Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0001622

Physical Location & Seq

Genomic Coordinates Reverse (-)

81349081 .. 81349470

Gene Structure 390 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG512400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 390 bp

ATGTCTTTATGTGGACACTTGGATTTCTCGTTTGCATCAGCGTGGCATCCTGATGGTGTCACCTTTGCTACTGGGAACCAGGATAAGACCTGTCGGGTTTGGGATGTTCGAAACCTATCCAAGTCAGTTGCTGTTTTAAAGGGAAACCTTGGAGCTATTCGGTCAATCCGTTATACTTCTGATGGTCAGTATATGATGATGGCAGAGCCAGCAGACTTTGTGCATGTCTATGATGTGAAAAGTGGGTACGAGAAGGAGCAGGAAATCGATTTGTTTGGAGAGATATCTGGCATATCATTCAGTCCAGACACAGAGTCGCTTTTCATTGGAGTATGGGATCGTACATATGGTAGTCTTCTCGAGTATGGAAGACAAAAGTGTGTTGCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DUF2415 WD40

Protein Analysis

129

Amino Acids

14.42

Weight (kDa)

5.05

Isoelectric Point (pI)

26.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-prop_WDR5	PF25175	3 - 128	5.1e-11	WDR5 beta-propeller domain
Beta-prop_WDR3_1st	PF25173	3 - 114	4.5e-09	WDR3 first beta-propeller domain
Beta-prop_THOC3	PF25174	4 - 115	8e-15	THOC3 beta-propeller domain
WD40_Prp19	PF24814	13 - 82	4e-12	Prp19 WD40 domain
Beta-prop_EML_2	PF23414	14 - 114	1.4e-09	Echinoderm microtubule-associated protein second beta-propeller
WD40_CDC20-Fz	PF24807	14 - 108	4.6e-06	CDC20/Fizzy WD40 domain
Beta-prop_Aladin	PF25460	14 - 111	3.8e-06	Aladin seven-bladed propeller

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0001622)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G55680 AT3G13340 AT3G13340 AT3G13340
fragaria_vesca	FvH4_3g41630 FvH4_3g41640 FvH4_3g41650
malus_domestica	MD03G1042700.v1.1 MD03G1216600.v1.1 MD05G1255200.v1.1 MD11G1044000.v1.1 MD11G1045800.v1.1
prunus_persica	Prupe.6G035100_v2.0.a1 Prupe.6G035100_v2.0.a1 Prupe.6G035100_v2.0.a1
pyrus_communis	pycom03g03290 pycom11g03710
rosa_chinensis	RchiOBHm_Chr5g0074671 RchiOBHm_Chr5g0074681 RchiOBHm_Chr5g0074701 RchiOBHm_Chr5g0074741
rosa_laevigata	RLG00000036497
rosa_multiflora	Rmu_sc0000909.1_g000023 Rmu_sc0000909.1_g000027 Rmu_sc0008028.1_g000001 Rmu_sc0019386.1_g000002 Rmu_sc0019386.1_g000003
rosa_roxburghii	Rroxscaffold_1G00006840 Rroxscaffold_1G00006860 Rroxscaffold_1G00006870
rosa_rugosa	Rorug05G0433500 Rorug05G0433600
rosa_samantha	Rh5AG490700 Rh5AG490800 Rh5AG491100 Rh5BG511800 Rh5BG512000 Rh5BG512300 Rh5BG512400 Rh5BG512500 Rh5CG535600 Rh5CG535700 Rh5CG536000 Rh5CG536100 Rh5DG524200 Rh5DG524500
rosa_wichuraiana	Rw5G045450 Rw5G045460 Rw5G045490

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	345
AfaI	GTAC	2 cut(s)	248, 343
AhdI	GACNNNNNGTC	1 cut(s)	313
AjnI	CCWGG	1 cut(s)	78
AluBI	AGCT	1 cut(s)	155
AluI	AGCT	1 cut(s)	155
AlwI	GGATC	1 cut(s)	345
AlwNI	CAGNNNCTG	1 cut(s)	131
Ama87I	CYCGRG	1 cut(s)	359
AsuHPI	GGTGA	1 cut(s)	52
AsuII	TTCGAA	1 cut(s)	109
AvaI	CYCGRG	1 cut(s)	359
BbsI	GAAGAC	2 cut(s)	347, 376
BccI	CCATC	3 cut(s)	47, 176, 193
BciT130I	CCWGG	1 cut(s)	80
Bme1390I	CCNGG	1 cut(s)	80
BmeRI	GACNNNNNGTC	1 cut(s)	313
BmeT110I	CYCGRG	1 cut(s)	359
BmiI	GGNNCC	1 cut(s)	77
BmrFI	CCNGG	1 cut(s)	80
BmrI	ACTGGG	1 cut(s)	81
BmsI	GCATC	2 cut(s)	44, 55
BmuI	ACTGGG	1 cut(s)	81
BpiI	GAAGAC	2 cut(s)	347, 376
Bpu14I	TTCGAA	1 cut(s)	109
Bsa29I	ATCGAT	1 cut(s)	267
BsaJI	CCNNGG	1 cut(s)	148
Bse1I	ACTGG	1 cut(s)	76
BseBI	CCWGG	1 cut(s)	80
BseCI	ATCGAT	1 cut(s)	267
BseDI	CCNNGG	1 cut(s)	148
BseGI	GGATG	2 cut(s)	46, 109
BseNI	ACTGG	1 cut(s)	76
BshVI	ATCGAT	1 cut(s)	267
BsiHKCI	CYCGRG	1 cut(s)	359
BsoBI	CYCGRG	1 cut(s)	359
Bsp119I	TTCGAA	1 cut(s)	109
Bsp143I	GATC	1 cut(s)	337
BspDI	ATCGAT	1 cut(s)	267
BspLI	GGNNCC	1 cut(s)	77
BspPI	GGATC	1 cut(s)	345
BspT104I	TTCGAA	1 cut(s)	109
BsrI	ACTGG	1 cut(s)	76
BssECI	CCNNGG	1 cut(s)	148
BssMI	GATC	1 cut(s)	337
BssT1I	CCWWGG	1 cut(s)	148
Bst2UI	CCWGG	1 cut(s)	80
BstBI	TTCGAA	1 cut(s)	109
BstC8I	GCNNGC	1 cut(s)	210
BstF5I	GGATG	2 cut(s)	46, 109
BstKTI	GATC	1 cut(s)	340
BstMBI	GATC	1 cut(s)	337
BstMWI	GCNNNNNNNGC	1 cut(s)	209
BstNI	CCWGG	1 cut(s)	80
BstNSI	RCATGY	1 cut(s)	227
BstSCI	CCNGG	1 cut(s)	78
BstV2I	GAAGAC	2 cut(s)	347, 376
Bsu15I	ATCGAT	1 cut(s)	267
BsuTUI	ATCGAT	1 cut(s)	267
BtsCI	GGATG	2 cut(s)	46, 109
Cac8I	GCNNGC	1 cut(s)	210
CaiI	CAGNNNCTG	1 cut(s)	131
ClaI	ATCGAT	1 cut(s)	267
Csp6I	GTAC	2 cut(s)	247, 342
CviAII	CATG	1 cut(s)	224
CviJI	RGCY	2 cut(s)	155, 208
CviKI_1	RGCY	2 cut(s)	155, 208
CviQI	GTAC	2 cut(s)	247, 342
DpnI	GATC	1 cut(s)	339
DpnII	GATC	1 cut(s)	337
DraI	TTTAAA	1 cut(s)	138
DriI	GACNNNNNGTC	1 cut(s)	313
Eam1105I	GACNNNNNGTC	1 cut(s)	313
Eco130I	CCWWGG	1 cut(s)	148
Eco32I	GATATC	1 cut(s)	285
Eco88I	CYCGRG	1 cut(s)	359
EcoRII	CCWGG	1 cut(s)	78
EcoRV	GATATC	1 cut(s)	285
EcoT14I	CCWWGG	1 cut(s)	148
ErhI	CCWWGG	1 cut(s)	148
FaeI	CATG	1 cut(s)	227
FatI	CATG	1 cut(s)	223
FauNDI	CATATG	1 cut(s)	346
FokI	GGATG	2 cut(s)	33, 116
Hin1II	CATG	1 cut(s)	227
HinfI	GANTC	1 cut(s)	314
HphI	GGTGA	1 cut(s)	52
Hpy166II	GTNNAC	1 cut(s)	14
Hpy188I	TCNGA	1 cut(s)	181
Hpy188III	TCNNGA	3 cut(s)	50, 305, 359
Hpy8I	GTNNAC	1 cut(s)	14
HpyAV	CCTTC	1 cut(s)	247
HpyCH4V	TGCA	2 cut(s)	35, 223
HpyF10VI	GCNNNNNNNGC	1 cut(s)	209
Hsp92II	CATG	1 cut(s)	227
Kzo9I	GATC	1 cut(s)	337
LmnI	GCTCC	2 cut(s)	152, 256
LpnPI	CCDG	9 cut(s)	57, 63, 65, 92, 103, 222, 245, 273, 318
LweI	GCATC	2 cut(s)	44, 55
MaeIII	GTNAC	1 cut(s)	58
MalI	GATC	1 cut(s)	339
MboI	GATC	1 cut(s)	337
MboII	GAAGA	2 cut(s)	347, 381
MlyI	GAGTC	1 cut(s)	323
MseI	TTAA	2 cut(s)	137, 388
MslI	CAYNNNNRTG	3 cut(s)	40, 51, 228
MspR9I	CCNGG	1 cut(s)	80
MvaI	CCWGG	1 cut(s)	80
MwoI	GCNNNNNNNGC	1 cut(s)	209
NdeI	CATATG	1 cut(s)	346
NdeII	GATC	1 cut(s)	337
NlaIII	CATG	1 cut(s)	227
NlaIV	GGNNCC	1 cut(s)	77
NmuCI	GTSAC	1 cut(s)	58
NspI	RCATGY	1 cut(s)	227
NspV	TTCGAA	1 cut(s)	109
PaeR7I	CTCGAG	1 cut(s)	359
PcsI	WCGNNNNNNNCGW	1 cut(s)	166
PleI	GAGTC	1 cut(s)	322
PpsI	GAGTC	1 cut(s)	322
Psp6I	CCWGG	1 cut(s)	78
PspGI	CCWGG	1 cut(s)	78
PspN4I	GGNNCC	1 cut(s)	77
PstNI	CAGNNNCTG	1 cut(s)	131
RsaI	GTAC	2 cut(s)	248, 343
RsaNI	GTAC	2 cut(s)	247, 342
RseI	CAYNNNNRTG	3 cut(s)	40, 51, 228
SaqAI	TTAA	2 cut(s)	137, 388
Sau3AI	GATC	1 cut(s)	337
SchI	GAGTC	1 cut(s)	323
ScrFI	CCNGG	1 cut(s)	80
SetI	ASST	5 cut(s)	65, 92, 117, 150, 157
SfaNI	GCATC	2 cut(s)	44, 55
Sfr274I	CTCGAG	1 cut(s)	359
SfuI	TTCGAA	1 cut(s)	109
SlaI	CTCGAG	1 cut(s)	359
SmiMI	CAYNNNNRTG	3 cut(s)	40, 51, 228
SmlI	CTYRAG	1 cut(s)	359
SmoI	CTYRAG	1 cut(s)	359
StyD4I	CCNGG	1 cut(s)	78
StyI	CCWWGG	1 cut(s)	148
TaqI	TCGA	3 cut(s)	109, 267, 360
TaqII	GACCGA	1 cut(s)	150
Tru1I	TTAA	2 cut(s)	137, 388
Tru9I	TTAA	2 cut(s)	137, 388
TseFI	GTSAC	1 cut(s)	58
Tsp45I	GTSAC	1 cut(s)	58
TspDTI	ATGAA	1 cut(s)	313
TspGWI	ACGGA	1 cut(s)	158
XceI	RCATGY	1 cut(s)	227
XhoI	CTCGAG	1 cut(s)	359

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