Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0000573

Physical Location & Seq

Genomic Coordinates Forward (+)

11730809 .. 11731636

Gene Structure 828 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG139800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 828 bp

ATGGCCACTTCCTCCTACCAGGAAACCCCCCAGACTTCAAGAAAGTCCAAGAACACGTACTTGTGGAAGGGTTTCGGCGCGGTCCCTAACGCCCTGAAGGAGCTCAGAGAAGAAGGCCTGGATCTGACTCCGATCCCGGCGACCTGCAATAACAACAACAACAATCCCCTGGATGAGACCAAGAGGGAAAAGTCTCTGGCGCAGAATTTCGTGAAGCTGTTCGTGTGTACCGGATCGGAATCAAAATCGATTTCTGTTGATGAAGCTGCGAAATTACTGCTTGGAGTAAGGGATGCACAGAATGTATCGGTGATGAGGACGAAGATGAGGAGGATCTATGACATTGCGAATGTGTTGTCGTCAGTGAATTTGATTGAGAAGACTCATACGGCAGATACAGGGAAGCCGGCGTACAGGTGGTTGGGCCTGAATGGGAGAAGAGATGGTTTGAATTTGAATTCGGAGTCGAATTTGGAGCAGGCTAAGAAGAGGAGCTTTGGGACAGATCTAATGGATGCGAGTAGTAAGAGGAGCAAGGTTGTGGAGAAGAGAGTTCAAGATCAGGGTGAGGTTGAGAACTGCAATTCGGATGGCTGTGGGGCGAAGGAGAGTTCGAAGAGCTACCAGTTTGGTTCTTTCACTCCGGTGGTGGTTCCAAGAGCTAGGAAGGGTGTTGACATCAATAAGGTTTGCTGGGAGAGTCTTGGGGCTTATTATCGGCCTCAGTATCAGAACCAAGCAATGAAGGAGCTGTTTTCACATTATAGGGAAGCGTGGATGTTGTGGAACTCTCAAGTTGCTAAGAAGAATCCAATTCAGAGTTCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006275 GO:0006355 GO:0006725 GO:0006807 GO:0007049 GO:0008150 GO:0008152 GO:0008156 GO:0009058 GO:0009059 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010468 GO:0010556 GO:0010558 GO:0010564 GO:0010605 GO:0010948 GO:0019219 GO:0019222 GO:0022402 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032875 GO:0032876 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:0044786 GO:0045786 GO:0045934 GO:0046483 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0051052 GO:0051053 GO:0051171 GO:0051172 GO:0051252 GO:0051726 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0090329 GO:0097159 GO:0140110 GO:1901360 GO:1901363 GO:1901576 GO:1903506 GO:2000104 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

E2F_TDP

Protein Analysis

275

Amino Acids

30.89

Weight (kDa)

9.38

Isoelectric Point (pI)

44.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_E2F_TDP	PF02319	65 - 142	3.7e-15	E2F/DP family winged-helix DNA-binding domain

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: OG0000573)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G48160 AT3G48160
fragaria_vesca	FvH4_3g21790 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330
malus_domestica	MD06G1181700.v1.1 MD14G1187600.v1.1
prunus_persica	Prupe.5G180000_v2.0.a1 Prupe.5G180000_v2.0.a1 Prupe.5G180000_v2.0.a1 Prupe.5G180000_v2.0.a1
pyrus_communis	pycom06g16070 pycom14g15550
rosa_chinensis	RchiOBHm_Chr2g0100091 RchiOBHm_Chr2g0131211 RchiOBHm_Chr2g0131231 RchiOBHm_Chr2g0155761 RchiOBHm_Chr5g0037341 RchiOBHm_Chr6g0286771 RchiOBHm_Chr7g0179801
rosa_laevigata	RLG00000005323 RLG00000033775
rosa_multiflora	Rmu_co8405049.1_g000002 Rmu_sc0003547.1_g000004 Rmu_sc0004156.1_g000008 Rmu_sc0007546.1_g000012 Rmu_sc0026307.1_g000001 Rmu_sc0032585.1_g000001 Rmu_ssc0000019.1_g000022
rosa_roxburghii	Rroxscaffold_1G00027620 Rroxscaffold_1G00027630 Rroxscaffold_1G00043630 Rroxscaffold_2G00107640 Rroxscaffold_3G00273460 Rroxscaffold_5G00347960 Rroxscaffold_5G00350580 Rroxscaffold_5G00366890 Rroxscaffold_6G00391730 Rroxscaffold_6G00392580 Rroxscaffold_7G00170270 Rroxscaffold_7G00170280
rosa_rugosa	Rorug02G0499800 Rorug04G0099000 Rorug04G0116000 Rorug05G0129300 Rorug05G0164200 Rorug06G0428300 Rorug06G0428400
rosa_samantha	Rh1DG306200 Rh2AG348600 Rh2CG139500 Rh2CG334400 Rh2CG334500 Rh2CG334700 Rh2DG139800 Rh2DG373800 Rh5BG255900 Rh5CG289000 Rh5DG264300 Rh5DG449300 Rh6AG295400 Rh6BG299400 Rh6CG299300 Rh6DG291200 Rh7AG028200 Rh7BG027100 Rh7BG173900 Rh7CG029000 Rh7DG028500
rosa_wichuraiana	Rw5G023500 Rw7G002240

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	152
AccII	CGCG	1 cut(s)	80
AciI	CCGC	1 cut(s)	80
AclWI	GGATC	4 cut(s)	127, 129, 241, 341
AcoI	YGGCCR	1 cut(s)	3
AcsI	RAATTY	5 cut(s)	205, 367, 451, 457, 469
AcuI	CTGAAG	1 cut(s)	116
AfaI	GTAC	3 cut(s)	59, 229, 413
AflIII	ACRYGT	1 cut(s)	54
AgsI	TTSAA	4 cut(s)	39, 451, 457, 557
AjnI	CCWGG	3 cut(s)	18, 117, 168
AjuI	GAANNNNNNNTTGG	1 cut(s)	805
AleI	CACNNNNGTG	1 cut(s)	644
AluBI	AGCT	7 cut(s)	103, 217, 266, 495, 621, 662, 751
AluI	AGCT	7 cut(s)	103, 217, 266, 495, 621, 662, 751
Alw21I	GWGCWC	1 cut(s)	105
Alw26I	GTCTC	2 cut(s)	170, 198
AlwI	GGATC	4 cut(s)	127, 129, 241, 341
AoxI	GGCC	4 cut(s)	3, 115, 424, 719
ApeKI	GCWGC	1 cut(s)	266
ApoI	RAATTY	5 cut(s)	205, 367, 451, 457, 469
ArsI	GACNNNNNNTTYG	2 cut(s)	341, 373
Asp700I	GAANNNNTTC	2 cut(s)	71, 218
AspLEI	GCGC	2 cut(s)	80, 202
AspS9I	GGNCC	2 cut(s)	82, 424
AsuC2I	CCSGG	1 cut(s)	137
AsuHPI	GGTGA	2 cut(s)	322, 578
AsuII	TTCGAA	1 cut(s)	614
AvaII	GGWCC	1 cut(s)	82
BalI	TGGCCA	1 cut(s)	5
BanII	GRGCYC	1 cut(s)	105
BarI	GAAGNNNNNNTAC	2 cut(s)	395, 427
BbsI	GAAGAC	1 cut(s)	386
Bbv12I	GWGCWC	1 cut(s)	105
BbvI	GCAGC	1 cut(s)	253
BccI	CCATC	2 cut(s)	437, 584
BceAI	ACGGC	1 cut(s)	405
BcgI	CGANNNNNNTGC	2 cut(s)	259, 293
BciT130I	CCWGG	3 cut(s)	20, 119, 170
BcnI	CCSGG	1 cut(s)	137
BcoDI	GTCTC	2 cut(s)	170, 198
BfaI	CTAG	1 cut(s)	663
BfuAI	ACCTGC	1 cut(s)	152
BglII	AGATCT	1 cut(s)	505
BisI	GCNGC	1 cut(s)	267
BlsI	GCNGC	1 cut(s)	268
Bme1390I	CCNGG	4 cut(s)	20, 119, 137, 170
Bme18I	GGWCC	1 cut(s)	82
BmgT120I	GGNCC	2 cut(s)	82, 424
BmiI	GGNNCC	2 cut(s)	84, 654
BmrFI	CCNGG	4 cut(s)	20, 119, 137, 170
BmsI	GCATC	2 cut(s)	283, 505
BpiI	GAAGAC	1 cut(s)	386
Bpu14I	TTCGAA	1 cut(s)	614
BpuEI	CTTGAG	1 cut(s)	777
BpuMI	CCSGG	1 cut(s)	137
Bsa29I	ATCGAT	1 cut(s)	248
BsaAI	YACGTR	1 cut(s)	57
BsaBI	GATNNNNATC	1 cut(s)	238
BsaI	GGTCTC	1 cut(s)	170
BsaJI	CCNNGG	1 cut(s)	168
BsaWI	WCCGGW	2 cut(s)	230, 643
Bse118I	RCCGGY	1 cut(s)	406
Bse1I	ACTGG	1 cut(s)	625
Bse3DI	GCAATG	2 cut(s)	342, 747
Bse8I	GATNNNNATC	1 cut(s)	238
BseBI	CCWGG	3 cut(s)	20, 119, 170
BseCI	ATCGAT	1 cut(s)	248
BseDI	CCNNGG	1 cut(s)	168
BseGI	GGATG	5 cut(s)	178, 298, 520, 595, 783
BseJI	GATNNNNATC	1 cut(s)	238
BseMI	GCAATG	2 cut(s)	342, 747
BseMII	CTCAG	2 cut(s)	118, 737
BseNI	ACTGG	1 cut(s)	625
BseRI	GAGGAG	3 cut(s)	343, 505, 544
BseXI	GCAGC	1 cut(s)	253
BseYI	CCCAGC	1 cut(s)	693
Bsh1236I	CGCG	1 cut(s)	80
BshFI	GGCC	4 cut(s)	5, 117, 426, 721
BshVI	ATCGAT	1 cut(s)	248
BsiHKAI	GWGCWC	1 cut(s)	105
BsiSI	CCGG	4 cut(s)	137, 231, 407, 644
BslFI	GGGAC	2 cut(s)	68, 514
BsmAI	GTCTC	2 cut(s)	170, 198
BsmFI	GGGAC	2 cut(s)	68, 514
BsnI	GGCC	4 cut(s)	5, 117, 426, 721
Bso31I	GGTCTC	1 cut(s)	170
Bsp119I	TTCGAA	1 cut(s)	614
Bsp1286I	GDGCHC	1 cut(s)	105
Bsp143I	GATC	6 cut(s)	121, 132, 233, 333, 505, 559
BspACI	CCGC	1 cut(s)	80
BspANI	GGCC	4 cut(s)	5, 117, 426, 721
BspCNI	CTCAG	2 cut(s)	117, 736
BspDI	ATCGAT	1 cut(s)	248
BspFNI	CGCG	1 cut(s)	80
BspLI	GGNNCC	2 cut(s)	84, 654
BspMI	ACCTGC	1 cut(s)	152
BspPI	GGATC	4 cut(s)	127, 129, 241, 341
BspQI	GCTCTTC	1 cut(s)	611
BspT104I	TTCGAA	1 cut(s)	614
BspTNI	GGTCTC	1 cut(s)	170
BsrDI	GCAATG	2 cut(s)	342, 747
BsrFI	RCCGGY	1 cut(s)	406
BsrI	ACTGG	1 cut(s)	625
BssAI	RCCGGY	1 cut(s)	406
BssECI	CCNNGG	1 cut(s)	168
BssMI	GATC	6 cut(s)	121, 132, 233, 333, 505, 559
Bst2UI	CCWGG	3 cut(s)	20, 119, 170
Bst6I	CTCTTC	4 cut(s)	433, 482, 542, 611
BstBAI	YACGTR	1 cut(s)	57
BstBI	TTCGAA	1 cut(s)	614
BstC8I	GCNNGC	2 cut(s)	408, 480
BstDEI	CTNAG	4 cut(s)	104, 483, 723, 801
BstF5I	GGATG	5 cut(s)	178, 298, 520, 595, 783
BstFNI	CGCG	1 cut(s)	80
BstHHI	GCGC	2 cut(s)	80, 202
BstKTI	GATC	6 cut(s)	124, 135, 236, 336, 508, 562
BstMAI	GTCTC	2 cut(s)	170, 198
BstMBI	GATC	6 cut(s)	121, 132, 233, 333, 505, 559
BstNI	CCWGG	3 cut(s)	20, 119, 170
BstSCI	CCNGG	4 cut(s)	18, 117, 135, 168
BstUI	CGCG	1 cut(s)	80
BstV1I	GCAGC	1 cut(s)	253
BstV2I	GAAGAC	1 cut(s)	386
BstX2I	RGATCY	3 cut(s)	121, 333, 505
BstYI	RGATCY	3 cut(s)	121, 333, 505
Bsu15I	ATCGAT	1 cut(s)	248
BsuRI	GGCC	4 cut(s)	5, 117, 426, 721
BsuTUI	ATCGAT	1 cut(s)	248
BtsCI	GGATG	5 cut(s)	178, 298, 520, 595, 783
BtsIMutI	CAGTG	1 cut(s)	369
BveI	ACCTGC	1 cut(s)	152
Cac8I	GCNNGC	2 cut(s)	408, 480
CfoI	GCGC	2 cut(s)	80, 202
Cfr10I	RCCGGY	1 cut(s)	406
Cfr13I	GGNCC	2 cut(s)	82, 424
ClaI	ATCGAT	1 cut(s)	248
Csp6I	GTAC	3 cut(s)	58, 228, 412
CviQI	GTAC	3 cut(s)	58, 228, 412
DdeI	CTNAG	4 cut(s)	104, 483, 723, 801
DpnI	GATC	6 cut(s)	123, 134, 235, 335, 507, 561
DpnII	GATC	6 cut(s)	121, 132, 233, 333, 505, 559
EaeI	YGGCCR	1 cut(s)	3
Eam1104I	CTCTTC	4 cut(s)	433, 482, 542, 611
EarI	CTCTTC	4 cut(s)	433, 482, 542, 611
Ecl136II	GAGCTC	1 cut(s)	103
Eco147I	AGGCCT	1 cut(s)	117
Eco24I	GRGCYC	1 cut(s)	105
Eco31I	GGTCTC	1 cut(s)	170
Eco47I	GGWCC	1 cut(s)	82
Eco53kI	GAGCTC	1 cut(s)	103
Eco57I	CTGAAG	1 cut(s)	116
EcoICRI	GAGCTC	1 cut(s)	103
EcoRI	GAATTC	1 cut(s)	457
EcoRII	CCWGG	3 cut(s)	18, 117, 168
EcoT38I	GRGCYC	1 cut(s)	105
FaiI	YATR	3 cut(s)	339, 387, 765
FalI	AAGNNNNNCTT	2 cut(s)	479, 511
FaqI	GGGAC	2 cut(s)	68, 514
Fnu4HI	GCNGC	1 cut(s)	267
FokI	GGATG	5 cut(s)	185, 305, 527, 602, 790
FriOI	GRGCYC	1 cut(s)	105
Fsp4HI	GCNGC	1 cut(s)	267
FspBI	CTAG	1 cut(s)	663
GlaI	GCGC	2 cut(s)	79, 201
GluI	GCNGC	1 cut(s)	267
GsaI	CCCAGC	1 cut(s)	697
HaeIII	GGCC	4 cut(s)	5, 117, 426, 721
HapII	CCGG	4 cut(s)	137, 231, 407, 644
HhaI	GCGC	2 cut(s)	80, 202
Hin6I	GCGC	2 cut(s)	78, 200
HinP1I	GCGC	2 cut(s)	78, 200
HincII	GTYRAC	1 cut(s)	676
HindII	GTYRAC	1 cut(s)	676
HinfI	GANTC	6 cut(s)	127, 239, 382, 464, 700, 808
HpaII	CCGG	4 cut(s)	137, 231, 407, 644
HphI	GGTGA	2 cut(s)	322, 578
Hpy166II	GTNNAC	2 cut(s)	228, 676
Hpy188I	TCNGA	8 cut(s)	107, 126, 132, 238, 463, 589, 732, 819
Hpy188III	TCNNGA	4 cut(s)	39, 211, 557, 825
Hpy8I	GTNNAC	2 cut(s)	228, 676
HpyAV	CCTTC	6 cut(s)	61, 91, 107, 598, 661, 739
HpyCH4IV	ACGT	1 cut(s)	56
HpyCH4V	TGCA	3 cut(s)	147, 296, 582
HpyF3I	CTNAG	4 cut(s)	104, 483, 723, 801
HpySE526I	ACGT	1 cut(s)	56
HspAI	GCGC	2 cut(s)	78, 200
KroI	GCCGGC	1 cut(s)	406
KroNI	GCCGGC	1 cut(s)	408
Kzo9I	GATC	6 cut(s)	121, 132, 233, 333, 505, 559
LguI	GCTCTTC	1 cut(s)	611
LmnI	GCTCC	5 cut(s)	100, 475, 492, 531, 748
Lsp1109I	GCAGC	1 cut(s)	253
LweI	GCATC	2 cut(s)	283, 505
MaeI	CTAG	1 cut(s)	663
MaeII	ACGT	1 cut(s)	56
MalI	GATC	6 cut(s)	123, 134, 235, 335, 507, 561
MboI	GATC	6 cut(s)	121, 132, 233, 333, 505, 559
MboII	GAAGA	8 cut(s)	122, 334, 391, 450, 499, 559, 628, 817
MflI	RGATCY	3 cut(s)	121, 333, 505
MhlI	GDGCHC	1 cut(s)	105
MlsI	TGGCCA	1 cut(s)	5
MluCI	AATT	8 cut(s)	205, 272, 367, 451, 457, 469, 583, 813
MluNI	TGGCCA	1 cut(s)	5
MlyI	GAGTC	4 cut(s)	121, 376, 473, 709
MnlI	CCTC	9 cut(s)	22, 177, 309, 321, 324, 483, 522, 562, 732
Mox20I	TGGCCA	1 cut(s)	5
MroNI	GCCGGC	1 cut(s)	406
MroXI	GAANNNNTTC	2 cut(s)	71, 218
MscI	TGGCCA	1 cut(s)	5
MslI	CAYNNNNRTG	1 cut(s)	644
Msp20I	TGGCCA	1 cut(s)	5
MspI	CCGG	4 cut(s)	137, 231, 407, 644
MspR9I	CCNGG	4 cut(s)	20, 119, 137, 170
MvaI	CCWGG	3 cut(s)	20, 119, 170
MvnI	CGCG	1 cut(s)	80
NaeI	GCCGGC	1 cut(s)	408
NciI	CCSGG	1 cut(s)	137
NdeII	GATC	6 cut(s)	121, 132, 233, 333, 505, 559
NgoMIV	GCCGGC	1 cut(s)	406
NlaIV	GGNNCC	2 cut(s)	84, 654
NspV	TTCGAA	1 cut(s)	614
OliI	CACNNNNGTG	1 cut(s)	644
PceI	AGGCCT	1 cut(s)	117
PciSI	GCTCTTC	1 cut(s)	611
PdiI	GCCGGC	1 cut(s)	408
PdmI	GAANNNNTTC	2 cut(s)	71, 218
PfeI	GAWTC	2 cut(s)	239, 808
PkrI	GCNGC	1 cut(s)	268
PleI	GAGTC	4 cut(s)	121, 376, 472, 708
PpsI	GAGTC	4 cut(s)	121, 376, 472, 708
Ppu21I	YACGTR	1 cut(s)	57
Psp124BI	GAGCTC	1 cut(s)	105
Psp6I	CCWGG	3 cut(s)	18, 117, 168
PspFI	CCCAGC	1 cut(s)	693
PspGI	CCWGG	3 cut(s)	18, 117, 168
PspN4I	GGNNCC	2 cut(s)	84, 654
PspPI	GGNCC	2 cut(s)	82, 424
PsuI	RGATCY	3 cut(s)	121, 333, 505
RsaI	GTAC	3 cut(s)	59, 229, 413
RsaNI	GTAC	3 cut(s)	58, 228, 412
RseI	CAYNNNNRTG	1 cut(s)	644
SacI	GAGCTC	1 cut(s)	105
SapI	GCTCTTC	1 cut(s)	611
SatI	GCNGC	1 cut(s)	267
Sau3AI	GATC	6 cut(s)	121, 132, 233, 333, 505, 559
Sau96I	GGNCC	2 cut(s)	82, 424
SchI	GAGTC	4 cut(s)	121, 376, 473, 709
ScrFI	CCNGG	4 cut(s)	20, 119, 137, 170
SduI	GDGCHC	1 cut(s)	105
SfaNI	GCATC	2 cut(s)	283, 505
SfuI	TTCGAA	1 cut(s)	614
SinI	GGWCC	1 cut(s)	82
SmiMI	CAYNNNNRTG	1 cut(s)	644
SmlI	CTYRAG	1 cut(s)	792
SmoI	CTYRAG	1 cut(s)	792
Sse9I	AATT	8 cut(s)	205, 272, 367, 451, 457, 469, 583, 813
SseBI	AGGCCT	1 cut(s)	117
SsiI	CCGC	1 cut(s)	80
SspMI	CTAG	1 cut(s)	663
SstI	GAGCTC	1 cut(s)	105
StuI	AGGCCT	1 cut(s)	117
StyD4I	CCNGG	4 cut(s)	18, 117, 135, 168
TaiI	ACGT	1 cut(s)	59
TaqI	TCGA	3 cut(s)	248, 467, 614
TasI	AATT	8 cut(s)	205, 272, 367, 451, 457, 469, 583, 813
TfiI	GAWTC	2 cut(s)	239, 808
TscAI	CASTG	1 cut(s)	369
TseI	GCWGC	1 cut(s)	266
TspDTI	ATGAA	2 cut(s)	276, 758
TspRI	CASTG	1 cut(s)	369
VpaK11BI	GGWCC	1 cut(s)	82
XapI	RAATTY	5 cut(s)	205, 367, 451, 457, 469
XmnI	GAANNNNTTC	2 cut(s)	71, 218
XspI	CTAG	1 cut(s)	663

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