Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0022542

Physical Location & Seq

Genomic Coordinates Reverse (-)

8654817 .. 8691109

Gene Structure 36293 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG041400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 810 bp

ATGAAGGAGATGAGGCTATTTTTAATGATCATGGATCTTGCTCTTACAAAAGTGTTCAATCCATTAGCATTCACCGTTGGCATTCACTCTTTTCTCTTCTTACCCAAGTACCCAGACCAAATTAAGGATCTCGATAGGACGAAACTCTTCAAGAAGGATTTGAGTGACGAGAGATTTGCTCAAGGAAAAAATCTGAATGAGGTACAACCTCTTTCAGATACAATCTATTCGAGGCACAATCCTTTCGAAAAAGAATTCTCTCAAGTGGATCCGAATGAGGCAGAATCAGTTGGTTCAGCAGATCATCACATTCACTATTATGATTTAAGAAATGTGAGTCAACCACTGCATGTGTTTACTGGGCACAGGAAAGCAGTTTCCTATGTGAAATTCTTGTCAAACTATGAGCTTGCGTCTGCATCTACTGATAGCACGTTGCGGTTATGGAATGTGAAAGATAATATTCCAGTTCGTACTTTTAAAGGTCACACAAATGAGAAGAACTTCGTAGGTCTTACAGTAAACAGTGAATACATCGCATGTGGCAGCGAAACAAATGAAGTGTTCGTGTATCATAAGGAAATTTCTAAACCTGTGACTTGGCACAGATTTGGGTCACCTGATATGGAAGACACCGAAGATGATGCAGGGTCTTACTTCATCAGTGCTGTATCTTGCAGGAAATGTCTAGCTGATGGAAGCCTTCTAATAGGGGATTGTAGGGGAAAAATGATGGAAATCGCCGGAAAGATCAGTTCCCAAATCACGAACACCAACATGGGGAGTCATCGAACGGAAGCCGAAAGATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000151 GO:0000152 GO:0003006 GO:0003674 GO:0003824 GO:0004842 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006139 GO:0006259 GO:0006281 GO:0006464 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0007275 GO:0008150 GO:0008152 GO:0009314 GO:0009416 GO:0009605 GO:0009628 GO:0009639 GO:0009640 GO:0009641 GO:0009642 GO:0009646 GO:0009647 GO:0009648 GO:0009649 GO:0009791 GO:0009812 GO:0009987 GO:0010119 GO:0010228 GO:0016567 GO:0016604 GO:0016740 GO:0019538 GO:0019787 GO:0022414 GO:0031461 GO:0031974 GO:0031981 GO:0032446 GO:0032501 GO:0032502 GO:0032991 GO:0033554 GO:0034641 GO:0036211 GO:0042440 GO:0042752 GO:0042802 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0046283 GO:0046483 GO:0048573 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051716 GO:0061458 GO:0061630 GO:0061659 GO:0065007 GO:0070013 GO:0070647 GO:0071704 GO:0080008 GO:0090304 GO:0140096 GO:1901360 GO:1901564 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko04115 ko04120 ko04712 map04115 map04120 map04712

Pfam Domains

Protein Families

WD40 zf-C3HC4_2

Protein Analysis

269

Amino Acids

30.64

Weight (kDa)

6.26

Isoelectric Point (pI)

31.53

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WD40_WDHD1_1st	PF24817	96 - 169	1.4e-08	WDHD1 first WD40 domain
WD40_CDC20-Fz	PF24807	96 - 164	1.6e-06	CDC20/Fizzy WD40 domain
Beta-prop_THOC3	PF25174	97 - 199	1.1e-12	THOC3 beta-propeller domain
Beta-prop_WDR3_1st	PF25173	97 - 191	2.3e-12	WDR3 first beta-propeller domain
Beta-prop_WDR5	PF25175	98 - 193	7.9e-14	WDR5 beta-propeller domain
WD40_Prp19	PF24814	98 - 197	1.5e-10	Prp19 WD40 domain
WD40_Gbeta	PF25391	98 - 187	4.9e-06	G protein beta WD-40 repeat protein
WD40	PF00400	114 - 150	4.5e-06	WD domain, G-beta repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

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Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0022542)

Species	Orthologous Gene IDs
pyrus_communis	pycom06g03140
rosa_multiflora	Rmu_sc0001428.1_g000002 Rmu_sc0001930.1_g000003
rosa_samantha	Rh4AG041400

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	439
AclWI	GGATC	4 cut(s)	42, 135, 263, 276
AcsI	RAATTY	3 cut(s)	254, 389, 582
AfaI	GTAC	3 cut(s)	110, 204, 475
AfiI	CCNNNNNNNGG	2 cut(s)	124, 780
AgsI	TTSAA	2 cut(s)	58, 151
AluBI	AGCT	2 cut(s)	409, 692
AluI	AGCT	2 cut(s)	409, 692
AlwI	GGATC	4 cut(s)	42, 135, 263, 276
ApeKI	GCWGC	1 cut(s)	546
ApoI	RAATTY	3 cut(s)	254, 389, 582
ArsI	GACNNNNNNTTYG	2 cut(s)	158, 190
Asp700I	GAANNNNTTC	2 cut(s)	146, 503
AsuHPI	GGTGA	2 cut(s)	64, 609
AsuII	TTCGAA	1 cut(s)	246
BaeGI	GKGCMC	1 cut(s)	366
BaeI	ACNNNNGTAYC	2 cut(s)	92, 125
BamHI	GGATCC	1 cut(s)	268
BbsI	GAAGAC	1 cut(s)	636
BbvI	GCAGC	1 cut(s)	558
BccI	CCATC	2 cut(s)	689, 727
BcgI	CGANNNNNNTGC	4 cut(s)	158, 192, 626, 660
BclI	TGATCA	1 cut(s)	27
BfaI	CTAG	1 cut(s)	689
BisI	GCNGC	1 cut(s)	547
BlsI	GCNGC	1 cut(s)	548
BmiI	GGNNCC	1 cut(s)	270
BmrI	ACTGGG	1 cut(s)	369
BmsI	GCATC	2 cut(s)	428, 634
BmuI	ACTGGG	1 cut(s)	369
BpiI	GAAGAC	1 cut(s)	636
BplI	GAGNNNNNCTC	2 cut(s)	163, 195
Bpu14I	TTCGAA	1 cut(s)	246
BpuEI	CTTGAG	2 cut(s)	165, 246
BsaBI	GATNNNNATC	1 cut(s)	737
Bsc4I	CCNNNNNNNGG	2 cut(s)	124, 780
Bse1I	ACTGG	2 cut(s)	364, 467
Bse8I	GATNNNNATC	1 cut(s)	737
BseJI	GATNNNNATC	1 cut(s)	737
BseLI	CCNNNNNNNGG	2 cut(s)	124, 780
BseNI	ACTGG	2 cut(s)	364, 467
BseSI	GKGCMC	1 cut(s)	366
BseXI	GCAGC	1 cut(s)	558
BsiSI	CCGG	1 cut(s)	744
BslI	CCNNNNNNNGG	2 cut(s)	124, 780
BsmI	GAATGC	2 cut(s)	68, 81
Bsp119I	TTCGAA	1 cut(s)	246
Bsp1286I	GDGCHC	1 cut(s)	366
Bsp143I	GATC	6 cut(s)	27, 34, 127, 268, 301, 750
BspACI	CCGC	1 cut(s)	439
BspLI	GGNNCC	1 cut(s)	270
BspPI	GGATC	4 cut(s)	42, 135, 263, 276
BspT104I	TTCGAA	1 cut(s)	246
BsrI	ACTGG	2 cut(s)	364, 467
BssMI	GATC	6 cut(s)	27, 34, 127, 268, 301, 750
Bst4CI	ACNGT	3 cut(s)	76, 520, 527
Bst6I	CTCTTC	2 cut(s)	101, 152
BstBI	TTCGAA	1 cut(s)	246
BstC8I	GCNNGC	1 cut(s)	411
BstEII	GGTNACC	1 cut(s)	615
BstKTI	GATC	6 cut(s)	30, 37, 130, 271, 304, 753
BstMBI	GATC	6 cut(s)	27, 34, 127, 268, 301, 750
BstNSI	RCATGY	2 cut(s)	353, 543
BstPI	GGTNACC	1 cut(s)	615
BstSLI	GKGCMC	1 cut(s)	366
BstV1I	GCAGC	1 cut(s)	558
BstV2I	GAAGAC	1 cut(s)	636
BstX2I	RGATCY	3 cut(s)	34, 127, 268
BstYI	RGATCY	3 cut(s)	34, 127, 268
BtgZI	GCGATG	1 cut(s)	520
BtsI	GCAGTG	1 cut(s)	344
BtsIMutI	CAGTG	3 cut(s)	344, 532, 670
Cac8I	GCNNGC	1 cut(s)	411
CseI	GACGC	1 cut(s)	402
Csp6I	GTAC	3 cut(s)	109, 203, 474
CviAII	CATG	4 cut(s)	31, 350, 540, 778
CviJI	RGCY	5 cut(s)	16, 409, 692, 702, 800
CviKI_1	RGCY	5 cut(s)	16, 409, 692, 702, 800
CviQI	GTAC	3 cut(s)	109, 203, 474
DpnI	GATC	6 cut(s)	29, 36, 129, 270, 303, 752
DpnII	GATC	6 cut(s)	27, 34, 127, 268, 301, 750
DraI	TTTAAA	1 cut(s)	481
Eam1104I	CTCTTC	2 cut(s)	101, 152
EarI	CTCTTC	2 cut(s)	101, 152
Eco91I	GGTNACC	1 cut(s)	615
EcoO65I	GGTNACC	1 cut(s)	615
EcoRI	GAATTC	1 cut(s)	254
FaeI	CATG	4 cut(s)	34, 353, 543, 781
FatI	CATG	4 cut(s)	30, 349, 539, 777
FbaI	TGATCA	1 cut(s)	27
Fnu4HI	GCNGC	1 cut(s)	547
Fsp4HI	GCNGC	1 cut(s)	547
FspBI	CTAG	1 cut(s)	689
GluI	GCNGC	1 cut(s)	547
HapII	CCGG	1 cut(s)	744
HgaI	GACGC	1 cut(s)	402
Hin1II	CATG	4 cut(s)	34, 353, 543, 781
HincII	GTYRAC	1 cut(s)	341
HindII	GTYRAC	1 cut(s)	341
HinfI	GANTC	3 cut(s)	284, 337, 784
HpaII	CCGG	1 cut(s)	744
HphI	GGTGA	2 cut(s)	64, 609
Hpy166II	GTNNAC	3 cut(s)	341, 357, 523
Hpy188I	TCNGA	3 cut(s)	195, 217, 273
Hpy188III	TCNNGA	3 cut(s)	131, 151, 766
Hpy8I	GTNNAC	3 cut(s)	341, 357, 523
HpyAV	CCTTC	2 cut(s)	148, 713
HpyCH4III	ACNGT	3 cut(s)	76, 520, 527
HpyCH4IV	ACGT	1 cut(s)	434
HpyCH4V	TGCA	4 cut(s)	349, 419, 647, 678
HpySE526I	ACGT	1 cut(s)	434
Hsp92II	CATG	4 cut(s)	34, 353, 543, 781
Ksp22I	TGATCA	1 cut(s)	27
Kzo9I	GATC	6 cut(s)	27, 34, 127, 268, 301, 750
LpnPI	CCDG	9 cut(s)	126, 345, 352, 480, 606, 633, 633, 664, 757
Lsp1109I	GCAGC	1 cut(s)	558
LweI	GCATC	2 cut(s)	428, 634
MaeI	CTAG	1 cut(s)	689
MaeII	ACGT	1 cut(s)	434
MaeIII	GTNAC	4 cut(s)	164, 485, 595, 615
MalI	GATC	6 cut(s)	29, 36, 129, 270, 303, 752
MboI	GATC	6 cut(s)	27, 34, 127, 268, 301, 750
MboII	GAAGA	5 cut(s)	88, 139, 511, 641, 650
MflI	RGATCY	3 cut(s)	34, 127, 268
MhlI	GDGCHC	1 cut(s)	366
MluCI	AATT	4 cut(s)	120, 254, 389, 582
MlyI	GAGTC	2 cut(s)	346, 793
MnlI	CCTC	5 cut(s)	6, 193, 219, 225, 271
MroXI	GAANNNNTTC	2 cut(s)	146, 503
MseI	TTAA	4 cut(s)	23, 123, 326, 480
MslI	CAYNNNNRTG	3 cut(s)	318, 492, 776
MspI	CCGG	1 cut(s)	744
Mva1269I	GAATGC	2 cut(s)	68, 81
NdeII	GATC	6 cut(s)	27, 34, 127, 268, 301, 750
NlaIII	CATG	4 cut(s)	34, 353, 543, 781
NlaIV	GGNNCC	1 cut(s)	270
NmuCI	GTSAC	4 cut(s)	164, 485, 595, 615
NspI	RCATGY	2 cut(s)	353, 543
NspV	TTCGAA	1 cut(s)	246
PctI	GAATGC	2 cut(s)	68, 81
PdmI	GAANNNNTTC	2 cut(s)	146, 503
PfeI	GAWTC	1 cut(s)	284
PkrI	GCNGC	1 cut(s)	548
PleI	GAGTC	2 cut(s)	345, 792
PpsI	GAGTC	2 cut(s)	345, 792
PspEI	GGTNACC	1 cut(s)	615
PspN4I	GGNNCC	1 cut(s)	270
PsuI	RGATCY	3 cut(s)	34, 127, 268
RsaI	GTAC	3 cut(s)	110, 204, 475
RsaNI	GTAC	3 cut(s)	109, 203, 474
RseI	CAYNNNNRTG	3 cut(s)	318, 492, 776
SaqAI	TTAA	4 cut(s)	23, 123, 326, 480
SatI	GCNGC	1 cut(s)	547
Sau3AI	GATC	6 cut(s)	27, 34, 127, 268, 301, 750
SchI	GAGTC	2 cut(s)	346, 793
SduI	GDGCHC	1 cut(s)	366
SetI	ASST	9 cut(s)	204, 211, 411, 437, 487, 514, 595, 622, 694
SfaNI	GCATC	2 cut(s)	428, 634
SfuI	TTCGAA	1 cut(s)	246
SmiMI	CAYNNNNRTG	3 cut(s)	318, 492, 776
SmlI	CTYRAG	2 cut(s)	180, 261
SmoI	CTYRAG	2 cut(s)	180, 261
Sse9I	AATT	4 cut(s)	120, 254, 389, 582
SsiI	CCGC	1 cut(s)	439
SspI	AATATT	1 cut(s)	463
SspMI	CTAG	1 cut(s)	689
TaaI	ACNGT	3 cut(s)	76, 520, 527
TaiI	ACGT	1 cut(s)	437
TaqI	TCGA	4 cut(s)	132, 230, 246, 790
TasI	AATT	4 cut(s)	120, 254, 389, 582
TfiI	GAWTC	1 cut(s)	284
Tru1I	TTAA	4 cut(s)	23, 123, 326, 480
Tru9I	TTAA	4 cut(s)	23, 123, 326, 480
TscAI	CASTG	3 cut(s)	351, 532, 670
TseFI	GTSAC	4 cut(s)	164, 485, 595, 615
TseI	GCWGC	1 cut(s)	546
Tsp45I	GTSAC	4 cut(s)	164, 485, 595, 615
TspDTI	ATGAA	3 cut(s)	17, 573, 649
TspGWI	ACGGA	1 cut(s)	809
TspRI	CASTG	3 cut(s)	351, 532, 670
XapI	RAATTY	3 cut(s)	254, 389, 582
XceI	RCATGY	2 cut(s)	353, 543
XmnI	GAANNNNTTC	2 cut(s)	146, 503
XspI	CTAG	1 cut(s)	689

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