Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0005247

Physical Location & Seq

Genomic Coordinates Forward (+)

53923545 .. 53924953

Gene Structure 1409 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG418000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 330 bp

ATGTCTACCGGTGAAGTTGCTTGCGCCTACGCCGCCATGATTCTTCATGACGAGGGCATCCCAATCACAGCTGAGAAGATTGCTACTTTGATCAAATCTGCAAATGTTAACGTGGAAGCATACTGGCCCAACCTCTTTGCCAATCTTGCGGAGCAGAAGGATCTTGGTGGCCTTACAATGAATGTTGGATGTGGTGGTGGTGGTGCAGCTCCAGTAGCTATGGCTGCTCCGGCTGCCGCCACTGCTGCTGCTCCTGCGGCCGAGGAGAAGAAGGATGAGCCAGAGGAAGAAAGTGATGATGACCTGGGTATCAGCTTGTTCGATGACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001932 GO:0001934 GO:0002181 GO:0003674 GO:0003735 GO:0005198 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0005840 GO:0005844 GO:0005886 GO:0006412 GO:0006518 GO:0006807 GO:0008047 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009893 GO:0009987 GO:0010467 GO:0010562 GO:0010604 GO:0015934 GO:0016020 GO:0019207 GO:0019209 GO:0019220 GO:0019222 GO:0019538 GO:0019887 GO:0022625 GO:0022626 GO:0030234 GO:0030295 GO:0031323 GO:0031325 GO:0031399 GO:0031401 GO:0032147 GO:0032268 GO:0032270 GO:0032991 GO:0033674 GO:0034641 GO:0034645 GO:0042325 GO:0042327 GO:0042788 GO:0043043 GO:0043085 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043549 GO:0043603 GO:0043604 GO:0044093 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044391 GO:0044422 GO:0044424 GO:0044444 GO:0044445 GO:0044446 GO:0044464 GO:0045859 GO:0045860 GO:0045937 GO:0048518 GO:0048522 GO:0050789 GO:0050790 GO:0050794 GO:0051171 GO:0051173 GO:0051174 GO:0051246 GO:0051247 GO:0051338 GO:0051347 GO:0060255 GO:0065007 GO:0065009 GO:0071704 GO:0071944 GO:0080090 GO:0098772 GO:1901564 GO:1901566 GO:1901576 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03010 map03010

Pfam Domains

Protein Families

Ribosomal_60s

Protein Analysis

109

Amino Acids

11.1

Weight (kDa)

4.05

Isoelectric Point (pI)

47.81

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_60s	PF00428	22 - 107	1.2e-24	60s Acidic ribosomal protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0005247)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G24510
fragaria_vesca	FvH4_3g19530 FvH4_3g19540 FvH4_3g19560 FvH4_4g09050 FvH4_7g32851
malus_domestica	MD01G1228000.v1.1 MD07G1298500.v1.1
prunus_persica	Prupe.2G318300_v2.0.a1
pyrus_communis	pycom07g27090
rosa_chinensis	RchiOBHm_Chr1g0382801 RchiOBHm_Chr5g0032771
rosa_laevigata	RLG00000026158 RLG00000033427
rosa_multiflora	Rmu_sc0003389.1_g000003
rosa_roxburghii	Rroxscaffold_1G00047330 Rroxscaffold_1G00047790 Rroxscaffold_4G00277890 Rroxscaffold_5G00373420
rosa_rugosa	Rorug04G0253800 Rorug05G0133600
rosa_samantha	Rh1AG461300 Rh1BG418000 Rh1CG431800 Rh1DG450200 Rh5AG226400 Rh5CG255200
rosa_wichuraiana	Rw1G041040 Rw5G020760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	5
AciI	CCGC	4 cut(s)	33, 149, 237, 257
AclWI	GGATC	1 cut(s)	168
AcoI	YGGCCR	1 cut(s)	258
AgeI	ACCGGT	1 cut(s)	8
AjnI	CCWGG	1 cut(s)	303
AluBI	AGCT	4 cut(s)	71, 209, 218, 315
AluI	AGCT	4 cut(s)	71, 209, 218, 315
AlwI	GGATC	1 cut(s)	168
AoxI	GGCC	3 cut(s)	125, 169, 258
ApeKI	GCWGC	5 cut(s)	206, 224, 233, 245, 248
AsiGI	ACCGGT	1 cut(s)	8
AspLEI	GCGC	1 cut(s)	26
AspS9I	GGNCC	1 cut(s)	126
AsuHPI	GGTGA	1 cut(s)	23
BaeI	ACNNNNGTAYC	2 cut(s)	292, 325
BbvI	GCAGC	5 cut(s)	211, 218, 220, 232, 235
BciT130I	CCWGG	1 cut(s)	305
BclI	TGATCA	1 cut(s)	90
BfaI	CTAG	1 cut(s)	328
BisI	GCNGC	8 cut(s)	33, 207, 225, 234, 237, 246, 249, 258
BlsI	GCNGC	8 cut(s)	34, 208, 226, 235, 238, 247, 250, 259
Bme1390I	CCNGG	1 cut(s)	305
BmgT120I	GGNCC	1 cut(s)	126
BmrFI	CCNGG	1 cut(s)	305
BmsI	GCATC	1 cut(s)	66
BpmI	CTGGAG	1 cut(s)	195
BsaJI	CCNNGG	2 cut(s)	261, 304
BsaWI	WCCGGW	1 cut(s)	8
Bse118I	RCCGGY	1 cut(s)	8
Bse1I	ACTGG	2 cut(s)	128, 212
BseBI	CCWGG	1 cut(s)	305
BseDI	CCNNGG	2 cut(s)	261, 304
BseGI	GGATG	3 cut(s)	57, 194, 280
BseMII	CTCAG	1 cut(s)	63
BseNI	ACTGG	2 cut(s)	128, 212
BseRI	GAGGAG	1 cut(s)	278
BseX3I	CGGCCG	1 cut(s)	258
BseXI	GCAGC	5 cut(s)	211, 218, 220, 232, 235
BsgI	GTGCAG	1 cut(s)	225
Bsh1285I	CGRYCG	1 cut(s)	261
BshFI	GGCC	3 cut(s)	127, 171, 260
BshTI	ACCGGT	1 cut(s)	8
BsiEI	CGRYCG	1 cut(s)	261
BsiSI	CCGG	2 cut(s)	9, 230
BsnI	GGCC	3 cut(s)	127, 171, 260
Bsp143I	GATC	2 cut(s)	90, 160
BspACI	CCGC	4 cut(s)	33, 149, 237, 257
BspANI	GGCC	3 cut(s)	127, 171, 260
BspCNI	CTCAG	1 cut(s)	64
BspHI	TCATGA	1 cut(s)	46
BspPI	GGATC	1 cut(s)	168
BsrFI	RCCGGY	1 cut(s)	8
BsrI	ACTGG	2 cut(s)	128, 212
BssAI	RCCGGY	1 cut(s)	8
BssECI	CCNNGG	2 cut(s)	261, 304
BssMI	GATC	2 cut(s)	90, 160
Bst2UI	CCWGG	1 cut(s)	305
BstC8I	GCNNGC	1 cut(s)	22
BstDEI	CTNAG	1 cut(s)	72
BstF5I	GGATG	3 cut(s)	57, 194, 280
BstHHI	GCGC	1 cut(s)	26
BstKTI	GATC	2 cut(s)	93, 163
BstMBI	GATC	2 cut(s)	90, 160
BstMCI	CGRYCG	1 cut(s)	261
BstNI	CCWGG	1 cut(s)	305
BstSCI	CCNGG	1 cut(s)	303
BstV1I	GCAGC	5 cut(s)	211, 218, 220, 232, 235
BstX2I	RGATCY	1 cut(s)	160
BstYI	RGATCY	1 cut(s)	160
BstZI	CGGCCG	1 cut(s)	258
BsuRI	GGCC	3 cut(s)	127, 171, 260
BtsCI	GGATG	3 cut(s)	57, 194, 280
BtsI	GCAGTG	1 cut(s)	240
BtsIMutI	CAGTG	1 cut(s)	240
Cac8I	GCNNGC	1 cut(s)	22
CciI	TCATGA	1 cut(s)	46
CfoI	GCGC	1 cut(s)	26
Cfr10I	RCCGGY	1 cut(s)	8
Cfr13I	GGNCC	1 cut(s)	126
CspAI	ACCGGT	1 cut(s)	8
CviAII	CATG	2 cut(s)	37, 47
DdeI	CTNAG	1 cut(s)	72
DpnI	GATC	2 cut(s)	92, 162
DpnII	GATC	2 cut(s)	90, 160
EaeI	YGGCCR	1 cut(s)	258
EagI	CGGCCG	1 cut(s)	258
EclXI	CGGCCG	1 cut(s)	258
Eco52I	CGGCCG	1 cut(s)	258
EcoRII	CCWGG	1 cut(s)	303
FaeI	CATG	2 cut(s)	40, 50
FaiI	YATR	4 cut(s)	38, 48, 121, 221
FatI	CATG	2 cut(s)	36, 46
FbaI	TGATCA	1 cut(s)	90
FblI	GTMKAC	1 cut(s)	5
Fnu4HI	GCNGC	8 cut(s)	33, 207, 225, 234, 237, 246, 249, 258
FokI	GGATG	3 cut(s)	44, 201, 287
Fsp4HI	GCNGC	8 cut(s)	33, 207, 225, 234, 237, 246, 249, 258
FspBI	CTAG	1 cut(s)	328
GlaI	GCGC	1 cut(s)	25
GluI	GCNGC	8 cut(s)	33, 207, 225, 234, 237, 246, 249, 258
GsuI	CTGGAG	1 cut(s)	195
HaeIII	GGCC	3 cut(s)	127, 171, 260
HapII	CCGG	2 cut(s)	9, 230
HhaI	GCGC	1 cut(s)	26
Hin1II	CATG	2 cut(s)	40, 50
Hin6I	GCGC	1 cut(s)	24
HinP1I	GCGC	1 cut(s)	24
HincII	GTYRAC	1 cut(s)	109
HindII	GTYRAC	1 cut(s)	109
HinfI	GANTC	1 cut(s)	40
HpaI	GTTAAC	1 cut(s)	109
HpaII	CCGG	2 cut(s)	9, 230
HphI	GGTGA	1 cut(s)	23
Hpy166II	GTNNAC	2 cut(s)	6, 109
Hpy188III	TCNNGA	1 cut(s)	47
Hpy8I	GTNNAC	2 cut(s)	6, 109
HpyAV	CCTTC	2 cut(s)	151, 265
HpyCH4IV	ACGT	1 cut(s)	111
HpyCH4V	TGCA	2 cut(s)	101, 206
HpyF3I	CTNAG	1 cut(s)	72
HpySE526I	ACGT	1 cut(s)	111
Hsp92II	CATG	2 cut(s)	40, 50
HspAI	GCGC	1 cut(s)	24
Ksp22I	TGATCA	1 cut(s)	90
KspAI	GTTAAC	1 cut(s)	109
Kzo9I	GATC	2 cut(s)	90, 160
LmnI	GCTCC	4 cut(s)	151, 214, 232, 256
LpnPI	CCDG	8 cut(s)	22, 109, 225, 243, 267, 290, 294, 317
Lsp1109I	GCAGC	5 cut(s)	211, 218, 220, 232, 235
LweI	GCATC	1 cut(s)	66
MaeI	CTAG	1 cut(s)	328
MaeII	ACGT	1 cut(s)	111
MalI	GATC	2 cut(s)	92, 162
MboI	GATC	2 cut(s)	90, 160
MboII	GAAGA	4 cut(s)	35, 88, 280, 299
MflI	RGATCY	1 cut(s)	160
MmeI	TCCRAC	1 cut(s)	166
MnlI	CCTC	4 cut(s)	46, 143, 256, 277
MseI	TTAA	1 cut(s)	108
MspA1I	CMGCKG	1 cut(s)	71
MspI	CCGG	2 cut(s)	9, 230
MspR9I	CCNGG	1 cut(s)	305
MvaI	CCWGG	1 cut(s)	305
NdeII	GATC	2 cut(s)	90, 160
NlaIII	CATG	2 cut(s)	40, 50
NmeAIII	GCCGAG	1 cut(s)	286
PagI	TCATGA	1 cut(s)	46
PfeI	GAWTC	1 cut(s)	40
PinAI	ACCGGT	1 cut(s)	8
PkrI	GCNGC	8 cut(s)	34, 208, 226, 235, 238, 247, 250, 259
Psp6I	CCWGG	1 cut(s)	303
PspGI	CCWGG	1 cut(s)	303
PspPI	GGNCC	1 cut(s)	126
PsuI	RGATCY	1 cut(s)	160
PvuII	CAGCTG	1 cut(s)	71
SaqAI	TTAA	1 cut(s)	108
SatI	GCNGC	8 cut(s)	33, 207, 225, 234, 237, 246, 249, 258
Sau3AI	GATC	2 cut(s)	90, 160
Sau96I	GGNCC	1 cut(s)	126
ScrFI	CCNGG	1 cut(s)	305
SetI	ASST	7 cut(s)	73, 114, 135, 211, 220, 306, 317
SfaNI	GCATC	1 cut(s)	66
SsiI	CCGC	4 cut(s)	33, 149, 237, 257
SspMI	CTAG	1 cut(s)	328
StyD4I	CCNGG	1 cut(s)	303
TaiI	ACGT	1 cut(s)	114
TaqI	TCGA	1 cut(s)	321
TauI	GCSGC	3 cut(s)	35, 239, 260
TfiI	GAWTC	1 cut(s)	40
Tru1I	TTAA	1 cut(s)	108
Tru9I	TTAA	1 cut(s)	108
TscAI	CASTG	1 cut(s)	247
TseI	GCWGC	5 cut(s)	206, 224, 233, 245, 248
TspDTI	ATGAA	2 cut(s)	35, 194
TspRI	CASTG	1 cut(s)	247
XmiI	GTMKAC	1 cut(s)	5
XspI	CTAG	1 cut(s)	328

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