Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0000573

Physical Location & Seq

Genomic Coordinates Forward (+)

52870066 .. 52870503

Gene Structure 438 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG299400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 438 bp

ATGGCCACTTCCTCCTACCTGGAAACCCCCCAGACGTCAAGAAAGTCCAAGAGCACGTACACGTGGAAGGGTTTCGGCGCGGTCCCTAATGCCCTGAAGGAGCTCAGAGAAGAAGGCCTGGATCTGACTCCTATCCCGGCGGCCTGCAATAACAACAACAACAATCCCCTGGATGAGACCAAGAGGGAAAAGTCTCATGTGCTTCTGGCGCAGAATTTCGTGAAGCTGTTCTTGTGTACCGGATCGAAATCAGAATCGATTTCTCTTGATGAAGCTGCAAAATTACTGCTTGGAGTAGGGGATGCACAGAATGTATCGGTGATGAGGACGAAGGTGAGGAGGATCTATGACATTGTGAATGTGTTGTCGTCAGTGAATTTATTGAGAAGACTCATACGGCAGATACAGGGAAGTCGGCGTATAGGTGGTTGGGGCTGA

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

145

Amino Acids

16.08

Weight (kDa)

9.82

Isoelectric Point (pI)

41.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_E2F_TDP	PF02319	63 - 130	9.5e-13	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)
AatII	GACGTC	1 cut(s)	38
AccII	CGCG	1 cut(s)	80
AciI	CCGC	2 cut(s)	80, 140
AclWI	GGATC	3 cut(s)	129, 250, 350
AcoI	YGGCCR	1 cut(s)	3
AcsI	RAATTY	2 cut(s)	214, 376
AcuI	CTGAAG	1 cut(s)	116
AcvI	CACGTG	1 cut(s)	63
AcyI	GRCGYC	1 cut(s)	35
AfaI	GTAC	2 cut(s)	59, 238
AflIII	ACRYGT	1 cut(s)	60
AjnI	CCWGG	3 cut(s)	18, 117, 168
AluBI	AGCT	3 cut(s)	103, 226, 275
AluI	AGCT	3 cut(s)	103, 226, 275
Alw21I	GWGCWC	2 cut(s)	56, 105
Alw26I	GTCTC	2 cut(s)	170, 198
AlwI	GGATC	3 cut(s)	129, 250, 350
AoxI	GGCC	3 cut(s)	3, 115, 141
ApeKI	GCWGC	1 cut(s)	275
ApoI	RAATTY	2 cut(s)	214, 376
Asp700I	GAANNNNTTC	2 cut(s)	71, 227
AspLEI	GCGC	2 cut(s)	80, 211
AspS9I	GGNCC	1 cut(s)	82
AsuC2I	CCSGG	1 cut(s)	137
AsuHPI	GGTGA	2 cut(s)	331, 346
AvaII	GGWCC	1 cut(s)	82
BalI	TGGCCA	1 cut(s)	5
BanII	GRGCYC	1 cut(s)	105
BbrPI	CACGTG	1 cut(s)	63
BbsI	GAAGAC	1 cut(s)	394
Bbv12I	GWGCWC	2 cut(s)	56, 105
BbvI	GCAGC	1 cut(s)	262
BceAI	ACGGC	1 cut(s)	413
BciT130I	CCWGG	3 cut(s)	20, 119, 170
BcnI	CCSGG	1 cut(s)	137
BcoDI	GTCTC	2 cut(s)	170, 198
BisI	GCNGC	2 cut(s)	141, 276
BlsI	GCNGC	2 cut(s)	142, 277
Bme1390I	CCNGG	4 cut(s)	20, 119, 137, 170
Bme18I	GGWCC	1 cut(s)	82
BmgT120I	GGNCC	1 cut(s)	82
BmiI	GGNNCC	1 cut(s)	84
BmrFI	CCNGG	4 cut(s)	20, 119, 137, 170
BmsI	GCATC	1 cut(s)	292
BpiI	GAAGAC	1 cut(s)	394
BpuMI	CCSGG	1 cut(s)	137
Bsa29I	ATCGAT	1 cut(s)	257
BsaAI	YACGTR	2 cut(s)	57, 63
BsaBI	GATNNNNATC	1 cut(s)	247
BsaHI	GRCGYC	1 cut(s)	35
BsaI	GGTCTC	1 cut(s)	170
BsaJI	CCNNGG	1 cut(s)	168
BsaWI	WCCGGW	1 cut(s)	239
Bse8I	GATNNNNATC	1 cut(s)	247
BseBI	CCWGG	3 cut(s)	20, 119, 170
BseCI	ATCGAT	1 cut(s)	257
BseDI	CCNNGG	1 cut(s)	168
BseGI	GGATG	2 cut(s)	178, 307
BseJI	GATNNNNATC	1 cut(s)	247
BseMII	CTCAG	1 cut(s)	118
BseRI	GAGGAG	1 cut(s)	352
BseXI	GCAGC	1 cut(s)	262
Bsh1236I	CGCG	1 cut(s)	80
BshFI	GGCC	3 cut(s)	5, 117, 143
BshVI	ATCGAT	1 cut(s)	257
BsiHKAI	GWGCWC	2 cut(s)	56, 105
BsiSI	CCGG	2 cut(s)	137, 240
BslFI	GGGAC	1 cut(s)	68
BsmAI	GTCTC	2 cut(s)	170, 198
BsmFI	GGGAC	1 cut(s)	68
BsnI	GGCC	3 cut(s)	5, 117, 143
Bso31I	GGTCTC	1 cut(s)	170
Bsp1286I	GDGCHC	2 cut(s)	56, 105
Bsp143I	GATC	3 cut(s)	121, 242, 342
BspACI	CCGC	2 cut(s)	80, 140
BspANI	GGCC	3 cut(s)	5, 117, 143
BspCNI	CTCAG	1 cut(s)	117
BspDI	ATCGAT	1 cut(s)	257
BspFNI	CGCG	1 cut(s)	80
BspLI	GGNNCC	1 cut(s)	84
BspPI	GGATC	3 cut(s)	129, 250, 350
BspTNI	GGTCTC	1 cut(s)	170
BssECI	CCNNGG	1 cut(s)	168
BssMI	GATC	3 cut(s)	121, 242, 342
BssNI	GRCGYC	1 cut(s)	35
Bst2UI	CCWGG	3 cut(s)	20, 119, 170
BstACI	GRCGYC	1 cut(s)	35
BstBAI	YACGTR	2 cut(s)	57, 63
BstC8I	GCNNGC	1 cut(s)	145
BstDEI	CTNAG	1 cut(s)	104
BstF5I	GGATG	2 cut(s)	178, 307
BstFNI	CGCG	1 cut(s)	80
BstHHI	GCGC	2 cut(s)	80, 211
BstKTI	GATC	3 cut(s)	124, 245, 345
BstMAI	GTCTC	2 cut(s)	170, 198
BstMBI	GATC	3 cut(s)	121, 242, 342
BstMWI	GCNNNNNNNGC	1 cut(s)	208
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)	262
BstV2I	GAAGAC	1 cut(s)	394
BstX2I	RGATCY	2 cut(s)	121, 342
BstYI	RGATCY	2 cut(s)	121, 342
Bsu15I	ATCGAT	1 cut(s)	257
BsuRI	GGCC	3 cut(s)	5, 117, 143
BsuTUI	ATCGAT	1 cut(s)	257
BtsCI	GGATG	2 cut(s)	178, 307
BtsIMutI	CAGTG	1 cut(s)	378
Cac8I	GCNNGC	1 cut(s)	145
CfoI	GCGC	2 cut(s)	80, 211
Cfr13I	GGNCC	1 cut(s)	82
ClaI	ATCGAT	1 cut(s)	257
Csp6I	GTAC	2 cut(s)	58, 237
CviAII	CATG	1 cut(s)	197
CviJI	RGCY	7 cut(s)	5, 103, 117, 143, 226, 275, 435
CviKI_1	RGCY	7 cut(s)	5, 103, 117, 143, 226, 275, 435
CviQI	GTAC	2 cut(s)	58, 237
DdeI	CTNAG	1 cut(s)	104
DpnI	GATC	3 cut(s)	123, 244, 344
DpnII	GATC	3 cut(s)	121, 242, 342
EaeI	YGGCCR	1 cut(s)	3
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
Eco72I	CACGTG	1 cut(s)	63
EcoICRI	GAGCTC	1 cut(s)	103
EcoRII	CCWGG	3 cut(s)	18, 117, 168
EcoT38I	GRGCYC	1 cut(s)	105
FaeI	CATG	1 cut(s)	200
FaiI	YATR	4 cut(s)	198, 348, 395, 422
FalI	AAGNNNNNCTT	2 cut(s)	215, 247
FaqI	GGGAC	1 cut(s)	68
FatI	CATG	1 cut(s)	196
Fnu4HI	GCNGC	2 cut(s)	141, 276
FokI	GGATG	2 cut(s)	185, 314
FriOI	GRGCYC	1 cut(s)	105
Fsp4HI	GCNGC	2 cut(s)	141, 276
GlaI	GCGC	2 cut(s)	79, 210
GluI	GCNGC	2 cut(s)	141, 276
HaeIII	GGCC	3 cut(s)	5, 117, 143
HapII	CCGG	2 cut(s)	137, 240
HhaI	GCGC	2 cut(s)	80, 211
Hin1I	GRCGYC	1 cut(s)	35
Hin1II	CATG	1 cut(s)	200
Hin6I	GCGC	2 cut(s)	78, 209
HinP1I	GCGC	2 cut(s)	78, 209
HinfI	GANTC	3 cut(s)	127, 254, 390
HpaII	CCGG	2 cut(s)	137, 240
HphI	GGTGA	2 cut(s)	331, 346
Hpy166II	GTNNAC	2 cut(s)	60, 237
Hpy188I	TCNGA	3 cut(s)	107, 126, 253
Hpy188III	TCNNGA	3 cut(s)	39, 220, 266
Hpy8I	GTNNAC	2 cut(s)	60, 237
HpyAV	CCTTC	4 cut(s)	61, 91, 107, 325
HpyCH4IV	ACGT	3 cut(s)	35, 56, 62
HpyCH4V	TGCA	3 cut(s)	147, 278, 305
HpyF10VI	GCNNNNNNNGC	1 cut(s)	208
HpyF3I	CTNAG	1 cut(s)	104
HpySE526I	ACGT	3 cut(s)	35, 56, 62
Hsp92I	GRCGYC	1 cut(s)	35
Hsp92II	CATG	1 cut(s)	200
HspAI	GCGC	2 cut(s)	78, 209
Kzo9I	GATC	3 cut(s)	121, 242, 342
LmnI	GCTCC	1 cut(s)	100
Lsp1109I	GCAGC	1 cut(s)	262
LweI	GCATC	1 cut(s)	292
MaeII	ACGT	3 cut(s)	35, 56, 62
MalI	GATC	3 cut(s)	123, 244, 344
MboI	GATC	3 cut(s)	121, 242, 342
MboII	GAAGA	2 cut(s)	122, 399
MflI	RGATCY	2 cut(s)	121, 342
MhlI	GDGCHC	2 cut(s)	56, 105
MlsI	TGGCCA	1 cut(s)	5
MluCI	AATT	3 cut(s)	214, 281, 376
MluNI	TGGCCA	1 cut(s)	5
MlyI	GAGTC	2 cut(s)	121, 384
MnlI	CCTC	5 cut(s)	22, 177, 318, 330, 333
Mox20I	TGGCCA	1 cut(s)	5
MroXI	GAANNNNTTC	2 cut(s)	71, 227
MscI	TGGCCA	1 cut(s)	5
Msp20I	TGGCCA	1 cut(s)	5
MspI	CCGG	2 cut(s)	137, 240
MspR9I	CCNGG	4 cut(s)	20, 119, 137, 170
MvaI	CCWGG	3 cut(s)	20, 119, 170
MvnI	CGCG	1 cut(s)	80
MwoI	GCNNNNNNNGC	1 cut(s)	208
NciI	CCSGG	1 cut(s)	137
NdeII	GATC	3 cut(s)	121, 242, 342
NlaIII	CATG	1 cut(s)	200
NlaIV	GGNNCC	1 cut(s)	84
PceI	AGGCCT	1 cut(s)	117
PdmI	GAANNNNTTC	2 cut(s)	71, 227
PfeI	GAWTC	1 cut(s)	254
PkrI	GCNGC	2 cut(s)	142, 277
PleI	GAGTC	2 cut(s)	121, 384
PmaCI	CACGTG	1 cut(s)	63
PmlI	CACGTG	1 cut(s)	63
PpsI	GAGTC	2 cut(s)	121, 384
Ppu21I	YACGTR	2 cut(s)	57, 63
Psp124BI	GAGCTC	1 cut(s)	105
Psp6I	CCWGG	3 cut(s)	18, 117, 168
PspCI	CACGTG	1 cut(s)	63
PspGI	CCWGG	3 cut(s)	18, 117, 168
PspN4I	GGNNCC	1 cut(s)	84
PspPI	GGNCC	1 cut(s)	82
PsuI	RGATCY	2 cut(s)	121, 342
RsaI	GTAC	2 cut(s)	59, 238
RsaNI	GTAC	2 cut(s)	58, 237
SacI	GAGCTC	1 cut(s)	105
SatI	GCNGC	2 cut(s)	141, 276
Sau3AI	GATC	3 cut(s)	121, 242, 342
Sau96I	GGNCC	1 cut(s)	82
SchI	GAGTC	2 cut(s)	121, 384
ScrFI	CCNGG	4 cut(s)	20, 119, 137, 170
SduI	GDGCHC	2 cut(s)	56, 105
SetI	ASST	9 cut(s)	21, 38, 59, 65, 105, 228, 277, 336, 427
SfaNI	GCATC	1 cut(s)	292
SinI	GGWCC	1 cut(s)	82
Sse9I	AATT	3 cut(s)	214, 281, 376
SseBI	AGGCCT	1 cut(s)	117
SsiI	CCGC	2 cut(s)	80, 140
SstI	GAGCTC	1 cut(s)	105
StuI	AGGCCT	1 cut(s)	117
StyD4I	CCNGG	4 cut(s)	18, 117, 135, 168
TaiI	ACGT	3 cut(s)	38, 59, 65
TaqI	TCGA	2 cut(s)	245, 257
TasI	AATT	3 cut(s)	214, 281, 376
TauI	GCSGC	1 cut(s)	143
TfiI	GAWTC	1 cut(s)	254
TscAI	CASTG	1 cut(s)	378
TseI	GCWGC	1 cut(s)	275
TspDTI	ATGAA	1 cut(s)	285
TspRI	CASTG	1 cut(s)	378
VpaK11BI	GGWCC	1 cut(s)	82
XapI	RAATTY	2 cut(s)	214, 376
XmnI	GAANNNNTTC	2 cut(s)	71, 227
ZraI	GACGTC	1 cut(s)	36

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