Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0000544

Physical Location & Seq

Genomic Coordinates Forward (+)

3996201 .. 3997672

Gene Structure 1472 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000016113

Sequence Viewer

CDS Protein Promoter (2k)

Length: 594 bp

ATGCCCTGTACTTCCACCGCTTCGTGCAAAACAGAGAGCAGCGGGCGGACCGGCTTGCTGAAATCTGCTGAAATCGTAGAGCGGATGAGCCATCGGCGGGTTAGATACAGGAGTAGAATGGTGAGCTTTGAGTCAGCATATTCACACTGGGAGAAAGCCAATTATCCGGAAGTTATTGATTTGAAAGCTGCTTGCGAAAAGGATGATTGGGCCCTCAAAGTTTACAATTTCGGGGTTTACTTGAATGAGGTGCAGCATAACCAACCAAAATATGCACAGTACCAGCTCGGTGCACTAACGGATGTGCTTTTTCCCGGTCTAAGCAACAGACTGTTTAAGTTCATGTGGGAACAACAATTGGACCTGGACTTTGAAATTGCTACTAAAGCACAGAGTGAATCCAAATGGAAGCAGCTGGGAGATTTAGCTATGTCCTTTGGGAAGTTAGAACTTGCTGAAGATTGCCTATTATATGGAATGGGAATGGGCTTTTTTGGCTTGTTACCTCTGTATTCTTCTCTTGGAGATGCTGCAGGATATCAAAACTTGCTTCAATTGCTAAAGAGCAGGGAAAGAATAATATTGCATTCCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005794 GO:0005798 GO:0006810 GO:0006886 GO:0006888 GO:0006890 GO:0006891 GO:0008104 GO:0008150 GO:0012505 GO:0012506 GO:0015031 GO:0015833 GO:0016020 GO:0016192 GO:0030117 GO:0030120 GO:0030126 GO:0030135 GO:0030137 GO:0030659 GO:0030660 GO:0030662 GO:0030663 GO:0031090 GO:0031410 GO:0031982 GO:0032991 GO:0033036 GO:0034613 GO:0042886 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044425 GO:0044431 GO:0044433 GO:0044444 GO:0044446 GO:0044464 GO:0045184 GO:0046907 GO:0048193 GO:0048475 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0070727 GO:0071702 GO:0071705 GO:0097708 GO:0098588 GO:0098796 GO:0098805

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Coatomer_WDAD WD40

Protein Analysis

198

Amino Acids

22.52

Weight (kDa)

6.9

Isoelectric Point (pI)

43.75

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPR_COPA_B	PF23953	118 - 189	1.5e-12	COPA/B TPR domain

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: OG0000544)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g04860 FvH4_1g04920 FvH4_1g05010 FvH4_1g07320 FvH4_5g09280 FvH4_5g09280 FvH4_5g09280
rosa_chinensis	RchiOBHm_Chr2g0088841 RchiOBHm_Chr2g0089881 RchiOBHm_Chr2g0089901 RchiOBHm_Chr2g0089911 RchiOBHm_Chr2g0089921 RchiOBHm_Chr2g0090621 RchiOBHm_Chr2g0091091 RchiOBHm_Chr5g0019481 RchiOBHm_Chr5g0019491
rosa_laevigata	RLG00000016078 RLG00000016112 RLG00000016113 RLG00000016126 RLG00000016176 RLG00000016179 RLG00000016217 RLG00000019062 RLG00000032446 RLG00000032447 RLG00000032450
rosa_multiflora	Rmu_sc0000259.1_g000018 Rmu_sc0000779.1_g000022 Rmu_sc0002515.1_g000014 Rmu_sc0002759.1_g000046 Rmu_sc0002986.1_g000072 Rmu_sc0005230.1_g000001
rosa_roxburghii	Rroxscaffold_1G00058560 Rroxscaffold_1G00058570 Rroxscaffold_1G00074340 Rroxscaffold_2G00150150 Rroxscaffold_2G00150970 Rroxscaffold_2G00151500 Rroxscaffold_4G00332590
rosa_rugosa	Rorug01G0127100 Rorug02G0009600 Rorug05G0051100 Rorug07G0229300
rosa_samantha	Rh2AG050300 Rh2AG050400 Rh2AG055000 Rh2AG055100 Rh2AG058600 Rh2AG058900 Rh2AG062100 Rh2BG048900 Rh2BG053100 Rh2BG053900 Rh2BG057400 Rh2BG061100 Rh2CG051100 Rh2CG055100 Rh2CG056100 Rh2CG059300 Rh2CG063200 Rh2DG049400 Rh2DG050300 Rh2DG050400 Rh2DG050500 Rh2DG055300 Rh2DG061700 Rh2DG362200 Rh4AG113200 Rh5AG141500 Rh5AG142000 Rh5AG142100 Rh5BG140400 Rh5BG140500 Rh5CG152300 Rh5CG152400 Rh5CG152500 Rh5CG152600 Rh5DG141100 Rh7DG375200
rosa_wichuraiana	Rw2G004030 Rw2G004800 Rw2G005060 Rw7G031650

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	82
AccIII	TCCGGA	1 cut(s)	166
AciI	CCGC	5 cut(s)	18, 42, 46, 82, 97
AcuI	CTGAAG	1 cut(s)	477
AdeI	CACNNNGTG	1 cut(s)	395
AfaI	GTAC	2 cut(s)	10, 281
AfiI	CCNNNNNNNGG	1 cut(s)	97
AgsI	TTSAA	4 cut(s)	184, 244, 374, 554
AjnI	CCWGG	1 cut(s)	363
AluBI	AGCT	5 cut(s)	126, 188, 286, 415, 428
AluI	AGCT	5 cut(s)	126, 188, 286, 415, 428
Alw21I	GWGCWC	1 cut(s)	295
Alw44I	GTGCAC	1 cut(s)	291
Aor13HI	TCCGGA	1 cut(s)	166
AoxI	GGCC	1 cut(s)	210
ApaI	GGGCCC	1 cut(s)	214
ApaLI	GTGCAC	1 cut(s)	291
ApeKI	GCWGC	5 cut(s)	39, 188, 253, 412, 530
ArsI	GACNNNNNNTTYG	2 cut(s)	353, 385
AspS9I	GGNCC	4 cut(s)	48, 210, 211, 361
AsuC2I	CCSGG	1 cut(s)	315
AsuHPI	GGTGA	1 cut(s)	133
AvaII	GGWCC	2 cut(s)	48, 361
BaeGI	GKGCMC	2 cut(s)	214, 295
BaeI	ACNNNNGTAYC	2 cut(s)	97, 130
BanII	GRGCYC	1 cut(s)	214
Bbv12I	GWGCWC	1 cut(s)	295
BbvI	GCAGC	5 cut(s)	51, 175, 265, 424, 517
BccI	CCATC	1 cut(s)	99
BciT130I	CCWGG	1 cut(s)	365
BcnI	CCSGG	1 cut(s)	315
BfaI	CTAG	1 cut(s)	592
BfmI	CTRYAG	1 cut(s)	531
BisI	GCNGC	5 cut(s)	40, 189, 254, 413, 531
BlsI	GCNGC	5 cut(s)	41, 190, 255, 414, 532
Bme1390I	CCNGG	2 cut(s)	315, 365
Bme18I	GGWCC	2 cut(s)	48, 361
BmgT120I	GGNCC	4 cut(s)	48, 210, 211, 361
BmiI	GGNNCC	1 cut(s)	212
BmrFI	CCNGG	2 cut(s)	315, 365
BmrI	ACTGGG	1 cut(s)	157
BmsI	GCATC	1 cut(s)	517
BmuI	ACTGGG	1 cut(s)	157
BpuMI	CCSGG	1 cut(s)	315
BsaWI	WCCGGW	1 cut(s)	166
Bsc4I	CCNNNNNNNGG	1 cut(s)	97
Bse118I	RCCGGY	1 cut(s)	50
Bse1I	ACTGG	1 cut(s)	152
BseAI	TCCGGA	1 cut(s)	166
BseBI	CCWGG	1 cut(s)	365
BseGI	GGATG	3 cut(s)	90, 208, 307
BseLI	CCNNNNNNNGG	1 cut(s)	97
BseNI	ACTGG	1 cut(s)	152
BseSI	GKGCMC	2 cut(s)	214, 295
BseXI	GCAGC	5 cut(s)	51, 175, 265, 424, 517
BseYI	CCCAGC	1 cut(s)	415
BsgI	GTGCAG	1 cut(s)	272
BshFI	GGCC	1 cut(s)	212
BsiHKAI	GWGCWC	1 cut(s)	295
BsiSI	CCGG	3 cut(s)	51, 167, 315
BslI	CCNNNNNNNGG	1 cut(s)	97
BsmI	GAATGC	1 cut(s)	586
BsnI	GGCC	1 cut(s)	212
Bsp120I	GGGCCC	1 cut(s)	210
Bsp1286I	GDGCHC	2 cut(s)	214, 295
Bsp13I	TCCGGA	1 cut(s)	166
BspACI	CCGC	5 cut(s)	18, 42, 46, 82, 97
BspANI	GGCC	1 cut(s)	212
BspEI	TCCGGA	1 cut(s)	166
BspLI	GGNNCC	1 cut(s)	212
BspMAI	CTGCAG	1 cut(s)	535
BsrBI	CCGCTC	1 cut(s)	82
BsrFI	RCCGGY	1 cut(s)	50
BsrI	ACTGG	1 cut(s)	152
BssAI	RCCGGY	1 cut(s)	50
Bst2UI	CCWGG	1 cut(s)	365
Bst4CI	ACNGT	2 cut(s)	279, 333
BstC8I	GCNNGC	3 cut(s)	44, 56, 193
BstDEI	CTNAG	1 cut(s)	320
BstF5I	GGATG	3 cut(s)	90, 208, 307
BstMWI	GCNNNNNNNGC	3 cut(s)	386, 495, 556
BstNI	CCWGG	1 cut(s)	365
BstSCI	CCNGG	2 cut(s)	313, 363
BstSFI	CTRYAG	1 cut(s)	531
BstSLI	GKGCMC	2 cut(s)	214, 295
BstV1I	GCAGC	5 cut(s)	51, 175, 265, 424, 517
BsuRI	GGCC	1 cut(s)	212
BtsCI	GGATG	3 cut(s)	90, 208, 307
BtsIMutI	CAGTG	1 cut(s)	145
Cac8I	GCNNGC	3 cut(s)	44, 56, 193
Cfr10I	RCCGGY	1 cut(s)	50
Cfr13I	GGNCC	4 cut(s)	48, 210, 211, 361
CpoI	CGGWCCG	1 cut(s)	48
Csp6I	GTAC	2 cut(s)	9, 280
CspI	CGGWCCG	1 cut(s)	48
CviAII	CATG	1 cut(s)	343
CviQI	GTAC	2 cut(s)	9, 280
DdeI	CTNAG	1 cut(s)	320
DraIII	CACNNNGTG	1 cut(s)	395
EciI	GGCGGA	1 cut(s)	61
Eco24I	GRGCYC	1 cut(s)	214
Eco32I	GATATC	1 cut(s)	539
Eco47I	GGWCC	2 cut(s)	48, 361
Eco57I	CTGAAG	1 cut(s)	477
EcoO109I	RGGNCCY	1 cut(s)	211
EcoRII	CCWGG	1 cut(s)	363
EcoRV	GATATC	1 cut(s)	539
EcoT38I	GRGCYC	1 cut(s)	214
FaeI	CATG	1 cut(s)	346
FaiI	YATR	7 cut(s)	139, 258, 273, 344, 431, 472, 474
FatI	CATG	1 cut(s)	342
FauI	CCCGC	2 cut(s)	35, 90
Fnu4HI	GCNGC	5 cut(s)	40, 189, 254, 413, 531
FokI	GGATG	3 cut(s)	97, 215, 314
FriOI	GRGCYC	1 cut(s)	214
Fsp4HI	GCNGC	5 cut(s)	40, 189, 254, 413, 531
FspBI	CTAG	1 cut(s)	592
GluI	GCNGC	5 cut(s)	40, 189, 254, 413, 531
GsaI	CCCAGC	1 cut(s)	419
HaeIII	GGCC	1 cut(s)	212
HapII	CCGG	3 cut(s)	51, 167, 315
Hin1II	CATG	1 cut(s)	346
HinfI	GANTC	2 cut(s)	131, 398
HpaII	CCGG	3 cut(s)	51, 167, 315
HphI	GGTGA	1 cut(s)	133
Hpy166II	GTNNAC	3 cut(s)	223, 238, 293
Hpy188III	TCNNGA	1 cut(s)	167
Hpy8I	GTNNAC	3 cut(s)	223, 238, 293
HpyCH4III	ACNGT	2 cut(s)	279, 333
HpyCH4V	TGCA	6 cut(s)	27, 253, 275, 293, 533, 586
HpyF10VI	GCNNNNNNNGC	3 cut(s)	386, 495, 556
HpyF3I	CTNAG	1 cut(s)	320
Hsp92II	CATG	1 cut(s)	346
Kpn2I	TCCGGA	1 cut(s)	166
Lsp1109I	GCAGC	5 cut(s)	51, 175, 265, 424, 517
LweI	GCATC	1 cut(s)	517
MaeI	CTAG	1 cut(s)	592
MaeIII	GTNAC	1 cut(s)	501
MbiI	CCGCTC	1 cut(s)	82
MboII	GAAGA	2 cut(s)	470, 507
MfeI	CAATTG	2 cut(s)	356, 554
MhlI	GDGCHC	2 cut(s)	214, 295
MluCI	AATT	5 cut(s)	160, 226, 356, 375, 554
MlyI	GAGTC	1 cut(s)	140
MnlI	CCTC	3 cut(s)	224, 241, 516
MroI	TCCGGA	1 cut(s)	166
MseI	TTAA	1 cut(s)	336
MspA1I	CMGCKG	2 cut(s)	42, 415
MspI	CCGG	3 cut(s)	51, 167, 315
MspR9I	CCNGG	2 cut(s)	315, 365
MunI	CAATTG	2 cut(s)	356, 554
Mva1269I	GAATGC	1 cut(s)	586
MvaI	CCWGG	1 cut(s)	365
MwoI	GCNNNNNNNGC	3 cut(s)	386, 495, 556
NciI	CCSGG	1 cut(s)	315
NlaIII	CATG	1 cut(s)	346
NlaIV	GGNNCC	1 cut(s)	212
PctI	GAATGC	1 cut(s)	586
PfeI	GAWTC	1 cut(s)	398
PkrI	GCNGC	5 cut(s)	41, 190, 255, 414, 532
PleI	GAGTC	1 cut(s)	139
PpsI	GAGTC	1 cut(s)	139
Psp6I	CCWGG	1 cut(s)	363
PspFI	CCCAGC	1 cut(s)	415
PspGI	CCWGG	1 cut(s)	363
PspN4I	GGNNCC	1 cut(s)	212
PspOMI	GGGCCC	1 cut(s)	210
PspPI	GGNCC	4 cut(s)	48, 210, 211, 361
PstI	CTGCAG	1 cut(s)	535
PvuII	CAGCTG	1 cut(s)	415
RsaI	GTAC	2 cut(s)	10, 281
RsaNI	GTAC	2 cut(s)	9, 280
Rsr2I	CGGWCCG	1 cut(s)	48
RsrII	CGGWCCG	1 cut(s)	48
SaqAI	TTAA	1 cut(s)	336
SatI	GCNGC	5 cut(s)	40, 189, 254, 413, 531
Sau96I	GGNCC	4 cut(s)	48, 210, 211, 361
SchI	GAGTC	1 cut(s)	140
ScrFI	CCNGG	2 cut(s)	315, 365
SduI	GDGCHC	2 cut(s)	214, 295
SetI	ASST	8 cut(s)	128, 190, 252, 288, 366, 417, 430, 508
SfaNI	GCATC	1 cut(s)	517
SfcI	CTRYAG	1 cut(s)	531
SinI	GGWCC	2 cut(s)	48, 361
Sse9I	AATT	5 cut(s)	160, 226, 356, 375, 554
SsiI	CCGC	5 cut(s)	18, 42, 46, 82, 97
SspI	AATATT	1 cut(s)	582
SspMI	CTAG	1 cut(s)	592
StyD4I	CCNGG	2 cut(s)	313, 363
TaaI	ACNGT	2 cut(s)	279, 333
TasI	AATT	5 cut(s)	160, 226, 356, 375, 554
TatI	WGTACW	1 cut(s)	8
TfiI	GAWTC	1 cut(s)	398
Tru1I	TTAA	1 cut(s)	336
Tru9I	TTAA	1 cut(s)	336
TscAI	CASTG	1 cut(s)	152
TseI	GCWGC	5 cut(s)	39, 188, 253, 412, 530
TspDTI	ATGAA	1 cut(s)	331
TspGWI	ACGGA	1 cut(s)	314
TspRI	CASTG	1 cut(s)	152
VneI	GTGCAC	1 cut(s)	291
VpaK11BI	GGWCC	2 cut(s)	48, 361
XspI	CTAG	1 cut(s)	592

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