Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0016178

Physical Location & Seq

Genomic Coordinates Reverse (-)

34687198 .. 34691216

Gene Structure 4019 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG300500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 264 bp

ATGGCGAACAATCCGTCGCAGCTACTCCCCTCAGAGTTGATCGACCGGTGCATAGGGTCGAAGATATGGGTGATCATGAAGGGCGACAAGGAGCTCGTCGGAACTCTCAGGGGTTTCGATGTCTACGTCAACATGGTTCTTGAAGACGTCACTGAATATGAGATTACTGCCGAAGGAAGAAGGATAACTAAGCTTGATCAGATTTTACTCAACGGAAACAACATTGCCATTCTGGTCCCAGGTGGCTCCCCTGAATCAGAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0000956 GO:0001101 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005688 GO:0006139 GO:0006396 GO:0006397 GO:0006401 GO:0006402 GO:0006725 GO:0006807 GO:0006950 GO:0008150 GO:0008152 GO:0008380 GO:0009056 GO:0009057 GO:0009414 GO:0009415 GO:0009628 GO:0009719 GO:0009725 GO:0009737 GO:0009892 GO:0009987 GO:0010033 GO:0010035 GO:0010467 GO:0010468 GO:0010605 GO:0010629 GO:0016070 GO:0016071 GO:0019222 GO:0019439 GO:0030532 GO:0032991 GO:0033993 GO:0034641 GO:0034655 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0046540 GO:0046700 GO:0048519 GO:0050789 GO:0050896 GO:0060255 GO:0065007 GO:0071704 GO:0090304 GO:0097159 GO:0097305 GO:0097525 GO:0097526 GO:0120114 GO:1901360 GO:1901361 GO:1901363 GO:1901575 GO:1901700 GO:1990726 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03018 ko03040 map03018 map03040

Pfam Domains

Protein Families

LSM

Protein Analysis

87

Amino Acids

9.6

Weight (kDa)

4.6

Isoelectric Point (pI)

49.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LSM	PF01423	13 - 80	3.3e-20	LSM domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0016178)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G48870
fragaria_vesca	FvH4_1g24390
malus_domestica	MD05G1178700.v1.1 MD10G1167200.v1.1
prunus_persica	Prupe.8G205100_v2.0.a1
pyrus_communis	pycom05g16470 pycom10g14410
rosa_chinensis	RchiOBHm_Chr2g0121221
rosa_multiflora	Rmu_sc0000079.1_g000038
rosa_roxburghii	Rroxscaffold_2G00122500
rosa_rugosa	Rorug02G0232900
rosa_samantha	Rh2AG289800 Rh2BG300500 Rh2CG279200
rosa_wichuraiana	Rw2G023240

Restriction Enzyme Sites

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	150
AccI	GTMKAC	1 cut(s)	123
AcyI	GRCGYC	1 cut(s)	147
AgeI	ACCGGT	1 cut(s)	45
AgsI	TTSAA	1 cut(s)	143
AjnI	CCWGG	1 cut(s)	238
AluBI	AGCT	3 cut(s)	22, 94, 193
AluI	AGCT	3 cut(s)	22, 94, 193
Alw21I	GWGCWC	1 cut(s)	96
ApeKI	GCWGC	1 cut(s)	19
ArsI	GACNNNNNNTTYG	1 cut(s)	31
AsiGI	ACCGGT	1 cut(s)	45
AspS9I	GGNCC	1 cut(s)	235
AsuHPI	GGTGA	1 cut(s)	82
AvaII	GGWCC	1 cut(s)	235
BanII	GRGCYC	1 cut(s)	96
BbsI	GAAGAC	1 cut(s)	150
Bbv12I	GWGCWC	1 cut(s)	96
BbvI	GCAGC	1 cut(s)	31
BciT130I	CCWGG	1 cut(s)	240
BclI	TGATCA	2 cut(s)	72, 196
BisI	GCNGC	1 cut(s)	20
BlsI	GCNGC	1 cut(s)	21
Bme1390I	CCNGG	1 cut(s)	240
Bme18I	GGWCC	1 cut(s)	235
BmgT120I	GGNCC	1 cut(s)	235
BmiI	GGNNCC	2 cut(s)	237, 247
BmrFI	CCNGG	1 cut(s)	240
BpiI	GAAGAC	1 cut(s)	150
BsaHI	GRCGYC	1 cut(s)	147
BsaJI	CCNNGG	1 cut(s)	238
BsaWI	WCCGGW	1 cut(s)	45
Bse118I	RCCGGY	1 cut(s)	45
Bse3DI	GCAATG	1 cut(s)	222
BseBI	CCWGG	1 cut(s)	240
BseDI	CCNNGG	1 cut(s)	238
BseMI	GCAATG	1 cut(s)	222
BseMII	CTCAG	2 cut(s)	45, 121
BseXI	GCAGC	1 cut(s)	31
Bsh1285I	CGRYCG	1 cut(s)	46
BshTI	ACCGGT	1 cut(s)	45
BsiEI	CGRYCG	1 cut(s)	46
BsiHKAI	GWGCWC	1 cut(s)	96
BsiSI	CCGG	1 cut(s)	46
BslFI	GGGAC	1 cut(s)	221
BsmFI	GGGAC	1 cut(s)	221
Bsp1286I	GDGCHC	1 cut(s)	96
Bsp143I	GATC	3 cut(s)	39, 72, 196
BspCNI	CTCAG	2 cut(s)	44, 120
BspHI	TCATGA	1 cut(s)	75
BspLI	GGNNCC	2 cut(s)	237, 247
BsrDI	GCAATG	1 cut(s)	222
BsrFI	RCCGGY	1 cut(s)	45
BssAI	RCCGGY	1 cut(s)	45
BssECI	CCNNGG	1 cut(s)	238
BssMI	GATC	3 cut(s)	39, 72, 196
BssNI	GRCGYC	1 cut(s)	147
Bst2UI	CCWGG	1 cut(s)	240
BstACI	GRCGYC	1 cut(s)	147
BstDEI	CTNAG	3 cut(s)	31, 107, 189
BstKTI	GATC	3 cut(s)	42, 75, 199
BstMBI	GATC	3 cut(s)	39, 72, 196
BstMCI	CGRYCG	1 cut(s)	46
BstNI	CCWGG	1 cut(s)	240
BstSCI	CCNGG	1 cut(s)	238
BstV1I	GCAGC	1 cut(s)	31
BstV2I	GAAGAC	1 cut(s)	150
BtsIMutI	CAGTG	1 cut(s)	150
CciI	TCATGA	1 cut(s)	75
Cfr10I	RCCGGY	1 cut(s)	45
Cfr13I	GGNCC	1 cut(s)	235
CspAI	ACCGGT	1 cut(s)	45
CviAII	CATG	2 cut(s)	76, 133
CviJI	RGCY	4 cut(s)	22, 94, 193, 246
CviKI_1	RGCY	4 cut(s)	22, 94, 193, 246
DdeI	CTNAG	3 cut(s)	31, 107, 189
DpnI	GATC	3 cut(s)	41, 74, 198
DpnII	GATC	3 cut(s)	39, 72, 196
Ecl136II	GAGCTC	1 cut(s)	94
Eco24I	GRGCYC	1 cut(s)	96
Eco47I	GGWCC	1 cut(s)	235
Eco53kI	GAGCTC	1 cut(s)	94
EcoICRI	GAGCTC	1 cut(s)	94
EcoRII	CCWGG	1 cut(s)	238
EcoT38I	GRGCYC	1 cut(s)	96
FaeI	CATG	2 cut(s)	79, 136
FaiI	YATR	5 cut(s)	53, 67, 77, 134, 159
FaqI	GGGAC	1 cut(s)	221
FatI	CATG	2 cut(s)	75, 132
FbaI	TGATCA	2 cut(s)	72, 196
FblI	GTMKAC	1 cut(s)	123
Fnu4HI	GCNGC	1 cut(s)	20
FriOI	GRGCYC	1 cut(s)	96
Fsp4HI	GCNGC	1 cut(s)	20
GluI	GCNGC	1 cut(s)	20
HapII	CCGG	1 cut(s)	46
Hin1I	GRCGYC	1 cut(s)	147
Hin1II	CATG	2 cut(s)	79, 136
HincII	GTYRAC	1 cut(s)	130
HindII	GTYRAC	1 cut(s)	130
HindIII	AAGCTT	1 cut(s)	191
HinfI	GANTC	1 cut(s)	254
HpaII	CCGG	1 cut(s)	46
HphI	GGTGA	1 cut(s)	82
Hpy166II	GTNNAC	2 cut(s)	124, 130
Hpy188I	TCNGA	4 cut(s)	34, 101, 201, 259
Hpy188III	TCNNGA	2 cut(s)	76, 140
Hpy8I	GTNNAC	2 cut(s)	124, 130
Hpy99I	CGWCG	2 cut(s)	19, 101
HpyAV	CCTTC	3 cut(s)	73, 167, 174
HpyCH4IV	ACGT	2 cut(s)	126, 147
HpyCH4V	TGCA	1 cut(s)	51
HpyF3I	CTNAG	3 cut(s)	31, 107, 189
HpySE526I	ACGT	2 cut(s)	126, 147
Hsp92I	GRCGYC	1 cut(s)	147
Hsp92II	CATG	2 cut(s)	79, 136
Ksp22I	TGATCA	2 cut(s)	72, 196
Kzo9I	GATC	3 cut(s)	39, 72, 196
LmnI	GCTCC	2 cut(s)	91, 251
LpnPI	CCDG	5 cut(s)	59, 94, 218, 225, 252
Lsp1109I	GCAGC	1 cut(s)	31
MaeII	ACGT	2 cut(s)	126, 147
MaeIII	GTNAC	1 cut(s)	148
MalI	GATC	3 cut(s)	41, 74, 198
MboI	GATC	3 cut(s)	39, 72, 196
MboII	GAAGA	3 cut(s)	73, 155, 189
MhlI	GDGCHC	1 cut(s)	96
MmeI	TCCRAC	1 cut(s)	79
MnlI	CCTC	1 cut(s)	40
MspI	CCGG	1 cut(s)	46
MspR9I	CCNGG	1 cut(s)	240
MvaI	CCWGG	1 cut(s)	240
NdeII	GATC	3 cut(s)	39, 72, 196
NlaIII	CATG	2 cut(s)	79, 136
NlaIV	GGNNCC	2 cut(s)	237, 247
NmuCI	GTSAC	1 cut(s)	148
PagI	TCATGA	1 cut(s)	75
PcsI	WCGNNNNNNNCGW	1 cut(s)	123
PfeI	GAWTC	1 cut(s)	254
PinAI	ACCGGT	1 cut(s)	45
PkrI	GCNGC	1 cut(s)	21
Psp124BI	GAGCTC	1 cut(s)	96
Psp6I	CCWGG	1 cut(s)	238
PspGI	CCWGG	1 cut(s)	238
PspN4I	GGNNCC	2 cut(s)	237, 247
PspPI	GGNCC	1 cut(s)	235
SacI	GAGCTC	1 cut(s)	96
SatI	GCNGC	1 cut(s)	20
Sau3AI	GATC	3 cut(s)	39, 72, 196
Sau96I	GGNCC	1 cut(s)	235
ScrFI	CCNGG	1 cut(s)	240
SduI	GDGCHC	1 cut(s)	96
SetI	ASST	6 cut(s)	24, 96, 129, 150, 195, 244
SinI	GGWCC	1 cut(s)	235
SstI	GAGCTC	1 cut(s)	96
StyD4I	CCNGG	1 cut(s)	238
TaiI	ACGT	2 cut(s)	129, 150
TaqI	TCGA	3 cut(s)	42, 59, 117
TfiI	GAWTC	1 cut(s)	254
TscAI	CASTG	1 cut(s)	157
TseFI	GTSAC	1 cut(s)	148
TseI	GCWGC	1 cut(s)	19
Tsp45I	GTSAC	1 cut(s)	148
TspDTI	ATGAA	1 cut(s)	92
TspGWI	ACGGA	1 cut(s)	228
TspRI	CASTG	1 cut(s)	157
VpaK11BI	GGWCC	1 cut(s)	235
XmiI	GTMKAC	1 cut(s)	123
ZraI	GACGTC	1 cut(s)	148

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