Basic Information

Type: gene

Biological Identity

Species

rosa_multiflora

Chromosome

Rmu_sc0000295.1

Orthogroup ID

OG0006652

Physical Location & Seq

Genomic Coordinates Reverse (-)

89852 .. 91036

Gene Structure 1185 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

N/A

Sequence Viewer

CDS Protein Promoter (2k)

Length: 846 bp

atggagcgaatgacgaccaactttgattttgggtcttcaactttggcggtgactggctatgtcataactcatattgggttgtgggttgagccattttctcatagctcacgacgaggacgaggcttcactgaagcgaccaggcccagagctttgcgtgacgctagggttcatattgcgcagtactcgcttcccagggcggcgttgctgcttcaacgtgtgaggaggaaggaggaggatccggatgaggatatggatgccgaactcagctgggctttagagcaggcctctaatttgaagcttgattgcagtgagattggggatgataggccactttctggttgctcattctcacaagatggcaaattgcttgccgcctgtgctttaagtccagttgccaagctgtggagcatgcctcaagtaacaaaggttgccaccttgaagggacatacagagcgcttaaccgatgttgcattttctcctgtgcaaaatcatctcttggcaactgcgtctgcggataggactgcgaggttgtggaacagcgaaggagcacacctgatgacattcgggggacatttggaccgtcttgcccgcattgccttccatccctcaggaaagtacttgggtacaactagctttgacaagacttggaggctgtgggatgtagagactggtgaagagttgcttcttcaagaaggtcacagtaggagtgtctatgctatagacttccacccagatggctcattggttgcaactgctggattggatgcgcttgctcgtgtttgggacctccgtagtggtagaagtattcttaccttggaaggccatgtcaaaaaagtaagactctaa

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000375 GO:0000377 GO:0000398 GO:0001709 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005618 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0007154 GO:0007267 GO:0007275 GO:0007276 GO:0007292 GO:0008150 GO:0008152 GO:0008380 GO:0009553 GO:0009560 GO:0009561 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0016604 GO:0016607 GO:0017069 GO:0017070 GO:0019953 GO:0022412 GO:0022414 GO:0023052 GO:0030154 GO:0030312 GO:0030532 GO:0030621 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032504 GO:0032991 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044703 GO:0045165 GO:0046483 GO:0046540 GO:0048229 GO:0048609 GO:0048856 GO:0048869 GO:0051704 GO:0070013 GO:0071704 GO:0071944 GO:0090304 GO:0097159 GO:0097525 GO:0097526 GO:0120114 GO:1901360 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

PRP4 WD40

Protein Analysis

281

Amino Acids

31.22

Weight (kDa)

6.84

Isoelectric Point (pI)

44.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-prop_WDR3_2nd	PF25172	100 - 223	6.5e-12	WDR3 second beta-propeller domain
WD40_Gbeta	PF25391	106 - 228	2.8e-11	G protein beta WD-40 repeat protein
EIF3I	PF24805	106 - 183	1.5e-07	EIF3I
Beta-prop_WDR5	PF25175	108 - 273	7.4e-39	WDR5 beta-propeller domain
WD40_MABP1-WDR62_1st	PF24780	109 - 219	5.2e-06	MABP1/WDR62 first WD40 domain
Beta-prop_EML_2	PF23414	109 - 227	6.8e-11	Echinoderm microtubule-associated protein second beta-propeller
WD40_CDC20-Fz	PF24807	109 - 185	2.1e-08	CDC20/Fizzy WD40 domain
Beta-prop_WDR3_1st	PF25173	111 - 184	3.6e-09	WDR3 first beta-propeller domain
Beta-prop_THOC3	PF25174	114 - 225	9.2e-20	THOC3 beta-propeller domain
WD40_WDHD1_1st	PF24817	114 - 181	1.1e-07	WDHD1 first WD40 domain
Beta-prop_WDR3_1st	PF25173	123 - 279	3.2e-26	WDR3 first beta-propeller domain
WD40_Prp19	PF24814	142 - 280	1.6e-34	Prp19 WD40 domain
WD40	PF00400	142 - 179	3.1e-08	WD domain, G-beta repeat
WDR55	PF24796	151 - 275	2.8e-11	WDR55
WD40_WDHD1_1st	PF24817	164 - 226	3.6e-07	WDHD1 first WD40 domain
WD40_MABP1-WDR62_2nd	PF24782	164 - 263	2.1e-09	MABP1/WDR62 second WD40 domain
Beta-prop_WDR90_POC16_2nd	PF23393	164 - 257	1.5e-06	WDR90/POC16, second beta-propeller
WD40_CDC20-Fz	PF24807	184 - 280	6.6e-07	CDC20/Fizzy WD40 domain
WD40	PF00400	184 - 220	3.8e-06	WD domain, G-beta repeat
Beta-prop_CAF1B_HIR1	PF24105	187 - 269	4.1e-07	CAF1B/HIR1 beta-propeller domain
EIF3I	PF24805	188 - 274	7.4e-10	EIF3I
Beta-prop_THOC3	PF25174	194 - 279	6.5e-16	THOC3 beta-propeller domain
WD40_WDHD1_1st	PF24817	198 - 274	3.3e-08	WDHD1 first WD40 domain
WD40_Gbeta	PF25391	209 - 277	4.7e-08	G protein beta WD-40 repeat protein
WD40	PF00400	230 - 262	2.6e-08	WD domain, G-beta repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0006652)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G05720 AT2G41500 AT2G41500
fragaria_vesca	FvH4_6g24750
malus_domestica	MD12G1086300.v1.1 MD14G1080500.v1.1
prunus_persica	Prupe.7G050300_v2.0.a1 Prupe.7G050300_v2.0.a1
pyrus_communis	pycom06g09480 pycom12g07290
rosa_chinensis	RchiOBHm_Chr3g0484331 RchiOBHm_Chr3g0484401 RchiOBHm_Chr3g0484501
rosa_laevigata	RLG00000023231
rosa_multiflora	Rmu_co8232775.1_g000001 Rmu_sc0000295.1_g000017 Rmu_sc0000295.1_g000018 Rmu_sc0001947.1_g000006
rosa_roxburghii	Rroxscaffold_6G00397770
rosa_rugosa	Rorug03G0210900
rosa_samantha	Rh3AG260000 Rh3AG261700 Rh3BG296600 Rh3CG294200 Rh3DG290300
rosa_wichuraiana	Rw3G023450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	177
AccB7I	CCANNNNNTGG	2 cut(s)	335, 402
AccIII	TCCGGA	1 cut(s)	238
AciI	CCGC	5 cut(s)	47, 197, 372, 512, 589
AclWI	GGATC	2 cut(s)	230, 243
AcuI	CTGAAG	1 cut(s)	150
AfaI	GTAC	3 cut(s)	182, 617, 625
AfeI	AGCGCT	1 cut(s)	455
AfiI	CCNNNNNNNGG	2 cut(s)	335, 402
AflIII	ACRYGT	1 cut(s)	214
AgsI	TTSAA	5 cut(s)	39, 212, 295, 439, 689
AjnI	CCWGG	2 cut(s)	137, 191
AluBI	AGCT	6 cut(s)	105, 149, 267, 298, 400, 633
AluI	AGCT	6 cut(s)	105, 149, 267, 298, 400, 633
Alw21I	GWGCWC	1 cut(s)	550
Alw26I	GTCTC	1 cut(s)	659
AlwI	GGATC	2 cut(s)	230, 243
Aor13HI	TCCGGA	1 cut(s)	238
Aor51HI	AGCGCT	1 cut(s)	455
AoxI	GGCC	4 cut(s)	140, 282, 326, 820
ApeKI	GCWGC	1 cut(s)	205
AspLEI	GCGC	3 cut(s)	178, 456, 769
AspS9I	GGNCC	3 cut(s)	141, 577, 784
AsuHPI	GGTGA	2 cut(s)	61, 683
AvaII	GGWCC	2 cut(s)	577, 784
AxyI	CCTNAGG	1 cut(s)	607
BamHI	GGATCC	1 cut(s)	235
BarI	GAAGNNNNNNTAC	2 cut(s)	793, 825
BauI	CACGAG	1 cut(s)	774
BbsI	GAAGAC	1 cut(s)	27
Bbv12I	GWGCWC	1 cut(s)	550
BbvI	GCAGC	1 cut(s)	192
BccI	CCATC	3 cut(s)	350, 609, 728
BciT130I	CCWGG	2 cut(s)	139, 193
BcoDI	GTCTC	1 cut(s)	659
BfaI	CTAG	2 cut(s)	162, 630
BfmI	CTRYAG	1 cut(s)	717
BfoI	RGCGCY	1 cut(s)	457
BisI	GCNGC	3 cut(s)	198, 206, 372
BlsI	GCNGC	3 cut(s)	199, 207, 373
BmcAI	AGTACT	2 cut(s)	182, 617
Bme1390I	CCNGG	2 cut(s)	139, 193
Bme18I	GGWCC	2 cut(s)	577, 784
BmgT120I	GGNCC	3 cut(s)	141, 577, 784
BmiI	GGNNCC	2 cut(s)	237, 785
BmrFI	CCNGG	2 cut(s)	139, 193
BmsI	GCATC	2 cut(s)	244, 754
BpiI	GAAGAC	1 cut(s)	27
BplI	GAGNNNNNCTC	4 cut(s)	269, 301, 397, 429
BpuEI	CTTGAG	1 cut(s)	399
BsaJI	CCNNGG	3 cut(s)	191, 192, 813
BsaWI	WCCGGW	1 cut(s)	238
Bsc4I	CCNNNNNNNGG	2 cut(s)	335, 402
Bse1I	ACTGG	3 cut(s)	58, 389, 673
Bse21I	CCTNAGG	1 cut(s)	607
Bse3DI	GCAATG	1 cut(s)	591
BseAI	TCCGGA	1 cut(s)	238
BseBI	CCWGG	2 cut(s)	139, 193
BseDI	CCNNGG	3 cut(s)	191, 192, 813
BseGI	GGATG	6 cut(s)	247, 259, 325, 601, 664, 769
BseLI	CCNNNNNNNGG	2 cut(s)	335, 402
BseMI	GCAATG	1 cut(s)	591
BseMII	CTCAG	2 cut(s)	277, 621
BseNI	ACTGG	3 cut(s)	58, 389, 673
BseRI	GAGGAG	2 cut(s)	235, 245
BseXI	GCAGC	1 cut(s)	192
BseYI	CCCAGC	1 cut(s)	267
BshFI	GGCC	4 cut(s)	142, 284, 328, 822
BsiHKAI	GWGCWC	1 cut(s)	550
BsiSI	CCGG	1 cut(s)	239
BslFI	GGGAC	3 cut(s)	456, 582, 797
BslI	CCNNNNNNNGG	2 cut(s)	335, 402
BsmAI	GTCTC	1 cut(s)	659
BsmFI	GGGAC	3 cut(s)	456, 582, 797
BsnI	GGCC	4 cut(s)	142, 284, 328, 822
Bsp1286I	GDGCHC	1 cut(s)	550
Bsp13I	TCCGGA	1 cut(s)	238
Bsp143I	GATC	1 cut(s)	235
BspACI	CCGC	5 cut(s)	47, 197, 372, 512, 589
BspANI	GGCC	4 cut(s)	142, 284, 328, 822
BspCNI	CTCAG	2 cut(s)	276, 620
BspEI	TCCGGA	1 cut(s)	238
BspLI	GGNNCC	2 cut(s)	237, 785
BspPI	GGATC	2 cut(s)	230, 243
BsrDI	GCAATG	1 cut(s)	591
BsrI	ACTGG	3 cut(s)	58, 389, 673
BssECI	CCNNGG	3 cut(s)	191, 192, 813
BssMI	GATC	1 cut(s)	235
BssSI	CACGAG	1 cut(s)	774
BssT1I	CCWWGG	1 cut(s)	813
Bst2BI	CACGAG	1 cut(s)	774
Bst2UI	CCWGG	2 cut(s)	139, 193
Bst4CI	ACNGT	2 cut(s)	581, 701
Bst6I	CTCTTC	1 cut(s)	669
BstC8I	GCNNGC	5 cut(s)	282, 369, 410, 589, 771
BstDEI	CTNAG	2 cut(s)	263, 607
BstF5I	GGATG	6 cut(s)	247, 259, 325, 601, 664, 769
BstH2I	RGCGCY	1 cut(s)	457
BstHHI	GCGC	3 cut(s)	178, 456, 769
BstKTI	GATC	1 cut(s)	238
BstMAI	GTCTC	1 cut(s)	659
BstMBI	GATC	1 cut(s)	235
BstMWI	GCNNNNNNNGC	3 cut(s)	184, 377, 593
BstNI	CCWGG	2 cut(s)	139, 193
BstNSI	RCATGY	1 cut(s)	412
BstSCI	CCNGG	2 cut(s)	137, 191
BstSFI	CTRYAG	1 cut(s)	717
BstV1I	GCAGC	1 cut(s)	192
BstV2I	GAAGAC	1 cut(s)	27
BstX2I	RGATCY	1 cut(s)	235
BstXI	CCANNNNNNTGG	1 cut(s)	734
BstYI	RGATCY	1 cut(s)	235
Bsu36I	CCTNAGG	1 cut(s)	607
BsuRI	GGCC	4 cut(s)	142, 284, 328, 822
BtsCI	GGATG	6 cut(s)	247, 259, 325, 601, 664, 769
BtsI	GCAGTG	1 cut(s)	313
BtsIMutI	CAGTG	2 cut(s)	126, 313
Cac8I	GCNNGC	5 cut(s)	282, 369, 410, 589, 771
CfoI	GCGC	3 cut(s)	178, 456, 769
Cfr13I	GGNCC	3 cut(s)	141, 577, 784
CseI	GACGC	2 cut(s)	167, 495
Csp6I	GTAC	3 cut(s)	181, 616, 624
CviAII	CATG	2 cut(s)	409, 824
CviQI	GTAC	3 cut(s)	181, 616, 624
DdeI	CTNAG	2 cut(s)	263, 607
DpnI	GATC	1 cut(s)	237
DpnII	GATC	1 cut(s)	235
Eam1104I	CTCTTC	1 cut(s)	669
EarI	CTCTTC	1 cut(s)	669
Eco130I	CCWWGG	1 cut(s)	813
Eco147I	AGGCCT	1 cut(s)	284
Eco47I	GGWCC	2 cut(s)	577, 784
Eco47III	AGCGCT	1 cut(s)	455
Eco57I	CTGAAG	1 cut(s)	150
Eco81I	CCTNAGG	1 cut(s)	607
EcoO109I	RGGNCCY	1 cut(s)	784
EcoRII	CCWGG	2 cut(s)	137, 191
EcoT14I	CCWWGG	1 cut(s)	813
ErhI	CCWWGG	1 cut(s)	813
FaeI	CATG	2 cut(s)	412, 827
FalI	AAGNNNNNCTT	2 cut(s)	666, 698
FaqI	GGGAC	3 cut(s)	456, 582, 797
FatI	CATG	2 cut(s)	408, 823
FauI	CCCGC	1 cut(s)	596
Fnu4HI	GCNGC	3 cut(s)	198, 206, 372
FokI	GGATG	6 cut(s)	254, 266, 332, 588, 671, 776
Fsp4HI	GCNGC	3 cut(s)	198, 206, 372
FspBI	CTAG	2 cut(s)	162, 630
FspI	TGCGCA	1 cut(s)	177
GlaI	GCGC	3 cut(s)	177, 455, 768
GluI	GCNGC	3 cut(s)	198, 206, 372
GsaI	CCCAGC	1 cut(s)	271
HaeII	RGCGCY	1 cut(s)	457
HaeIII	GGCC	4 cut(s)	142, 284, 328, 822
HapII	CCGG	1 cut(s)	239
HgaI	GACGC	2 cut(s)	167, 495
HhaI	GCGC	3 cut(s)	178, 456, 769
Hin1II	CATG	2 cut(s)	412, 827
Hin6I	GCGC	3 cut(s)	176, 454, 767
HinP1I	GCGC	3 cut(s)	176, 454, 767
HindIII	AAGCTT	1 cut(s)	296
HinfI	GANTC	1 cut(s)	840
HpaII	CCGG	1 cut(s)	239
HphI	GGTGA	2 cut(s)	61, 683
Hpy188III	TCNNGA	4 cut(s)	108, 239, 609, 689
Hpy99I	CGWCG	1 cut(s)	114
HpyAV	CCTTC	6 cut(s)	220, 433, 536, 607, 686, 812
HpyCH4III	ACNGT	2 cut(s)	581, 701
HpyCH4IV	ACGT	1 cut(s)	214
HpyCH4V	TGCA	4 cut(s)	306, 470, 484, 749
HpyF10VI	GCNNNNNNNGC	3 cut(s)	184, 377, 593
HpyF3I	CTNAG	2 cut(s)	263, 607
HpySE526I	ACGT	1 cut(s)	214
Hsp92II	CATG	2 cut(s)	412, 827
HspAI	GCGC	3 cut(s)	176, 454, 767
Kpn2I	TCCGGA	1 cut(s)	238
Kzo9I	GATC	1 cut(s)	235
LmnI	GCTCC	3 cut(s)	4, 405, 545
Lsp1109I	GCAGC	1 cut(s)	192
LweI	GCATC	2 cut(s)	244, 754
MaeI	CTAG	2 cut(s)	162, 630
MaeII	ACGT	1 cut(s)	214
MaeIII	GTNAC	4 cut(s)	49, 155, 418, 695
MalI	GATC	1 cut(s)	237
MboI	GATC	1 cut(s)	235
MboII	GAAGA	3 cut(s)	27, 677, 686
MflI	RGATCY	1 cut(s)	235
MhlI	GDGCHC	1 cut(s)	550
MluCI	AATT	2 cut(s)	289, 362
MlyI	GAGTC	1 cut(s)	834
MroI	TCCGGA	1 cut(s)	238
MseI	TTAA	2 cut(s)	383, 458
MslI	CAYNNNNRTG	1 cut(s)	732
MspA1I	CMGCKG	1 cut(s)	267
MspI	CCGG	1 cut(s)	239
MspR9I	CCNGG	2 cut(s)	139, 193
MvaI	CCWGG	2 cut(s)	139, 193
MwoI	GCNNNNNNNGC	3 cut(s)	184, 377, 593
NdeII	GATC	1 cut(s)	235
NlaIII	CATG	2 cut(s)	412, 827
NlaIV	GGNNCC	2 cut(s)	237, 785
NmuCI	GTSAC	3 cut(s)	49, 155, 695
NsbI	TGCGCA	1 cut(s)	177
NspI	RCATGY	1 cut(s)	412
PaeI	GCATGC	1 cut(s)	412
PasI	CCCWGGG	1 cut(s)	192
PceI	AGGCCT	1 cut(s)	284
PcsI	WCGNNNNNNNCGW	1 cut(s)	115
PflMI	CCANNNNNTGG	2 cut(s)	335, 402
PkrI	GCNGC	3 cut(s)	199, 207, 373
PleI	GAGTC	1 cut(s)	834
PpsI	GAGTC	1 cut(s)	834
PpuMI	RGGWCCY	1 cut(s)	784
Psp5II	RGGWCCY	1 cut(s)	784
Psp6I	CCWGG	2 cut(s)	137, 191
PspFI	CCCAGC	1 cut(s)	267
PspGI	CCWGG	2 cut(s)	137, 191
PspN4I	GGNNCC	2 cut(s)	237, 785
PspPI	GGNCC	3 cut(s)	141, 577, 784
PspPPI	RGGWCCY	1 cut(s)	784
PsuI	RGATCY	1 cut(s)	235
PvuII	CAGCTG	1 cut(s)	267
RsaI	GTAC	3 cut(s)	182, 617, 625
RsaNI	GTAC	3 cut(s)	181, 616, 624
RseI	CAYNNNNRTG	1 cut(s)	732
SaqAI	TTAA	2 cut(s)	383, 458
SatI	GCNGC	3 cut(s)	198, 206, 372
Sau3AI	GATC	1 cut(s)	235
Sau96I	GGNCC	3 cut(s)	141, 577, 784
ScaI	AGTACT	2 cut(s)	182, 617
SchI	GAGTC	1 cut(s)	834
ScrFI	CCNGG	2 cut(s)	139, 193
SduI	GDGCHC	1 cut(s)	550
SfaNI	GCATC	2 cut(s)	244, 754
SfcI	CTRYAG	1 cut(s)	717
SinI	GGWCC	2 cut(s)	577, 784
SmiMI	CAYNNNNRTG	1 cut(s)	732
SmlI	CTYRAG	1 cut(s)	414
SmoI	CTYRAG	1 cut(s)	414
SphI	GCATGC	1 cut(s)	412
Sse9I	AATT	2 cut(s)	289, 362
SseBI	AGGCCT	1 cut(s)	284
SsiI	CCGC	5 cut(s)	47, 197, 372, 512, 589
SspMI	CTAG	2 cut(s)	162, 630
StuI	AGGCCT	1 cut(s)	284
StyD4I	CCNGG	2 cut(s)	137, 191
StyI	CCWWGG	1 cut(s)	813
TaaI	ACNGT	2 cut(s)	581, 701
TaiI	ACGT	1 cut(s)	217
TasI	AATT	2 cut(s)	289, 362
TatI	WGTACW	2 cut(s)	180, 615
TauI	GCSGC	2 cut(s)	200, 374
Tru1I	TTAA	2 cut(s)	383, 458
Tru9I	TTAA	2 cut(s)	383, 458
TscAI	CASTG	2 cut(s)	133, 313
TseFI	GTSAC	3 cut(s)	49, 155, 695
TseI	GCWGC	1 cut(s)	205
Tsp45I	GTSAC	3 cut(s)	49, 155, 695
TspDTI	ATGAA	1 cut(s)	158
TspGWI	ACGGA	1 cut(s)	779
TspRI	CASTG	2 cut(s)	133, 313
Van91I	CCANNNNNTGG	2 cut(s)	335, 402
VpaK11BI	GGWCC	2 cut(s)	577, 784
XceI	RCATGY	1 cut(s)	412
XspI	CTAG	2 cut(s)	162, 630
ZrmI	AGTACT	2 cut(s)	182, 617

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