Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0004378

Physical Location & Seq

Genomic Coordinates Reverse (-)

11608290 .. 11610367

Gene Structure 2078 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG060700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 972 bp

ATGTCATCAAAAATGGGAAAGCTCTCCAAGGTCGAGAAGAAGATCAACTACGATGCCAAGCTCTGCCGGCTCCTCGACGAGTACGCCCAGGTTCTCATCGTCGCCGCCGATAACGTCGGCTCCAATCAGCTCCAGAACATCCGCCAGGGCTTACGCGGCCACTCCATCGTTCTCATGGGGAAGAACACCATGATGAAGAGGTCCATCAAGATTCATGCTGAAAAGACCGGAAACAATGCTGTTCTCAACCTCGTCCCCCTCCTCGTGGGTAATGTGGGTTTGATCTTCACCAAGGGTGATTTGAAGGAAGTGAAAGAAGAGGTTGCCAAGTACAAGGTTGGGGCCCCTGCTCGTGTGGGTTTGGTTGCTCCAGTTGATGTTGTTGTTCCTCCTGGCAACACTGGACTCGACCCATCCCAGACCTCTTTCTTCCAGGTGCTTAACATTCCAACTAAGATTAACAAGGGAACTGTGGAAATCATTACCCCTGTTGAACTTATTAAGAAGGGTGACAAGGTTGGGTCTTCTGAGTCTGCTCTTCTTGCCAAGCTCGGGATCAGGCCATTCTCTTATGGTCTTGTTGTCCAGATGGTGTATGAAAATGGTTCTGTTTTCAGCCCAGAGGTGCTTGATCTTACTGAGGATGATCTCGCGTTGACGTTTGCTTCTAATGTCTCCAATGTCGCAGCATTGGCATTGGCTATTTCCTACCCAACAATTGCAGCTGCTCCACATATGTTCCTCAATGCCTACAAGAATGTGTTGGCAGTTGCTGTGGCTACTGAGTATTCCTTCCCTCAAGCAGATAAGGTCAAGGAGTATCTGAAGGATCCTACCAAGTTTGCTGCTTTGGCTGCCCCTGCCCCTGCAGCTGCTGCTGCTGCCCCTGCTGCGGCTGCTAAGGTGGAAGCGAAGAAGGAAGAGCCTTCTGAGGAGTCAGATGAGGACATGGGTCTTGGTTTATTCGATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003735 GO:0005198 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005840 GO:0006950 GO:0008150 GO:0009628 GO:0015934 GO:0022625 GO:0022626 GO:0032991 GO:0034059 GO:0036293 GO:0043226 GO:0043228 GO:0043229 GO:0043232 GO:0044391 GO:0044422 GO:0044424 GO:0044444 GO:0044445 GO:0044446 GO:0044464 GO:0044877 GO:0050896 GO:0070482 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03010 map03010

Pfam Domains

Protein Families

Ribosomal_60s Ribosomal_L10

Protein Analysis

323

Amino Acids

34.35

Weight (kDa)

6.86

Isoelectric Point (pI)

34.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_L10	PF00466	12 - 111	9.7e-18	Ribosomal protein L10
RL10P_insert	PF17777	117 - 186	8.4e-21	Insertion domain in 60S ribosomal protein L10P
Ribosomal_60s	PF00428	237 - 322	2e-22	60s Acidic ribosomal protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004378)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G40010 AT3G09200 AT3G09200 AT3G11250
fragaria_vesca	FvH4_4g04410 FvH4_5g34410 FvH4_7g24170 FvH4_7g24570
malus_domestica	MD01G1148900.v1.1 MD07G1215800.v1.1
prunus_persica	Prupe.1G173900_v2.0.a1
pyrus_communis	pycom01g16730
rosa_chinensis	RchiOBHm_Chr1g0369751 RchiOBHm_Chr4g0394971
rosa_laevigata	RLG00000009654 RLG00000027110
rosa_multiflora	Rmu_sc0001154.1_g000029 Rmu_sc0005802.1_g000028
rosa_roxburghii	Rroxscaffold_4G00287420 Rroxscaffold_5G00339940
rosa_rugosa	Rorug01G0352000 Rorug03G0360400.1
rosa_samantha	Rh1AG360200 Rh1BG324000 Rh1CG337200 Rh1DG354500 Rh4AG056100 Rh4BG054800 Rh4CG060700 Rh4DG052100
rosa_wichuraiana	Rw1G031730 Rw4G004480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	156, 653
AciI	CCGC	4 cut(s)	105, 142, 156, 893
AclWI	GGATC	3 cut(s)	563, 824, 837
AcoI	YGGCCR	1 cut(s)	157
AcuI	CTGAAG	1 cut(s)	845
AfaI	GTAC	2 cut(s)	83, 332
AfiI	CCNNNNNNNGG	3 cut(s)	265, 552, 892
AgsI	TTSAA	2 cut(s)	304, 494
AjnI	CCWGG	4 cut(s)	87, 144, 391, 432
AluBI	AGCT	6 cut(s)	22, 61, 130, 550, 725, 872
AluI	AGCT	6 cut(s)	22, 61, 130, 550, 725, 872
Alw26I	GTCTC	1 cut(s)	679
AlwI	GGATC	3 cut(s)	563, 824, 837
AlwNI	CAGNNNCTG	2 cut(s)	773, 875
Ama87I	CYCGRG	1 cut(s)	551
AoxI	GGCC	3 cut(s)	157, 342, 560
ApaI	GGGCCC	1 cut(s)	346
AspS9I	GGNCC	3 cut(s)	201, 342, 343
AsuHPI	GGTGA	3 cut(s)	280, 308, 521
AvaI	CYCGRG	1 cut(s)	551
AvaII	GGWCC	1 cut(s)	201
BaeGI	GKGCMC	1 cut(s)	346
BamHI	GGATCC	1 cut(s)	829
BanII	GRGCYC	1 cut(s)	346
BarI	GAAGNNNNNNTAC	2 cut(s)	32, 64
BauI	CACGAG	2 cut(s)	263, 351
BbsI	GAAGAC	1 cut(s)	516
BccI	CCATC	4 cut(s)	173, 212, 421, 583
BciT130I	CCWGG	4 cut(s)	89, 146, 393, 434
BcoDI	GTCTC	1 cut(s)	679
BfmI	CTRYAG	1 cut(s)	867
Bme1390I	CCNGG	4 cut(s)	89, 146, 393, 434
Bme18I	GGWCC	1 cut(s)	201
BmeT110I	CYCGRG	1 cut(s)	551
BmgT120I	GGNCC	3 cut(s)	201, 342, 343
BmiI	GGNNCC	6 cut(s)	71, 121, 343, 344, 345, 831
BmrFI	CCNGG	4 cut(s)	89, 146, 393, 434
BmsI	GCATC	1 cut(s)	43
BoxI	GACNNNNGTC	1 cut(s)	951
BpiI	GAAGAC	1 cut(s)	516
BpmI	CTGGAG	2 cut(s)	116, 354
Bpu10I	CCTNAGC	1 cut(s)	900
BpuEI	CTTGAG	1 cut(s)	783
BsaJI	CCNNGG	4 cut(s)	27, 87, 145, 291
BsaWI	WCCGGW	1 cut(s)	227
BsaXI	ACNNNNNCTCC	2 cut(s)	104, 134
Bsc4I	CCNNNNNNNGG	3 cut(s)	265, 552, 892
Bse118I	RCCGGY	1 cut(s)	66
Bse1I	ACTGG	2 cut(s)	371, 406
BseBI	CCWGG	4 cut(s)	89, 146, 393, 434
BseDI	CCNNGG	4 cut(s)	27, 87, 145, 291
BseGI	GGATG	3 cut(s)	138, 413, 649
BseLI	CCNNNNNNNGG	3 cut(s)	265, 552, 892
BseMII	CTCAG	4 cut(s)	519, 630, 774, 921
BseNI	ACTGG	2 cut(s)	371, 406
BseRI	GAGGAG	3 cut(s)	62, 251, 947
BseSI	GKGCMC	1 cut(s)	346
Bsh1236I	CGCG	2 cut(s)	156, 653
BshFI	GGCC	3 cut(s)	159, 344, 562
BsiHKCI	CYCGRG	1 cut(s)	551
BsiSI	CCGG	2 cut(s)	67, 228
BslFI	GGGAC	1 cut(s)	239
BslI	CCNNNNNNNGG	3 cut(s)	265, 552, 892
BsmAI	GTCTC	1 cut(s)	679
BsmFI	GGGAC	1 cut(s)	239
BsnI	GGCC	3 cut(s)	159, 344, 562
BsoBI	CYCGRG	1 cut(s)	551
Bsp120I	GGGCCC	1 cut(s)	342
Bsp1286I	GDGCHC	1 cut(s)	346
Bsp143I	GATC	6 cut(s)	42, 282, 555, 631, 646, 829
BspACI	CCGC	4 cut(s)	105, 142, 156, 893
BspANI	GGCC	3 cut(s)	159, 344, 562
BspCNI	CTCAG	4 cut(s)	520, 631, 775, 922
BspFNI	CGCG	2 cut(s)	156, 653
BspLI	GGNNCC	6 cut(s)	71, 121, 343, 344, 345, 831
BspMAI	CTGCAG	1 cut(s)	871
BspPI	GGATC	3 cut(s)	563, 824, 837
BspQI	GCTCTTC	2 cut(s)	543, 915
BsrFI	RCCGGY	1 cut(s)	66
BsrI	ACTGG	2 cut(s)	371, 406
BssAI	RCCGGY	1 cut(s)	66
BssECI	CCNNGG	4 cut(s)	27, 87, 145, 291
BssMI	GATC	6 cut(s)	42, 282, 555, 631, 646, 829
BssSI	CACGAG	2 cut(s)	263, 351
BssT1I	CCWWGG	2 cut(s)	27, 291
Bst2BI	CACGAG	2 cut(s)	263, 351
Bst2UI	CCWGG	4 cut(s)	89, 146, 393, 434
Bst4CI	ACNGT	1 cut(s)	472
Bst6I	CTCTTC	4 cut(s)	191, 312, 543, 915
BstAPI	GCANNNNNTGC	1 cut(s)	875
BstC8I	GCNNGC	1 cut(s)	68
BstDEI	CTNAG	6 cut(s)	453, 528, 639, 783, 900, 930
BstF5I	GGATG	3 cut(s)	138, 413, 649
BstFNI	CGCG	2 cut(s)	156, 653
BstKTI	GATC	6 cut(s)	45, 285, 558, 634, 649, 832
BstMAI	GTCTC	1 cut(s)	679
BstMBI	GATC	6 cut(s)	42, 282, 555, 631, 646, 829
BstNI	CCWGG	4 cut(s)	89, 146, 393, 434
BstPAI	GACNNNNGTC	1 cut(s)	951
BstSCI	CCNGG	4 cut(s)	87, 144, 391, 432
BstSFI	CTRYAG	1 cut(s)	867
BstSLI	GKGCMC	1 cut(s)	346
BstUI	CGCG	2 cut(s)	156, 653
BstV2I	GAAGAC	1 cut(s)	516
BstX2I	RGATCY	1 cut(s)	829
BstYI	RGATCY	1 cut(s)	829
BsuRI	GGCC	3 cut(s)	159, 344, 562
BtsCI	GGATG	3 cut(s)	138, 413, 649
BtsIMutI	CAGTG	1 cut(s)	399
Cac8I	GCNNGC	1 cut(s)	68
CaiI	CAGNNNCTG	2 cut(s)	773, 875
Cfr10I	RCCGGY	1 cut(s)	66
Cfr13I	GGNCC	3 cut(s)	201, 342, 343
Csp6I	GTAC	2 cut(s)	82, 331
CviAII	CATG	4 cut(s)	175, 190, 215, 949
CviQI	GTAC	2 cut(s)	82, 331
DdeI	CTNAG	6 cut(s)	453, 528, 639, 783, 900, 930
DpnI	GATC	6 cut(s)	44, 284, 557, 633, 648, 831
DpnII	GATC	6 cut(s)	42, 282, 555, 631, 646, 829
EaeI	YGGCCR	1 cut(s)	157
Eam1104I	CTCTTC	4 cut(s)	191, 312, 543, 915
EarI	CTCTTC	4 cut(s)	191, 312, 543, 915
EciI	GGCGGA	1 cut(s)	131
Eco130I	CCWWGG	2 cut(s)	27, 291
Eco24I	GRGCYC	1 cut(s)	346
Eco47I	GGWCC	1 cut(s)	201
Eco57I	CTGAAG	1 cut(s)	845
Eco88I	CYCGRG	1 cut(s)	551
EcoO109I	RGGNCCY	2 cut(s)	342, 343
EcoRII	CCWGG	4 cut(s)	87, 144, 391, 432
EcoT14I	CCWWGG	2 cut(s)	27, 291
EcoT38I	GRGCYC	1 cut(s)	346
ErhI	CCWWGG	2 cut(s)	27, 291
FaeI	CATG	4 cut(s)	178, 193, 218, 952
FaiI	YATR	8 cut(s)	176, 191, 216, 573, 597, 735, 737, 950
FaqI	GGGAC	1 cut(s)	239
FatI	CATG	4 cut(s)	174, 189, 214, 948
FauNDI	CATATG	1 cut(s)	735
FokI	GGATG	3 cut(s)	125, 400, 656
FriOI	GRGCYC	1 cut(s)	346
GsuI	CTGGAG	2 cut(s)	116, 354
HaeIII	GGCC	3 cut(s)	159, 344, 562
HapII	CCGG	2 cut(s)	67, 228
Hin1II	CATG	4 cut(s)	178, 193, 218, 952
HincII	GTYRAC	1 cut(s)	657
HindII	GTYRAC	1 cut(s)	657
HinfI	GANTC	4 cut(s)	211, 405, 530, 935
HpaII	CCGG	2 cut(s)	67, 228
HphI	GGTGA	3 cut(s)	280, 308, 521
Hpy166II	GTNNAC	1 cut(s)	657
Hpy188I	TCNGA	4 cut(s)	529, 825, 931, 940
Hpy188III	TCNNGA	5 cut(s)	34, 133, 208, 553, 586
Hpy8I	GTNNAC	1 cut(s)	657
Hpy99I	CGWCG	3 cut(s)	80, 104, 119
HpyAV	CCTTC	6 cut(s)	298, 499, 802, 820, 910, 936
HpyCH4III	ACNGT	1 cut(s)	472
HpyCH4IV	ACGT	2 cut(s)	114, 659
HpyCH4V	TGCA	2 cut(s)	722, 869
HpyF3I	CTNAG	6 cut(s)	453, 528, 639, 783, 900, 930
HpySE526I	ACGT	2 cut(s)	114, 659
Hsp92II	CATG	4 cut(s)	178, 193, 218, 952
KroI	GCCGGC	1 cut(s)	66
KroNI	GCCGGC	1 cut(s)	68
Kzo9I	GATC	6 cut(s)	42, 282, 555, 631, 646, 829
LguI	GCTCTTC	2 cut(s)	543, 915
LmnI	GCTCC	5 cut(s)	75, 125, 135, 373, 733
LweI	GCATC	1 cut(s)	43
MaeII	ACGT	2 cut(s)	114, 659
MaeIII	GTNAC	1 cut(s)	509
MalI	GATC	6 cut(s)	44, 284, 557, 633, 648, 831
MboI	GATC	6 cut(s)	42, 282, 555, 631, 646, 829
MfeI	CAATTG	1 cut(s)	717
MflI	RGATCY	1 cut(s)	829
MhlI	GDGCHC	1 cut(s)	346
MluCI	AATT	1 cut(s)	717
MlyI	GAGTC	3 cut(s)	399, 539, 944
MmeI	TCCRAC	1 cut(s)	473
MroNI	GCCGGC	1 cut(s)	66
MseI	TTAA	4 cut(s)	441, 459, 501, 970
MslI	CAYNNNNRTG	1 cut(s)	191
MspA1I	CMGCKG	2 cut(s)	725, 872
MspI	CCGG	2 cut(s)	67, 228
MspR9I	CCNGG	4 cut(s)	89, 146, 393, 434
MunI	CAATTG	1 cut(s)	717
MvaI	CCWGG	4 cut(s)	89, 146, 393, 434
MvnI	CGCG	2 cut(s)	156, 653
NaeI	GCCGGC	1 cut(s)	68
NdeI	CATATG	1 cut(s)	735
NdeII	GATC	6 cut(s)	42, 282, 555, 631, 646, 829
NgoMIV	GCCGGC	1 cut(s)	66
NlaIII	CATG	4 cut(s)	178, 193, 218, 952
NlaIV	GGNNCC	6 cut(s)	71, 121, 343, 344, 345, 831
NmuCI	GTSAC	1 cut(s)	509
PciSI	GCTCTTC	2 cut(s)	543, 915
PcsI	WCGNNNNNNNCGW	1 cut(s)	105
PdiI	GCCGGC	1 cut(s)	68
PfeI	GAWTC	1 cut(s)	211
PleI	GAGTC	3 cut(s)	399, 538, 943
PpsI	GAGTC	3 cut(s)	399, 538, 943
PshAI	GACNNNNGTC	1 cut(s)	951
Psp6I	CCWGG	4 cut(s)	87, 144, 391, 432
PspGI	CCWGG	4 cut(s)	87, 144, 391, 432
PspN4I	GGNNCC	6 cut(s)	71, 121, 343, 344, 345, 831
PspOMI	GGGCCC	1 cut(s)	342
PspPI	GGNCC	3 cut(s)	201, 342, 343
PstI	CTGCAG	1 cut(s)	871
PstNI	CAGNNNCTG	2 cut(s)	773, 875
PsuI	RGATCY	1 cut(s)	829
PvuII	CAGCTG	2 cut(s)	725, 872
RsaI	GTAC	2 cut(s)	83, 332
RsaNI	GTAC	2 cut(s)	82, 331
RseI	CAYNNNNRTG	1 cut(s)	191
SapI	GCTCTTC	2 cut(s)	543, 915
SaqAI	TTAA	4 cut(s)	441, 459, 501, 970
Sau3AI	GATC	6 cut(s)	42, 282, 555, 631, 646, 829
Sau96I	GGNCC	3 cut(s)	201, 342, 343
SchI	GAGTC	3 cut(s)	399, 539, 944
ScrFI	CCNGG	4 cut(s)	89, 146, 393, 434
SduI	GDGCHC	1 cut(s)	346
SfaNI	GCATC	1 cut(s)	43
SfcI	CTRYAG	1 cut(s)	867
SinI	GGWCC	1 cut(s)	201
SmiMI	CAYNNNNRTG	1 cut(s)	191
SmlI	CTYRAG	1 cut(s)	798
SmoI	CTYRAG	1 cut(s)	798
Sse9I	AATT	1 cut(s)	717
SsiI	CCGC	4 cut(s)	105, 142, 156, 893
StyD4I	CCNGG	4 cut(s)	87, 144, 391, 432
StyI	CCWWGG	2 cut(s)	27, 291
TaaI	ACNGT	1 cut(s)	472
TaiI	ACGT	2 cut(s)	117, 662
TaqI	TCGA	4 cut(s)	33, 75, 408, 966
TasI	AATT	1 cut(s)	717
TatI	WGTACW	1 cut(s)	330
TauI	GCSGC	3 cut(s)	107, 159, 896
TfiI	GAWTC	1 cut(s)	211
Tru1I	TTAA	4 cut(s)	441, 459, 501, 970
Tru9I	TTAA	4 cut(s)	441, 459, 501, 970
TscAI	CASTG	1 cut(s)	406
TseFI	GTSAC	1 cut(s)	509
Tsp45I	GTSAC	1 cut(s)	509
TspDTI	ATGAA	3 cut(s)	203, 209, 612
TspRI	CASTG	1 cut(s)	406
VpaK11BI	GGWCC	1 cut(s)	201
XcmI	CCANNNNNNNNNTGG	1 cut(s)	172

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