Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0000356

Physical Location & Seq

Genomic Coordinates Forward (+)

26970831 .. 26971694

Gene Structure 864 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG124300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 666 bp

ATGGCCCCAAAGTATCACCACCACCCCTACGCCCACGCCCACGCCGCTTGTGGTCCTCCTCAGGTCGATGGTTTTGGTGCATTCAGGAATAGAAAGCAGACCCAGACCCACAGAAGGACGGTTGATTATACTGGCTCTCAAAATGGGGAGTTGACTCTTTGGAATGGTCAGTCATTTAACCATGAATTGAGGATTCAGGCTCATGATCATGCAATTAGGTCTATGGCGTGGAGTTTTGATGATGAAGATTGGATCTCTGGTGATGATGGAGGCACAATCAGGTCTTGGAAGAGTAACATGAATAATGTGCTAGTCAATGAATGTGCTCACCAAGAATCGGTTCGGGACTTGAGCTTTTGTAGGAGTAATTTGAAGTTTTGTTCATGTTCGGATGATGCCACTGTTAAAATTTGGGATTTTGAACGGTGCCAACAAGAGCAGACATTGACCGGCCATGGTTGGAATGTCAAGAGTGTTGATTGGCACCCAACAAAGTCTCTAATAGCTTCGGGTGGGAAAGACAGTGTTGTCAAACTGTGGGATGCTAGGTCAGGGAGAGAACTTTGTTCATTTTATGATCACAAAAATTGGGTGCATTCTGTTAAGTGGAACCGAAATGGTAACTGGCTGCTAACTGCTTCCAAGGATCAAGTCATTAAGCTTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005847 GO:0005849 GO:0006139 GO:0006378 GO:0006379 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0031123 GO:0031124 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043631 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:1901360

KEGG Pathways

Metabolic & Signaling

ko03015 map03015

Pfam Domains

Protein Families

WD40

Protein Analysis

221

Amino Acids

25.37

Weight (kDa)

7.71

Isoelectric Point (pI)

39.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WD40_Prp19	PF24814	42 - 221	5.5e-25	Prp19 WD40 domain
Beta-prop_WDR3_1st	PF25173	43 - 152	7.4e-15	WDR3 first beta-propeller domain
Beta-prop_THOC3	PF25174	43 - 220	4.8e-29	THOC3 beta-propeller domain
Beta-prop_IFT140_1st	PF23383	44 - 114	3e-07	IFT140 first beta-propeller
WD40_Gbeta	PF25391	44 - 220	9e-15	G protein beta WD-40 repeat protein
WD40_WDHD1_1st	PF24817	44 - 188	1.1e-13	WDHD1 first WD40 domain
WDR55	PF24796	44 - 141	1.5e-08	WDR55
WD40_CDC20-Fz	PF24807	44 - 214	2.1e-21	CDC20/Fizzy WD40 domain
EIF3I	PF24805	58 - 146	3.6e-09	EIF3I
Beta-prop_CAF1B_HIR1	PF24105	66 - 176	4.5e-08	CAF1B/HIR1 beta-propeller domain
Beta-prop_EIPR1	PF23609	67 - 180	2.7e-07	EIPR1 beta-propeller
Beta-prop_TEP1_2nd	PF25047	74 - 221	1.8e-09	TEP-1 second beta-propeller
WDR55	PF24796	99 - 219	1.1e-14	WDR55
Beta-prop_WDR36-Utp21_2nd	PF25168	106 - 220	2.1e-14	WDR36/Utp21 second beta-propeller domain
Beta-prop_SCAP	PF24017	107 - 203	5.6e-08	SCAP Beta-propeller
Beta-prop_WDR3_2nd	PF25172	108 - 171	3.3e-07	WDR3 second beta-propeller domain
WD40	PF00400	109 - 139	5.7e-06	WD domain, G-beta repeat
Beta-prop_WDR5	PF25175	109 - 221	9e-27	WDR5 beta-propeller domain
Beta-prop_EML_2	PF23414	124 - 221	1.2e-14	Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_WDR90_POC16_2nd	PF23393	126 - 216	3e-09	WDR90/POC16, second beta-propeller
Beta-prop_IFT140_1st	PF23383	132 - 218	2.1e-06	IFT140 first beta-propeller
Beta-prop_WDR3_1st	PF25173	134 - 221	3.6e-20	WDR3 first beta-propeller domain
WD40	PF00400	144 - 181	7.4e-10	WD domain, G-beta repeat
EIF3I	PF24805	148 - 216	4.2e-06	EIF3I
Beta-prop_WDR3_2nd	PF25172	148 - 220	6.2e-08	WDR3 second beta-propeller domain
Beta-prop_CAF1B_HIR1	PF24105	149 - 220	5.6e-08	CAF1B/HIR1 beta-propeller domain
WD40	PF00400	186 - 221	8.1e-07	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: OG0000356)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G13480 AT5G13480 AT5G13480 AT5G13480
fragaria_vesca	FvH4_4g16141 FvH4_5g25490 FvH4_5g25550 FvH4_6g22190 FvH4_6g23330 FvH4_7g02880
malus_domestica	MD02G1288700.v1.1 MD07G1038200.v1.1
prunus_persica	Prupe.2G034300_v2.0.a1
pyrus_communis	pycom02g24420 pycom07g02650
rosa_chinensis	RchiOBHm_Chr1g0323831 RchiOBHm_Chr3g0482821 RchiOBHm_Chr3g0482981 RchiOBHm_Chr3g0486211 RchiOBHm_Chr4g0404661 RchiOBHm_Chr5g0010661
rosa_laevigata	RLG00000012304 RLG00000017204 RLG00000017697 RLG00000020158 RLG00000030265 RLG00000031770 RLG00000035414
rosa_multiflora	Rmu_co8066382.1_g000001 Rmu_co8299121.1_g000001 Rmu_co8338957.1_g000001 Rmu_sc0001371.1_g000014 Rmu_sc0002634.1_g000006 Rmu_sc0004124.1_g000001 Rmu_sc0004540.1_g000008 Rmu_sc0006103.1_g000005 Rmu_sc0006571.1_g000003 Rmu_sc0006601.1_g000005 Rmu_sc0006601.1_g000008 Rmu_sc0006601.1_g000010 Rmu_sc0009883.1_g000005 Rmu_sc0011602.1_g000010 Rmu_sc0011602.1_g000011 Rmu_sc0012513.1_g000008 Rmu_sc0025336.1_g000001 Rmu_sc0026709.1_g000001 Rmu_ssc0000175.1_g000002 Rmu_ssc0000175.1_g000031
rosa_roxburghii	Rroxscaffold_1G00027770 Rroxscaffold_1G00065710 Rroxscaffold_3G00243370 Rroxscaffold_3G00243410 Rroxscaffold_3G00243440 Rroxscaffold_3G00243490 Rroxscaffold_4G00326390 Rroxscaffold_6G00398770 Rroxscaffold_6G00398910 Rroxscaffold_6G00398940
rosa_rugosa	Rorug01G0039800 Rorug01G0039900 Rorug03G0198000 Rorug03G0198100 Rorug03G0199200 Rorug04G0451600
rosa_samantha	Rh1AG057200 Rh1BG048200 Rh1CG058500 Rh1DG062300 Rh1DG062400 Rh2AG304100 Rh2CG002400 Rh2CG642500 Rh2DG328100 Rh3AG250000 Rh3BG285200 Rh3BG286000 Rh3CG284000 Rh3CG285400 Rh3CG307500 Rh3DG278700 Rh3DG279600 Rh3DG281000 Rh3DG303900 Rh4AG124300 Rh4BG118400 Rh4CG132400 Rh4CG132500 Rh4DG015900 Rh5AG083200 Rh5AG417500 Rh5AG538800 Rh5BG078500 Rh5BG447700 Rh5BG541600 Rh5BG541700 Rh5CG091200 Rh5CG564200 Rh5CG564300 Rh5DG078600 Rh5DG545800
rosa_wichuraiana	Rw0G000660 Rw0G022360 Rw1G004890 Rw3G022520 Rw3G022590 Rw3G022710 Rw3G024280

Restriction Enzyme Sites

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	527
AccB1I	GGYRCC	2 cut(s)	426, 483
AciI	CCGC	1 cut(s)	45
AclWI	GGATC	2 cut(s)	260, 654
AcoI	YGGCCR	1 cut(s)	451
AcsI	RAATTY	1 cut(s)	408
AfiI	CCNNNNNNNGG	2 cut(s)	114, 337
AgsI	TTSAA	2 cut(s)	373, 422
AjuI	GAANNNNNNNTTGG	2 cut(s)	324, 356
AluBI	AGCT	3 cut(s)	354, 506, 661
AluI	AGCT	3 cut(s)	354, 506, 661
Alw21I	GWGCWC	1 cut(s)	328
Alw26I	GTCTC	1 cut(s)	501
AlwI	GGATC	2 cut(s)	260, 654
AoxI	GGCC	2 cut(s)	3, 451
ApeKI	GCWGC	1 cut(s)	628
ApoI	RAATTY	1 cut(s)	408
Asp700I	GAANNNNTTC	1 cut(s)	339
AspS9I	GGNCC	2 cut(s)	4, 53
AsuHPI	GGTGA	3 cut(s)	8, 272, 320
AvaII	GGWCC	1 cut(s)	53
AxyI	CCTNAGG	1 cut(s)	60
BanI	GGYRCC	2 cut(s)	426, 483
Bbv12I	GWGCWC	1 cut(s)	328
BbvI	GCAGC	1 cut(s)	615
BccI	CCATC	2 cut(s)	62, 260
BclI	TGATCA	2 cut(s)	205, 577
BcoDI	GTCTC	1 cut(s)	501
BfaI	CTAG	2 cut(s)	311, 546
BisI	GCNGC	2 cut(s)	45, 629
BlsI	GCNGC	2 cut(s)	46, 630
Bme18I	GGWCC	1 cut(s)	53
BmgT120I	GGNCC	2 cut(s)	4, 53
BmiI	GGNNCC	4 cut(s)	6, 428, 485, 611
BmsI	GCATC	2 cut(s)	385, 532
BpuEI	CTTGAG	1 cut(s)	370
BsaJI	CCNNGG	2 cut(s)	454, 642
Bsc4I	CCNNNNNNNGG	2 cut(s)	114, 337
Bse118I	RCCGGY	1 cut(s)	449
Bse1I	ACTGG	2 cut(s)	136, 629
Bse21I	CCTNAGG	1 cut(s)	60
BseDI	CCNNGG	2 cut(s)	454, 642
BseGI	GGATG	2 cut(s)	397, 547
BseLI	CCNNNNNNNGG	2 cut(s)	114, 337
BseMII	CTCAG	1 cut(s)	74
BseNI	ACTGG	2 cut(s)	136, 629
BseRI	GAGGAG	1 cut(s)	48
BseXI	GCAGC	1 cut(s)	615
BshFI	GGCC	2 cut(s)	5, 453
BshNI	GGYRCC	2 cut(s)	426, 483
BsiHKAI	GWGCWC	1 cut(s)	328
BsiSI	CCGG	1 cut(s)	450
BslFI	GGGAC	1 cut(s)	359
BslI	CCNNNNNNNGG	2 cut(s)	114, 337
BsmAI	GTCTC	1 cut(s)	501
BsmFI	GGGAC	1 cut(s)	359
BsmI	GAATGC	2 cut(s)	80, 595
BsnI	GGCC	2 cut(s)	5, 453
Bsp1286I	GDGCHC	1 cut(s)	328
Bsp143I	GATC	4 cut(s)	205, 252, 577, 646
Bsp19I	CCATGG	1 cut(s)	454
BspACI	CCGC	1 cut(s)	45
BspANI	GGCC	2 cut(s)	5, 453
BspCNI	CTCAG	1 cut(s)	73
BspHI	TCATGA	1 cut(s)	202
BspLI	GGNNCC	4 cut(s)	6, 428, 485, 611
BspPI	GGATC	2 cut(s)	260, 654
BspT107I	GGYRCC	2 cut(s)	426, 483
BsrFI	RCCGGY	1 cut(s)	449
BsrI	ACTGG	2 cut(s)	136, 629
BssAI	RCCGGY	1 cut(s)	449
BssECI	CCNNGG	2 cut(s)	454, 642
BssMI	GATC	4 cut(s)	205, 252, 577, 646
BssT1I	CCWWGG	2 cut(s)	454, 642
Bst4CI	ACNGT	5 cut(s)	121, 403, 426, 524, 537
Bst6I	CTCTTC	1 cut(s)	284
BstDEI	CTNAG	1 cut(s)	60
BstDSI	CCRYGG	1 cut(s)	454
BstF5I	GGATG	2 cut(s)	397, 547
BstKTI	GATC	4 cut(s)	208, 255, 580, 649
BstMAI	GTCTC	1 cut(s)	501
BstMBI	GATC	4 cut(s)	205, 252, 577, 646
BstMWI	GCNNNNNNNGC	1 cut(s)	44
BstV1I	GCAGC	1 cut(s)	615
BstX2I	RGATCY	1 cut(s)	252
BstYI	RGATCY	1 cut(s)	252
Bsu36I	CCTNAGG	1 cut(s)	60
BsuRI	GGCC	2 cut(s)	5, 453
BtgI	CCRYGG	1 cut(s)	454
BtsCI	GGATG	2 cut(s)	397, 547
BtsIMutI	CAGTG	2 cut(s)	399, 529
CciI	TCATGA	1 cut(s)	202
Cfr10I	RCCGGY	1 cut(s)	449
Cfr13I	GGNCC	2 cut(s)	4, 53
CspCI	CAANNNNNGTGG	2 cut(s)	29, 64
CviAII	CATG	6 cut(s)	182, 203, 209, 298, 384, 455
CviJI	RGCY	8 cut(s)	5, 135, 200, 354, 453, 506, 628, 661
CviKI_1	RGCY	8 cut(s)	5, 135, 200, 354, 453, 506, 628, 661
DdeI	CTNAG	1 cut(s)	60
DpnI	GATC	4 cut(s)	207, 254, 579, 648
DpnII	GATC	4 cut(s)	205, 252, 577, 646
DrdI	GACNNNNNNGTC	1 cut(s)	527
DseDI	GACNNNNNNGTC	1 cut(s)	527
EaeI	YGGCCR	1 cut(s)	451
Eam1104I	CTCTTC	1 cut(s)	284
EarI	CTCTTC	1 cut(s)	284
Eco130I	CCWWGG	2 cut(s)	454, 642
Eco47I	GGWCC	1 cut(s)	53
Eco81I	CCTNAGG	1 cut(s)	60
EcoT14I	CCWWGG	2 cut(s)	454, 642
ErhI	CCWWGG	2 cut(s)	454, 642
FaeI	CATG	6 cut(s)	185, 206, 212, 301, 387, 458
FaiI	YATR	9 cut(s)	129, 183, 204, 210, 224, 299, 385, 456, 576
FaqI	GGGAC	1 cut(s)	359
FatI	CATG	6 cut(s)	181, 202, 208, 297, 383, 454
FbaI	TGATCA	2 cut(s)	205, 577
Fnu4HI	GCNGC	2 cut(s)	45, 629
FokI	GGATG	2 cut(s)	404, 554
Fsp4HI	GCNGC	2 cut(s)	45, 629
FspBI	CTAG	2 cut(s)	311, 546
GluI	GCNGC	2 cut(s)	45, 629
HaeIII	GGCC	2 cut(s)	5, 453
HapII	CCGG	1 cut(s)	450
Hin1II	CATG	6 cut(s)	185, 206, 212, 301, 387, 458
HincII	GTYRAC	1 cut(s)	153
HindII	GTYRAC	1 cut(s)	153
HindIII	AAGCTT	1 cut(s)	659
HinfI	GANTC	3 cut(s)	154, 193, 335
HpaII	CCGG	1 cut(s)	450
HphI	GGTGA	3 cut(s)	8, 272, 320
Hpy166II	GTNNAC	1 cut(s)	153
Hpy188I	TCNGA	1 cut(s)	391
Hpy188III	TCNNGA	4 cut(s)	85, 203, 344, 469
Hpy8I	GTNNAC	1 cut(s)	153
HpyAV	CCTTC	1 cut(s)	108
HpyCH4III	ACNGT	5 cut(s)	121, 403, 426, 524, 537
HpyCH4V	TGCA	3 cut(s)	80, 212, 595
HpyF10VI	GCNNNNNNNGC	1 cut(s)	44
HpyF3I	CTNAG	1 cut(s)	60
Hsp92II	CATG	6 cut(s)	185, 206, 212, 301, 387, 458
Ksp22I	TGATCA	2 cut(s)	205, 577
Kzo9I	GATC	4 cut(s)	205, 252, 577, 646
Lsp1109I	GCAGC	1 cut(s)	615
LweI	GCATC	2 cut(s)	385, 532
MaeI	CTAG	2 cut(s)	311, 546
MaeIII	GTNAC	2 cut(s)	293, 620
MalI	GATC	4 cut(s)	207, 254, 579, 648
MboI	GATC	4 cut(s)	205, 252, 577, 646
MboII	GAAGA	2 cut(s)	257, 301
MflI	RGATCY	1 cut(s)	252
MhlI	GDGCHC	1 cut(s)	328
MluCI	AATT	5 cut(s)	185, 213, 367, 408, 586
MlyI	GAGTC	1 cut(s)	148
MmeI	TCCRAC	1 cut(s)	440
MnlI	CCTC	4 cut(s)	66, 69, 183, 263
MroXI	GAANNNNTTC	1 cut(s)	339
MseI	TTAA	4 cut(s)	177, 405, 603, 657
MslI	CAYNNNNRTG	1 cut(s)	207
MspI	CCGG	1 cut(s)	450
Mva1269I	GAATGC	2 cut(s)	80, 595
MwoI	GCNNNNNNNGC	1 cut(s)	44
NcoI	CCATGG	1 cut(s)	454
NdeII	GATC	4 cut(s)	205, 252, 577, 646
NlaIII	CATG	6 cut(s)	185, 206, 212, 301, 387, 458
NlaIV	GGNNCC	4 cut(s)	6, 428, 485, 611
PagI	TCATGA	1 cut(s)	202
PctI	GAATGC	2 cut(s)	80, 595
PdmI	GAANNNNTTC	1 cut(s)	339
PfeI	GAWTC	2 cut(s)	193, 335
PkrI	GCNGC	2 cut(s)	46, 630
PleI	GAGTC	1 cut(s)	148
PpsI	GAGTC	1 cut(s)	148
PspN4I	GGNNCC	4 cut(s)	6, 428, 485, 611
PspPI	GGNCC	2 cut(s)	4, 53
PsuI	RGATCY	1 cut(s)	252
RseI	CAYNNNNRTG	1 cut(s)	207
SaqAI	TTAA	4 cut(s)	177, 405, 603, 657
SatI	GCNGC	2 cut(s)	45, 629
Sau3AI	GATC	4 cut(s)	205, 252, 577, 646
Sau96I	GGNCC	2 cut(s)	4, 53
SchI	GAGTC	1 cut(s)	148
SduI	GDGCHC	1 cut(s)	328
SetI	ASST	7 cut(s)	66, 221, 284, 356, 508, 551, 663
SfaNI	GCATC	2 cut(s)	385, 532
SinI	GGWCC	1 cut(s)	53
SmiMI	CAYNNNNRTG	1 cut(s)	207
SmlI	CTYRAG	1 cut(s)	349
SmoI	CTYRAG	1 cut(s)	349
Sse9I	AATT	5 cut(s)	185, 213, 367, 408, 586
SsiI	CCGC	1 cut(s)	45
SspMI	CTAG	2 cut(s)	311, 546
StyI	CCWWGG	2 cut(s)	454, 642
TaaI	ACNGT	5 cut(s)	121, 403, 426, 524, 537
TaqI	TCGA	1 cut(s)	66
TasI	AATT	5 cut(s)	185, 213, 367, 408, 586
TauI	GCSGC	1 cut(s)	47
TfiI	GAWTC	2 cut(s)	193, 335
Tru1I	TTAA	4 cut(s)	177, 405, 603, 657
Tru9I	TTAA	4 cut(s)	177, 405, 603, 657
TscAI	CASTG	2 cut(s)	406, 529
TseI	GCWGC	1 cut(s)	628
TspDTI	ATGAA	6 cut(s)	198, 258, 314, 333, 372, 558
TspRI	CASTG	2 cut(s)	406, 529
VpaK11BI	GGWCC	1 cut(s)	53
XapI	RAATTY	1 cut(s)	408
XcmI	CCANNNNNNNNNTGG	1 cut(s)	47
XmnI	GAANNNNTTC	1 cut(s)	339
XspI	CTAG	2 cut(s)	311, 546

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