Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0001903

Physical Location & Seq

Genomic Coordinates Forward (+)

19231847 .. 19234039

Gene Structure 2193 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG209900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 624 bp

ATGAGCAAGCTGCAAAGTGAGGCATTGAGGGAGGCCATCTCCCAGATTAAGACTAATTCGGAGACGAAGAAGAGGAAGTTCACCGAGACAGTGGAGTTGCAAATTGGGTTGAAGAACTATGACCCACAAAAGGACAAGCGTTTCAGTGGTTCCGTGAAGCTTCCCCACATTCCTCGTCCTAAGATGAGGGTTTGCATGCTTGGAGATGCTCAGCATGTTGAAGAGGCAGAGAAGATGGGATTGGCCTACATGGATGTGGAATCGCTGAAAAAGCTTAACAAGAACAAGAAGCTGGTCAAGAAGCTTGCAAAGAAGTATCATGCATTTTTGGCTTCTGAAGCTGTCATCAAGCAAATTCCTCGTCTTTTGGGCCCTGGTCTTAACAAGGCAGGTAAGTTTCCAACTCTGGTGAGTCACCAGGAATCTCTGGAGGCAAAGCTTAATGAAACAAAGGCCATGGTTAAGTTCCAACTCAAGAAGGTTCTTTGTATGGGTGTTGCCGTCGGGAATCTTGCCATGGATGAGAAACAGATATTCCAGAATGTGCAACTCAGTGTCAATTTCTTGGTTTCTCTGTTGAAGAAGAATTGGCAGAATGTAAGTTCAGGGCTATTTTCTACTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000470 GO:0003674 GO:0003676 GO:0003723 GO:0003735 GO:0005198 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005840 GO:0005844 GO:0005886 GO:0005911 GO:0006139 GO:0006364 GO:0006396 GO:0006412 GO:0006518 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009506 GO:0009987 GO:0010467 GO:0015934 GO:0016020 GO:0016070 GO:0016072 GO:0019538 GO:0022613 GO:0022625 GO:0022626 GO:0030054 GO:0032991 GO:0034470 GO:0034641 GO:0034645 GO:0034660 GO:0042254 GO:0042273 GO:0042788 GO:0043043 GO:0043170 GO:0043226 GO:0043228 GO:0043229 GO:0043232 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:0044444 GO:0044445 GO:0044446 GO:0044464 GO:0046483 GO:0055044 GO:0071704 GO:0071840 GO:0071944 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1901564 GO:1901566 GO:1901576 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03010 map03010

Pfam Domains

Protein Families

Ribosomal_L1

Protein Analysis

207

Amino Acids

23.34

Weight (kDa)

9.91

Isoelectric Point (pI)

42.38

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_L1	PF00687	21 - 202	6.5e-47	Ribosomal protein L1p/L10e family

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001903)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G08360 AT2G27530 AT2G27530 AT5G22440 AT5G22440
fragaria_vesca	FvH4_3g24900 FvH4_3g24900 FvH4_6g18680
malus_domestica	MD03G1143900.v1.1 MD05G1199000.v1.1 MD12G1036100.v1.1 MD14G1002800.v1.1 MD14G1022900.v1.1
prunus_persica	Prupe.6G129700_v2.0.a1 Prupe.6G129700_v2.0.a1 Prupe.7G110300_v2.0.a1
pyrus_communis	pycom03g09940 pycom12g02380 pycom14g02180
rosa_chinensis	RchiOBHm_Chr3g0473651 RchiOBHm_Chr5g0044551 RchiOBHm_Chr5g0044561
rosa_laevigata	RLG00000023997 RLG00000034282 RLG00000034283
rosa_multiflora	Rmu_sc0003069.1_g000006 Rmu_sc0005978.1_g000001 Rmu_sc0006609.1_g000006
rosa_roxburghii	Rroxscaffold_1G00036410 Rroxscaffold_6G00407980
rosa_rugosa	Rorug03G0133500 Rorug03G0133600 Rorug05G0215200 Rorug05G0215300
rosa_samantha	Rh3AG185200 Rh3BG213200 Rh3CG209900 Rh3DG209000 Rh5AG299300 Rh5BG306800 Rh5CG333500 Rh5CG333600 Rh5DG316200
rosa_wichuraiana	Rw0G008910 Rw0G009840 Rw5G027700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	380
AcsI	RAATTY	1 cut(s)	354
AcuI	CTGAAG	1 cut(s)	357
AfiI	CCNNNNNNNGG	1 cut(s)	130
AgsI	TTSAA	3 cut(s)	112, 221, 580
AjnI	CCWGG	2 cut(s)	373, 417
AjuI	GAANNNNNNNTTGG	2 cut(s)	224, 256
AluBI	AGCT	7 cut(s)	10, 160, 274, 292, 304, 341, 439
AluI	AGCT	7 cut(s)	10, 160, 274, 292, 304, 341, 439
Alw26I	GTCTC	2 cut(s)	56, 80
AoxI	GGCC	4 cut(s)	33, 243, 370, 453
ApaI	GGGCCC	1 cut(s)	374
ApeKI	GCWGC	1 cut(s)	10
ApoI	RAATTY	1 cut(s)	354
ArsI	GACNNNNNNTTYG	2 cut(s)	346, 378
AspS9I	GGNCC	2 cut(s)	370, 371
AsuHPI	GGTGA	3 cut(s)	73, 407, 421
BaeGI	GKGCMC	1 cut(s)	374
BanII	GRGCYC	1 cut(s)	374
BccI	CCATC	2 cut(s)	44, 229
BceAI	ACGGC	1 cut(s)	485
BcgI	CGANNNNNNTGC	2 cut(s)	341, 375
BciT130I	CCWGG	2 cut(s)	375, 419
BcoDI	GTCTC	2 cut(s)	56, 80
BfuAI	ACCTGC	1 cut(s)	380
BisI	GCNGC	1 cut(s)	11
BlpI	GCTNAGC	1 cut(s)	210
BlsI	GCNGC	1 cut(s)	12
Bme1390I	CCNGG	2 cut(s)	375, 419
BmgT120I	GGNCC	2 cut(s)	370, 371
BmiI	GGNNCC	2 cut(s)	151, 372
BmrFI	CCNGG	2 cut(s)	375, 419
BmsI	GCATC	1 cut(s)	196
BplI	GAGNNNNNCTC	2 cut(s)	23, 55
BpmI	CTGGAG	1 cut(s)	449
Bpu1102I	GCTNAGC	1 cut(s)	210
BpuEI	CTTGAG	1 cut(s)	458
BsaJI	CCNNGG	3 cut(s)	373, 456, 516
Bsc4I	CCNNNNNNNGG	1 cut(s)	130
BseBI	CCWGG	2 cut(s)	375, 419
BseDI	CCNNGG	3 cut(s)	373, 456, 516
BseGI	GGATG	2 cut(s)	259, 526
BseLI	CCNNNNNNNGG	1 cut(s)	130
BseMII	CTCAG	2 cut(s)	224, 565
BseSI	GKGCMC	1 cut(s)	374
BshFI	GGCC	4 cut(s)	35, 245, 372, 455
BslI	CCNNNNNNNGG	1 cut(s)	130
BsmAI	GTCTC	2 cut(s)	56, 80
BsmBI	CGTCTC	1 cut(s)	56
BsnI	GGCC	4 cut(s)	35, 245, 372, 455
Bsp120I	GGGCCC	1 cut(s)	370
Bsp1286I	GDGCHC	1 cut(s)	374
Bsp1720I	GCTNAGC	1 cut(s)	210
Bsp19I	CCATGG	2 cut(s)	456, 516
BspANI	GGCC	4 cut(s)	35, 245, 372, 455
BspCNI	CTCAG	2 cut(s)	223, 564
BspLI	GGNNCC	2 cut(s)	151, 372
BspMI	ACCTGC	1 cut(s)	380
BssECI	CCNNGG	3 cut(s)	373, 456, 516
BssT1I	CCWWGG	2 cut(s)	456, 516
Bst2UI	CCWGG	2 cut(s)	375, 419
Bst4CI	ACNGT	1 cut(s)	91
Bst6I	CTCTTC	2 cut(s)	65, 216
BstC8I	GCNNGC	3 cut(s)	8, 197, 306
BstDEI	CTNAG	3 cut(s)	180, 210, 551
BstDSI	CCRYGG	2 cut(s)	456, 516
BstF5I	GGATG	2 cut(s)	259, 526
BstMAI	GTCTC	2 cut(s)	56, 80
BstMWI	GCNNNNNNNGC	3 cut(s)	271, 329, 338
BstNI	CCWGG	2 cut(s)	375, 419
BstNSI	RCATGY	2 cut(s)	199, 218
BstSCI	CCNGG	2 cut(s)	373, 417
BstSLI	GKGCMC	1 cut(s)	374
BsuRI	GGCC	4 cut(s)	35, 245, 372, 455
BtgI	CCRYGG	2 cut(s)	456, 516
BtsCI	GGATG	2 cut(s)	259, 526
BtsIMutI	CAGTG	3 cut(s)	96, 151, 559
BveI	ACCTGC	1 cut(s)	380
Cac8I	GCNNGC	3 cut(s)	8, 197, 306
Cfr13I	GGNCC	2 cut(s)	370, 371
CviAII	CATG	6 cut(s)	196, 215, 250, 320, 457, 517
DdeI	CTNAG	3 cut(s)	180, 210, 551
Eam1104I	CTCTTC	2 cut(s)	65, 216
EarI	CTCTTC	2 cut(s)	65, 216
Eco130I	CCWWGG	2 cut(s)	456, 516
Eco24I	GRGCYC	1 cut(s)	374
Eco57I	CTGAAG	1 cut(s)	357
EcoO109I	RGGNCCY	1 cut(s)	371
EcoRII	CCWGG	2 cut(s)	373, 417
EcoT14I	CCWWGG	2 cut(s)	456, 516
EcoT22I	ATGCAT	1 cut(s)	325
EcoT38I	GRGCYC	1 cut(s)	374
ErhI	CCWWGG	2 cut(s)	456, 516
Esp3I	CGTCTC	1 cut(s)	56
FaeI	CATG	6 cut(s)	199, 218, 253, 323, 460, 520
FaiI	YATR	8 cut(s)	120, 197, 216, 251, 321, 458, 491, 518
FatI	CATG	6 cut(s)	195, 214, 249, 319, 456, 516
Fnu4HI	GCNGC	1 cut(s)	11
FokI	GGATG	2 cut(s)	266, 533
FriOI	GRGCYC	1 cut(s)	374
Fsp4HI	GCNGC	1 cut(s)	11
GluI	GCNGC	1 cut(s)	11
GsuI	CTGGAG	1 cut(s)	449
HaeIII	GGCC	4 cut(s)	35, 245, 372, 455
Hin1II	CATG	6 cut(s)	199, 218, 253, 323, 460, 520
HindIII	AAGCTT	4 cut(s)	158, 272, 302, 437
HinfI	GANTC	4 cut(s)	260, 412, 422, 508
HphI	GGTGA	3 cut(s)	73, 407, 421
Hpy166II	GTNNAC	1 cut(s)	81
Hpy188I	TCNGA	2 cut(s)	61, 337
Hpy188III	TCNNGA	5 cut(s)	298, 428, 475, 505, 538
Hpy8I	GTNNAC	1 cut(s)	81
Hpy99I	CGWCG	1 cut(s)	506
HpyAV	CCTTC	1 cut(s)	472
HpyCH4III	ACNGT	1 cut(s)	91
HpyCH4V	TGCA	6 cut(s)	13, 100, 195, 308, 323, 547
HpyF10VI	GCNNNNNNNGC	3 cut(s)	271, 329, 338
HpyF3I	CTNAG	3 cut(s)	180, 210, 551
Hsp92II	CATG	6 cut(s)	199, 218, 253, 323, 460, 520
LweI	GCATC	1 cut(s)	196
MaeIII	GTNAC	1 cut(s)	413
MboII	GAAGA	7 cut(s)	79, 82, 124, 233, 244, 592, 595
MhlI	GDGCHC	1 cut(s)	374
MluCI	AATT	5 cut(s)	55, 102, 354, 559, 586
MlyI	GAGTC	1 cut(s)	421
MmeI	TCCRAC	2 cut(s)	425, 493
MnlI	CCTC	9 cut(s)	13, 21, 25, 66, 180, 183, 217, 369, 424
Mph1103I	ATGCAT	1 cut(s)	325
MseI	TTAA	5 cut(s)	48, 276, 381, 441, 462
MslI	CAYNNNNRTG	1 cut(s)	254
MspR9I	CCNGG	2 cut(s)	375, 419
MvaI	CCWGG	2 cut(s)	375, 419
MwoI	GCNNNNNNNGC	3 cut(s)	271, 329, 338
NcoI	CCATGG	2 cut(s)	456, 516
NlaIII	CATG	6 cut(s)	199, 218, 253, 323, 460, 520
NlaIV	GGNNCC	2 cut(s)	151, 372
NmuCI	GTSAC	1 cut(s)	413
NsiI	ATGCAT	1 cut(s)	325
NspI	RCATGY	2 cut(s)	199, 218
PaeI	GCATGC	1 cut(s)	199
PfeI	GAWTC	3 cut(s)	260, 422, 508
PkrI	GCNGC	1 cut(s)	12
PleI	GAGTC	1 cut(s)	420
PpsI	GAGTC	1 cut(s)	420
Psp6I	CCWGG	2 cut(s)	373, 417
PspGI	CCWGG	2 cut(s)	373, 417
PspN4I	GGNNCC	2 cut(s)	151, 372
PspOMI	GGGCCC	1 cut(s)	370
PspPI	GGNCC	2 cut(s)	370, 371
RseI	CAYNNNNRTG	1 cut(s)	254
SaqAI	TTAA	5 cut(s)	48, 276, 381, 441, 462
SatI	GCNGC	1 cut(s)	11
Sau96I	GGNCC	2 cut(s)	370, 371
SchI	GAGTC	1 cut(s)	421
ScrFI	CCNGG	2 cut(s)	375, 419
SduI	GDGCHC	1 cut(s)	374
SetI	ASST	9 cut(s)	12, 162, 276, 294, 306, 343, 394, 441, 483
SfaNI	GCATC	1 cut(s)	196
SmiMI	CAYNNNNRTG	1 cut(s)	254
SmlI	CTYRAG	1 cut(s)	473
SmoI	CTYRAG	1 cut(s)	473
SphI	GCATGC	1 cut(s)	199
Sse9I	AATT	5 cut(s)	55, 102, 354, 559, 586
StyD4I	CCNGG	2 cut(s)	373, 417
StyI	CCWWGG	2 cut(s)	456, 516
TaaI	ACNGT	1 cut(s)	91
TasI	AATT	5 cut(s)	55, 102, 354, 559, 586
TfiI	GAWTC	3 cut(s)	260, 422, 508
Tru1I	TTAA	5 cut(s)	48, 276, 381, 441, 462
Tru9I	TTAA	5 cut(s)	48, 276, 381, 441, 462
TscAI	CASTG	3 cut(s)	96, 151, 559
TseFI	GTSAC	1 cut(s)	413
TseI	GCWGC	1 cut(s)	10
Tsp45I	GTSAC	1 cut(s)	413
TspDTI	ATGAA	1 cut(s)	459
TspGWI	ACGGA	1 cut(s)	142
TspRI	CASTG	3 cut(s)	96, 151, 559
XapI	RAATTY	1 cut(s)	354
XceI	RCATGY	2 cut(s)	199, 218
Zsp2I	ATGCAT	1 cut(s)	325

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