Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0001903

Physical Location & Seq

Genomic Coordinates Reverse (-)

30522662 .. 30524309

Gene Structure 1648 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00407980.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 663 bp

ATGATCTCGGAACTCAAGCTGCAAAGTGAGGCATTGAGGGAGGCCATCTCCCAGATTAAGACTAATTCGGAGACGAAGAAGAGGAAGTTCACTGAGACAGTGGAGTTGCAAATTGGGTTGAAGAACTATGACCCACAAAAGGACAAGCGTTTCAGTGGTTCCGTGAAGCTTCCCCACATTCCTCGTCCTAAGATGAGGGTTTGCATGCTTGGAGATGCTCAGCATGTTGAAGAGGCAGAGAAGATGGGATTGGCCTACATGGATGTGGAATCGCTGAAAAAGCTTAACAAGAACAAGAAGCTGGTCAAGAAGCTTGCAAAGAAGTATCATGCTTTTTGGCTTCTGAAGCCGTCATCAAGCAAATTCCTCGTCTTTTGGGCCCTGGTCTTAACAAGGCAGGCAAGTAAATTTCCAACTCTGGTGAGTCACCAGGAATCTCTGGAGGCAAAGCTTAATGAAACAAAGGCCATGGTTAAGTTCCAACTCAAGAAGGTTCTTTGTATGGGTGTTGCTGTCGGGAATCTTGCCATGGATGAGAAACAGATATTCCAGAATGTGCAACTCAGTGTCAATTTCTTGGTTTCTCTATTGAAGAAGAATTGGCAGAATGTGAGATCATTGAACCTGAAAAGCACCATGGGGAAAGCTATCCGAATTTACTAA

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

220

Amino Acids

25.28

Weight (kDa)

10.03

Isoelectric Point (pI)

40.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_L1	PF00687	24 - 214	2.2e-40	Ribosomal protein L1p/L10e family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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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)
AcsI	RAATTY	3 cut(s)	362, 407, 654
AcuI	CTGAAG	1 cut(s)	365
AfiI	CCNNNNNNNGG	1 cut(s)	139
AgsI	TTSAA	4 cut(s)	121, 230, 592, 622
AjnI	CCWGG	2 cut(s)	381, 429
AjuI	GAANNNNNNNTTGG	2 cut(s)	233, 265
AluBI	AGCT	7 cut(s)	19, 169, 283, 301, 313, 451, 647
AluI	AGCT	7 cut(s)	19, 169, 283, 301, 313, 451, 647
Alw26I	GTCTC	2 cut(s)	65, 89
AoxI	GGCC	4 cut(s)	42, 252, 378, 465
ApaI	GGGCCC	1 cut(s)	382
ApeKI	GCWGC	1 cut(s)	19
ApoI	RAATTY	3 cut(s)	362, 407, 654
ArsI	GACNNNNNNTTYG	2 cut(s)	354, 386
AspS9I	GGNCC	2 cut(s)	378, 379
AsuHPI	GGTGA	2 cut(s)	419, 433
BaeGI	GKGCMC	1 cut(s)	382
BanII	GRGCYC	1 cut(s)	382
BbvI	GCAGC	1 cut(s)	6
BccI	CCATC	2 cut(s)	53, 238
BceAI	ACGGC	1 cut(s)	334
BcgI	CGANNNNNNTGC	2 cut(s)	349, 383
BciT130I	CCWGG	2 cut(s)	383, 431
BcoDI	GTCTC	2 cut(s)	65, 89
BisI	GCNGC	1 cut(s)	20
BlpI	GCTNAGC	1 cut(s)	219
BlsI	GCNGC	1 cut(s)	21
Bme1390I	CCNGG	2 cut(s)	383, 431
BmgT120I	GGNCC	2 cut(s)	378, 379
BmiI	GGNNCC	2 cut(s)	160, 380
BmrFI	CCNGG	2 cut(s)	383, 431
BmsI	GCATC	1 cut(s)	205
BplI	GAGNNNNNCTC	2 cut(s)	32, 64
BpmI	CTGGAG	1 cut(s)	461
Bpu1102I	GCTNAGC	1 cut(s)	219
BpuEI	CTTGAG	1 cut(s)	470
BsaJI	CCNNGG	4 cut(s)	381, 468, 528, 636
Bsc4I	CCNNNNNNNGG	1 cut(s)	139
BseBI	CCWGG	2 cut(s)	383, 431
BseDI	CCNNGG	4 cut(s)	381, 468, 528, 636
BseGI	GGATG	2 cut(s)	268, 538
BseLI	CCNNNNNNNGG	1 cut(s)	139
BseMII	CTCAG	3 cut(s)	84, 233, 577
BseSI	GKGCMC	1 cut(s)	382
BseXI	GCAGC	1 cut(s)	6
BshFI	GGCC	4 cut(s)	44, 254, 380, 467
BslI	CCNNNNNNNGG	1 cut(s)	139
BsmAI	GTCTC	2 cut(s)	65, 89
BsmBI	CGTCTC	1 cut(s)	65
BsnI	GGCC	4 cut(s)	44, 254, 380, 467
Bsp120I	GGGCCC	1 cut(s)	378
Bsp1286I	GDGCHC	1 cut(s)	382
Bsp143I	GATC	2 cut(s)	3, 614
Bsp1720I	GCTNAGC	1 cut(s)	219
Bsp19I	CCATGG	3 cut(s)	468, 528, 636
BspANI	GGCC	4 cut(s)	44, 254, 380, 467
BspCNI	CTCAG	3 cut(s)	85, 232, 576
BspLI	GGNNCC	2 cut(s)	160, 380
BssECI	CCNNGG	4 cut(s)	381, 468, 528, 636
BssMI	GATC	2 cut(s)	3, 614
BssT1I	CCWWGG	3 cut(s)	468, 528, 636
Bst2UI	CCWGG	2 cut(s)	383, 431
Bst4CI	ACNGT	1 cut(s)	100
Bst6I	CTCTTC	2 cut(s)	74, 225
BstC8I	GCNNGC	3 cut(s)	206, 315, 399
BstDEI	CTNAG	4 cut(s)	93, 189, 219, 563
BstDSI	CCRYGG	3 cut(s)	468, 528, 636
BstF5I	GGATG	2 cut(s)	268, 538
BstKTI	GATC	2 cut(s)	6, 617
BstMAI	GTCTC	2 cut(s)	65, 89
BstMBI	GATC	2 cut(s)	3, 614
BstMWI	GCNNNNNNNGC	2 cut(s)	280, 346
BstNI	CCWGG	2 cut(s)	383, 431
BstNSI	RCATGY	2 cut(s)	208, 227
BstSCI	CCNGG	2 cut(s)	381, 429
BstSLI	GKGCMC	1 cut(s)	382
BstV1I	GCAGC	1 cut(s)	6
BsuRI	GGCC	4 cut(s)	44, 254, 380, 467
BtgI	CCRYGG	3 cut(s)	468, 528, 636
BtsCI	GGATG	2 cut(s)	268, 538
BtsIMutI	CAGTG	4 cut(s)	90, 105, 160, 571
Cac8I	GCNNGC	3 cut(s)	206, 315, 399
Cfr13I	GGNCC	2 cut(s)	378, 379
CviAII	CATG	7 cut(s)	205, 224, 259, 329, 469, 529, 637
DdeI	CTNAG	4 cut(s)	93, 189, 219, 563
DpnI	GATC	2 cut(s)	5, 616
DpnII	GATC	2 cut(s)	3, 614
Eam1104I	CTCTTC	2 cut(s)	74, 225
EarI	CTCTTC	2 cut(s)	74, 225
Eco130I	CCWWGG	3 cut(s)	468, 528, 636
Eco24I	GRGCYC	1 cut(s)	382
Eco57I	CTGAAG	1 cut(s)	365
EcoO109I	RGGNCCY	1 cut(s)	379
EcoRII	CCWGG	2 cut(s)	381, 429
EcoT14I	CCWWGG	3 cut(s)	468, 528, 636
EcoT38I	GRGCYC	1 cut(s)	382
ErhI	CCWWGG	3 cut(s)	468, 528, 636
Esp3I	CGTCTC	1 cut(s)	65
FaeI	CATG	7 cut(s)	208, 227, 262, 332, 472, 532, 640
FaiI	YATR	9 cut(s)	129, 206, 225, 260, 330, 470, 503, 530, 638
FatI	CATG	7 cut(s)	204, 223, 258, 328, 468, 528, 636
Fnu4HI	GCNGC	1 cut(s)	20
FokI	GGATG	2 cut(s)	275, 545
FriOI	GRGCYC	1 cut(s)	382
Fsp4HI	GCNGC	1 cut(s)	20
GluI	GCNGC	1 cut(s)	20
GsuI	CTGGAG	1 cut(s)	461
HaeIII	GGCC	4 cut(s)	44, 254, 380, 467
Hin1II	CATG	7 cut(s)	208, 227, 262, 332, 472, 532, 640
HindIII	AAGCTT	4 cut(s)	167, 281, 311, 449
HinfI	GANTC	4 cut(s)	269, 424, 434, 520
HphI	GGTGA	2 cut(s)	419, 433
Hpy166II	GTNNAC	1 cut(s)	90
Hpy188I	TCNGA	4 cut(s)	10, 70, 345, 653
Hpy188III	TCNNGA	5 cut(s)	307, 440, 487, 517, 550
Hpy8I	GTNNAC	1 cut(s)	90
HpyAV	CCTTC	1 cut(s)	484
HpyCH4III	ACNGT	1 cut(s)	100
HpyCH4V	TGCA	5 cut(s)	22, 109, 204, 317, 559
HpyF10VI	GCNNNNNNNGC	2 cut(s)	280, 346
HpyF3I	CTNAG	4 cut(s)	93, 189, 219, 563
Hsp92II	CATG	7 cut(s)	208, 227, 262, 332, 472, 532, 640
Kzo9I	GATC	2 cut(s)	3, 614
Lsp1109I	GCAGC	1 cut(s)	6
LweI	GCATC	1 cut(s)	205
MaeIII	GTNAC	1 cut(s)	425
MalI	GATC	2 cut(s)	5, 616
MboI	GATC	2 cut(s)	3, 614
MboII	GAAGA	7 cut(s)	88, 91, 133, 242, 253, 604, 607
MhlI	GDGCHC	1 cut(s)	382
MluCI	AATT	7 cut(s)	64, 111, 362, 407, 571, 598, 654
MlyI	GAGTC	1 cut(s)	433
MmeI	TCCRAC	2 cut(s)	437, 505
MnlI	CCTC	9 cut(s)	22, 30, 34, 75, 189, 192, 226, 377, 436
MseI	TTAA	5 cut(s)	57, 285, 389, 453, 474
MslI	CAYNNNNRTG	1 cut(s)	263
MspR9I	CCNGG	2 cut(s)	383, 431
MvaI	CCWGG	2 cut(s)	383, 431
MwoI	GCNNNNNNNGC	2 cut(s)	280, 346
NcoI	CCATGG	3 cut(s)	468, 528, 636
NdeII	GATC	2 cut(s)	3, 614
NlaIII	CATG	7 cut(s)	208, 227, 262, 332, 472, 532, 640
NlaIV	GGNNCC	2 cut(s)	160, 380
NmuCI	GTSAC	1 cut(s)	425
NspI	RCATGY	2 cut(s)	208, 227
PaeI	GCATGC	1 cut(s)	208
PfeI	GAWTC	3 cut(s)	269, 434, 520
PkrI	GCNGC	1 cut(s)	21
PleI	GAGTC	1 cut(s)	432
PpsI	GAGTC	1 cut(s)	432
Psp6I	CCWGG	2 cut(s)	381, 429
PspGI	CCWGG	2 cut(s)	381, 429
PspN4I	GGNNCC	2 cut(s)	160, 380
PspOMI	GGGCCC	1 cut(s)	378
PspPI	GGNCC	2 cut(s)	378, 379
RseI	CAYNNNNRTG	1 cut(s)	263
SaqAI	TTAA	5 cut(s)	57, 285, 389, 453, 474
SatI	GCNGC	1 cut(s)	20
Sau3AI	GATC	2 cut(s)	3, 614
Sau96I	GGNCC	2 cut(s)	378, 379
SchI	GAGTC	1 cut(s)	433
ScrFI	CCNGG	2 cut(s)	383, 431
SduI	GDGCHC	1 cut(s)	382
SetI	ASST	9 cut(s)	21, 171, 285, 303, 315, 453, 495, 627, 649
SfaNI	GCATC	1 cut(s)	205
SmiMI	CAYNNNNRTG	1 cut(s)	263
SmlI	CTYRAG	2 cut(s)	14, 485
SmoI	CTYRAG	2 cut(s)	14, 485
SphI	GCATGC	1 cut(s)	208
Sse9I	AATT	7 cut(s)	64, 111, 362, 407, 571, 598, 654
StyD4I	CCNGG	2 cut(s)	381, 429
StyI	CCWWGG	3 cut(s)	468, 528, 636
TaaI	ACNGT	1 cut(s)	100
TasI	AATT	7 cut(s)	64, 111, 362, 407, 571, 598, 654
TfiI	GAWTC	3 cut(s)	269, 434, 520
Tru1I	TTAA	5 cut(s)	57, 285, 389, 453, 474
Tru9I	TTAA	5 cut(s)	57, 285, 389, 453, 474
TscAI	CASTG	4 cut(s)	97, 105, 160, 571
TseFI	GTSAC	1 cut(s)	425
TseI	GCWGC	1 cut(s)	19
Tsp45I	GTSAC	1 cut(s)	425
TspDTI	ATGAA	1 cut(s)	471
TspGWI	ACGGA	1 cut(s)	151
TspRI	CASTG	4 cut(s)	97, 105, 160, 571
XapI	RAATTY	3 cut(s)	362, 407, 654
XceI	RCATGY	2 cut(s)	208, 227

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