Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0001431

Physical Location & Seq

Genomic Coordinates Forward (+)

18436722 .. 18442402

Gene Structure 5681 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG168200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 210 bp

ATGTTCACTCTGACCTCCATCAAGGGTATCGGTCGCTATTTAGCCAACATCGTCTGCAAGAAGGTCGACATCAACATGAACAAGAGTGAGCCAACTGCTGCCAAAATTGATAACCTGATGTACATTGTGGGAAATCCCCGCCAGTTCAAGATCCCTGACTGGTTTCTCAACACAAAGAAGGATTACAAGGATGCGATCTTAGCTATGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0003735 GO:0005198 GO:0005488 GO:0005575 GO:0005618 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0005773 GO:0005774 GO:0005829 GO:0005840 GO:0005886 GO:0005911 GO:0006412 GO:0006413 GO:0006518 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009506 GO:0009987 GO:0010467 GO:0015935 GO:0016020 GO:0019538 GO:0022613 GO:0022626 GO:0022627 GO:0030054 GO:0030312 GO:0031090 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0034645 GO:0042254 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043603 GO:0043604 GO:0044085 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044391 GO:0044422 GO:0044424 GO:0044428 GO:0044437 GO:0044444 GO:0044445 GO:0044446 GO:0044464 GO:0055044 GO:0070013 GO:0071704 GO:0071840 GO:0071944 GO:0097159 GO:0098588 GO:0098805 GO:1901363 GO:1901564 GO:1901566 GO:1901576 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03010 map03010

Pfam Domains

Protein Families

Ribosomal_S13

Protein Analysis

69

Amino Acids

7.91

Weight (kDa)

9.56

Isoelectric Point (pI)

11.16

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_S13	PF00416	2 - 64	4.8e-14	Ribosomal protein S13/S18

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001431)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G22780 AT1G34030 AT4G09800
fragaria_vesca	FvH4_2g23320 FvH4_4g15530
malus_domestica	MD03G1262600.v1.1 MD04G1097100.v1.1 MD06G1071000.v1.1 MD11G1283300.v1.1 MD13G1192900.v1.1 MD16G1193800.v1.1
prunus_persica	Prupe.1G013500_v2.0.a1 Prupe.8G238900_v2.0.a1 Prupe.8G238900_v2.0.a1
pyrus_communis	pycom03g21010 pycom06g11700 pycom11g25080 pycom13g16520 pycom16g16350
rosa_chinensis	RchiOBHm_Chr1g0330651 RchiOBHm_Chr4g0416231 RchiOBHm_Chr6g0290731
rosa_laevigata	RLG00000008004 RLG00000012183
rosa_multiflora	Rmu_sc0003600.1_g000001 Rmu_sc0032929.1_g000002 Rmu_sc0037025.1_g000001 Rmu_ssc0000042.1_g000046
rosa_roxburghii	Rroxscaffold_5G00360080 Rroxscaffold_7G00176770
rosa_rugosa	Rorug04G0140200 Rorug05G0191200 Rorug06G0088300 Rorug06G0088400
rosa_samantha	Rh4AG202100 Rh4BG096000 Rh4BG199500 Rh4CG213800 Rh4DG117400 Rh4DG199300 Rh5AG168200 Rh5CG236300 Rh5CG262700 Rh6AG324900 Rh6BG332500 Rh6CG338200 Rh6DG325700
rosa_wichuraiana	Rw0G012060 Rw2G037960 Rw4G017090 Rw5G015280 Rw6G028210

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	66
AciI	CCGC	1 cut(s)	139
AclWI	GGATC	1 cut(s)	145
AfaI	GTAC	1 cut(s)	122
AgsI	TTSAA	1 cut(s)	148
AluBI	AGCT	1 cut(s)	203
AluI	AGCT	1 cut(s)	203
AlwI	GGATC	1 cut(s)	145
ApeKI	GCWGC	1 cut(s)	98
BbvI	GCAGC	1 cut(s)	85
BccI	CCATC	1 cut(s)	26
BcgI	CGANNNNNNTGC	2 cut(s)	46, 80
BisI	GCNGC	1 cut(s)	99
BlsI	GCNGC	1 cut(s)	100
BmsI	GCATC	1 cut(s)	181
Bse1I	ACTGG	2 cut(s)	142, 164
BseGI	GGATG	1 cut(s)	196
BseNI	ACTGG	2 cut(s)	142, 164
BseXI	GCAGC	1 cut(s)	85
Bsh1285I	CGRYCG	1 cut(s)	34
BsiEI	CGRYCG	1 cut(s)	34
Bsp1407I	TGTACA	1 cut(s)	120
Bsp143I	GATC	2 cut(s)	150, 195
BspACI	CCGC	1 cut(s)	139
BspPI	GGATC	1 cut(s)	145
BsrGI	TGTACA	1 cut(s)	120
BsrI	ACTGG	2 cut(s)	142, 164
BssMI	GATC	2 cut(s)	150, 195
BstAUI	TGTACA	1 cut(s)	120
BstDEI	CTNAG	1 cut(s)	199
BstF5I	GGATG	1 cut(s)	196
BstKTI	GATC	2 cut(s)	153, 198
BstMBI	GATC	2 cut(s)	150, 195
BstMCI	CGRYCG	1 cut(s)	34
BstMWI	GCNNNNNNNGC	1 cut(s)	200
BstV1I	GCAGC	1 cut(s)	85
BstX2I	RGATCY	1 cut(s)	150
BstYI	RGATCY	1 cut(s)	150
BtsCI	GGATG	1 cut(s)	196
Csp6I	GTAC	1 cut(s)	121
CviAII	CATG	1 cut(s)	76
CviJI	RGCY	3 cut(s)	44, 91, 203
CviKI_1	RGCY	3 cut(s)	44, 91, 203
CviQI	GTAC	1 cut(s)	121
DdeI	CTNAG	1 cut(s)	199
DpnI	GATC	2 cut(s)	152, 197
DpnII	GATC	2 cut(s)	150, 195
FaeI	CATG	1 cut(s)	79
FaiI	YATR	2 cut(s)	77, 206
FatI	CATG	1 cut(s)	75
FauI	CCCGC	1 cut(s)	146
FblI	GTMKAC	1 cut(s)	66
Fnu4HI	GCNGC	1 cut(s)	99
FokI	GGATG	1 cut(s)	203
Fsp4HI	GCNGC	1 cut(s)	99
GluI	GCNGC	1 cut(s)	99
Hin1II	CATG	1 cut(s)	79
HincII	GTYRAC	1 cut(s)	67
HindII	GTYRAC	1 cut(s)	67
Hpy166II	GTNNAC	2 cut(s)	6, 67
Hpy188I	TCNGA	1 cut(s)	12
Hpy188III	TCNNGA	1 cut(s)	148
Hpy8I	GTNNAC	2 cut(s)	6, 67
HpyAV	CCTTC	2 cut(s)	55, 172
HpyCH4V	TGCA	1 cut(s)	57
HpyF10VI	GCNNNNNNNGC	1 cut(s)	200
HpyF3I	CTNAG	1 cut(s)	199
Hsp92II	CATG	1 cut(s)	79
Kzo9I	GATC	2 cut(s)	150, 195
LpnPI	CCDG	4 cut(s)	128, 145, 155, 168
Lsp1109I	GCAGC	1 cut(s)	85
LweI	GCATC	1 cut(s)	181
MalI	GATC	2 cut(s)	152, 197
MboI	GATC	2 cut(s)	150, 195
MflI	RGATCY	1 cut(s)	150
MluCI	AATT	1 cut(s)	105
MnlI	CCTC	1 cut(s)	25
MslI	CAYNNNNRTG	1 cut(s)	74
MwoI	GCNNNNNNNGC	1 cut(s)	200
NdeII	GATC	2 cut(s)	150, 195
NlaIII	CATG	1 cut(s)	79
PkrI	GCNGC	1 cut(s)	100
PsuI	RGATCY	1 cut(s)	150
RsaI	GTAC	1 cut(s)	122
RsaNI	GTAC	1 cut(s)	121
RseI	CAYNNNNRTG	1 cut(s)	74
SalI	GTCGAC	1 cut(s)	65
SatI	GCNGC	1 cut(s)	99
Sau3AI	GATC	2 cut(s)	150, 195
SetI	ASST	4 cut(s)	17, 66, 117, 205
SfaNI	GCATC	1 cut(s)	181
SmiMI	CAYNNNNRTG	1 cut(s)	74
Sse9I	AATT	1 cut(s)	105
SsiI	CCGC	1 cut(s)	139
TaqI	TCGA	1 cut(s)	66
TaqII	GACCGA	1 cut(s)	20
TasI	AATT	1 cut(s)	105
TatI	WGTACW	1 cut(s)	120
TseI	GCWGC	1 cut(s)	98
TspDTI	ATGAA	1 cut(s)	92
XmiI	GTMKAC	1 cut(s)	66

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