Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0014321

Physical Location & Seq

Genomic Coordinates Forward (+)

56281498 .. 56284479

Gene Structure 2982 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG340400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 795 bp

ATGGCAGCGTCCCCGCTCTTTCTTTCGTCAAGCCCCGCCCTGCGTTTCCCTTCTTCGCCATTCAAGGGAAATGTGAGTAACTTGAGGCCAAGCTTATGTTCAATCCCCTCGCTCAAGACGACGACTTCTCCTCCTCCTCAGAGAAGACAGCTGGTGGTTGTGAACAAGGCGGCCGCGGCGGTAGTCGGGGCTCCGACTGGGAACGTCCGGTTCAGGCTGGACAACTTGGGCCCTCAACCCGGGTCCAGAAAGAAGGGTAAGAGAAAGGGAAGAGGTATTGCTGCTGGGCAAGGCAACAGCTGCGGGTTCGGTATGCGGGGACAGAAGTCCCGGTCCGGACCGGGTGTCCGGCCCGGATTTGAAGGTGGACAGATGCCGCTCTATCGTCGAATTCCCAAGCTCAAGGGAATTGCTGGAGGTATGCGTAAGGGGTTGCCTAAATATGTGCCTGTGAACTTGAAAGATATAGAGGATGCAGGGTTTGAAGAAGGAGAAGAAGTTTCGTTAGAGAGTTTGAAGGACAAGGGGTTGATCAACCCTTCGGGGAGAGAGAGGAAACTCCCTTTGAAGATTCTCGGTGATGGGGAACTCAAAGTGAAGCTGAGCTTTAAGGCTCGGGCTTTTTCTGCAGCGGCGAAGGAGAAGCTTGAGGCTGCTGGCTGTAGTCTCACTGTTTTACCGGGCCGGAAGAAGTGGGTAAAGCCATCAGTTGCTAAGAACATTGCCCGTGCTGACGAATACTTTGCCAAGAAAAGAGCAGCCGCAGCTGCTGCTGCTGAATCACCATCTGCTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000311 GO:0000313 GO:0000315 GO:0003674 GO:0003735 GO:0005198 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005840 GO:0006412 GO:0006518 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009507 GO:0009526 GO:0009532 GO:0009536 GO:0009547 GO:0009570 GO:0009719 GO:0009725 GO:0009735 GO:0009941 GO:0009987 GO:0010033 GO:0010467 GO:0015934 GO:0019538 GO:0031967 GO:0031975 GO:0032991 GO:0034641 GO:0034645 GO:0042221 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044391 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0050896 GO:0071704 GO:1901564 GO:1901566 GO:1901576 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03010 map03010

Pfam Domains

Protein Families

Ribosomal_L27A

Protein Analysis

264

Amino Acids

27.89

Weight (kDa)

10.64

Isoelectric Point (pI)

48.52

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_L27A	PF00828	150 - 223	1.7e-15	Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A

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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0014321)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G25920
fragaria_vesca	FvH4_4g27310
malus_domestica	MD13G1041400.v1.1 MD16G1042300.v1.1
prunus_persica	Prupe.1G311800_v2.0.a1 Prupe.1G311800_v2.0.a1
pyrus_communis	pycom13g03590
rosa_chinensis	RchiOBHm_Chr4g0435111
rosa_laevigata	RLG00000006619
rosa_multiflora	Rmu_sc0000400.1_g000009
rosa_roxburghii	Rroxscaffold_5G00376320
rosa_rugosa	Rorug04G0282400
rosa_samantha	Rh4AG337900 Rh4BG346000 Rh4CG360500 Rh4DG340400
rosa_wichuraiana	Rw4G029460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	2 cut(s)	16, 379
AccII	CGCG	1 cut(s)	176
AccIII	TCCGGA	1 cut(s)	335
AcoI	YGGCCR	1 cut(s)	171
AcsI	RAATTY	1 cut(s)	390
AfiI	CCNNNNNNNGG	2 cut(s)	65, 239
AgsI	TTSAA	7 cut(s)	64, 102, 362, 460, 485, 517, 568
AhdI	GACNNNNNGTC	1 cut(s)	344
AjuI	GAANNNNNNNTTGG	2 cut(s)	82, 114
AluBI	AGCT	8 cut(s)	93, 151, 300, 400, 601, 606, 646, 767
AluI	AGCT	8 cut(s)	93, 151, 300, 400, 601, 606, 646, 767
Alw26I	GTCTC	1 cut(s)	671
AlwNI	CAGNNNCTG	1 cut(s)	770
Ama87I	CYCGRG	2 cut(s)	239, 615
Aor13HI	TCCGGA	1 cut(s)	335
AoxI	GGCC	5 cut(s)	86, 171, 229, 350, 682
ApaI	GGGCCC	1 cut(s)	233
ApoI	RAATTY	1 cut(s)	390
ArsI	GACNNNNNNTTYG	2 cut(s)	725, 757
AspS9I	GGNCC	7 cut(s)	229, 230, 243, 333, 338, 351, 682
AsuC2I	CCSGG	6 cut(s)	240, 241, 331, 342, 354, 681
AsuHPI	GGTGA	2 cut(s)	590, 774
AvaI	CYCGRG	2 cut(s)	239, 615
AvaII	GGWCC	3 cut(s)	243, 333, 338
BaeGI	GKGCMC	1 cut(s)	233
BanII	GRGCYC	2 cut(s)	193, 233
BbsI	GAAGAC	1 cut(s)	151
BccI	CCATC	3 cut(s)	575, 712, 793
BcgI	CGANNNNNNTGC	2 cut(s)	725, 759
BclI	TGATCA	1 cut(s)	531
BcnI	CCSGG	6 cut(s)	240, 241, 331, 342, 354, 681
BcoDI	GTCTC	1 cut(s)	671
BfmI	CTRYAG	2 cut(s)	627, 661
BlpI	GCTNAGC	1 cut(s)	602
Bme1390I	CCNGG	6 cut(s)	240, 241, 331, 342, 354, 681
Bme18I	GGWCC	3 cut(s)	243, 333, 338
BmeRI	GACNNNNNGTC	1 cut(s)	344
BmeT110I	CYCGRG	2 cut(s)	239, 615
BmgT120I	GGNCC	7 cut(s)	229, 230, 243, 333, 338, 351, 682
BmiI	GGNNCC	3 cut(s)	192, 231, 244
BmrFI	CCNGG	6 cut(s)	240, 241, 331, 342, 354, 681
BmrI	ACTGGG	1 cut(s)	207
BmsI	GCATC	2 cut(s)	363, 463
BmuI	ACTGGG	1 cut(s)	207
BoxI	GACNNNNGTC	1 cut(s)	325
BpiI	GAAGAC	1 cut(s)	151
BpmI	CTGGAG	1 cut(s)	435
Bpu1102I	GCTNAGC	1 cut(s)	602
BpuEI	CTTGAG	4 cut(s)	98, 103, 386, 668
BpuMI	CCSGG	6 cut(s)	240, 241, 331, 342, 354, 681
BsaJI	CCNNGG	2 cut(s)	174, 239
BsaWI	WCCGGW	2 cut(s)	207, 335
BsaXI	ACNNNNNCTCC	6 cut(s)	112, 115, 142, 145, 483, 513
Bsc4I	CCNNNNNNNGG	2 cut(s)	65, 239
Bse1I	ACTGG	1 cut(s)	202
Bse3DI	GCAATG	1 cut(s)	720
BseAI	TCCGGA	1 cut(s)	335
BseDI	CCNNGG	2 cut(s)	174, 239
BseGI	GGATG	1 cut(s)	478
BseLI	CCNNNNNNNGG	2 cut(s)	65, 239
BseMI	GCAATG	1 cut(s)	720
BseMII	CTCAG	2 cut(s)	152, 593
BseNI	ACTGG	1 cut(s)	202
BseRI	GAGGAG	3 cut(s)	120, 123, 126
BseSI	GKGCMC	1 cut(s)	233
BseX3I	CGGCCG	1 cut(s)	171
BseYI	CCCAGC	1 cut(s)	284
Bsh1236I	CGCG	1 cut(s)	176
Bsh1285I	CGRYCG	1 cut(s)	174
BshFI	GGCC	5 cut(s)	88, 173, 231, 352, 684
BsiEI	CGRYCG	1 cut(s)	174
BsiHKCI	CYCGRG	2 cut(s)	239, 615
BsiSI	CCGG	9 cut(s)	208, 240, 331, 336, 341, 349, 354, 680, 685
BslFI	GGGAC	2 cut(s)	313, 333
BslI	CCNNNNNNNGG	2 cut(s)	65, 239
BsmAI	GTCTC	1 cut(s)	671
BsmFI	GGGAC	2 cut(s)	313, 333
BsnI	GGCC	5 cut(s)	88, 173, 231, 352, 684
BsoBI	CYCGRG	2 cut(s)	239, 615
Bsp120I	GGGCCC	1 cut(s)	229
Bsp1286I	GDGCHC	2 cut(s)	193, 233
Bsp13I	TCCGGA	1 cut(s)	335
Bsp143I	GATC	1 cut(s)	531
Bsp1720I	GCTNAGC	1 cut(s)	602
BspANI	GGCC	5 cut(s)	88, 173, 231, 352, 684
BspCNI	CTCAG	2 cut(s)	151, 594
BspEI	TCCGGA	1 cut(s)	335
BspFNI	CGCG	1 cut(s)	176
BspLI	GGNNCC	3 cut(s)	192, 231, 244
BspMAI	CTGCAG	1 cut(s)	631
BsrBI	CCGCTC	2 cut(s)	16, 379
BsrDI	GCAATG	1 cut(s)	720
BsrI	ACTGG	1 cut(s)	202
BssECI	CCNNGG	2 cut(s)	174, 239
BssMI	GATC	1 cut(s)	531
Bst4CI	ACNGT	1 cut(s)	673
Bst6I	CTCTTC	1 cut(s)	265
BstAPI	GCANNNNNTGC	2 cut(s)	300, 770
BstC8I	GCNNGC	1 cut(s)	658
BstDEI	CTNAG	4 cut(s)	138, 602, 714, 792
BstDSI	CCRYGG	1 cut(s)	174
BstF5I	GGATG	1 cut(s)	478
BstFNI	CGCG	1 cut(s)	176
BstKTI	GATC	1 cut(s)	534
BstMAI	GTCTC	1 cut(s)	671
BstMBI	GATC	1 cut(s)	531
BstMCI	CGRYCG	1 cut(s)	174
BstMWI	GCNNNNNNNGC	7 cut(s)	176, 300, 626, 764, 767, 770, 773
BstPAI	GACNNNNGTC	1 cut(s)	325
BstSCI	CCNGG	6 cut(s)	238, 239, 329, 340, 352, 679
BstSFI	CTRYAG	2 cut(s)	627, 661
BstSLI	GKGCMC	1 cut(s)	233
BstUI	CGCG	1 cut(s)	176
BstV2I	GAAGAC	1 cut(s)	151
BstZI	CGGCCG	1 cut(s)	171
BsuRI	GGCC	5 cut(s)	88, 173, 231, 352, 684
BtgI	CCRYGG	1 cut(s)	174
BtsCI	GGATG	1 cut(s)	478
BtsIMutI	CAGTG	1 cut(s)	669
Cac8I	GCNNGC	1 cut(s)	658
CaiI	CAGNNNCTG	1 cut(s)	770
CciNI	GCGGCCGC	1 cut(s)	171
Cfr13I	GGNCC	7 cut(s)	229, 230, 243, 333, 338, 351, 682
Cfr42I	CCGCGG	1 cut(s)	177
Cfr9I	CCCGGG	1 cut(s)	239
CpoI	CGGWCCG	2 cut(s)	333, 338
CspI	CGGWCCG	2 cut(s)	333, 338
DdeI	CTNAG	4 cut(s)	138, 602, 714, 792
DpnI	GATC	1 cut(s)	533
DpnII	GATC	1 cut(s)	531
DriI	GACNNNNNGTC	1 cut(s)	344
EaeI	YGGCCR	1 cut(s)	171
EagI	CGGCCG	1 cut(s)	171
Eam1104I	CTCTTC	1 cut(s)	265
Eam1105I	GACNNNNNGTC	1 cut(s)	344
EarI	CTCTTC	1 cut(s)	265
EclXI	CGGCCG	1 cut(s)	171
Eco24I	GRGCYC	2 cut(s)	193, 233
Eco47I	GGWCC	3 cut(s)	243, 333, 338
Eco52I	CGGCCG	1 cut(s)	171
Eco88I	CYCGRG	2 cut(s)	239, 615
EcoO109I	RGGNCCY	1 cut(s)	230
EcoRI	GAATTC	1 cut(s)	390
EcoT38I	GRGCYC	2 cut(s)	193, 233
FaiI	YATR	5 cut(s)	97, 314, 422, 444, 467
FalI	AAGNNNNNCTT	2 cut(s)	590, 622
FaqI	GGGAC	2 cut(s)	313, 333
FauI	CCCGC	4 cut(s)	21, 43, 296, 309
FbaI	TGATCA	1 cut(s)	531
FokI	GGATG	1 cut(s)	485
FriOI	GRGCYC	2 cut(s)	193, 233
GsaI	CCCAGC	1 cut(s)	288
GsuI	CTGGAG	1 cut(s)	435
HaeIII	GGCC	5 cut(s)	88, 173, 231, 352, 684
HapII	CCGG	9 cut(s)	208, 240, 331, 336, 341, 349, 354, 680, 685
HindIII	AAGCTT	2 cut(s)	91, 644
HinfI	GANTC	2 cut(s)	571, 779
HpaII	CCGG	9 cut(s)	208, 240, 331, 336, 341, 349, 354, 680, 685
HphI	GGTGA	2 cut(s)	590, 774
Hpy166II	GTNNAC	3 cut(s)	163, 368, 454
Hpy188I	TCNGA	2 cut(s)	141, 195
Hpy188III	TCNNGA	3 cut(s)	115, 246, 336
Hpy8I	GTNNAC	3 cut(s)	163, 368, 454
Hpy99I	CGWCG	2 cut(s)	124, 390
HpyAV	CCTTC	7 cut(s)	60, 247, 356, 482, 511, 549, 631
HpyCH4III	ACNGT	1 cut(s)	673
HpyCH4IV	ACGT	1 cut(s)	204
HpyCH4V	TGCA	2 cut(s)	476, 629
HpyF10VI	GCNNNNNNNGC	7 cut(s)	176, 300, 626, 764, 767, 770, 773
HpyF3I	CTNAG	4 cut(s)	138, 602, 714, 792
HpySE526I	ACGT	1 cut(s)	204
Kpn2I	TCCGGA	1 cut(s)	335
Ksp22I	TGATCA	1 cut(s)	531
KspI	CCGCGG	1 cut(s)	177
Kzo9I	GATC	1 cut(s)	531
LmnI	GCTCC	1 cut(s)	196
LweI	GCATC	2 cut(s)	363, 463
MaeII	ACGT	1 cut(s)	204
MaeIII	GTNAC	1 cut(s)	77
MalI	GATC	1 cut(s)	533
MbiI	CCGCTC	2 cut(s)	16, 379
MboI	GATC	1 cut(s)	531
MboII	GAAGA	7 cut(s)	45, 156, 282, 497, 506, 580, 700
MhlI	GDGCHC	2 cut(s)	193, 233
MluCI	AATT	2 cut(s)	390, 408
MmeI	TCCRAC	1 cut(s)	218
MroI	TCCGGA	1 cut(s)	335
MseI	TTAA	1 cut(s)	609
MspA1I	CMGCKG	5 cut(s)	151, 176, 300, 632, 767
MspI	CCGG	9 cut(s)	208, 240, 331, 336, 341, 349, 354, 680, 685
MspR9I	CCNGG	6 cut(s)	240, 241, 331, 342, 354, 681
MvnI	CGCG	1 cut(s)	176
MwoI	GCNNNNNNNGC	7 cut(s)	176, 300, 626, 764, 767, 770, 773
NciI	CCSGG	6 cut(s)	240, 241, 331, 342, 354, 681
NdeII	GATC	1 cut(s)	531
NlaIV	GGNNCC	3 cut(s)	192, 231, 244
NotI	GCGGCCGC	1 cut(s)	171
PcsI	WCGNNNNNNNCGW	1 cut(s)	116
PfeI	GAWTC	2 cut(s)	571, 779
PshAI	GACNNNNGTC	1 cut(s)	325
PspFI	CCCAGC	1 cut(s)	284
PspN4I	GGNNCC	3 cut(s)	192, 231, 244
PspOMI	GGGCCC	1 cut(s)	229
PspPI	GGNCC	7 cut(s)	229, 230, 243, 333, 338, 351, 682
PstI	CTGCAG	1 cut(s)	631
PstNI	CAGNNNCTG	1 cut(s)	770
PvuII	CAGCTG	3 cut(s)	151, 300, 767
Rsr2I	CGGWCCG	2 cut(s)	333, 338
RsrII	CGGWCCG	2 cut(s)	333, 338
SacII	CCGCGG	1 cut(s)	177
SaqAI	TTAA	1 cut(s)	609
Sau3AI	GATC	1 cut(s)	531
Sau96I	GGNCC	7 cut(s)	229, 230, 243, 333, 338, 351, 682
ScrFI	CCNGG	6 cut(s)	240, 241, 331, 342, 354, 681
SduI	GDGCHC	2 cut(s)	193, 233
SfaNI	GCATC	2 cut(s)	363, 463
SfcI	CTRYAG	2 cut(s)	627, 661
Sfr303I	CCGCGG	1 cut(s)	177
SgrBI	CCGCGG	1 cut(s)	177
SinI	GGWCC	3 cut(s)	243, 333, 338
SmaI	CCCGGG	1 cut(s)	241
SmlI	CTYRAG	4 cut(s)	82, 113, 401, 647
SmoI	CTYRAG	4 cut(s)	82, 113, 401, 647
Sse9I	AATT	2 cut(s)	390, 408
StyD4I	CCNGG	6 cut(s)	238, 239, 329, 340, 352, 679
TaaI	ACNGT	1 cut(s)	673
TaiI	ACGT	1 cut(s)	207
TaqI	TCGA	1 cut(s)	388
TasI	AATT	2 cut(s)	390, 408
TauI	GCSGC	6 cut(s)	173, 176, 179, 379, 635, 764
TfiI	GAWTC	2 cut(s)	571, 779
Tru1I	TTAA	1 cut(s)	609
Tru9I	TTAA	1 cut(s)	609
TscAI	CASTG	1 cut(s)	676
TspMI	CCCGGG	1 cut(s)	239
TspRI	CASTG	1 cut(s)	676
VpaK11BI	GGWCC	3 cut(s)	243, 333, 338
XapI	RAATTY	1 cut(s)	390
XmaI	CCCGGG	1 cut(s)	239

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