Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0001431

Physical Location & Seq

Genomic Coordinates Forward (+)

16402576 .. 16403831

Gene Structure 1256 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG096000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 279 bp

ATGAACGCCATCGAGCAGTCTCTCGTCGCGAAAGAGGAGTTGCAGCACATTCTGCGTGTTCTGAACACCAATGTGGATGGAAATCAGAAAATCATGTTTGCTCTGAACTCCATCAAGGGTATCGGTTGCCGTTTAGCCAACATCGTCTGCAAGAAGGCCGACGTTGACATGAACAGGAGAAGTATCAAAATGATCTCTGTGGAAGCAATTGCATTGCTGGAGTTGTGTTACCATGCAAGTGATTCCGACTTGGATGAATTGGAAGAGGATGCAAAGTAA

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

92

Amino Acids

10.27

Weight (kDa)

5.06

Isoelectric Point (pI)

51.95

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_S13	PF00416	19 - 70	1.5e-12	Ribosomal protein S13/S18

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)

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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)
AccII	CGCG	1 cut(s)	29
AleI	CACNNNNGTG	1 cut(s)	71
Alw26I	GTCTC	1 cut(s)	24
AoxI	GGCC	1 cut(s)	156
ApeKI	GCWGC	1 cut(s)	43
BbvI	GCAGC	1 cut(s)	55
BccI	CCATC	3 cut(s)	17, 71, 119
BceAI	ACGGC	1 cut(s)	114
BcoDI	GTCTC	1 cut(s)	24
BisI	GCNGC	1 cut(s)	44
BlsI	GCNGC	1 cut(s)	45
BmsI	GCATC	1 cut(s)	259
BpmI	CTGGAG	1 cut(s)	239
BsaBI	GATNNNNATC	1 cut(s)	81
Bse3DI	GCAATG	1 cut(s)	212
Bse8I	GATNNNNATC	1 cut(s)	81
BseGI	GGATG	3 cut(s)	82, 259, 274
BseJI	GATNNNNATC	1 cut(s)	81
BseMI	GCAATG	1 cut(s)	212
BseRI	GAGGAG	1 cut(s)	50
BseXI	GCAGC	1 cut(s)	55
Bsh1236I	CGCG	1 cut(s)	29
BshFI	GGCC	1 cut(s)	158
BsmAI	GTCTC	1 cut(s)	24
BsnI	GGCC	1 cut(s)	158
Bsp143I	GATC	1 cut(s)	192
Bsp68I	TCGCGA	1 cut(s)	29
BspANI	GGCC	1 cut(s)	158
BspFNI	CGCG	1 cut(s)	29
BsrDI	GCAATG	1 cut(s)	212
BssMI	GATC	1 cut(s)	192
Bst6I	CTCTTC	1 cut(s)	258
BstAPI	GCANNNNNTGC	1 cut(s)	52
BstF5I	GGATG	3 cut(s)	82, 259, 274
BstFNI	CGCG	1 cut(s)	29
BstKTI	GATC	1 cut(s)	195
BstMAI	GTCTC	1 cut(s)	24
BstMBI	GATC	1 cut(s)	192
BstMWI	GCNNNNNNNGC	1 cut(s)	52
BstUI	CGCG	1 cut(s)	29
BstV1I	GCAGC	1 cut(s)	55
BsuRI	GGCC	1 cut(s)	158
BtsCI	GGATG	3 cut(s)	82, 259, 274
BtuMI	TCGCGA	1 cut(s)	29
CviAII	CATG	3 cut(s)	94, 169, 233
CviJI	RGCY	2 cut(s)	137, 158
CviKI_1	RGCY	2 cut(s)	137, 158
DpnI	GATC	1 cut(s)	194
DpnII	GATC	1 cut(s)	192
Eam1104I	CTCTTC	1 cut(s)	258
EarI	CTCTTC	1 cut(s)	258
FaeI	CATG	3 cut(s)	97, 172, 236
FaiI	YATR	3 cut(s)	95, 170, 234
FatI	CATG	3 cut(s)	93, 168, 232
Fnu4HI	GCNGC	1 cut(s)	44
FokI	GGATG	2 cut(s)	89, 266
Fsp4HI	GCNGC	1 cut(s)	44
GluI	GCNGC	1 cut(s)	44
GsuI	CTGGAG	1 cut(s)	239
HaeIII	GGCC	1 cut(s)	158
Hin1II	CATG	3 cut(s)	97, 172, 236
HincII	GTYRAC	1 cut(s)	166
HindII	GTYRAC	1 cut(s)	166
HinfI	GANTC	1 cut(s)	242
Hpy166II	GTNNAC	1 cut(s)	166
Hpy188I	TCNGA	4 cut(s)	63, 87, 105, 247
Hpy188III	TCNNGA	1 cut(s)	28
Hpy8I	GTNNAC	1 cut(s)	166
Hpy99I	CGWCG	2 cut(s)	29, 164
HpyAV	CCTTC	1 cut(s)	148
HpyCH4IV	ACGT	1 cut(s)	162
HpyCH4V	TGCA	5 cut(s)	43, 150, 212, 236, 272
HpyF10VI	GCNNNNNNNGC	1 cut(s)	52
HpySE526I	ACGT	1 cut(s)	162
Hsp92II	CATG	3 cut(s)	97, 172, 236
Kzo9I	GATC	1 cut(s)	192
LpnPI	CCDG	2 cut(s)	160, 203
Lsp1109I	GCAGC	1 cut(s)	55
LweI	GCATC	1 cut(s)	259
MaeII	ACGT	1 cut(s)	162
MaeIII	GTNAC	1 cut(s)	227
MalI	GATC	1 cut(s)	194
MboI	GATC	1 cut(s)	192
MboII	GAAGA	1 cut(s)	275
MfeI	CAATTG	1 cut(s)	207
MluCI	AATT	2 cut(s)	207, 257
MmeI	TCCRAC	1 cut(s)	270
MnlI	CCTC	2 cut(s)	28, 259
MslI	CAYNNNNRTG	2 cut(s)	71, 237
MunI	CAATTG	1 cut(s)	207
MvnI	CGCG	1 cut(s)	29
MwoI	GCNNNNNNNGC	1 cut(s)	52
NdeII	GATC	1 cut(s)	192
NlaIII	CATG	3 cut(s)	97, 172, 236
NruI	TCGCGA	1 cut(s)	29
OliI	CACNNNNGTG	1 cut(s)	71
PfeI	GAWTC	1 cut(s)	242
PkrI	GCNGC	1 cut(s)	45
RruI	TCGCGA	1 cut(s)	29
RseI	CAYNNNNRTG	2 cut(s)	71, 237
SatI	GCNGC	1 cut(s)	44
Sau3AI	GATC	1 cut(s)	192
SetI	ASST	1 cut(s)	165
SfaNI	GCATC	1 cut(s)	259
SmiMI	CAYNNNNRTG	2 cut(s)	71, 237
Sse9I	AATT	2 cut(s)	207, 257
TaiI	ACGT	1 cut(s)	165
TaqI	TCGA	1 cut(s)	12
TasI	AATT	2 cut(s)	207, 257
TfiI	GAWTC	1 cut(s)	242
TseI	GCWGC	1 cut(s)	43
TspDTI	ATGAA	3 cut(s)	17, 185, 270

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