Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0006705

Physical Location & Seq

Genomic Coordinates Reverse (-)

26415515 .. 26416466

Gene Structure 952 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG255200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 243 bp

ATGAGCAGGTCAGGTCAGCCCCCGGATCTGAAGAAGTACATGGACAAGAAGCTTCAAATCAAGCTAAATGCAAACCGAATGATTGTTGGAACCTTGCGTGGATTTGACCAGTTCATGAATCTGGTGGTTGATAATACTGTACAAGTGAATGGTGATGAAAAGACTAACATAGACATGGTGGTGATCAGAGGAAACAGTGTGGTTAATGTTGAAGCACTTGAACCTGTGGCCAAAATGCAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005682 GO:0005684 GO:0005685 GO:0005686 GO:0005687 GO:0005689 GO:0005737 GO:0005829 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0030532 GO:0032991 GO:0034641 GO:0034719 GO:0035770 GO:0036464 GO:0043170 GO:0043186 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0045495 GO:0046483 GO:0060293 GO:0071004 GO:0071010 GO:0071011 GO:0071013 GO:0071704 GO:0090304 GO:0097159 GO:0097525 GO:0097526 GO:0120114 GO:1901360 GO:1901363 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

LSM

Protein Analysis

80

Amino Acids

8.99

Weight (kDa)

9.16

Isoelectric Point (pI)

33.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LSM	PF01423	9 - 70	4.3e-21	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: OG0006705)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G23930 AT3G11500 AT3G11500
fragaria_vesca	FvH4_6g19160
malus_domestica	MD12G1027400.v1.1
prunus_persica	Prupe.7G104100_v2.0.a1
pyrus_communis	pycom12g02630 pycom14g02630
rosa_chinensis	RchiOBHm_Chr3g0456431 RchiOBHm_Chr3g0474271
rosa_multiflora	Rmu_sc0000041.1_g000021 Rmu_sc0004507.1_g000019 Rmu_sc0007753.1_g000006
rosa_roxburghii	Rroxscaffold_6G00407390
rosa_rugosa	Rorug03G0110900 Rorug03G0139900 Rorug03G0343100 Rorug04G0442800 Rorug05G0558300
rosa_samantha	Rh1AG194800 Rh2BG255200 Rh7BG169600
rosa_wichuraiana	Rw3G017380 Rw3G018710 Rw5G014960 Rw7G015750

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	33
AcoI	YGGCCR	1 cut(s)	228
AcuI	CTGAAG	1 cut(s)	50
AfaI	GTAC	2 cut(s)	38, 141
AgsI	TTSAA	3 cut(s)	56, 212, 221
AluBI	AGCT	2 cut(s)	52, 64
AluI	AGCT	2 cut(s)	52, 64
AlwI	GGATC	1 cut(s)	33
AoxI	GGCC	1 cut(s)	228
AsuC2I	CCSGG	1 cut(s)	23
AsuHPI	GGTGA	2 cut(s)	164, 193
BalI	TGGCCA	1 cut(s)	230
BclI	TGATCA	1 cut(s)	183
BcnI	CCSGG	1 cut(s)	23
Bme1390I	CCNGG	1 cut(s)	23
BmiI	GGNNCC	1 cut(s)	91
BmrFI	CCNGG	1 cut(s)	23
BpuMI	CCSGG	1 cut(s)	23
BsaJI	CCNNGG	1 cut(s)	21
Bse1I	ACTGG	1 cut(s)	109
BseDI	CCNNGG	1 cut(s)	21
BseNI	ACTGG	1 cut(s)	109
BshFI	GGCC	1 cut(s)	230
BsiSI	CCGG	1 cut(s)	23
BsnI	GGCC	1 cut(s)	230
Bsp1407I	TGTACA	1 cut(s)	139
Bsp143I	GATC	2 cut(s)	25, 183
BspANI	GGCC	1 cut(s)	230
BspHI	TCATGA	1 cut(s)	114
BspLI	GGNNCC	1 cut(s)	91
BspPI	GGATC	1 cut(s)	33
BsrGI	TGTACA	1 cut(s)	139
BsrI	ACTGG	1 cut(s)	109
BssECI	CCNNGG	1 cut(s)	21
BssMI	GATC	2 cut(s)	25, 183
Bst4CI	ACNGT	2 cut(s)	139, 197
BstAUI	TGTACA	1 cut(s)	139
BstKTI	GATC	2 cut(s)	28, 186
BstMBI	GATC	2 cut(s)	25, 183
BstSCI	CCNGG	1 cut(s)	21
BstX2I	RGATCY	1 cut(s)	25
BstYI	RGATCY	1 cut(s)	25
BsuRI	GGCC	1 cut(s)	230
BtsIMutI	CAGTG	1 cut(s)	202
CciI	TCATGA	1 cut(s)	114
Csp6I	GTAC	2 cut(s)	37, 140
CviAII	CATG	3 cut(s)	40, 115, 175
CviJI	RGCY	4 cut(s)	19, 52, 64, 230
CviKI_1	RGCY	4 cut(s)	19, 52, 64, 230
CviQI	GTAC	2 cut(s)	37, 140
DpnI	GATC	2 cut(s)	27, 185
DpnII	GATC	2 cut(s)	25, 183
EaeI	YGGCCR	1 cut(s)	228
Eco57I	CTGAAG	1 cut(s)	50
FaeI	CATG	3 cut(s)	43, 118, 178
FaiI	YATR	4 cut(s)	41, 116, 170, 176
FatI	CATG	3 cut(s)	39, 114, 174
FbaI	TGATCA	1 cut(s)	183
HaeIII	GGCC	1 cut(s)	230
HapII	CCGG	1 cut(s)	23
Hin1II	CATG	3 cut(s)	43, 118, 178
HindIII	AAGCTT	1 cut(s)	50
HinfI	GANTC	1 cut(s)	118
HpaII	CCGG	1 cut(s)	23
HphI	GGTGA	2 cut(s)	164, 193
Hpy188I	TCNGA	2 cut(s)	30, 188
Hpy188III	TCNNGA	1 cut(s)	115
HpyCH4III	ACNGT	2 cut(s)	139, 197
HpyCH4V	TGCA	2 cut(s)	71, 238
Hsp92II	CATG	3 cut(s)	43, 118, 178
Ksp22I	TGATCA	1 cut(s)	183
Kzo9I	GATC	2 cut(s)	25, 183
LpnPI	CCDG	4 cut(s)	36, 107, 122, 237
MalI	GATC	2 cut(s)	27, 185
MboI	GATC	2 cut(s)	25, 183
MboII	GAAGA	1 cut(s)	43
MflI	RGATCY	1 cut(s)	25
MlsI	TGGCCA	1 cut(s)	230
MluNI	TGGCCA	1 cut(s)	230
MmeI	TCCRAC	1 cut(s)	67
MnlI	CCTC	1 cut(s)	182
Mox20I	TGGCCA	1 cut(s)	230
MscI	TGGCCA	1 cut(s)	230
MseI	TTAA	1 cut(s)	204
MslI	CAYNNNNRTG	2 cut(s)	173, 179
Msp20I	TGGCCA	1 cut(s)	230
MspI	CCGG	1 cut(s)	23
MspR9I	CCNGG	1 cut(s)	23
NciI	CCSGG	1 cut(s)	23
NdeII	GATC	2 cut(s)	25, 183
NlaIII	CATG	3 cut(s)	43, 118, 178
NlaIV	GGNNCC	1 cut(s)	91
PagI	TCATGA	1 cut(s)	114
PfeI	GAWTC	1 cut(s)	118
PspN4I	GGNNCC	1 cut(s)	91
PsuI	RGATCY	1 cut(s)	25
RsaI	GTAC	2 cut(s)	38, 141
RsaNI	GTAC	2 cut(s)	37, 140
RseI	CAYNNNNRTG	2 cut(s)	173, 179
SaqAI	TTAA	1 cut(s)	204
Sau3AI	GATC	2 cut(s)	25, 183
ScrFI	CCNGG	1 cut(s)	23
SetI	ASST	6 cut(s)	11, 16, 54, 66, 95, 226
SmiMI	CAYNNNNRTG	2 cut(s)	173, 179
StyD4I	CCNGG	1 cut(s)	21
TaaI	ACNGT	2 cut(s)	139, 197
TatI	WGTACW	2 cut(s)	36, 139
TfiI	GAWTC	1 cut(s)	118
Tru1I	TTAA	1 cut(s)	204
Tru9I	TTAA	1 cut(s)	204
TscAI	CASTG	1 cut(s)	202
TspDTI	ATGAA	3 cut(s)	103, 131, 171
TspRI	CASTG	1 cut(s)	202

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