Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0008256

Physical Location & Seq

Genomic Coordinates Forward (+)

68357995 .. 68361367

Gene Structure 3373 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG471000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 954 bp

ATGGGGACGAGGTCTCAGCAACCAAACCGAGCTGACGACGACGACGACATGCCCGGCGCTCAGTCCGTCTCGATGAGCGGCAGTATGGGCTCGCCGTCCAGCCGCAGCGAGCAGACCCCCGCCGGCGACAATTCTTCTCTCCGATTGAATCATCCCGACGTTAACGGCGACGATGCTGGCTCCGTTGGCAAAAAGAAGAAGAGAGGTCAACGGGCTGCTGGAGGCGATAAGAATGGAAGAGGACTGCGCCAATTTAGCATGAAAGTGTGCGAGAAAGTGGAGAGCAAGGGAAGAACCACTTATAACGAGCAACAATATGATGAGAAGAACATCAGGCGGAGGGTATATGATGCCCTGAATGTTCTAATGGCAATGGATATTATATCCAAGGATAAAAAGGAAATACAATGGAAGGGTCTGCCTCGAACCAGCCTGAATGATATTGAAGAACTGAAGACTGAGCGCCTAGGACTAAGGAGTAGGATTGAAAAGAAAGCTGTCTATCTGCAAGAACTAGAGGAACAATATGTAGGTCTTCAAAACCTGATACAACGAAATGAGCAATTATACTGCTCTGGAGATGCTCCCAGTGGGGGTGTGTCTTTACCTTTCATTCTTGTGCAGACTCGCCCCCATGCAACTGTTGAGGTGGAAATATCAGAGGATATGCAACTGGTGCATTTTGACTTCAATAGCACCCCATTTGAGCTCCATGATGATAACTATGTCTTAAAGGCAATGAAATTCTGTGAAAGGTCGCAGGGTGATGGTAATCATGGTATGACACAAAACTACGTTGCAGATGGAGGAGAAGGGTCTAGCATGGCAGCCATGTATCAACAGCAGATCCCTCCGCAGATCCCTCTTCCTCCAATGGTGAACACACCTGTCAGGCCTCCCACCTCACCACCTCTTCCGGGAATAATAAAAGCACGCGTGAAGCATGAGCATTGA

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

317

Amino Acids

35.3

Weight (kDa)

6.41

Isoelectric Point (pI)

58.11

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_E2F_TDP	PF02319	80 - 139	6.7e-16	E2F/DP family winged-helix DNA-binding domain
DP	PF08781	147 - 261	5.9e-38	Transcription factor DP

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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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
AccBSI	CCGCTC	1 cut(s)	78
AccII	CGCG	1 cut(s)	936
AciI	CCGC	5 cut(s)	78, 103, 120, 337, 854
AclWI	GGATC	2 cut(s)	841, 853
AcsI	RAATTY	1 cut(s)	743
AcuI	CTGAAG	1 cut(s)	473
AfiI	CCNNNNNNNGG	2 cut(s)	593, 917
AflIII	ACRYGT	1 cut(s)	934
AgsI	TTSAA	5 cut(s)	148, 446, 488, 539, 691
AluBI	AGCT	3 cut(s)	32, 497, 709
AluI	AGCT	3 cut(s)	32, 497, 709
Alw21I	GWGCWC	1 cut(s)	711
Alw26I	GTCTC	2 cut(s)	18, 73
AlwI	GGATC	2 cut(s)	841, 853
AoxI	GGCC	1 cut(s)	893
ApeKI	GCWGC	3 cut(s)	105, 215, 827
ApoI	RAATTY	1 cut(s)	743
AspA2I	CCTAGG	1 cut(s)	466
AspLEI	GCGC	3 cut(s)	59, 249, 465
AsuC2I	CCSGG	2 cut(s)	54, 918
AsuHPI	GGTGA	3 cut(s)	776, 889, 897
AvrII	CCTAGG	1 cut(s)	466
BanII	GRGCYC	2 cut(s)	92, 711
BbsI	GAAGAC	2 cut(s)	461, 527
Bbv12I	GWGCWC	1 cut(s)	711
BbvI	GCAGC	3 cut(s)	117, 202, 839
BccI	CCATC	2 cut(s)	761, 797
BceAI	ACGGC	2 cut(s)	79, 181
BcnI	CCSGG	2 cut(s)	54, 918
BcoDI	GTCTC	2 cut(s)	18, 73
BfaI	CTAG	3 cut(s)	467, 515, 819
BfoI	RGCGCY	2 cut(s)	60, 466
BisI	GCNGC	5 cut(s)	79, 103, 106, 216, 828
BlnI	CCTAGG	1 cut(s)	466
BlsI	GCNGC	5 cut(s)	80, 104, 107, 217, 829
Bme1390I	CCNGG	2 cut(s)	54, 918
BmiI	GGNNCC	1 cut(s)	181
BmrFI	CCNGG	2 cut(s)	54, 918
BmrI	ACTGGG	1 cut(s)	582
BmsI	GCATC	3 cut(s)	163, 340, 571
BmuI	ACTGGG	1 cut(s)	582
BpiI	GAAGAC	2 cut(s)	461, 527
BpmI	CTGGAG	2 cut(s)	240, 597
BpuMI	CCSGG	2 cut(s)	54, 918
BsaBI	GATNNNNATC	1 cut(s)	771
BsaI	GGTCTC	1 cut(s)	18
BsaJI	CCNNGG	2 cut(s)	387, 466
Bsc4I	CCNNNNNNNGG	2 cut(s)	593, 917
Bse118I	RCCGGY	1 cut(s)	122
Bse1I	ACTGG	2 cut(s)	588, 678
Bse3DI	GCAATG	2 cut(s)	378, 744
Bse8I	GATNNNNATC	1 cut(s)	771
BseDI	CCNNGG	2 cut(s)	387, 466
BseGI	GGATG	1 cut(s)	151
BseJI	GATNNNNATC	1 cut(s)	771
BseLI	CCNNNNNNNGG	2 cut(s)	593, 917
BseMI	GCAATG	2 cut(s)	378, 744
BseMII	CTCAG	3 cut(s)	29, 74, 450
BseNI	ACTGG	2 cut(s)	588, 678
BseRI	GAGGAG	1 cut(s)	822
BseXI	GCAGC	3 cut(s)	117, 202, 839
BsgI	GTGCAG	1 cut(s)	641
Bsh1236I	CGCG	1 cut(s)	936
BshFI	GGCC	1 cut(s)	895
BsiHKAI	GWGCWC	1 cut(s)	711
BsiSI	CCGG	3 cut(s)	54, 123, 917
BslFI	GGGAC	1 cut(s)	19
BslI	CCNNNNNNNGG	2 cut(s)	593, 917
BsmAI	GTCTC	2 cut(s)	18, 73
BsmBI	CGTCTC	1 cut(s)	73
BsmFI	GGGAC	1 cut(s)	19
BsnI	GGCC	1 cut(s)	895
Bso31I	GGTCTC	1 cut(s)	18
Bsp1286I	GDGCHC	2 cut(s)	92, 711
Bsp143I	GATC	2 cut(s)	846, 858
BspACI	CCGC	5 cut(s)	78, 103, 120, 337, 854
BspANI	GGCC	1 cut(s)	895
BspCNI	CTCAG	3 cut(s)	28, 73, 451
BspFNI	CGCG	1 cut(s)	936
BspLI	GGNNCC	1 cut(s)	181
BspPI	GGATC	2 cut(s)	841, 853
BspTNI	GGTCTC	1 cut(s)	18
BsrBI	CCGCTC	1 cut(s)	78
BsrDI	GCAATG	2 cut(s)	378, 744
BsrFI	RCCGGY	1 cut(s)	122
BsrI	ACTGG	2 cut(s)	588, 678
BssAI	RCCGGY	1 cut(s)	122
BssECI	CCNNGG	2 cut(s)	387, 466
BssMI	GATC	2 cut(s)	846, 858
BssT1I	CCWWGG	2 cut(s)	387, 466
Bst4CI	ACNGT	1 cut(s)	643
Bst6I	CTCTTC	4 cut(s)	194, 232, 870, 918
BstAPI	GCANNNNNTGC	1 cut(s)	676
BstC8I	GCNNGC	5 cut(s)	92, 110, 124, 178, 934
BstDEI	CTNAG	4 cut(s)	15, 60, 459, 473
BstF5I	GGATG	1 cut(s)	151
BstFNI	CGCG	1 cut(s)	936
BstH2I	RGCGCY	2 cut(s)	60, 466
BstHHI	GCGC	3 cut(s)	59, 249, 465
BstKTI	GATC	2 cut(s)	849, 861
BstMAI	GTCTC	2 cut(s)	18, 73
BstMBI	GATC	2 cut(s)	846, 858
BstMWI	GCNNNNNNNGC	4 cut(s)	87, 186, 255, 676
BstNSI	RCATGY	1 cut(s)	52
BstSCI	CCNGG	2 cut(s)	52, 916
BstUI	CGCG	1 cut(s)	936
BstV1I	GCAGC	3 cut(s)	117, 202, 839
BstV2I	GAAGAC	2 cut(s)	461, 527
BstX2I	RGATCY	2 cut(s)	846, 858
BstYI	RGATCY	2 cut(s)	846, 858
BsuRI	GGCC	1 cut(s)	895
BtsCI	GGATG	1 cut(s)	151
BtsIMutI	CAGTG	1 cut(s)	595
Cac8I	GCNNGC	5 cut(s)	92, 110, 124, 178, 934
CfoI	GCGC	3 cut(s)	59, 249, 465
Cfr10I	RCCGGY	1 cut(s)	122
CviAII	CATG	8 cut(s)	49, 259, 635, 713, 776, 823, 832, 944
DdeI	CTNAG	4 cut(s)	15, 60, 459, 473
DpnI	GATC	2 cut(s)	848, 860
DpnII	GATC	2 cut(s)	846, 858
Eam1104I	CTCTTC	4 cut(s)	194, 232, 870, 918
EarI	CTCTTC	4 cut(s)	194, 232, 870, 918
EciI	GGCGGA	1 cut(s)	352
Ecl136II	GAGCTC	1 cut(s)	709
Eco130I	CCWWGG	2 cut(s)	387, 466
Eco147I	AGGCCT	1 cut(s)	895
Eco24I	GRGCYC	2 cut(s)	92, 711
Eco31I	GGTCTC	1 cut(s)	18
Eco53kI	GAGCTC	1 cut(s)	709
Eco57I	CTGAAG	1 cut(s)	473
EcoICRI	GAGCTC	1 cut(s)	709
EcoT14I	CCWWGG	2 cut(s)	387, 466
EcoT38I	GRGCYC	2 cut(s)	92, 711
ErhI	CCWWGG	2 cut(s)	387, 466
Esp3I	CGTCTC	1 cut(s)	73
FaeI	CATG	8 cut(s)	52, 262, 638, 716, 779, 826, 835, 947
FalI	AAGNNNNNCTT	2 cut(s)	283, 315
FaqI	GGGAC	1 cut(s)	19
FatI	CATG	8 cut(s)	48, 258, 634, 712, 775, 822, 831, 943
FauI	CCCGC	1 cut(s)	127
Fnu4HI	GCNGC	5 cut(s)	79, 103, 106, 216, 828
FokI	GGATG	1 cut(s)	138
FriOI	GRGCYC	2 cut(s)	92, 711
Fsp4HI	GCNGC	5 cut(s)	79, 103, 106, 216, 828
FspBI	CTAG	3 cut(s)	467, 515, 819
GlaI	GCGC	3 cut(s)	58, 248, 464
GluI	GCNGC	5 cut(s)	79, 103, 106, 216, 828
GsuI	CTGGAG	2 cut(s)	240, 597
HaeII	RGCGCY	2 cut(s)	60, 466
HaeIII	GGCC	1 cut(s)	895
HapII	CCGG	3 cut(s)	54, 123, 917
HhaI	GCGC	3 cut(s)	59, 249, 465
Hin1II	CATG	8 cut(s)	52, 262, 638, 716, 779, 826, 835, 947
Hin6I	GCGC	3 cut(s)	57, 247, 463
HinP1I	GCGC	3 cut(s)	57, 247, 463
HincII	GTYRAC	2 cut(s)	163, 209
HindII	GTYRAC	2 cut(s)	163, 209
HinfI	GANTC	2 cut(s)	148, 625
HpaI	GTTAAC	1 cut(s)	163
HpaII	CCGG	3 cut(s)	54, 123, 917
HphI	GGTGA	3 cut(s)	776, 889, 897
Hpy166II	GTNNAC	3 cut(s)	163, 209, 880
Hpy188I	TCNGA	2 cut(s)	143, 661
Hpy188III	TCNNGA	3 cut(s)	70, 155, 576
Hpy8I	GTNNAC	3 cut(s)	163, 209, 880
Hpy99I	CGWCG	5 cut(s)	41, 44, 47, 161, 173
HpyAV	CCTTC	2 cut(s)	406, 806
HpyCH4III	ACNGT	1 cut(s)	643
HpyCH4IV	ACGT	2 cut(s)	159, 795
HpyCH4V	TGCA	6 cut(s)	508, 622, 638, 670, 679, 800
HpyF10VI	GCNNNNNNNGC	4 cut(s)	87, 186, 255, 676
HpyF3I	CTNAG	4 cut(s)	15, 60, 459, 473
HpySE526I	ACGT	2 cut(s)	159, 795
Hsp92II	CATG	8 cut(s)	52, 262, 638, 716, 779, 826, 835, 947
HspAI	GCGC	3 cut(s)	57, 247, 463
KroI	GCCGGC	1 cut(s)	122
KroNI	GCCGGC	1 cut(s)	124
KspAI	GTTAAC	1 cut(s)	163
Kzo9I	GATC	2 cut(s)	846, 858
LmnI	GCTCC	3 cut(s)	185, 589, 714
Lsp1109I	GCAGC	3 cut(s)	117, 202, 839
LweI	GCATC	3 cut(s)	163, 340, 571
MaeI	CTAG	3 cut(s)	467, 515, 819
MaeII	ACGT	2 cut(s)	159, 795
MalI	GATC	2 cut(s)	848, 860
MbiI	CCGCTC	1 cut(s)	78
MboI	GATC	2 cut(s)	846, 858
MflI	RGATCY	2 cut(s)	846, 858
MhlI	GDGCHC	2 cut(s)	92, 711
MluCI	AATT	4 cut(s)	130, 251, 563, 743
MluI	ACGCGT	1 cut(s)	934
MlyI	GAGTC	1 cut(s)	619
MreI	CGCCGGCG	1 cut(s)	122
MroNI	GCCGGC	1 cut(s)	122
MseI	TTAA	2 cut(s)	162, 731
MslI	CAYNNNNRTG	2 cut(s)	263, 617
MspI	CCGG	3 cut(s)	54, 123, 917
MspR9I	CCNGG	2 cut(s)	54, 918
MvnI	CGCG	1 cut(s)	936
MwoI	GCNNNNNNNGC	4 cut(s)	87, 186, 255, 676
NaeI	GCCGGC	1 cut(s)	124
NciI	CCSGG	2 cut(s)	54, 918
NdeII	GATC	2 cut(s)	846, 858
NgoMIV	GCCGGC	1 cut(s)	122
NlaIII	CATG	8 cut(s)	52, 262, 638, 716, 779, 826, 835, 947
NlaIV	GGNNCC	1 cut(s)	181
NspI	RCATGY	1 cut(s)	52
PceI	AGGCCT	1 cut(s)	895
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
PfoI	TCCNGGA	1 cut(s)	916
PkrI	GCNGC	5 cut(s)	80, 104, 107, 217, 829
PleI	GAGTC	1 cut(s)	619
PpsI	GAGTC	1 cut(s)	619
PsiI	TTATAA	1 cut(s)	303
Psp124BI	GAGCTC	1 cut(s)	711
PspN4I	GGNNCC	1 cut(s)	181
PsuI	RGATCY	2 cut(s)	846, 858
PsyI	GACNNNGTC	1 cut(s)	10
RseI	CAYNNNNRTG	2 cut(s)	263, 617
SacI	GAGCTC	1 cut(s)	711
SaqAI	TTAA	2 cut(s)	162, 731
SatI	GCNGC	5 cut(s)	79, 103, 106, 216, 828
Sau3AI	GATC	2 cut(s)	846, 858
SchI	GAGTC	1 cut(s)	619
ScrFI	CCNGG	2 cut(s)	54, 918
SduI	GDGCHC	2 cut(s)	92, 711
SfaNI	GCATC	3 cut(s)	163, 340, 571
SgrAI	CRCCGGYG	1 cut(s)	122
SmiMI	CAYNNNNRTG	2 cut(s)	263, 617
Sse9I	AATT	4 cut(s)	130, 251, 563, 743
SseBI	AGGCCT	1 cut(s)	895
SsiI	CCGC	5 cut(s)	78, 103, 120, 337, 854
SspMI	CTAG	3 cut(s)	467, 515, 819
SstI	GAGCTC	1 cut(s)	711
StuI	AGGCCT	1 cut(s)	895
StyD4I	CCNGG	2 cut(s)	52, 916
StyI	CCWWGG	2 cut(s)	387, 466
TaaI	ACNGT	1 cut(s)	643
TaiI	ACGT	2 cut(s)	162, 798
TaqI	TCGA	2 cut(s)	71, 424
TasI	AATT	4 cut(s)	130, 251, 563, 743
TauI	GCSGC	2 cut(s)	81, 105
TfiI	GAWTC	1 cut(s)	148
Tru1I	TTAA	2 cut(s)	162, 731
Tru9I	TTAA	2 cut(s)	162, 731
TscAI	CASTG	1 cut(s)	595
TseI	GCWGC	3 cut(s)	105, 215, 827
TspDTI	ATGAA	3 cut(s)	275, 601, 755
TspGWI	ACGGA	2 cut(s)	55, 172
TspRI	CASTG	1 cut(s)	595
Tth111I	GACNNNGTC	1 cut(s)	10
XapI	RAATTY	1 cut(s)	743
XceI	RCATGY	1 cut(s)	52
XmaJI	CCTAGG	1 cut(s)	466
XspI	CTAG	3 cut(s)	467, 515, 819

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