Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0001675

Physical Location & Seq

Genomic Coordinates Reverse (-)

86800633 .. 86800965

Gene Structure 333 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG640000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 333 bp

ATGCTTGAACCTGTTCAGAAGCTGGTCTCTGGTGGCTGCGACAATATAGTGAAGGTGTGGAAATTGTACAATGAGACTTGGAAGATGGATTGCTTCCCTGCTCTTCAAATGCACGCTGATTGGGTGAGAGACGTAGCCTGGGCACCCAACTTGGGACTTCCCAAGTCCACCATTGCAAGTTGTTCACAGGACGGAACAGTGGTTATCTGGACTGTGGCCAAAGAAGGTGATCAATGGCAGGGGAAGGTATTGAAGGATTTTAAGACTCCTGTTTGGAGGGTGTCATGGTCACTAACAGGAAACCTACTGGCCGTGGCCGATGGAAATAACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000323 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005635 GO:0005643 GO:0005730 GO:0005737 GO:0005764 GO:0005765 GO:0005773 GO:0005774 GO:0005829 GO:0006810 GO:0006888 GO:0008150 GO:0012505 GO:0016020 GO:0016192 GO:0031080 GO:0031090 GO:0031967 GO:0031974 GO:0031975 GO:0031981 GO:0032991 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044437 GO:0044444 GO:0044446 GO:0044464 GO:0046907 GO:0048193 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0070013 GO:0098588 GO:0098805 GO:0098852

KEGG Pathways

Metabolic & Signaling

ko03013 ko04141 ko04150 map03013 map04141 map04150

Pfam Domains

Protein Families

WD40

Protein Analysis

110

Amino Acids

12.3

Weight (kDa)

6.54

Isoelectric Point (pI)

29.41

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-prop_CAF1B_HIR1	PF24105	4 - 79	2.6e-07	CAF1B/HIR1 beta-propeller domain
Beta-prop_THOC3	PF25174	6 - 108	1.7e-13	THOC3 beta-propeller domain
Beta-prop_WDR5	PF25175	6 - 104	1.4e-11	WDR5 beta-propeller domain
Beta-prop_WDR3_1st	PF25173	6 - 107	2.2e-08	WDR3 first beta-propeller domain
WD40_Prp19	PF24814	6 - 106	2.8e-07	Prp19 WD40 domain
WD40_WDHD1_1st	PF24817	6 - 109	1.1e-06	WDHD1 first WD40 domain
Beta-prop_TEP1_2nd	PF25047	7 - 106	8.6e-06	TEP-1 second beta-propeller
WD40	PF00400	34 - 70	8.4e-06	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: OG0001675)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G30050 AT3G01340 AT3G01340
fragaria_vesca	FvH4_6g32220 FvH4_6g32220 FvH4_6g32220 FvH4_6g32220 FvH4_6g32220 FvH4_6g32220 FvH4_6g49840 FvH4_6g49840 FvH4_6g49840
malus_domestica	MD09G1041000.v1.1 MD09G1205500.v1.1 MD17G1042300.v1.1 MD17G1185700.v1.1
prunus_persica	Prupe.3G060800_v2.0.a1 Prupe.3G276700_v2.0.a1
pyrus_communis	pycom09g12210 pycom111g03200 pycom17g03790 pycom17g19510
rosa_chinensis	RchiOBHm_Chr2g0140101 RchiOBHm_Chr2g0170031
rosa_laevigata	RLG00000010169 RLG00000019849 RLG00000021917
rosa_multiflora	Rmu_co8506925.1_g000001 Rmu_sc0003244.1_g000028 Rmu_sc0013078.1_g000015 Rmu_ssc0000389.1_g000004
rosa_roxburghii	Rroxscaffold_2G00081680 Rroxscaffold_2G00105060
rosa_rugosa	Rorug02G0361100 Rorug02G0361200 Rorug02G0545000 Rorug02G0545100
rosa_samantha	Rh2AG411800 Rh2AG617500 Rh2BG422100 Rh2BG628800 Rh2CG397900 Rh2CG598300 Rh2DG431500 Rh2DG640000 Rh2DG640600 Rh4BG007800
rosa_wichuraiana	Rw2G033740 Rw2G051120

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	142
AcoI	YGGCCR	3 cut(s)	216, 309, 315
AfaI	GTAC	1 cut(s)	68
AfiI	CCNNNNNNNGG	1 cut(s)	152
AgsI	TTSAA	3 cut(s)	8, 107, 253
AjnI	CCWGG	1 cut(s)	137
AluBI	AGCT	1 cut(s)	22
AluI	AGCT	1 cut(s)	22
Alw26I	GTCTC	3 cut(s)	31, 68, 123
AlwNI	CAGNNNCTG	1 cut(s)	22
AoxI	GGCC	3 cut(s)	216, 309, 315
ApeKI	GCWGC	1 cut(s)	36
Asp700I	GAANNNNTTC	1 cut(s)	12
AsuHPI	GGTGA	2 cut(s)	136, 239
BaeGI	GKGCMC	1 cut(s)	145
BalI	TGGCCA	1 cut(s)	218
BanI	GGYRCC	1 cut(s)	142
BbvI	GCAGC	1 cut(s)	23
BccI	CCATC	2 cut(s)	79, 314
BceAI	ACGGC	1 cut(s)	296
BciT130I	CCWGG	1 cut(s)	139
BclI	TGATCA	1 cut(s)	229
BcoDI	GTCTC	3 cut(s)	31, 68, 123
BisI	GCNGC	1 cut(s)	37
BlsI	GCNGC	1 cut(s)	38
Bme1390I	CCNGG	1 cut(s)	139
BmiI	GGNNCC	1 cut(s)	144
BmrFI	CCNGG	1 cut(s)	139
BsaI	GGTCTC	1 cut(s)	31
BsaJI	CCNNGG	2 cut(s)	138, 312
Bsc4I	CCNNNNNNNGG	1 cut(s)	152
Bse1I	ACTGG	1 cut(s)	312
Bse3DI	GCAATG	1 cut(s)	171
BseBI	CCWGG	1 cut(s)	139
BseDI	CCNNGG	2 cut(s)	138, 312
BseLI	CCNNNNNNNGG	1 cut(s)	152
BseMI	GCAATG	1 cut(s)	171
BseNI	ACTGG	1 cut(s)	312
BseSI	GKGCMC	1 cut(s)	145
BseXI	GCAGC	1 cut(s)	23
BshFI	GGCC	3 cut(s)	218, 311, 317
BshNI	GGYRCC	1 cut(s)	142
BslFI	GGGAC	1 cut(s)	168
BslI	CCNNNNNNNGG	1 cut(s)	152
BsmAI	GTCTC	3 cut(s)	31, 68, 123
BsmBI	CGTCTC	1 cut(s)	123
BsmFI	GGGAC	1 cut(s)	168
BsnI	GGCC	3 cut(s)	218, 311, 317
Bso31I	GGTCTC	1 cut(s)	31
Bsp1286I	GDGCHC	1 cut(s)	145
Bsp1407I	TGTACA	1 cut(s)	66
Bsp143I	GATC	1 cut(s)	229
BspANI	GGCC	3 cut(s)	218, 311, 317
BspLI	GGNNCC	1 cut(s)	144
BspQI	GCTCTTC	1 cut(s)	108
BspT107I	GGYRCC	1 cut(s)	142
BspTNI	GGTCTC	1 cut(s)	31
BsrDI	GCAATG	1 cut(s)	171
BsrGI	TGTACA	1 cut(s)	66
BsrI	ACTGG	1 cut(s)	312
BssECI	CCNNGG	2 cut(s)	138, 312
BssMI	GATC	1 cut(s)	229
Bst2UI	CCWGG	1 cut(s)	139
Bst4CI	ACNGT	2 cut(s)	199, 214
Bst6I	CTCTTC	1 cut(s)	108
BstAUI	TGTACA	1 cut(s)	66
BstC8I	GCNNGC	1 cut(s)	114
BstDSI	CCRYGG	1 cut(s)	312
BstKTI	GATC	1 cut(s)	232
BstMAI	GTCTC	3 cut(s)	31, 68, 123
BstMBI	GATC	1 cut(s)	229
BstNI	CCWGG	1 cut(s)	139
BstSCI	CCNGG	1 cut(s)	137
BstSLI	GKGCMC	1 cut(s)	145
BstV1I	GCAGC	1 cut(s)	23
BsuRI	GGCC	3 cut(s)	218, 311, 317
BtgI	CCRYGG	1 cut(s)	312
BtsIMutI	CAGTG	1 cut(s)	204
Cac8I	GCNNGC	1 cut(s)	114
CaiI	CAGNNNCTG	1 cut(s)	22
Csp6I	GTAC	1 cut(s)	67
CviAII	CATG	1 cut(s)	285
CviJI	RGCY	6 cut(s)	22, 36, 137, 218, 311, 317
CviKI_1	RGCY	6 cut(s)	22, 36, 137, 218, 311, 317
CviQI	GTAC	1 cut(s)	67
DpnI	GATC	1 cut(s)	231
DpnII	GATC	1 cut(s)	229
EaeI	YGGCCR	3 cut(s)	216, 309, 315
Eam1104I	CTCTTC	1 cut(s)	108
EarI	CTCTTC	1 cut(s)	108
Eco31I	GGTCTC	1 cut(s)	31
EcoRII	CCWGG	1 cut(s)	137
Esp3I	CGTCTC	1 cut(s)	123
FaeI	CATG	1 cut(s)	288
FaiI	YATR	2 cut(s)	47, 286
FaqI	GGGAC	1 cut(s)	168
FatI	CATG	1 cut(s)	284
FbaI	TGATCA	1 cut(s)	229
Fnu4HI	GCNGC	1 cut(s)	37
Fsp4HI	GCNGC	1 cut(s)	37
GluI	GCNGC	1 cut(s)	37
HaeIII	GGCC	3 cut(s)	218, 311, 317
Hin1II	CATG	1 cut(s)	288
HinfI	GANTC	1 cut(s)	265
HphI	GGTGA	2 cut(s)	136, 239
Hpy166II	GTNNAC	2 cut(s)	168, 185
Hpy188I	TCNGA	1 cut(s)	18
Hpy188III	TCNNGA	1 cut(s)	208
Hpy8I	GTNNAC	2 cut(s)	168, 185
HpyAV	CCTTC	4 cut(s)	46, 218, 238, 247
HpyCH4III	ACNGT	2 cut(s)	199, 214
HpyCH4IV	ACGT	1 cut(s)	132
HpyCH4V	TGCA	2 cut(s)	112, 176
HpySE526I	ACGT	1 cut(s)	132
Hsp92II	CATG	1 cut(s)	288
Ksp22I	TGATCA	1 cut(s)	229
Kzo9I	GATC	1 cut(s)	229
LguI	GCTCTTC	1 cut(s)	108
Lsp1109I	GCAGC	1 cut(s)	23
MaeII	ACGT	1 cut(s)	132
MaeIII	GTNAC	1 cut(s)	288
MalI	GATC	1 cut(s)	231
MboI	GATC	1 cut(s)	229
MboII	GAAGA	2 cut(s)	94, 95
MhlI	GDGCHC	1 cut(s)	145
MlsI	TGGCCA	1 cut(s)	218
MluCI	AATT	1 cut(s)	62
MluNI	TGGCCA	1 cut(s)	218
MlyI	GAGTC	1 cut(s)	259
MnlI	CCTC	1 cut(s)	270
Mox20I	TGGCCA	1 cut(s)	218
MroXI	GAANNNNTTC	1 cut(s)	12
MscI	TGGCCA	1 cut(s)	218
MseI	TTAA	1 cut(s)	261
Msp20I	TGGCCA	1 cut(s)	218
MspR9I	CCNGG	1 cut(s)	139
MvaI	CCWGG	1 cut(s)	139
NdeII	GATC	1 cut(s)	229
NlaIII	CATG	1 cut(s)	288
NlaIV	GGNNCC	1 cut(s)	144
NmuCI	GTSAC	1 cut(s)	288
PciSI	GCTCTTC	1 cut(s)	108
PdmI	GAANNNNTTC	1 cut(s)	12
PkrI	GCNGC	1 cut(s)	38
PleI	GAGTC	1 cut(s)	259
PpsI	GAGTC	1 cut(s)	259
Psp6I	CCWGG	1 cut(s)	137
PspGI	CCWGG	1 cut(s)	137
PspN4I	GGNNCC	1 cut(s)	144
PstNI	CAGNNNCTG	1 cut(s)	22
RsaI	GTAC	1 cut(s)	68
RsaNI	GTAC	1 cut(s)	67
SapI	GCTCTTC	1 cut(s)	108
SaqAI	TTAA	1 cut(s)	261
SatI	GCNGC	1 cut(s)	37
Sau3AI	GATC	1 cut(s)	229
SchI	GAGTC	1 cut(s)	259
ScrFI	CCNGG	1 cut(s)	139
SduI	GDGCHC	1 cut(s)	145
SetI	ASST	7 cut(s)	13, 24, 57, 135, 229, 249, 306
Sse9I	AATT	1 cut(s)	62
StyD4I	CCNGG	1 cut(s)	137
TaaI	ACNGT	2 cut(s)	199, 214
TaiI	ACGT	1 cut(s)	135
TasI	AATT	1 cut(s)	62
TatI	WGTACW	1 cut(s)	66
Tru1I	TTAA	1 cut(s)	261
Tru9I	TTAA	1 cut(s)	261
TscAI	CASTG	1 cut(s)	204
TseFI	GTSAC	1 cut(s)	288
TseI	GCWGC	1 cut(s)	36
Tsp45I	GTSAC	1 cut(s)	288
TspGWI	ACGGA	1 cut(s)	207
TspRI	CASTG	1 cut(s)	204
XmnI	GAANNNNTTC	1 cut(s)	12

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