATGAGAAAAAGAATGGAGTTCCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000288 GO:0000290 GO:0000339 GO:0000932 GO:0000956 GO:0001101 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005845 GO:0006139 GO:0006396 GO:0006397 GO:0006401 GO:0006402 GO:0006725 GO:0006807 GO:0006950 GO:0006970 GO:0006972 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009266 GO:0009409 GO:0009414 GO:0009415 GO:0009628 GO:0009631 GO:0009651 GO:0009892 GO:0009987 GO:0010035 GO:0010467 GO:0010468 GO:0010605 GO:0010629 GO:0016070 GO:0016071 GO:0019222 GO:0019439 GO:0032991 GO:0034518 GO:0034641 GO:0034655 GO:0035770 GO:0036464 GO:0042221 GO:0042538 GO:0043170 GO:0043226 GO:0043228 GO:0043229 GO:0043232 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0046700 GO:0048519 GO:0050789 GO:0050896 GO:0060255 GO:0065007 GO:0071704 GO:0090304 GO:0097159 GO:0120114 GO:1901360 GO:1901361 GO:1901363 GO:1901575 GO:1901700 GO:1990726 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03018 map03018

Pfam Domains

Protein Families

LSM

Protein Analysis

125

Amino Acids

13.95

Weight (kDa)

6.59

Isoelectric Point (pI)

45.02

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LSM	PF01423	14 - 80	1.3e-19	LSM domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

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Orthologous Genes (Group: OG0017087)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G14080
fragaria_vesca	FvH4_1g09010
malus_domestica	MD02G1095300.v1.1 MD15G1220100.v1.1
prunus_persica	Prupe.7G195800_v2.0.a1
pyrus_communis	pycom02g07540 pycom15g19520
rosa_chinensis	RchiOBHm_Chr2g0095431
rosa_roxburghii	Rroxscaffold_2G00146380
rosa_rugosa	Rorug02G0050900
rosa_samantha	Rh2BG100400 Rh2DG099900
rosa_wichuraiana	Rw2G007490

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	287
AccB1I	GGYRCC	1 cut(s)	287
AciI	CCGC	1 cut(s)	273
AcuI	CTGAAG	1 cut(s)	319
AfaI	GTAC	1 cut(s)	289
AgsI	TTSAA	2 cut(s)	146, 253
AluBI	AGCT	4 cut(s)	51, 67, 97, 265
AluI	AGCT	4 cut(s)	51, 67, 97, 265
AoxI	GGCC	1 cut(s)	13
Asp718I	GGTACC	1 cut(s)	287
AspS9I	GGNCC	1 cut(s)	14
AsuHPI	GGTGA	1 cut(s)	185
BaeI	ACNNNNGTAYC	2 cut(s)	271, 304
BanI	GGYRCC	1 cut(s)	287
BanII	GRGCYC	1 cut(s)	314
BbsI	GAAGAC	1 cut(s)	27
BccI	CCATC	1 cut(s)	80
BmgT120I	GGNCC	1 cut(s)	14
BmiI	GGNNCC	2 cut(s)	289, 350
BmsI	GCATC	1 cut(s)	320
BpiI	GAAGAC	1 cut(s)	27
BsaJI	CCNNGG	1 cut(s)	214
Bse1I	ACTGG	2 cut(s)	124, 249
BseDI	CCNNGG	1 cut(s)	214
BseGI	GGATG	2 cut(s)	189, 335
BseMII	CTCAG	1 cut(s)	327
BseNI	ACTGG	2 cut(s)	124, 249
BseRI	GAGGAG	2 cut(s)	20, 275
BshFI	GGCC	1 cut(s)	15
BshNI	GGYRCC	1 cut(s)	287
BsnI	GGCC	1 cut(s)	15
Bsp1286I	GDGCHC	1 cut(s)	314
Bsp143I	GATC	2 cut(s)	113, 175
BspACI	CCGC	1 cut(s)	273
BspANI	GGCC	1 cut(s)	15
BspCNI	CTCAG	1 cut(s)	326
BspLI	GGNNCC	2 cut(s)	289, 350
BspT107I	GGYRCC	1 cut(s)	287
BsrI	ACTGG	2 cut(s)	124, 249
BssECI	CCNNGG	1 cut(s)	214
BssMI	GATC	2 cut(s)	113, 175
BstC8I	GCNNGC	2 cut(s)	13, 49
BstDEI	CTNAG	1 cut(s)	313
BstDSI	CCRYGG	1 cut(s)	214
BstF5I	GGATG	2 cut(s)	189, 335
BstKTI	GATC	2 cut(s)	116, 178
BstMBI	GATC	2 cut(s)	113, 175
BstMWI	GCNNNNNNNGC	2 cut(s)	88, 318
BstNSI	RCATGY	1 cut(s)	156
BstV2I	GAAGAC	1 cut(s)	27
BstXI	CCANNNNNNTGG	1 cut(s)	43
BsuRI	GGCC	1 cut(s)	15
BtgI	CCRYGG	1 cut(s)	214
BtsCI	GGATG	2 cut(s)	189, 335
Cac8I	GCNNGC	2 cut(s)	13, 49
Cfr13I	GGNCC	1 cut(s)	14
Csp6I	GTAC	1 cut(s)	288
CviAII	CATG	2 cut(s)	153, 353
CviJI	RGCY	7 cut(s)	15, 51, 67, 97, 265, 312, 349
CviKI_1	RGCY	7 cut(s)	15, 51, 67, 97, 265, 312, 349
CviQI	GTAC	1 cut(s)	288
DdeI	CTNAG	1 cut(s)	313
DpnI	GATC	2 cut(s)	115, 177
DpnII	GATC	2 cut(s)	113, 175
Eco24I	GRGCYC	1 cut(s)	314
Eco57I	CTGAAG	1 cut(s)	319
EcoT38I	GRGCYC	1 cut(s)	314
FaeI	CATG	2 cut(s)	156, 356
FaiI	YATR	5 cut(s)	154, 207, 277, 279, 354
FalI	AAGNNNNNCTT	2 cut(s)	249, 281
FatI	CATG	2 cut(s)	152, 352
FauI	CCCGC	1 cut(s)	280
FauNDI	CATATG	1 cut(s)	277
FokI	GGATG	2 cut(s)	176, 342
FriOI	GRGCYC	1 cut(s)	314
HaeIII	GGCC	1 cut(s)	15
Hin1II	CATG	2 cut(s)	156, 356
HindIII	AAGCTT	1 cut(s)	65
HinfI	GANTC	2 cut(s)	23, 281
HphI	GGTGA	1 cut(s)	185
Hpy166II	GTNNAC	1 cut(s)	158
Hpy188I	TCNGA	2 cut(s)	316, 338
Hpy188III	TCNNGA	1 cut(s)	56
Hpy8I	GTNNAC	1 cut(s)	158
HpyAV	CCTTC	1 cut(s)	140
HpyCH4V	TGCA	1 cut(s)	152
HpyF10VI	GCNNNNNNNGC	2 cut(s)	88, 318
HpyF3I	CTNAG	1 cut(s)	313
Hsp92II	CATG	2 cut(s)	156, 356
KpnI	GGTACC	1 cut(s)	291
Kzo9I	GATC	2 cut(s)	113, 175
LmnI	GCTCC	2 cut(s)	262, 354
LpnPI	CCDG	5 cut(s)	29, 30, 137, 230, 270
LweI	GCATC	1 cut(s)	320
MaeIII	GTNAC	2 cut(s)	105, 185
MalI	GATC	2 cut(s)	115, 177
MboI	GATC	2 cut(s)	113, 175
MboII	GAAGA	1 cut(s)	32
MhlI	GDGCHC	1 cut(s)	314
MluCI	AATT	2 cut(s)	234, 248
MlyI	GAGTC	2 cut(s)	17, 275
MnlI	CCTC	3 cut(s)	41, 253, 319
MseI	TTAA	2 cut(s)	233, 342
MwoI	GCNNNNNNNGC	2 cut(s)	88, 318
NdeI	CATATG	1 cut(s)	277
NdeII	GATC	2 cut(s)	113, 175
NlaIII	CATG	2 cut(s)	156, 356
NlaIV	GGNNCC	2 cut(s)	289, 350
NmuCI	GTSAC	1 cut(s)	185
NspI	RCATGY	1 cut(s)	156
PleI	GAGTC	2 cut(s)	17, 275
PpsI	GAGTC	2 cut(s)	17, 275
PspN4I	GGNNCC	2 cut(s)	289, 350
PspPI	GGNCC	1 cut(s)	14
RsaI	GTAC	1 cut(s)	289
RsaNI	GTAC	1 cut(s)	288
SaqAI	TTAA	2 cut(s)	233, 342
Sau3AI	GATC	2 cut(s)	113, 175
Sau96I	GGNCC	1 cut(s)	14
SchI	GAGTC	2 cut(s)	17, 275
SduI	GDGCHC	1 cut(s)	314
SetI	ASST	6 cut(s)	53, 69, 99, 151, 202, 267
SfaNI	GCATC	1 cut(s)	320
Sse9I	AATT	2 cut(s)	234, 248
SsiI	CCGC	1 cut(s)	273
TasI	AATT	2 cut(s)	234, 248
Tru1I	TTAA	2 cut(s)	233, 342
Tru9I	TTAA	2 cut(s)	233, 342
TseFI	GTSAC	1 cut(s)	185
Tsp45I	GTSAC	1 cut(s)	185
TspGWI	ACGGA	1 cut(s)	203
XceI	RCATGY	1 cut(s)	156

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