Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0002550

Physical Location & Seq

Genomic Coordinates Reverse (-)

65642156 .. 65643954

Gene Structure 1799 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG447800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 717 bp

ATGTCTGCATCTGGCGGTAAGGTCTCTTTGTTCAACATGATGACATTTAAGGTCGAAACCAAACTGAAGGGTCACCGGAATCGGATAACGGGCCTTGCGTTTTCCCAAACTCTTAACATACTGGTTTCTTCAGGAGCTGATGCCCAGTTATGTGTGTGGAGCATTTTTGGGTGGGAGAAAAAGAAAACAAGGTTAATACAAGCACCAACTGGTCGGCAATCCCCATTGGTTGGAGAAACAAAAATTCAGTTTCATAACGATCACACACAATTGTTGGTTGCCCATGAAAGCCAAATTGCTGCGTATGACAGCAAGCTTGATTGTTTACGCTCTTGGACTCCCAAAGATGCACTTGCTGCTCCCATCTCATGTGCAATATATTCATGTGATGGTTTGTTGGTTTATGCTACTTTTTGTGACGGTGCTGTGGGAGTTTTTGAGGCTAATAGCTTAAGACTCAGATGTCGAATGGTGCCTTCTGCTTATATACCATCATTTTCTGTCAGCGGTGGCAACCCCTCCTATCCTCTGGTTGTAGCAGCTCATCCATCTGAGCCTAACCAGATTGCAGTTGGCATGACTGACGGGTCAGTGCATGTGGTTGAACCATCTGATGCAGAGCTGAAGTGGGGTGGCACACCCTCTCAAGATAATGGTCCTTCCAATTCATCAAATCCTTCTCCTAGTGGTCAAGCATCAGAACTTCCTTCCAGGTGA

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

238

Amino Acids

25.44

Weight (kDa)

7.64

Isoelectric Point (pI)

46.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-prop_WDR3_1st	PF25173	4 - 57	3.4e-09	WDR3 first beta-propeller domain
WD40_Prp19	PF24814	6 - 151	4.8e-09	Prp19 WD40 domain
WD40_WDHD1_1st	PF24817	7 - 150	3.3e-11	WDHD1 first WD40 domain
Beta-prop_WDR5	PF25175	7 - 148	1.2e-08	WDR5 beta-propeller domain
WD40	PF00400	19 - 54	5.5e-06	WD domain, G-beta repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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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	2 cut(s)	462, 586
AccB1I	GGYRCC	1 cut(s)	472
AccB7I	CCANNNNNTGG	1 cut(s)	230
AciI	CCGC	2 cut(s)	15, 507
AcsI	RAATTY	1 cut(s)	243
AcuI	CTGAAG	3 cut(s)	86, 114, 644
AfiI	CCNNNNNNNGG	1 cut(s)	230
AflII	CTTAAG	1 cut(s)	451
AgsI	TTSAA	2 cut(s)	34, 605
AjnI	CCWGG	1 cut(s)	710
AluBI	AGCT	5 cut(s)	137, 316, 450, 542, 622
AluI	AGCT	5 cut(s)	137, 316, 450, 542, 622
Alw26I	GTCTC	1 cut(s)	28
AlwNI	CAGNNNCTG	1 cut(s)	137
AoxI	GGCC	1 cut(s)	91
ApeKI	GCWGC	3 cut(s)	299, 356, 539
ApoI	RAATTY	1 cut(s)	243
AspS9I	GGNCC	2 cut(s)	91, 656
AsuHPI	GGTGA	1 cut(s)	65
AvaII	GGWCC	1 cut(s)	656
BanI	GGYRCC	1 cut(s)	472
BbvI	GCAGC	3 cut(s)	286, 343, 551
BccI	CCATC	5 cut(s)	371, 383, 499, 556, 616
BciT130I	CCWGG	1 cut(s)	712
BcoDI	GTCTC	1 cut(s)	28
BfaI	CTAG	1 cut(s)	684
BfrI	CTTAAG	1 cut(s)	451
BisI	GCNGC	3 cut(s)	300, 357, 540
BlsI	GCNGC	3 cut(s)	301, 358, 541
Bme1390I	CCNGG	1 cut(s)	712
Bme18I	GGWCC	1 cut(s)	656
BmgT120I	GGNCC	2 cut(s)	91, 656
BmiI	GGNNCC	1 cut(s)	474
BmrFI	CCNGG	1 cut(s)	712
BmrI	ACTGGG	1 cut(s)	139
BmsI	GCATC	5 cut(s)	17, 130, 337, 604, 704
BmuI	ACTGGG	1 cut(s)	139
BpuEI	CTTGAG	1 cut(s)	630
BsaI	GGTCTC	1 cut(s)	28
BsaWI	WCCGGW	1 cut(s)	75
Bsc4I	CCNNNNNNNGG	1 cut(s)	230
Bse1I	ACTGG	3 cut(s)	126, 145, 214
BseBI	CCWGG	1 cut(s)	712
BseGI	GGATG	1 cut(s)	544
BseLI	CCNNNNNNNGG	1 cut(s)	230
BseMII	CTCAG	2 cut(s)	472, 543
BseNI	ACTGG	3 cut(s)	126, 145, 214
BseXI	GCAGC	3 cut(s)	286, 343, 551
BshFI	GGCC	1 cut(s)	93
BshNI	GGYRCC	1 cut(s)	472
BsiSI	CCGG	1 cut(s)	76
BslI	CCNNNNNNNGG	1 cut(s)	230
BsmAI	GTCTC	1 cut(s)	28
BsnI	GGCC	1 cut(s)	93
Bso31I	GGTCTC	1 cut(s)	28
Bsp143I	GATC	1 cut(s)	259
BspACI	CCGC	2 cut(s)	15, 507
BspANI	GGCC	1 cut(s)	93
BspCNI	CTCAG	2 cut(s)	471, 544
BspLI	GGNNCC	1 cut(s)	474
BspT107I	GGYRCC	1 cut(s)	472
BspTI	CTTAAG	1 cut(s)	451
BspTNI	GGTCTC	1 cut(s)	28
BsrI	ACTGG	3 cut(s)	126, 145, 214
BssMI	GATC	1 cut(s)	259
Bst2UI	CCWGG	1 cut(s)	712
Bst4CI	ACNGT	1 cut(s)	422
BstAFI	CTTAAG	1 cut(s)	451
BstAPI	GCANNNNNTGC	1 cut(s)	356
BstC8I	GCNNGC	1 cut(s)	314
BstDEI	CTNAG	2 cut(s)	458, 552
BstEII	GGTNACC	1 cut(s)	71
BstF5I	GGATG	1 cut(s)	544
BstKTI	GATC	1 cut(s)	262
BstMAI	GTCTC	1 cut(s)	28
BstMBI	GATC	1 cut(s)	259
BstMWI	GCNNNNNNNGC	1 cut(s)	356
BstNI	CCWGG	1 cut(s)	712
BstNSI	RCATGY	1 cut(s)	599
BstPI	GGTNACC	1 cut(s)	71
BstSCI	CCNGG	1 cut(s)	710
BstV1I	GCAGC	3 cut(s)	286, 343, 551
BsuRI	GGCC	1 cut(s)	93
BtsCI	GGATG	1 cut(s)	544
BtsIMutI	CAGTG	1 cut(s)	597
Cac8I	GCNNGC	1 cut(s)	314
CaiI	CAGNNNCTG	1 cut(s)	137
Cfr13I	GGNCC	2 cut(s)	91, 656
CviAII	CATG	6 cut(s)	37, 284, 369, 384, 577, 596
CviJI	RGCY	9 cut(s)	93, 137, 291, 316, 443, 450, 542, 556, 622
CviKI_1	RGCY	9 cut(s)	93, 137, 291, 316, 443, 450, 542, 556, 622
DdeI	CTNAG	2 cut(s)	458, 552
DpnI	GATC	1 cut(s)	261
DpnII	GATC	1 cut(s)	259
DrdI	GACNNNNNNGTC	2 cut(s)	462, 586
DseDI	GACNNNNNNGTC	2 cut(s)	462, 586
Eco31I	GGTCTC	1 cut(s)	28
Eco47I	GGWCC	1 cut(s)	656
Eco57I	CTGAAG	3 cut(s)	86, 114, 644
Eco91I	GGTNACC	1 cut(s)	71
EcoO65I	GGTNACC	1 cut(s)	71
EcoRII	CCWGG	1 cut(s)	710
FaeI	CATG	6 cut(s)	40, 287, 372, 387, 580, 599
FalI	AAGNNNNNCTT	2 cut(s)	336, 368
FatI	CATG	6 cut(s)	36, 283, 368, 383, 576, 595
Fnu4HI	GCNGC	3 cut(s)	300, 357, 540
FokI	GGATG	1 cut(s)	531
Fsp4HI	GCNGC	3 cut(s)	300, 357, 540
FspBI	CTAG	1 cut(s)	684
GluI	GCNGC	3 cut(s)	300, 357, 540
HaeIII	GGCC	1 cut(s)	93
HapII	CCGG	1 cut(s)	76
Hin1II	CATG	6 cut(s)	40, 287, 372, 387, 580, 599
HindIII	AAGCTT	1 cut(s)	314
HinfI	GANTC	3 cut(s)	79, 337, 456
HpaII	CCGG	1 cut(s)	76
HphI	GGTGA	1 cut(s)	65
Hpy166II	GTNNAC	1 cut(s)	326
Hpy188I	TCNGA	5 cut(s)	84, 461, 553, 613, 700
Hpy188III	TCNNGA	2 cut(s)	132, 647
Hpy8I	GTNNAC	1 cut(s)	326
HpyAV	CCTTC	5 cut(s)	61, 486, 669, 687, 717
HpyCH4III	ACNGT	1 cut(s)	422
HpyCH4V	TGCA	6 cut(s)	8, 350, 374, 569, 595, 617
HpyF10VI	GCNNNNNNNGC	1 cut(s)	356
HpyF3I	CTNAG	2 cut(s)	458, 552
Hsp92II	CATG	6 cut(s)	40, 287, 372, 387, 580, 599
Kzo9I	GATC	1 cut(s)	259
LmnI	GCTCC	3 cut(s)	134, 159, 364
LpnPI	CCDG	8 cut(s)	89, 107, 117, 158, 195, 515, 575, 697
Lsp1109I	GCAGC	3 cut(s)	286, 343, 551
LweI	GCATC	5 cut(s)	17, 130, 337, 604, 704
MaeI	CTAG	1 cut(s)	684
MaeIII	GTNAC	2 cut(s)	71, 416
MalI	GATC	1 cut(s)	261
MboI	GATC	1 cut(s)	259
MboII	GAAGA	1 cut(s)	120
MfeI	CAATTG	1 cut(s)	269
MluCI	AATT	4 cut(s)	243, 269, 294, 664
MlyI	GAGTC	2 cut(s)	331, 450
MmeI	TCCRAC	1 cut(s)	211
MnlI	CCTC	4 cut(s)	433, 529, 537, 652
MseI	TTAA	4 cut(s)	48, 114, 194, 452
MspA1I	CMGCKG	1 cut(s)	507
MspCI	CTTAAG	1 cut(s)	451
MspI	CCGG	1 cut(s)	76
MspR9I	CCNGG	1 cut(s)	712
MunI	CAATTG	1 cut(s)	269
MvaI	CCWGG	1 cut(s)	712
MwoI	GCNNNNNNNGC	1 cut(s)	356
NdeII	GATC	1 cut(s)	259
NlaIII	CATG	6 cut(s)	40, 287, 372, 387, 580, 599
NlaIV	GGNNCC	1 cut(s)	474
NmuCI	GTSAC	2 cut(s)	71, 416
NspI	RCATGY	1 cut(s)	599
PcsI	WCGNNNNNNNCGW	1 cut(s)	95
PfeI	GAWTC	1 cut(s)	79
PflMI	CCANNNNNTGG	1 cut(s)	230
PkrI	GCNGC	3 cut(s)	301, 358, 541
PleI	GAGTC	2 cut(s)	331, 450
PpsI	GAGTC	2 cut(s)	331, 450
Psp6I	CCWGG	1 cut(s)	710
PspEI	GGTNACC	1 cut(s)	71
PspGI	CCWGG	1 cut(s)	710
PspN4I	GGNNCC	1 cut(s)	474
PspPI	GGNCC	2 cut(s)	91, 656
PstNI	CAGNNNCTG	1 cut(s)	137
SaqAI	TTAA	4 cut(s)	48, 114, 194, 452
SatI	GCNGC	3 cut(s)	300, 357, 540
Sau3AI	GATC	1 cut(s)	259
Sau96I	GGNCC	2 cut(s)	91, 656
SchI	GAGTC	2 cut(s)	331, 450
ScrFI	CCNGG	1 cut(s)	712
SetI	ASST	9 cut(s)	24, 54, 139, 194, 318, 452, 544, 624, 716
SfaNI	GCATC	5 cut(s)	17, 130, 337, 604, 704
SinI	GGWCC	1 cut(s)	656
SmlI	CTYRAG	2 cut(s)	451, 645
SmoI	CTYRAG	2 cut(s)	451, 645
Sse9I	AATT	4 cut(s)	243, 269, 294, 664
SsiI	CCGC	2 cut(s)	15, 507
SspMI	CTAG	1 cut(s)	684
StyD4I	CCNGG	1 cut(s)	710
TaaI	ACNGT	1 cut(s)	422
TaqI	TCGA	2 cut(s)	54, 466
TasI	AATT	4 cut(s)	243, 269, 294, 664
TfiI	GAWTC	1 cut(s)	79
Tru1I	TTAA	4 cut(s)	48, 114, 194, 452
Tru9I	TTAA	4 cut(s)	48, 114, 194, 452
TscAI	CASTG	1 cut(s)	597
TseFI	GTSAC	2 cut(s)	71, 416
TseI	GCWGC	3 cut(s)	299, 356, 539
Tsp45I	GTSAC	2 cut(s)	71, 416
TspDTI	ATGAA	4 cut(s)	242, 300, 372, 657
TspRI	CASTG	1 cut(s)	597
Van91I	CCANNNNNTGG	1 cut(s)	230
Vha464I	CTTAAG	1 cut(s)	451
VpaK11BI	GGWCC	1 cut(s)	656
XapI	RAATTY	1 cut(s)	243
XceI	RCATGY	1 cut(s)	599
XcmI	CCANNNNNNNNNTGG	1 cut(s)	569
XspI	CTAG	1 cut(s)	684

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