Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0008256

Physical Location & Seq

Genomic Coordinates Forward (+)

69490340 .. 69494156

Gene Structure 3817 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG441400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 717 bp

ATGGGGACGAGGTCTCAGCAACCAAACCGAGCTGACGACGACGACGACATGCCCGGCGCTCAGTCCGTCTCGATGAGCGGCAGTATGGGCTCGCCGTCCAGCCGCAGCGAGCAGACCCCCGCCGGCGACAATTCTTCTCTCCGATTGAATCATCCCGACGTTAACGGCGACGATGCTGGCTCCGTTGGCAAAAAGAAGAAGAGAGGTCAACGGGCTGCAGGAGGCGATAAGAATGGAAGAGGACTGCGCCAATTTAGCATGAAAGTGTGCGAGAAAGTGGAGAGCAAGGGAAGAACCACTTATAACGAGGTTGCAGATGAACTTGTAGCAGAGTTTTCTGACCCTATCAATGGTGTTACATCTCCTGATCAGCAACAATATGATGAGAAGAACATCAGGCGGAGGGTATATGATGCCCTGAATGTTCTAATGGCAATGGATATTATATCCAAGGATAAAAAGGAAATACAATGGAAGGGTCTGCCTCGAACCAGCCTGAATGATATTGAAGAACTGAAGACTGAGCGCCTAGGACTAAGGAGTAGGATTGAAAAGAAAGCTGTCTATCTGCAAGAACTAGAGGAACAATATGTAGGTCTTCAAAACCTGATACAACGAAATGAGCAATTATACTGCTCTGGAGATGCTCCCAGTGGGGGTGTGTCTTTACCTTTCATTCTTGTGCAGGTATGTCTATTTCTCTTGTATCACTCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000082 GO:0000278 GO:0000981 GO:0003674 GO:0003700 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006355 GO:0006357 GO:0006725 GO:0006807 GO:0007049 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009987 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0022402 GO:0031323 GO:0031326 GO:0034641 GO:0034645 GO:0042023 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044424 GO:0044464 GO:0044770 GO:0044772 GO:0044786 GO:0044843 GO:0046483 GO:0046982 GO:0046983 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0140110 GO:1901360 GO:1901576 GO:1903047 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04110 ko04350 map04110 map04350

Pfam Domains

Protein Families

DP E2F_TDP

Protein Analysis

238

Amino Acids

26.43

Weight (kDa)

5.85

Isoelectric Point (pI)

59.86

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_E2F_TDP	PF02319	80 - 160	1.5e-19	E2F/DP family winged-helix DNA-binding domain
DP	PF08781	168 - 229	4.6e-15	Transcription factor DP

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

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Publication-ready

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Orthologous Genes (Group: OG0008256)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G03415 AT5G03415
fragaria_vesca	FvH4_7g33950 FvH4_7g33950 FvH4_7g33950
malus_domestica	MD01G1235700.v1.1 MD07G1308600.v1.1
prunus_persica	Prupe.2G325800_v2.0.a1 Prupe.2G325800_v2.0.a1 Prupe.2G325800_v2.0.a1
pyrus_communis	pycom01g24380 pycom07g28080
rosa_chinensis	RchiOBHm_Chr1g0384181
rosa_laevigata	RLG00000026062 RLG00000029262
rosa_multiflora	Rmu_sc0005139.1_g000007
rosa_rugosa	Rorug01G0445500
rosa_samantha	Rh1AG471000 Rh1BG428700 Rh1CG441400 Rh1DG461500
rosa_wichuraiana	Rw1G040150 Rw2G036620

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	303
Acc36I	ACCTGC	1 cut(s)	676
AccBSI	CCGCTC	1 cut(s)	78
AciI	CCGC	4 cut(s)	78, 103, 120, 400
AcuI	CTGAAG	1 cut(s)	536
AfiI	CCNNNNNNNGG	2 cut(s)	350, 656
AgsI	TTSAA	4 cut(s)	148, 509, 551, 602
AluBI	AGCT	2 cut(s)	32, 560
AluI	AGCT	2 cut(s)	32, 560
Alw26I	GTCTC	2 cut(s)	18, 73
ApeKI	GCWGC	2 cut(s)	105, 215
AspA2I	CCTAGG	1 cut(s)	529
AspLEI	GCGC	3 cut(s)	59, 249, 528
AsuC2I	CCSGG	1 cut(s)	54
AvrII	CCTAGG	1 cut(s)	529
BanII	GRGCYC	1 cut(s)	92
BbsI	GAAGAC	2 cut(s)	524, 590
BbvI	GCAGC	2 cut(s)	117, 202
BceAI	ACGGC	2 cut(s)	79, 181
BclI	TGATCA	1 cut(s)	367
BcnI	CCSGG	1 cut(s)	54
BcoDI	GTCTC	2 cut(s)	18, 73
BfaI	CTAG	2 cut(s)	530, 578
BfmI	CTRYAG	1 cut(s)	216
BfoI	RGCGCY	2 cut(s)	60, 529
BfuAI	ACCTGC	1 cut(s)	676
BisI	GCNGC	4 cut(s)	79, 103, 106, 216
BlnI	CCTAGG	1 cut(s)	529
BlsI	GCNGC	4 cut(s)	80, 104, 107, 217
Bme1390I	CCNGG	1 cut(s)	54
BmiI	GGNNCC	1 cut(s)	181
BmrFI	CCNGG	1 cut(s)	54
BmrI	ACTGGG	1 cut(s)	645
BmsI	GCATC	3 cut(s)	163, 403, 634
BmuI	ACTGGG	1 cut(s)	645
BpiI	GAAGAC	2 cut(s)	524, 590
BpmI	CTGGAG	1 cut(s)	660
BpuMI	CCSGG	1 cut(s)	54
BsaI	GGTCTC	1 cut(s)	18
BsaJI	CCNNGG	2 cut(s)	450, 529
Bsc4I	CCNNNNNNNGG	2 cut(s)	350, 656
Bse118I	RCCGGY	1 cut(s)	122
Bse1I	ACTGG	1 cut(s)	651
Bse3DI	GCAATG	1 cut(s)	441
BseDI	CCNNGG	2 cut(s)	450, 529
BseGI	GGATG	1 cut(s)	151
BseLI	CCNNNNNNNGG	2 cut(s)	350, 656
BseMI	GCAATG	1 cut(s)	441
BseMII	CTCAG	3 cut(s)	29, 74, 513
BseNI	ACTGG	1 cut(s)	651
BseXI	GCAGC	2 cut(s)	117, 202
BsgI	GTGCAG	1 cut(s)	704
BsiSI	CCGG	2 cut(s)	54, 123
BslFI	GGGAC	1 cut(s)	19
BslI	CCNNNNNNNGG	2 cut(s)	350, 656
BsmAI	GTCTC	2 cut(s)	18, 73
BsmBI	CGTCTC	1 cut(s)	73
BsmFI	GGGAC	1 cut(s)	19
Bso31I	GGTCTC	1 cut(s)	18
Bsp1286I	GDGCHC	1 cut(s)	92
Bsp143I	GATC	1 cut(s)	367
BspACI	CCGC	4 cut(s)	78, 103, 120, 400
BspCNI	CTCAG	3 cut(s)	28, 73, 514
BspLI	GGNNCC	1 cut(s)	181
BspMAI	CTGCAG	1 cut(s)	220
BspMI	ACCTGC	1 cut(s)	676
BspTNI	GGTCTC	1 cut(s)	18
BsrBI	CCGCTC	1 cut(s)	78
BsrDI	GCAATG	1 cut(s)	441
BsrFI	RCCGGY	1 cut(s)	122
BsrI	ACTGG	1 cut(s)	651
BssAI	RCCGGY	1 cut(s)	122
BssECI	CCNNGG	2 cut(s)	450, 529
BssMI	GATC	1 cut(s)	367
BssT1I	CCWWGG	2 cut(s)	450, 529
Bst6I	CTCTTC	2 cut(s)	194, 232
BstC8I	GCNNGC	4 cut(s)	92, 110, 124, 178
BstDEI	CTNAG	4 cut(s)	15, 60, 522, 536
BstF5I	GGATG	1 cut(s)	151
BstH2I	RGCGCY	2 cut(s)	60, 529
BstHHI	GCGC	3 cut(s)	59, 249, 528
BstKTI	GATC	1 cut(s)	370
BstMAI	GTCTC	2 cut(s)	18, 73
BstMBI	GATC	1 cut(s)	367
BstMWI	GCNNNNNNNGC	3 cut(s)	87, 186, 255
BstNSI	RCATGY	1 cut(s)	52
BstSCI	CCNGG	1 cut(s)	52
BstSFI	CTRYAG	1 cut(s)	216
BstV1I	GCAGC	2 cut(s)	117, 202
BstV2I	GAAGAC	2 cut(s)	524, 590
BtsCI	GGATG	1 cut(s)	151
BtsIMutI	CAGTG	1 cut(s)	658
BveI	ACCTGC	1 cut(s)	676
Cac8I	GCNNGC	4 cut(s)	92, 110, 124, 178
CfoI	GCGC	3 cut(s)	59, 249, 528
Cfr10I	RCCGGY	1 cut(s)	122
CviAII	CATG	2 cut(s)	49, 259
CviJI	RGCY	7 cut(s)	32, 90, 102, 180, 215, 495, 560
CviKI_1	RGCY	7 cut(s)	32, 90, 102, 180, 215, 495, 560
DdeI	CTNAG	4 cut(s)	15, 60, 522, 536
DpnI	GATC	1 cut(s)	369
DpnII	GATC	1 cut(s)	367
Eam1104I	CTCTTC	2 cut(s)	194, 232
EarI	CTCTTC	2 cut(s)	194, 232
EciI	GGCGGA	1 cut(s)	415
Eco130I	CCWWGG	2 cut(s)	450, 529
Eco24I	GRGCYC	1 cut(s)	92
Eco31I	GGTCTC	1 cut(s)	18
Eco57I	CTGAAG	1 cut(s)	536
EcoT14I	CCWWGG	2 cut(s)	450, 529
EcoT38I	GRGCYC	1 cut(s)	92
ErhI	CCWWGG	2 cut(s)	450, 529
Esp3I	CGTCTC	1 cut(s)	73
FaeI	CATG	2 cut(s)	52, 262
FalI	AAGNNNNNCTT	2 cut(s)	283, 315
FaqI	GGGAC	1 cut(s)	19
FatI	CATG	2 cut(s)	48, 258
FauI	CCCGC	1 cut(s)	127
FbaI	TGATCA	1 cut(s)	367
Fnu4HI	GCNGC	4 cut(s)	79, 103, 106, 216
FokI	GGATG	1 cut(s)	138
FriOI	GRGCYC	1 cut(s)	92
Fsp4HI	GCNGC	4 cut(s)	79, 103, 106, 216
FspBI	CTAG	2 cut(s)	530, 578
GlaI	GCGC	3 cut(s)	58, 248, 527
GluI	GCNGC	4 cut(s)	79, 103, 106, 216
GsuI	CTGGAG	1 cut(s)	660
HaeII	RGCGCY	2 cut(s)	60, 529
HapII	CCGG	2 cut(s)	54, 123
HhaI	GCGC	3 cut(s)	59, 249, 528
Hin1II	CATG	2 cut(s)	52, 262
Hin6I	GCGC	3 cut(s)	57, 247, 526
HinP1I	GCGC	3 cut(s)	57, 247, 526
HincII	GTYRAC	2 cut(s)	163, 209
HindII	GTYRAC	2 cut(s)	163, 209
HinfI	GANTC	1 cut(s)	148
HpaI	GTTAAC	1 cut(s)	163
HpaII	CCGG	2 cut(s)	54, 123
Hpy166II	GTNNAC	2 cut(s)	163, 209
Hpy188I	TCNGA	2 cut(s)	143, 340
Hpy188III	TCNNGA	5 cut(s)	70, 155, 365, 639, 714
Hpy8I	GTNNAC	2 cut(s)	163, 209
Hpy99I	CGWCG	5 cut(s)	41, 44, 47, 161, 173
HpyAV	CCTTC	1 cut(s)	469
HpyCH4IV	ACGT	1 cut(s)	159
HpyCH4V	TGCA	4 cut(s)	218, 314, 571, 685
HpyF10VI	GCNNNNNNNGC	3 cut(s)	87, 186, 255
HpyF3I	CTNAG	4 cut(s)	15, 60, 522, 536
HpySE526I	ACGT	1 cut(s)	159
Hsp92II	CATG	2 cut(s)	52, 262
HspAI	GCGC	3 cut(s)	57, 247, 526
KroI	GCCGGC	1 cut(s)	122
KroNI	GCCGGC	1 cut(s)	124
Ksp22I	TGATCA	1 cut(s)	367
KspAI	GTTAAC	1 cut(s)	163
Kzo9I	GATC	1 cut(s)	367
LmnI	GCTCC	2 cut(s)	185, 652
Lsp1109I	GCAGC	2 cut(s)	117, 202
LweI	GCATC	3 cut(s)	163, 403, 634
MaeI	CTAG	2 cut(s)	530, 578
MaeII	ACGT	1 cut(s)	159
MaeIII	GTNAC	1 cut(s)	355
MalI	GATC	1 cut(s)	369
MbiI	CCGCTC	1 cut(s)	78
MboI	GATC	1 cut(s)	367
MboII	GAAGA	9 cut(s)	126, 208, 211, 249, 303, 400, 521, 529, 590
MhlI	GDGCHC	1 cut(s)	92
MluCI	AATT	3 cut(s)	130, 251, 626
MnlI	CCTC	8 cut(s)	3, 197, 215, 233, 301, 396, 495, 574
MreI	CGCCGGCG	1 cut(s)	122
MroNI	GCCGGC	1 cut(s)	122
MseI	TTAA	1 cut(s)	162
MslI	CAYNNNNRTG	2 cut(s)	263, 680
MspI	CCGG	2 cut(s)	54, 123
MspR9I	CCNGG	1 cut(s)	54
MwoI	GCNNNNNNNGC	3 cut(s)	87, 186, 255
NaeI	GCCGGC	1 cut(s)	124
NciI	CCSGG	1 cut(s)	54
NdeII	GATC	1 cut(s)	367
NgoMIV	GCCGGC	1 cut(s)	122
NlaIII	CATG	2 cut(s)	52, 262
NlaIV	GGNNCC	1 cut(s)	181
NspI	RCATGY	1 cut(s)	52
PcsI	WCGNNNNNNNCGW	2 cut(s)	42, 165
PdiI	GCCGGC	1 cut(s)	124
PfeI	GAWTC	1 cut(s)	148
PflFI	GACNNNGTC	1 cut(s)	10
PkrI	GCNGC	4 cut(s)	80, 104, 107, 217
PsiI	TTATAA	1 cut(s)	303
PspN4I	GGNNCC	1 cut(s)	181
PstI	CTGCAG	1 cut(s)	220
PsyI	GACNNNGTC	1 cut(s)	10
RseI	CAYNNNNRTG	2 cut(s)	263, 680
SaqAI	TTAA	1 cut(s)	162
SatI	GCNGC	4 cut(s)	79, 103, 106, 216
Sau3AI	GATC	1 cut(s)	367
ScrFI	CCNGG	1 cut(s)	54
SduI	GDGCHC	1 cut(s)	92
SfaNI	GCATC	3 cut(s)	163, 403, 634
SfcI	CTRYAG	1 cut(s)	216
SgrAI	CRCCGGYG	1 cut(s)	122
SmiMI	CAYNNNNRTG	2 cut(s)	263, 680
Sse9I	AATT	3 cut(s)	130, 251, 626
SsiI	CCGC	4 cut(s)	78, 103, 120, 400
SspMI	CTAG	2 cut(s)	530, 578
StyD4I	CCNGG	1 cut(s)	52
StyI	CCWWGG	2 cut(s)	450, 529
TaiI	ACGT	1 cut(s)	162
TaqI	TCGA	2 cut(s)	71, 487
TasI	AATT	3 cut(s)	130, 251, 626
TauI	GCSGC	2 cut(s)	81, 105
TfiI	GAWTC	1 cut(s)	148
Tru1I	TTAA	1 cut(s)	162
Tru9I	TTAA	1 cut(s)	162
TscAI	CASTG	1 cut(s)	658
TseI	GCWGC	2 cut(s)	105, 215
TspDTI	ATGAA	3 cut(s)	275, 333, 664
TspGWI	ACGGA	2 cut(s)	55, 172
TspRI	CASTG	1 cut(s)	658
Tth111I	GACNNNGTC	1 cut(s)	10
XceI	RCATGY	1 cut(s)	52
XmaJI	CCTAGG	1 cut(s)	529
XspI	CTAG	2 cut(s)	530, 578

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