Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0002550

Physical Location & Seq

Genomic Coordinates Reverse (-)

68737180 .. 68739295

Gene Structure 2116 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG429800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 711 bp

ATGTACACCAATGATGGCTTGGCTCTGTTAGCGCTGGCCTCCAATGCTGTTCACAAGATTTGGAAATGGCCGAGTGATGACAGGAATAATCCATCAGGAAAGGCTAGTGCATATGTTGTTCCACAGTTGTGGCAGCCTCGGAATGGAATTCTTATGGCTAATGATGTAAATGACAATAAGACTGCTGAGGAATATACTGCATGCATTGCTGTATATAAAAATGGTCATGACAACATTTGTGTCTCCCCCTCCTCCAGTCCTGCTGCCACTTTTCTGGCATTCCATCCTCAAGATAATAGTTTAATTGCTATTGGCATGGACGACACTACTATTTTAATGTATACTGTCAGGGTTAATGAGGTCAAAACCAAACTGAAGGGTCACCAGAATCGGATAACGGGCCTTGCGTTTTCCCAAACTCTTAACATACTGGTTTCTTCAGGAGCTGATGCCCAGTTATGTGTGTGGAGCACTGATGGGTGGGAGAAAAAGAAAACAAGCGGTGGCAACCCCTCCTATCCTCTGGTTGTAGCAGCTCATCCATCTGAGCCTAACCAGATTGCAGTTGGCATGACTGACGGGTCAGTGCATGTGGTTGAACCATCTGATGCAGAGCTGAAGTGGGGTGGCATACCCTCTCAAGATAATGGTCCTTCCAATTCATCAAATCATTCTCTTAGTAGTCAAGCATCAGAACTTCCTTCCAGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001101 GO:0003002 GO:0003006 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006355 GO:0007154 GO:0007165 GO:0007275 GO:0007389 GO:0008150 GO:0009653 GO:0009719 GO:0009725 GO:0009733 GO:0009753 GO:0009755 GO:0009790 GO:0009791 GO:0009793 GO:0009867 GO:0009888 GO:0009889 GO:0009890 GO:0009892 GO:0009933 GO:0009987 GO:0010014 GO:0010016 GO:0010033 GO:0010051 GO:0010072 GO:0010154 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0019219 GO:0019222 GO:0022414 GO:0023052 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032501 GO:0032502 GO:0032870 GO:0042221 GO:0042802 GO:0042803 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0045892 GO:0045934 GO:0046983 GO:0048316 GO:0048367 GO:0048507 GO:0048508 GO:0048519 GO:0048523 GO:0048532 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0051716 GO:0060255 GO:0061458 GO:0065007 GO:0070887 GO:0071229 GO:0071310 GO:0071395 GO:0071495 GO:0080090 GO:0090421 GO:1901700 GO:1901701 GO:1902679 GO:1903506 GO:1903507 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

WD40

Protein Analysis

236

Amino Acids

25.33

Weight (kDa)

5.75

Isoelectric Point (pI)

44.27

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WD40_WDHD1_1st	PF24817	2 - 167	4.4e-11	WDHD1 first WD40 domain
Beta-prop_IFT140_1st	PF23383	62 - 160	7.3e-09	IFT140 first beta-propeller
EIF3I	PF24805	75 - 167	7.1e-06	EIF3I
Beta-prop_WDR3_2nd	PF25172	76 - 166	4.4e-06	WDR3 second beta-propeller domain
Beta-prop_EML_2	PF23414	83 - 165	2.4e-08	Echinoderm microtubule-associated protein second beta-propeller
WD40_Prp19	PF24814	84 - 198	1.3e-11	Prp19 WD40 domain
Beta-prop_WDR36-Utp21_2nd	PF25168	87 - 157	3.5e-09	WDR36/Utp21 second beta-propeller domain
Beta-prop_WDR36-Utp21_1st	PF25171	87 - 159	3e-06	WDR36/Utp21 first beta-propeller
Beta-prop_THOC3	PF25174	90 - 198	4.1e-09	THOC3 beta-propeller domain
Beta-prop_WDR90_POC16_2nd	PF23393	90 - 202	2.1e-07	WDR90/POC16, second beta-propeller
WDR55	PF24796	92 - 196	3.5e-06	WDR55
Beta-prop_WDR5	PF25175	97 - 167	8.1e-11	WDR5 beta-propeller domain
WD40_CDC20-Fz	PF24807	98 - 191	2.1e-10	CDC20/Fizzy WD40 domain
WD40	PF00400	122 - 157	3.1e-06	WD domain, G-beta repeat
Beta-prop_EML_2	PF23414	133 - 205	9.2e-06	Echinoderm microtubule-associated protein second beta-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: OG0002550)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_7g33770 FvH4_7g33770 FvH4_7g33770 FvH4_7g33770 FvH4_7g33770 FvH4_7g33770 FvH4_7g33770
malus_domestica	MD01G1234100.v1.1 MD07G1306300.v1.1
prunus_persica	Prupe.2G324300_v2.0.a1
pyrus_communis	pycom01g24260 pycom07g27930
rosa_chinensis	RchiOBHm_Chr1g0382471 RchiOBHm_Chr1g0382481 RchiOBHm_Chr1g0383911
rosa_laevigata	RLG00000026087 RLG00000026174 RLG00000026177
rosa_multiflora	Rmu_sc0000110.1_g000051 Rmu_sc0003885.1_g000009 Rmu_sc0005139.1_g000028
rosa_roxburghii	Rroxscaffold_4G00277160 Rroxscaffold_4G00278020 Rroxscaffold_4G00278080
rosa_rugosa	Rorug01G0434600 Rorug01G0434900 Rorug01G0443000
rosa_samantha	Rh1AG459200 Rh1AG459300 Rh1AG459600 Rh1AG468900 Rh1BG415700 Rh1BG426600 Rh1CG429700 Rh1CG429800 Rh1CG439400 Rh1DG447800 Rh1DG447900 Rh1DG459400
rosa_wichuraiana	Rw1G040350 Rw1G041180

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	580
AccI	GTMKAC	1 cut(s)	341
AciI	CCGC	1 cut(s)	501
AcoI	YGGCCR	1 cut(s)	68
AcsI	RAATTY	1 cut(s)	147
AcuI	CTGAAG	3 cut(s)	395, 423, 638
AfaI	GTAC	1 cut(s)	5
AfeI	AGCGCT	1 cut(s)	33
AfiI	CCNNNNNNNGG	1 cut(s)	143
AgsI	TTSAA	1 cut(s)	599
AjnI	CCWGG	1 cut(s)	704
AleI	CACNNNNGTG	1 cut(s)	127
AluBI	AGCT	3 cut(s)	446, 536, 616
AluI	AGCT	3 cut(s)	446, 536, 616
Alw21I	GWGCWC	1 cut(s)	473
Alw26I	GTCTC	1 cut(s)	247
AlwNI	CAGNNNCTG	1 cut(s)	446
Aor51HI	AGCGCT	1 cut(s)	33
AoxI	GGCC	3 cut(s)	36, 68, 400
ApeKI	GCWGC	3 cut(s)	133, 263, 533
ApoI	RAATTY	1 cut(s)	147
AspLEI	GCGC	1 cut(s)	34
AspS9I	GGNCC	2 cut(s)	400, 650
AsuHPI	GGTGA	1 cut(s)	374
AvaII	GGWCC	1 cut(s)	650
Bbv12I	GWGCWC	1 cut(s)	473
BbvCI	CCTCAGC	1 cut(s)	186
BbvI	GCAGC	3 cut(s)	145, 250, 545
BccI	CCATC	6 cut(s)	8, 100, 291, 470, 550, 610
BciT130I	CCWGG	1 cut(s)	706
BcoDI	GTCTC	1 cut(s)	247
BfaI	CTAG	1 cut(s)	105
BfoI	RGCGCY	1 cut(s)	35
BisI	GCNGC	3 cut(s)	134, 264, 534
BlsI	GCNGC	3 cut(s)	135, 265, 535
Bme1390I	CCNGG	1 cut(s)	706
Bme18I	GGWCC	1 cut(s)	650
BmgT120I	GGNCC	2 cut(s)	400, 650
BmrFI	CCNGG	1 cut(s)	706
BmrI	ACTGGG	1 cut(s)	448
BmsI	GCATC	3 cut(s)	439, 598, 698
BmuI	ACTGGG	1 cut(s)	448
BpmI	CTGGAG	1 cut(s)	238
Bpu10I	CCTNAGC	1 cut(s)	186
BpuEI	CTTGAG	2 cut(s)	273, 624
BsaJI	CCNNGG	1 cut(s)	137
Bsc4I	CCNNNNNNNGG	1 cut(s)	143
Bse1I	ACTGG	3 cut(s)	255, 435, 454
Bse3DI	GCAATG	1 cut(s)	204
BseBI	CCWGG	1 cut(s)	706
BseDI	CCNNGG	1 cut(s)	137
BseGI	GGATG	2 cut(s)	283, 538
BseLI	CCNNNNNNNGG	1 cut(s)	143
BseMI	GCAATG	1 cut(s)	204
BseMII	CTCAG	2 cut(s)	177, 537
BseNI	ACTGG	3 cut(s)	255, 435, 454
BseRI	GAGGAG	1 cut(s)	241
BseXI	GCAGC	3 cut(s)	145, 250, 545
BshFI	GGCC	3 cut(s)	38, 70, 402
BsiHKAI	GWGCWC	1 cut(s)	473
BslI	CCNNNNNNNGG	1 cut(s)	143
BsmAI	GTCTC	1 cut(s)	247
BsmI	GAATGC	1 cut(s)	278
BsnI	GGCC	3 cut(s)	38, 70, 402
Bsp1286I	GDGCHC	1 cut(s)	473
Bsp1407I	TGTACA	1 cut(s)	3
BspACI	CCGC	1 cut(s)	501
BspANI	GGCC	3 cut(s)	38, 70, 402
BspCNI	CTCAG	2 cut(s)	178, 538
BspHI	TCATGA	1 cut(s)	226
BsrDI	GCAATG	1 cut(s)	204
BsrGI	TGTACA	1 cut(s)	3
BsrI	ACTGG	3 cut(s)	255, 435, 454
BssECI	CCNNGG	1 cut(s)	137
BssNAI	GTATAC	1 cut(s)	342
Bst1107I	GTATAC	1 cut(s)	342
Bst2UI	CCWGG	1 cut(s)	706
Bst4CI	ACNGT	2 cut(s)	126, 346
BstAPI	GCANNNNNTGC	1 cut(s)	206
BstAUI	TGTACA	1 cut(s)	3
BstC8I	GCNNGC	2 cut(s)	36, 202
BstDEI	CTNAG	3 cut(s)	186, 546, 677
BstEII	GGTNACC	1 cut(s)	380
BstF5I	GGATG	2 cut(s)	283, 538
BstH2I	RGCGCY	1 cut(s)	35
BstHHI	GCGC	1 cut(s)	34
BstMAI	GTCTC	1 cut(s)	247
BstMWI	GCNNNNNNNGC	3 cut(s)	29, 44, 206
BstNI	CCWGG	1 cut(s)	706
BstNSI	RCATGY	2 cut(s)	204, 593
BstPI	GGTNACC	1 cut(s)	380
BstSCI	CCNGG	1 cut(s)	704
BstV1I	GCAGC	3 cut(s)	145, 250, 545
BstXI	CCANNNNNNTGG	2 cut(s)	129, 274
BstZ17I	GTATAC	1 cut(s)	342
BsuRI	GGCC	3 cut(s)	38, 70, 402
BtsCI	GGATG	2 cut(s)	283, 538
BtsIMutI	CAGTG	2 cut(s)	471, 591
Cac8I	GCNNGC	2 cut(s)	36, 202
CaiI	CAGNNNCTG	1 cut(s)	446
CciI	TCATGA	1 cut(s)	226
CfoI	GCGC	1 cut(s)	34
Cfr13I	GGNCC	2 cut(s)	400, 650
Csp6I	GTAC	1 cut(s)	4
CviAII	CATG	5 cut(s)	201, 227, 316, 571, 590
CviQI	GTAC	1 cut(s)	4
DdeI	CTNAG	3 cut(s)	186, 546, 677
DrdI	GACNNNNNNGTC	1 cut(s)	580
DseDI	GACNNNNNNGTC	1 cut(s)	580
EaeI	YGGCCR	1 cut(s)	68
Eco47I	GGWCC	1 cut(s)	650
Eco47III	AGCGCT	1 cut(s)	33
Eco57I	CTGAAG	3 cut(s)	395, 423, 638
Eco91I	GGTNACC	1 cut(s)	380
EcoO65I	GGTNACC	1 cut(s)	380
EcoRI	GAATTC	1 cut(s)	147
EcoRII	CCWGG	1 cut(s)	704
EcoT22I	ATGCAT	1 cut(s)	206
FaeI	CATG	5 cut(s)	204, 230, 319, 574, 593
FatI	CATG	5 cut(s)	200, 226, 315, 570, 589
FauNDI	CATATG	1 cut(s)	112
FblI	GTMKAC	1 cut(s)	341
Fnu4HI	GCNGC	3 cut(s)	134, 264, 534
FokI	GGATG	2 cut(s)	270, 525
Fsp4HI	GCNGC	3 cut(s)	134, 264, 534
FspBI	CTAG	1 cut(s)	105
GlaI	GCGC	1 cut(s)	33
GluI	GCNGC	3 cut(s)	134, 264, 534
GsuI	CTGGAG	1 cut(s)	238
HaeII	RGCGCY	1 cut(s)	35
HaeIII	GGCC	3 cut(s)	38, 70, 402
HhaI	GCGC	1 cut(s)	34
Hin1II	CATG	5 cut(s)	204, 230, 319, 574, 593
Hin6I	GCGC	1 cut(s)	32
HinP1I	GCGC	1 cut(s)	32
HinfI	GANTC	1 cut(s)	388
HphI	GGTGA	1 cut(s)	374
Hpy166II	GTNNAC	3 cut(s)	6, 52, 342
Hpy188I	TCNGA	5 cut(s)	141, 393, 547, 607, 694
Hpy188III	TCNNGA	5 cut(s)	96, 227, 290, 441, 641
Hpy8I	GTNNAC	3 cut(s)	6, 52, 342
HpyAV	CCTTC	3 cut(s)	370, 663, 711
HpyCH4III	ACNGT	2 cut(s)	126, 346
HpyCH4V	TGCA	6 cut(s)	110, 200, 204, 563, 589, 611
HpyF10VI	GCNNNNNNNGC	3 cut(s)	29, 44, 206
HpyF3I	CTNAG	3 cut(s)	186, 546, 677
Hsp92II	CATG	5 cut(s)	204, 230, 319, 574, 593
HspAI	GCGC	1 cut(s)	32
LmnI	GCTCC	2 cut(s)	443, 468
Lsp1109I	GCAGC	3 cut(s)	145, 250, 545
LweI	GCATC	3 cut(s)	439, 598, 698
MaeI	CTAG	1 cut(s)	105
MaeIII	GTNAC	1 cut(s)	380
MboII	GAAGA	1 cut(s)	429
MhlI	GDGCHC	1 cut(s)	473
MluCI	AATT	3 cut(s)	147, 303, 658
Mph1103I	ATGCAT	1 cut(s)	206
MseI	TTAA	4 cut(s)	302, 335, 354, 423
MslI	CAYNNNNRTG	1 cut(s)	127
MspR9I	CCNGG	1 cut(s)	706
Mva1269I	GAATGC	1 cut(s)	278
MvaI	CCWGG	1 cut(s)	706
MwoI	GCNNNNNNNGC	3 cut(s)	29, 44, 206
NdeI	CATATG	1 cut(s)	112
NlaIII	CATG	5 cut(s)	204, 230, 319, 574, 593
NmeAIII	GCCGAG	1 cut(s)	96
NmuCI	GTSAC	1 cut(s)	380
NsiI	ATGCAT	1 cut(s)	206
NspI	RCATGY	2 cut(s)	204, 593
OliI	CACNNNNGTG	1 cut(s)	127
PaeI	GCATGC	1 cut(s)	204
PagI	TCATGA	1 cut(s)	226
PcsI	WCGNNNNNNNCGW	1 cut(s)	404
PctI	GAATGC	1 cut(s)	278
PfeI	GAWTC	1 cut(s)	388
PkrI	GCNGC	3 cut(s)	135, 265, 535
Psp6I	CCWGG	1 cut(s)	704
PspEI	GGTNACC	1 cut(s)	380
PspGI	CCWGG	1 cut(s)	704
PspPI	GGNCC	2 cut(s)	400, 650
PstNI	CAGNNNCTG	1 cut(s)	446
RsaI	GTAC	1 cut(s)	5
RsaNI	GTAC	1 cut(s)	4
RseI	CAYNNNNRTG	1 cut(s)	127
SaqAI	TTAA	4 cut(s)	302, 335, 354, 423
SatI	GCNGC	3 cut(s)	134, 264, 534
Sau96I	GGNCC	2 cut(s)	400, 650
ScrFI	CCNGG	1 cut(s)	706
SduI	GDGCHC	1 cut(s)	473
SetI	ASST	5 cut(s)	363, 448, 538, 618, 710
SfaNI	GCATC	3 cut(s)	439, 598, 698
SinI	GGWCC	1 cut(s)	650
SmiMI	CAYNNNNRTG	1 cut(s)	127
SmlI	CTYRAG	2 cut(s)	288, 639
SmoI	CTYRAG	2 cut(s)	288, 639
SphI	GCATGC	1 cut(s)	204
Sse9I	AATT	3 cut(s)	147, 303, 658
SsiI	CCGC	1 cut(s)	501
SspMI	CTAG	1 cut(s)	105
StyD4I	CCNGG	1 cut(s)	704
TaaI	ACNGT	2 cut(s)	126, 346
TasI	AATT	3 cut(s)	147, 303, 658
TatI	WGTACW	1 cut(s)	3
TfiI	GAWTC	1 cut(s)	388
Tru1I	TTAA	4 cut(s)	302, 335, 354, 423
Tru9I	TTAA	4 cut(s)	302, 335, 354, 423
TscAI	CASTG	2 cut(s)	478, 591
TseFI	GTSAC	1 cut(s)	380
TseI	GCWGC	3 cut(s)	133, 263, 533
Tsp45I	GTSAC	1 cut(s)	380
TspDTI	ATGAA	1 cut(s)	651
TspRI	CASTG	2 cut(s)	478, 591
VpaK11BI	GGWCC	1 cut(s)	650
XapI	RAATTY	1 cut(s)	147
XceI	RCATGY	2 cut(s)	204, 593
XcmI	CCANNNNNNNNNTGG	2 cut(s)	16, 563
XmiI	GTMKAC	1 cut(s)	341
XspI	CTAG	1 cut(s)	105
Zsp2I	ATGCAT	1 cut(s)	206

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