Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0003013

Physical Location & Seq

Genomic Coordinates Forward (+)

81782962 .. 81787483

Gene Structure 4522 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG584700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 933 bp

ATGTATTCTTTCTGGAATTTGATCTTCTATAGGGTATGGAAAGCTTCTGGAACATGTACACATATACTGCAAGGACACAGTGAACCAGTTACATCTGTTAGTGTTATCAGTGCAGAAGGGGGAGAAAGTTGTAGCGTAGCTACTGCTTCAAAAGATCGCACACTGAGGCTGTGGAAGTTCAATACAGAAGAGCAAACAAACAATCCTTTGAGGACAACAGCATACAAAGTTTTGCGTGGGCACGGAGCAGCTGTTCAAAGTGTCGCTGCTCATACCTCGGGAGACATGGTCTGTTCAGGCTCCTGGGATTCCACAATCAAATTATGGCAGACAGATGAGCCTGATATAGAAGTTGATGTGTCAATTAAGAAGAGAAAAAAAATTGATGAAGCTAAGGAATCTCAAAAGGAGGGGGAGGCTGTTTCTTCTCTAGTGGGCCATACACAATGTGTATCTTCTGTCAAGTGGCCTCAGCGTGACATAATCTATTCGGCATCTTGGGACCATTCTATTAGAAGGTGGGATGTTGGGACAGGCAAAGATGTACTGAACATACCTGCCAGCAAAGCCCTCAACTGTCTTGATATTGGTGGTGAAGGTTCTGCACTTGTTGCTGCTGGTGGTTCTGACCCCATTCTTAGGATATGGGATCCTCGTAGACCAGGAACTTCTGCTCCTGTTGGTCAATTCTCATCTCACACTTCTTGGATTACGGGATGCAAGTGGCATGAGAGCTCTTGGTTTCATATACTCTCTTCATCGTATGATGGCAAAGTCATGCTATGGGATATGAGAACTACTTGGCCTTTATTTGTCATTGATTCACATAAAGACAGCAAGGTACTATGTGTGGATTGGTGGAAAGGTGATAGTGTGGTTAGTGGTGGGGCAGATACAAAGCTTTGCATCAGTTCCGGCGTTTCTGTGCAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000151 GO:0000460 GO:0000470 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005911 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009506 GO:0009987 GO:0010467 GO:0016070 GO:0016072 GO:0022613 GO:0030054 GO:0030684 GO:0030686 GO:0030687 GO:0031461 GO:0031974 GO:0031981 GO:0032991 GO:0034470 GO:0034641 GO:0034660 GO:0042254 GO:0042273 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044452 GO:0044464 GO:0046483 GO:0055044 GO:0070013 GO:0070545 GO:0071704 GO:0071840 GO:0080008 GO:0090304 GO:1901360 GO:1902494 GO:1990234 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

NLE WD40

Protein Analysis

310

Amino Acids

34.12

Weight (kDa)

6.79

Isoelectric Point (pI)

42.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-prop_TEP1_2nd	PF25047	10 - 114	5.6e-08	TEP-1 second beta-propeller
Beta-prop_WDR5	PF25175	11 - 113	5.3e-15	WDR5 beta-propeller domain
WD40_Prp19	PF24814	15 - 118	2.2e-11	Prp19 WD40 domain
WD40	PF00400	17 - 58	4.3e-06	WD domain, G-beta repeat
Beta-prop_CAF1B_HIR1	PF24105	27 - 189	2.5e-11	CAF1B/HIR1 beta-propeller domain
Beta-prop_THOC3	PF25174	46 - 116	7.4e-11	THOC3 beta-propeller domain
WD40	PF00400	76 - 109	3.4e-08	WD domain, G-beta repeat
WDR55	PF24796	134 - 301	1.1e-08	WDR55
Beta-prop_WDR5	PF25175	136 - 219	1.2e-10	WDR5 beta-propeller domain
Beta-prop_THOC3	PF25174	138 - 189	1.2e-06	THOC3 beta-propeller domain
WD40_CDC20-Fz	PF24807	139 - 299	6.1e-14	CDC20/Fizzy WD40 domain
WD40_Gbeta	PF25391	143 - 298	1.9e-06	G protein beta WD-40 repeat protein
Beta-prop_EML_2	PF23414	157 - 293	8.8e-08	Echinoderm microtubule-associated protein second beta-propeller
WD40_Prp19	PF24814	189 - 300	6.4e-07	Prp19 WD40 domain
Beta-prop_THOC3	PF25174	190 - 300	1.4e-10	THOC3 beta-propeller domain
Beta-prop_TEP1_2nd	PF25047	190 - 303	1.2e-10	TEP-1 second beta-propeller
Beta-prop_WDR3_1st	PF25173	192 - 301	7.4e-09	WDR3 first beta-propeller domain
Beta-prop_WDR5	PF25175	201 - 301	1e-10	WDR5 beta-propeller domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0003013)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G15550 AT5G15550 AT5G15550
fragaria_vesca	FvH4_6g46921 FvH4_6g46921 FvH4_6g46921 FvH4_6g46930 FvH4_6g46930 FvH4_6g46930 FvH4_6g46930 FvH4_6g46930 FvH4_6g46930 FvH4_6g46930
malus_domestica	MD09G1066000.v1.1 MD09G1066100.v1.1 MD17G1058700.v1.1 MD17G1058800.v1.1
prunus_persica	Prupe.3G255400_v2.0.a1 Prupe.3G255500_v2.0.a1
pyrus_communis	pycom111g05550 pycom17g05870
rosa_chinensis	RchiOBHm_Chr2g0165901 RchiOBHm_Chr2g0165911
rosa_laevigata	RLG00000021569
rosa_multiflora	Rmu_co8422767.1_g000001 Rmu_sc0006218.1_g000010
rosa_roxburghii	Rroxscaffold_2G00085310 Rroxscaffold_2G00085320
rosa_rugosa	Rorug02G0519200 Rorug02G0519300
rosa_samantha	Rh2AG584700 Rh2AG584800 Rh2BG596600 Rh2CG567400 Rh2DG606700 Rh2DG606800
rosa_wichuraiana	Rw2G048750 Rw2G048760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	565
AccI	GTMKAC	1 cut(s)	658
AclWI	GGATC	2 cut(s)	644, 657
AcsI	RAATTY	1 cut(s)	16
AdeI	CACNNNGTG	1 cut(s)	449
AfaI	GTAC	3 cut(s)	58, 546, 843
AfiI	CCNNNNNNNGG	1 cut(s)	639
AflIII	ACRYGT	1 cut(s)	53
AgsI	TTSAA	3 cut(s)	150, 181, 257
AjnI	CCWGG	2 cut(s)	302, 661
AloI	GAACNNNNNNTCC	4 cut(s)	237, 269, 658, 690
AluBI	AGCT	6 cut(s)	44, 140, 251, 392, 735, 901
AluI	AGCT	6 cut(s)	44, 140, 251, 392, 735, 901
Alw21I	GWGCWC	1 cut(s)	737
Alw26I	GTCTC	1 cut(s)	276
AlwI	GGATC	2 cut(s)	644, 657
Ama87I	CYCGRG	1 cut(s)	277
AoxI	GGCC	3 cut(s)	436, 467, 803
ApeKI	GCWGC	3 cut(s)	248, 266, 614
ApoI	RAATTY	1 cut(s)	16
AspS9I	GGNCC	2 cut(s)	436, 502
AsuHPI	GGTGA	2 cut(s)	605, 878
AvaI	CYCGRG	1 cut(s)	277
AvaII	GGWCC	1 cut(s)	502
BaeGI	GKGCMC	1 cut(s)	243
BamHI	GGATCC	1 cut(s)	649
BanII	GRGCYC	1 cut(s)	737
Bbv12I	GWGCWC	1 cut(s)	737
BbvCI	CCTCAGC	1 cut(s)	471
BbvI	GCAGC	3 cut(s)	253, 260, 601
BccI	CCATC	1 cut(s)	761
BciT130I	CCWGG	2 cut(s)	304, 663
BcoDI	GTCTC	1 cut(s)	276
BfaI	CTAG	1 cut(s)	431
BfmI	CTRYAG	1 cut(s)	28
BfuAI	ACCTGC	1 cut(s)	565
BisI	GCNGC	3 cut(s)	249, 267, 615
BlsI	GCNGC	3 cut(s)	250, 268, 616
Bme1390I	CCNGG	2 cut(s)	304, 663
Bme18I	GGWCC	1 cut(s)	502
BmeT110I	CYCGRG	1 cut(s)	277
BmgT120I	GGNCC	2 cut(s)	436, 502
BmiI	GGNNCC	3 cut(s)	301, 503, 651
BmrFI	CCNGG	2 cut(s)	304, 663
BmsI	GCATC	3 cut(s)	503, 707, 915
Bpu10I	CCTNAGC	2 cut(s)	393, 471
BsaJI	CCNNGG	2 cut(s)	276, 303
BsaXI	ACNNNNNCTCC	6 cut(s)	237, 267, 273, 303, 658, 688
Bsc4I	CCNNNNNNNGG	1 cut(s)	639
Bse1I	ACTGG	1 cut(s)	86
BseBI	CCWGG	2 cut(s)	304, 663
BseDI	CCNNGG	2 cut(s)	276, 303
BseGI	GGATG	2 cut(s)	529, 722
BseLI	CCNNNNNNNGG	1 cut(s)	639
BseMII	CTCAG	2 cut(s)	155, 485
BseNI	ACTGG	1 cut(s)	86
BseSI	GKGCMC	1 cut(s)	243
BseXI	GCAGC	3 cut(s)	253, 260, 601
BsgI	GTGCAG	2 cut(s)	132, 588
BshFI	GGCC	3 cut(s)	438, 469, 805
BsiHKAI	GWGCWC	1 cut(s)	737
BsiHKCI	CYCGRG	1 cut(s)	277
BsiSI	CCGG	1 cut(s)	915
BslFI	GGGAC	2 cut(s)	515, 544
BslI	CCNNNNNNNGG	1 cut(s)	639
BsmAI	GTCTC	1 cut(s)	276
BsmFI	GGGAC	2 cut(s)	515, 544
BsnI	GGCC	3 cut(s)	438, 469, 805
BsoBI	CYCGRG	1 cut(s)	277
Bsp1286I	GDGCHC	2 cut(s)	243, 737
Bsp1407I	TGTACA	1 cut(s)	56
Bsp143I	GATC	3 cut(s)	21, 154, 649
BspANI	GGCC	3 cut(s)	438, 469, 805
BspCNI	CTCAG	2 cut(s)	156, 484
BspLI	GGNNCC	3 cut(s)	301, 503, 651
BspMI	ACCTGC	1 cut(s)	565
BspPI	GGATC	2 cut(s)	644, 657
BspQI	GCTCTTC	1 cut(s)	183
BsrGI	TGTACA	1 cut(s)	56
BsrI	ACTGG	1 cut(s)	86
BssECI	CCNNGG	2 cut(s)	276, 303
BssMI	GATC	3 cut(s)	21, 154, 649
Bst2UI	CCWGG	2 cut(s)	304, 663
Bst4CI	ACNGT	2 cut(s)	80, 578
Bst6I	CTCTTC	3 cut(s)	183, 365, 760
BstAPI	GCANNNNNTGC	1 cut(s)	611
BstAUI	TGTACA	1 cut(s)	56
BstC8I	GCNNGC	1 cut(s)	562
BstDEI	CTNAG	4 cut(s)	164, 393, 471, 638
BstF5I	GGATG	2 cut(s)	529, 722
BstKTI	GATC	3 cut(s)	24, 157, 652
BstMAI	GTCTC	1 cut(s)	276
BstMBI	GATC	3 cut(s)	21, 154, 649
BstMWI	GCNNNNNNNGC	2 cut(s)	566, 611
BstNI	CCWGG	2 cut(s)	304, 663
BstNSI	RCATGY	1 cut(s)	57
BstSCI	CCNGG	2 cut(s)	302, 661
BstSFI	CTRYAG	1 cut(s)	28
BstSLI	GKGCMC	1 cut(s)	243
BstV1I	GCAGC	3 cut(s)	253, 260, 601
BstX2I	RGATCY	1 cut(s)	649
BstYI	RGATCY	1 cut(s)	649
BsuRI	GGCC	3 cut(s)	438, 469, 805
BtsCI	GGATG	2 cut(s)	529, 722
BtsIMutI	CAGTG	3 cut(s)	85, 115, 161
BveI	ACCTGC	1 cut(s)	565
Cac8I	GCNNGC	1 cut(s)	562
Cfr13I	GGNCC	2 cut(s)	436, 502
Csp6I	GTAC	3 cut(s)	57, 545, 842
CviAII	CATG	4 cut(s)	54, 286, 728, 778
CviQI	GTAC	3 cut(s)	57, 545, 842
DdeI	CTNAG	4 cut(s)	164, 393, 471, 638
DpnI	GATC	3 cut(s)	23, 156, 651
DpnII	GATC	3 cut(s)	21, 154, 649
DraIII	CACNNNGTG	1 cut(s)	449
Eam1104I	CTCTTC	3 cut(s)	183, 365, 760
EarI	CTCTTC	3 cut(s)	183, 365, 760
Ecl136II	GAGCTC	1 cut(s)	735
Eco24I	GRGCYC	1 cut(s)	737
Eco47I	GGWCC	1 cut(s)	502
Eco53kI	GAGCTC	1 cut(s)	735
Eco88I	CYCGRG	1 cut(s)	277
EcoICRI	GAGCTC	1 cut(s)	735
EcoRII	CCWGG	2 cut(s)	302, 661
EcoT38I	GRGCYC	1 cut(s)	737
FaeI	CATG	4 cut(s)	57, 289, 731, 781
FaqI	GGGAC	2 cut(s)	515, 544
FatI	CATG	4 cut(s)	53, 285, 727, 777
FblI	GTMKAC	1 cut(s)	658
Fnu4HI	GCNGC	3 cut(s)	249, 267, 615
FokI	GGATG	2 cut(s)	536, 729
FriOI	GRGCYC	1 cut(s)	737
Fsp4HI	GCNGC	3 cut(s)	249, 267, 615
FspBI	CTAG	1 cut(s)	431
GluI	GCNGC	3 cut(s)	249, 267, 615
HaeIII	GGCC	3 cut(s)	438, 469, 805
HapII	CCGG	1 cut(s)	915
Hin1II	CATG	4 cut(s)	57, 289, 731, 781
HindIII	AAGCTT	2 cut(s)	42, 899
HinfI	GANTC	3 cut(s)	308, 398, 821
HpaII	CCGG	1 cut(s)	915
HphI	GGTGA	2 cut(s)	605, 878
Hpy166II	GTNNAC	3 cut(s)	59, 83, 659
Hpy188I	TCNGA	1 cut(s)	628
Hpy188III	TCNNGA	4 cut(s)	13, 48, 279, 581
Hpy8I	GTNNAC	3 cut(s)	59, 83, 659
HpyAV	CCTTC	3 cut(s)	110, 510, 590
HpyCH4III	ACNGT	2 cut(s)	80, 578
HpyCH4V	TGCA	6 cut(s)	70, 113, 605, 720, 906, 928
HpyF10VI	GCNNNNNNNGC	2 cut(s)	566, 611
HpyF3I	CTNAG	4 cut(s)	164, 393, 471, 638
Hsp92II	CATG	4 cut(s)	57, 289, 731, 781
Kzo9I	GATC	3 cut(s)	21, 154, 649
LguI	GCTCTTC	1 cut(s)	183
LmnI	GCTCC	3 cut(s)	245, 305, 679
Lsp1109I	GCAGC	3 cut(s)	253, 260, 601
LweI	GCATC	3 cut(s)	503, 707, 915
MaeI	CTAG	1 cut(s)	431
MaeIII	GTNAC	2 cut(s)	88, 476
MalI	GATC	3 cut(s)	23, 156, 651
MboI	GATC	3 cut(s)	21, 154, 649
MboII	GAAGA	6 cut(s)	16, 200, 382, 417, 447, 747
MflI	RGATCY	1 cut(s)	649
MhlI	GDGCHC	2 cut(s)	243, 737
MluCI	AATT	5 cut(s)	16, 320, 363, 381, 686
MnlI	CCTC	8 cut(s)	159, 204, 286, 403, 409, 480, 581, 663
MseI	TTAA	1 cut(s)	366
MspA1I	CMGCKG	1 cut(s)	251
MspI	CCGG	1 cut(s)	915
MspR9I	CCNGG	2 cut(s)	304, 663
MvaI	CCWGG	2 cut(s)	304, 663
MwoI	GCNNNNNNNGC	2 cut(s)	566, 611
NdeII	GATC	3 cut(s)	21, 154, 649
NlaIII	CATG	4 cut(s)	57, 289, 731, 781
NlaIV	GGNNCC	3 cut(s)	301, 503, 651
NmuCI	GTSAC	1 cut(s)	476
NspI	RCATGY	1 cut(s)	57
PciI	ACATGT	1 cut(s)	53
PciSI	GCTCTTC	1 cut(s)	183
PfeI	GAWTC	3 cut(s)	308, 398, 821
PflFI	GACNNNGTC	1 cut(s)	287
PkrI	GCNGC	3 cut(s)	250, 268, 616
PscI	ACATGT	1 cut(s)	53
Psp124BI	GAGCTC	1 cut(s)	737
Psp6I	CCWGG	2 cut(s)	302, 661
PspGI	CCWGG	2 cut(s)	302, 661
PspN4I	GGNNCC	3 cut(s)	301, 503, 651
PspPI	GGNCC	2 cut(s)	436, 502
PsuI	RGATCY	1 cut(s)	649
PsyI	GACNNNGTC	1 cut(s)	287
PvuII	CAGCTG	1 cut(s)	251
RsaI	GTAC	3 cut(s)	58, 546, 843
RsaNI	GTAC	3 cut(s)	57, 545, 842
SacI	GAGCTC	1 cut(s)	737
SapI	GCTCTTC	1 cut(s)	183
SaqAI	TTAA	1 cut(s)	366
SatI	GCNGC	3 cut(s)	249, 267, 615
Sau3AI	GATC	3 cut(s)	21, 154, 649
Sau96I	GGNCC	2 cut(s)	436, 502
ScrFI	CCNGG	2 cut(s)	304, 663
SduI	GDGCHC	2 cut(s)	243, 737
SfaNI	GCATC	3 cut(s)	503, 707, 915
SfcI	CTRYAG	1 cut(s)	28
SinI	GGWCC	1 cut(s)	502
Sse9I	AATT	5 cut(s)	16, 320, 363, 381, 686
SspMI	CTAG	1 cut(s)	431
SstI	GAGCTC	1 cut(s)	737
StyD4I	CCNGG	2 cut(s)	302, 661
TaaI	ACNGT	2 cut(s)	80, 578
TasI	AATT	5 cut(s)	16, 320, 363, 381, 686
TatI	WGTACW	2 cut(s)	56, 544
TfiI	GAWTC	3 cut(s)	308, 398, 821
Tru1I	TTAA	1 cut(s)	366
Tru9I	TTAA	1 cut(s)	366
TscAI	CASTG	3 cut(s)	85, 115, 168
TseFI	GTSAC	1 cut(s)	476
TseI	GCWGC	3 cut(s)	248, 266, 614
Tsp45I	GTSAC	1 cut(s)	476
TspDTI	ATGAA	3 cut(s)	402, 734, 747
TspGWI	ACGGA	1 cut(s)	258
TspRI	CASTG	3 cut(s)	85, 115, 168
Tth111I	GACNNNGTC	1 cut(s)	287
VpaK11BI	GGWCC	1 cut(s)	502
XapI	RAATTY	1 cut(s)	16
XceI	RCATGY	1 cut(s)	57
XmiI	GTMKAC	1 cut(s)	658
XspI	CTAG	1 cut(s)	431

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