Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0003295

Physical Location & Seq

Genomic Coordinates Forward (+)

1780529 .. 1781677

Gene Structure 1149 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG025200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 342 bp

ATGAAGGTGGTTGCTGCTTGTATGCTGGCTGCTTTGGGAGGCAACGCCAGTCCCTCGGCCGATGATGTGAAGAAAATTCTCGGATCAGTCGGAGCTGAAGCCGATGACAGTAGGATCGAGTTGCTCTTGTCCGAACTCAAAGGAAAAGATATCACCGAGCTAGTTGCATCTGGAAGAGAGAAGTTGGCATCGGTGCCTTCCGGTGGCTCAGCTGCCGTTGCATCACCTGCAGCTGCTACTACCGCTGCAGCTGCTTCTGCTGCTGAGGAGAAGCCTGAAGAGAAGGCTGAAGAGGAGGAGGAGGACGACGAAGTAAGTTTTAGTTTGCTTCTGTCTTGTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03010 map03010

Pfam Domains

Protein Families

Ribosomal_60s

Protein Analysis

113

Amino Acids

11.32

Weight (kDa)

4.26

Isoelectric Point (pI)

60.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_60s	PF00428	17 - 109	2.4e-21	60s Acidic ribosomal protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0003295)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G28500
fragaria_vesca	FvH4_3g01910 FvH4_3g12420 FvH4_3g19860 FvH4_3g19900 FvH4_4g01570 FvH4_4g12610
rosa_chinensis	RchiOBHm_Chr5g0001741 RchiOBHm_Chr5g0002781 RchiOBHm_Chr5g0010691 RchiOBHm_Chr5g0033571 RchiOBHm_Chr5g0043451
rosa_laevigata	RLG00000030964 RLG00000030966 RLG00000031059 RLG00000031771 RLG00000033486
rosa_multiflora	Rmu_co8374049.1_g000001 Rmu_sc0001768.1_g000002 Rmu_sc0003286.1_g000002 Rmu_sc0006103.1_g000009
rosa_roxburghii	Rroxscaffold_1G00037440
rosa_rugosa	Rorug04G0392300 Rorug04G0392400 Rorug04G0392500.1 Rorug04G0399500 Rorug04G0451600 Rorug05G0140100
rosa_samantha	Rh4AG132900 Rh5BG025200 Rh5CG261300
rosa_wichuraiana	Rw0G000650 Rw0G022350 Rw5G001340 Rw5G002080 Rw5G021150

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	235
Acc36I	ACCTGC	1 cut(s)	235
AccB1I	GGYRCC	1 cut(s)	193
AciI	CCGC	1 cut(s)	243
AclWI	GGATC	2 cut(s)	91, 122
AcoI	YGGCCR	1 cut(s)	57
AcsI	RAATTY	1 cut(s)	75
AcuI	CTGAAG	3 cut(s)	117, 297, 309
AfiI	CCNNNNNNNGG	1 cut(s)	203
AluBI	AGCT	5 cut(s)	95, 160, 212, 233, 251
AluI	AGCT	5 cut(s)	95, 160, 212, 233, 251
AlwI	GGATC	2 cut(s)	91, 122
AoxI	GGCC	1 cut(s)	57
ApeKI	GCWGC	9 cut(s)	14, 29, 212, 230, 233, 245, 248, 251, 260
ApoI	RAATTY	1 cut(s)	75
AsuHPI	GGTGA	2 cut(s)	145, 216
BanI	GGYRCC	1 cut(s)	193
BbvCI	CCTCAGC	1 cut(s)	264
BbvI	GCAGC	8 cut(s)	16, 199, 220, 232, 238, 242, 247, 260
BceAI	ACGGC	1 cut(s)	200
BcgI	CGANNNNNNTGC	2 cut(s)	146, 180
BfaI	CTAG	1 cut(s)	161
BfmI	CTRYAG	2 cut(s)	228, 246
BfuAI	ACCTGC	1 cut(s)	235
BisI	GCNGC	9 cut(s)	15, 30, 213, 231, 234, 246, 249, 252, 261
BlpI	GCTNAGC	1 cut(s)	208
BlsI	GCNGC	9 cut(s)	16, 31, 214, 232, 235, 247, 250, 253, 262
BmiI	GGNNCC	1 cut(s)	195
BmsI	GCATC	3 cut(s)	176, 197, 230
Bpu10I	CCTNAGC	1 cut(s)	264
Bpu1102I	GCTNAGC	1 cut(s)	208
BsaJI	CCNNGG	1 cut(s)	54
BsaWI	WCCGGW	1 cut(s)	200
Bsc4I	CCNNNNNNNGG	1 cut(s)	203
Bse1I	ACTGG	1 cut(s)	48
BseDI	CCNNGG	1 cut(s)	54
BseLI	CCNNNNNNNGG	1 cut(s)	203
BseMII	CTCAG	2 cut(s)	222, 255
BseNI	ACTGG	1 cut(s)	48
BseRI	GAGGAG	4 cut(s)	281, 308, 311, 314
BseX3I	CGGCCG	1 cut(s)	57
BseXI	GCAGC	8 cut(s)	16, 199, 220, 232, 238, 242, 247, 260
Bsh1285I	CGRYCG	1 cut(s)	60
BshFI	GGCC	1 cut(s)	59
BshNI	GGYRCC	1 cut(s)	193
BsiEI	CGRYCG	1 cut(s)	60
BsiSI	CCGG	1 cut(s)	201
BslFI	GGGAC	1 cut(s)	36
BslI	CCNNNNNNNGG	1 cut(s)	203
BsmFI	GGGAC	1 cut(s)	36
BsnI	GGCC	1 cut(s)	59
Bsp143I	GATC	2 cut(s)	83, 114
Bsp1720I	GCTNAGC	1 cut(s)	208
BspACI	CCGC	1 cut(s)	243
BspANI	GGCC	1 cut(s)	59
BspCNI	CTCAG	2 cut(s)	221, 256
BspLI	GGNNCC	1 cut(s)	195
BspMAI	CTGCAG	2 cut(s)	232, 250
BspMI	ACCTGC	1 cut(s)	235
BspPI	GGATC	2 cut(s)	91, 122
BspT107I	GGYRCC	1 cut(s)	193
BsrI	ACTGG	1 cut(s)	48
BssECI	CCNNGG	1 cut(s)	54
BssMI	GATC	2 cut(s)	83, 114
Bst4CI	ACNGT	1 cut(s)	110
Bst6I	CTCTTC	3 cut(s)	169, 273, 285
BstAPI	GCANNNNNTGC	1 cut(s)	227
BstC8I	GCNNGC	1 cut(s)	27
BstDEI	CTNAG	2 cut(s)	208, 264
BstKTI	GATC	2 cut(s)	86, 117
BstMBI	GATC	2 cut(s)	83, 114
BstMCI	CGRYCG	1 cut(s)	60
BstMWI	GCNNNNNNNGC	6 cut(s)	218, 227, 242, 251, 257, 260
BstSFI	CTRYAG	2 cut(s)	228, 246
BstV1I	GCAGC	8 cut(s)	16, 199, 220, 232, 238, 242, 247, 260
BstZI	CGGCCG	1 cut(s)	57
BsuRI	GGCC	1 cut(s)	59
BveI	ACCTGC	1 cut(s)	235
Cac8I	GCNNGC	1 cut(s)	27
DdeI	CTNAG	2 cut(s)	208, 264
DpnI	GATC	2 cut(s)	85, 116
DpnII	GATC	2 cut(s)	83, 114
EaeI	YGGCCR	1 cut(s)	57
EagI	CGGCCG	1 cut(s)	57
Eam1104I	CTCTTC	3 cut(s)	169, 273, 285
EarI	CTCTTC	3 cut(s)	169, 273, 285
EclXI	CGGCCG	1 cut(s)	57
Eco32I	GATATC	1 cut(s)	151
Eco52I	CGGCCG	1 cut(s)	57
Eco57I	CTGAAG	3 cut(s)	117, 297, 309
EcoRV	GATATC	1 cut(s)	151
FaiI	YATR	1 cut(s)	23
FaqI	GGGAC	1 cut(s)	36
Fnu4HI	GCNGC	9 cut(s)	15, 30, 213, 231, 234, 246, 249, 252, 261
Fsp4HI	GCNGC	9 cut(s)	15, 30, 213, 231, 234, 246, 249, 252, 261
FspBI	CTAG	1 cut(s)	161
GluI	GCNGC	9 cut(s)	15, 30, 213, 231, 234, 246, 249, 252, 261
HaeIII	GGCC	1 cut(s)	59
HapII	CCGG	1 cut(s)	201
HpaII	CCGG	1 cut(s)	201
HphI	GGTGA	2 cut(s)	145, 216
Hpy188I	TCNGA	3 cut(s)	83, 92, 133
Hpy188III	TCNNGA	1 cut(s)	171
Hpy99I	CGWCG	1 cut(s)	311
HpyAV	CCTTC	2 cut(s)	207, 277
HpyCH4III	ACNGT	1 cut(s)	110
HpyCH4V	TGCA	4 cut(s)	167, 221, 230, 248
HpyF10VI	GCNNNNNNNGC	6 cut(s)	218, 227, 242, 251, 257, 260
HpyF3I	CTNAG	2 cut(s)	208, 264
Kzo9I	GATC	2 cut(s)	83, 114
LmnI	GCTCC	1 cut(s)	92
LpnPI	CCDG	6 cut(s)	11, 61, 156, 214, 240, 288
Lsp1109I	GCAGC	8 cut(s)	16, 199, 220, 232, 238, 242, 247, 260
LweI	GCATC	3 cut(s)	176, 197, 230
MaeI	CTAG	1 cut(s)	161
MalI	GATC	2 cut(s)	85, 116
MboI	GATC	2 cut(s)	83, 114
MboII	GAAGA	4 cut(s)	82, 186, 290, 302
MluCI	AATT	1 cut(s)	75
MmeI	TCCRAC	1 cut(s)	70
MnlI	CCTC	7 cut(s)	32, 64, 259, 286, 289, 292, 295
MspA1I	CMGCKG	4 cut(s)	212, 233, 245, 251
MspI	CCGG	1 cut(s)	201
MwoI	GCNNNNNNNGC	6 cut(s)	218, 227, 242, 251, 257, 260
NdeII	GATC	2 cut(s)	83, 114
NlaIV	GGNNCC	1 cut(s)	195
NmeAIII	GCCGAG	1 cut(s)	35
PaqCI	CACCTGC	1 cut(s)	235
PkrI	GCNGC	9 cut(s)	16, 31, 214, 232, 235, 247, 250, 253, 262
PspN4I	GGNNCC	1 cut(s)	195
PstI	CTGCAG	2 cut(s)	232, 250
PvuII	CAGCTG	3 cut(s)	212, 233, 251
SatI	GCNGC	9 cut(s)	15, 30, 213, 231, 234, 246, 249, 252, 261
Sau3AI	GATC	2 cut(s)	83, 114
SetI	ASST	7 cut(s)	9, 97, 162, 214, 229, 235, 253
SfaNI	GCATC	3 cut(s)	176, 197, 230
SfcI	CTRYAG	2 cut(s)	228, 246
Sse9I	AATT	1 cut(s)	75
SsiI	CCGC	1 cut(s)	243
SspMI	CTAG	1 cut(s)	161
TaaI	ACNGT	1 cut(s)	110
TaqI	TCGA	1 cut(s)	117
TasI	AATT	1 cut(s)	75
TseI	GCWGC	9 cut(s)	14, 29, 212, 230, 233, 245, 248, 251, 260
TspDTI	ATGAA	1 cut(s)	17
XapI	RAATTY	1 cut(s)	75
XspI	CTAG	1 cut(s)	161

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