Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0000573

Physical Location & Seq

Genomic Coordinates Forward (+)

48000948 .. 48001595

Gene Structure 648 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG299300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 648 bp

ATGGCCACTTCCTCCTACCTGGAAACCCCCAAGACGTCAAGAAAGTCCAAGAACATGTACACGTGGAAGGGTTTTGGCGTGGTCCCTAACGCCCTAAAGGTGCTTAGAGAAGAAGGCCTGGATTTGACTCCGATCCCGGTGGCCTGCAATAACAACAACAATAATCCCCTGGATGAGACCAAGAGGGAAAAGTCTCTGGCGCAGAATTTCGTGAAGCTGTTCGTGTGTACCGGATCGAAATCGGAATCGATTTCTCTTGATGAAGCTGCGAAATTACTGCCTGGAGTAGGGGATGCACAGAATGTATCGGTGATGAGGACGAAGGTGAGGAGGATCTATGACATTGCGAATGTGTTGTCGTCAGTGAAATTGATTGAGAAGACTCATACGGCGGATACAGGGAAGTCGGCGTACAGGTGGTTGGGGCTGAATGAGAGAAGAGATGGTTTGAATTTGAATTTGGAGCCGAATTTGGAGCAGGCTAAGAAGAGGAGCTTTGGGACAGATTTGACGAATGCGAGTAGTAAGAGGAGCAAGGTTGTAGAGAAGAGAGTTCAAGATCAGGGTGAGGTTGAGAACTGCAATTCGGATGGCTGTGGGGCGAAGGAGATTCGAAGAGCTACCAGTTTCGTCCTTTCACTCCGGTAG

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

215

Amino Acids

23.84

Weight (kDa)

9.51

Isoelectric Point (pI)

43.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_E2F_TDP	PF02319	65 - 142	2e-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)
AatII	GACGTC	1 cut(s)	38
AciI	CCGC	1 cut(s)	392
AclWI	GGATC	3 cut(s)	127, 241, 341
AcoI	YGGCCR	1 cut(s)	3
AcsI	RAATTY	4 cut(s)	205, 451, 457, 469
AcvI	CACGTG	1 cut(s)	63
AcyI	GRCGYC	1 cut(s)	35
AfaI	GTAC	3 cut(s)	59, 229, 413
AfiI	CCNNNNNNNGG	1 cut(s)	287
AflIII	ACRYGT	2 cut(s)	54, 60
AgsI	TTSAA	3 cut(s)	451, 457, 557
AjnI	CCWGG	4 cut(s)	18, 117, 168, 280
AjuI	GAANNNNNNNTTGG	2 cut(s)	443, 475
AluBI	AGCT	4 cut(s)	217, 266, 495, 620
AluI	AGCT	4 cut(s)	217, 266, 495, 620
Alw26I	GTCTC	2 cut(s)	170, 198
AlwI	GGATC	3 cut(s)	127, 241, 341
AoxI	GGCC	3 cut(s)	3, 115, 141
ApeKI	GCWGC	1 cut(s)	266
ApoI	RAATTY	4 cut(s)	205, 451, 457, 469
ArsI	GACNNNNNNTTYG	2 cut(s)	341, 373
Asp700I	GAANNNNTTC	1 cut(s)	218
AspLEI	GCGC	1 cut(s)	202
AspS9I	GGNCC	1 cut(s)	82
AsuC2I	CCSGG	1 cut(s)	137
AsuHPI	GGTGA	3 cut(s)	322, 337, 578
AsuII	TTCGAA	1 cut(s)	613
AvaII	GGWCC	1 cut(s)	82
BalI	TGGCCA	1 cut(s)	5
BarI	GAAGNNNNNNTAC	2 cut(s)	395, 427
BbrPI	CACGTG	1 cut(s)	63
BbsI	GAAGAC	1 cut(s)	386
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	4 cut(s)	20, 119, 170, 282
BciVI	GTATCC	1 cut(s)	388
BcnI	CCSGG	1 cut(s)	137
BcoDI	GTCTC	2 cut(s)	170, 198
BfuI	GTATCC	1 cut(s)	388
BisI	GCNGC	1 cut(s)	267
BlsI	GCNGC	1 cut(s)	268
Bme1390I	CCNGG	5 cut(s)	20, 119, 137, 170, 282
Bme18I	GGWCC	1 cut(s)	82
BmgT120I	GGNCC	1 cut(s)	82
BmiI	GGNNCC	2 cut(s)	84, 465
BmrFI	CCNGG	5 cut(s)	20, 119, 137, 170, 282
BmsI	GCATC	1 cut(s)	283
BpiI	GAAGAC	1 cut(s)	386
BpmI	CTGGAG	1 cut(s)	303
Bpu14I	TTCGAA	1 cut(s)	613
BpuMI	CCSGG	1 cut(s)	137
Bsa29I	ATCGAT	1 cut(s)	248
BsaAI	YACGTR	1 cut(s)	63
BsaBI	GATNNNNATC	1 cut(s)	238
BsaHI	GRCGYC	1 cut(s)	35
BsaI	GGTCTC	1 cut(s)	170
BsaJI	CCNNGG	1 cut(s)	168
BsaWI	WCCGGW	2 cut(s)	230, 642
Bsc4I	CCNNNNNNNGG	1 cut(s)	287
Bse1I	ACTGG	1 cut(s)	624
Bse3DI	GCAATG	1 cut(s)	342
Bse8I	GATNNNNATC	1 cut(s)	238
BseBI	CCWGG	4 cut(s)	20, 119, 170, 282
BseCI	ATCGAT	1 cut(s)	248
BseDI	CCNNGG	1 cut(s)	168
BseGI	GGATG	3 cut(s)	178, 298, 595
BseJI	GATNNNNATC	1 cut(s)	238
BseLI	CCNNNNNNNGG	1 cut(s)	287
BseMI	GCAATG	1 cut(s)	342
BseNI	ACTGG	1 cut(s)	624
BseRI	GAGGAG	3 cut(s)	343, 505, 544
BseXI	GCAGC	1 cut(s)	253
BshFI	GGCC	3 cut(s)	5, 117, 143
BshVI	ATCGAT	1 cut(s)	248
BsiSI	CCGG	3 cut(s)	137, 231, 643
BslFI	GGGAC	2 cut(s)	68, 514
BslI	CCNNNNNNNGG	1 cut(s)	287
BsmAI	GTCTC	2 cut(s)	170, 198
BsmFI	GGGAC	2 cut(s)	68, 514
BsmI	GAATGC	1 cut(s)	520
BsnI	GGCC	3 cut(s)	5, 117, 143
Bso31I	GGTCTC	1 cut(s)	170
Bsp119I	TTCGAA	1 cut(s)	613
Bsp1407I	TGTACA	1 cut(s)	57
Bsp143I	GATC	4 cut(s)	132, 233, 333, 559
BspACI	CCGC	1 cut(s)	392
BspANI	GGCC	3 cut(s)	5, 117, 143
BspDI	ATCGAT	1 cut(s)	248
BspLI	GGNNCC	2 cut(s)	84, 465
BspPI	GGATC	3 cut(s)	127, 241, 341
BspQI	GCTCTTC	1 cut(s)	610
BspT104I	TTCGAA	1 cut(s)	613
BspTNI	GGTCTC	1 cut(s)	170
BsrDI	GCAATG	1 cut(s)	342
BsrGI	TGTACA	1 cut(s)	57
BsrI	ACTGG	1 cut(s)	624
BssECI	CCNNGG	1 cut(s)	168
BssMI	GATC	4 cut(s)	132, 233, 333, 559
BssNI	GRCGYC	1 cut(s)	35
Bst2UI	CCWGG	4 cut(s)	20, 119, 170, 282
Bst6I	CTCTTC	4 cut(s)	433, 482, 542, 610
BstACI	GRCGYC	1 cut(s)	35
BstAUI	TGTACA	1 cut(s)	57
BstBAI	YACGTR	1 cut(s)	63
BstBI	TTCGAA	1 cut(s)	613
BstC8I	GCNNGC	2 cut(s)	145, 480
BstDEI	CTNAG	2 cut(s)	104, 483
BstENI	CCTNNNNNAGG	1 cut(s)	285
BstF5I	GGATG	3 cut(s)	178, 298, 595
BstHHI	GCGC	1 cut(s)	202
BstKTI	GATC	4 cut(s)	135, 236, 336, 562
BstMAI	GTCTC	2 cut(s)	170, 198
BstMBI	GATC	4 cut(s)	132, 233, 333, 559
BstNI	CCWGG	4 cut(s)	20, 119, 170, 282
BstNSI	RCATGY	1 cut(s)	58
BstSCI	CCNGG	5 cut(s)	18, 117, 135, 168, 280
BstV1I	GCAGC	1 cut(s)	253
BstV2I	GAAGAC	1 cut(s)	386
BstX2I	RGATCY	1 cut(s)	333
BstYI	RGATCY	1 cut(s)	333
Bsu15I	ATCGAT	1 cut(s)	248
BsuI	GTATCC	1 cut(s)	388
BsuRI	GGCC	3 cut(s)	5, 117, 143
BsuTUI	ATCGAT	1 cut(s)	248
BtsCI	GGATG	3 cut(s)	178, 298, 595
BtsIMutI	CAGTG	1 cut(s)	369
Cac8I	GCNNGC	2 cut(s)	145, 480
CfoI	GCGC	1 cut(s)	202
Cfr13I	GGNCC	1 cut(s)	82
ClaI	ATCGAT	1 cut(s)	248
Csp6I	GTAC	3 cut(s)	58, 228, 412
CviAII	CATG	1 cut(s)	55
CviQI	GTAC	3 cut(s)	58, 228, 412
DdeI	CTNAG	2 cut(s)	104, 483
DpnI	GATC	4 cut(s)	134, 235, 335, 561
DpnII	GATC	4 cut(s)	132, 233, 333, 559
EaeI	YGGCCR	1 cut(s)	3
Eam1104I	CTCTTC	4 cut(s)	433, 482, 542, 610
EarI	CTCTTC	4 cut(s)	433, 482, 542, 610
EciI	GGCGGA	1 cut(s)	407
Eco147I	AGGCCT	1 cut(s)	117
Eco31I	GGTCTC	1 cut(s)	170
Eco47I	GGWCC	1 cut(s)	82
Eco72I	CACGTG	1 cut(s)	63
EcoNI	CCTNNNNNAGG	1 cut(s)	285
EcoRII	CCWGG	4 cut(s)	18, 117, 168, 280
FaeI	CATG	1 cut(s)	58
FaiI	YATR	3 cut(s)	56, 339, 387
FalI	AAGNNNNNCTT	2 cut(s)	479, 511
FaqI	GGGAC	2 cut(s)	68, 514
FatI	CATG	1 cut(s)	54
Fnu4HI	GCNGC	1 cut(s)	267
FokI	GGATG	3 cut(s)	185, 305, 602
Fsp4HI	GCNGC	1 cut(s)	267
GlaI	GCGC	1 cut(s)	201
GluI	GCNGC	1 cut(s)	267
GsuI	CTGGAG	1 cut(s)	303
HaeIII	GGCC	3 cut(s)	5, 117, 143
HapII	CCGG	3 cut(s)	137, 231, 643
HhaI	GCGC	1 cut(s)	202
Hin1I	GRCGYC	1 cut(s)	35
Hin1II	CATG	1 cut(s)	58
Hin6I	GCGC	1 cut(s)	200
HinP1I	GCGC	1 cut(s)	200
HinfI	GANTC	4 cut(s)	127, 245, 382, 610
HpaII	CCGG	3 cut(s)	137, 231, 643
HphI	GGTGA	3 cut(s)	322, 337, 578
Hpy166II	GTNNAC	2 cut(s)	60, 228
Hpy188I	TCNGA	3 cut(s)	132, 244, 589
Hpy188III	TCNNGA	4 cut(s)	39, 211, 257, 557
Hpy8I	GTNNAC	2 cut(s)	60, 228
HpyAV	CCTTC	4 cut(s)	61, 107, 316, 598
HpyCH4IV	ACGT	2 cut(s)	35, 62
HpyCH4V	TGCA	3 cut(s)	147, 296, 582
HpyF3I	CTNAG	2 cut(s)	104, 483
HpySE526I	ACGT	2 cut(s)	35, 62
Hsp92I	GRCGYC	1 cut(s)	35
Hsp92II	CATG	1 cut(s)	58
HspAI	GCGC	1 cut(s)	200
Kzo9I	GATC	4 cut(s)	132, 233, 333, 559
LguI	GCTCTTC	1 cut(s)	610
LmnI	GCTCC	4 cut(s)	463, 475, 492, 531
Lsp1109I	GCAGC	1 cut(s)	253
LweI	GCATC	1 cut(s)	283
MaeII	ACGT	2 cut(s)	35, 62
MalI	GATC	4 cut(s)	134, 235, 335, 561
MboI	GATC	4 cut(s)	132, 233, 333, 559
MboII	GAAGA	6 cut(s)	122, 391, 450, 499, 559, 627
MflI	RGATCY	1 cut(s)	333
MlsI	TGGCCA	1 cut(s)	5
MluCI	AATT	7 cut(s)	205, 272, 368, 451, 457, 469, 583
MluNI	TGGCCA	1 cut(s)	5
MlyI	GAGTC	2 cut(s)	121, 376
MnlI	CCTC	8 cut(s)	22, 177, 309, 321, 324, 483, 522, 562
Mox20I	TGGCCA	1 cut(s)	5
MroXI	GAANNNNTTC	1 cut(s)	218
MscI	TGGCCA	1 cut(s)	5
Msp20I	TGGCCA	1 cut(s)	5
MspI	CCGG	3 cut(s)	137, 231, 643
MspR9I	CCNGG	5 cut(s)	20, 119, 137, 170, 282
Mva1269I	GAATGC	1 cut(s)	520
MvaI	CCWGG	4 cut(s)	20, 119, 170, 282
NciI	CCSGG	1 cut(s)	137
NdeII	GATC	4 cut(s)	132, 233, 333, 559
NlaIII	CATG	1 cut(s)	58
NlaIV	GGNNCC	2 cut(s)	84, 465
NspI	RCATGY	1 cut(s)	58
NspV	TTCGAA	1 cut(s)	613
PceI	AGGCCT	1 cut(s)	117
PciI	ACATGT	1 cut(s)	54
PciSI	GCTCTTC	1 cut(s)	610
PctI	GAATGC	1 cut(s)	520
PdmI	GAANNNNTTC	1 cut(s)	218
PfeI	GAWTC	2 cut(s)	245, 610
PkrI	GCNGC	1 cut(s)	268
PleI	GAGTC	2 cut(s)	121, 376
PmaCI	CACGTG	1 cut(s)	63
PmlI	CACGTG	1 cut(s)	63
PpsI	GAGTC	2 cut(s)	121, 376
Ppu21I	YACGTR	1 cut(s)	63
PscI	ACATGT	1 cut(s)	54
Psp6I	CCWGG	4 cut(s)	18, 117, 168, 280
PspCI	CACGTG	1 cut(s)	63
PspGI	CCWGG	4 cut(s)	18, 117, 168, 280
PspN4I	GGNNCC	2 cut(s)	84, 465
PspPI	GGNCC	1 cut(s)	82
PsuI	RGATCY	1 cut(s)	333
RsaI	GTAC	3 cut(s)	59, 229, 413
RsaNI	GTAC	3 cut(s)	58, 228, 412
SapI	GCTCTTC	1 cut(s)	610
SatI	GCNGC	1 cut(s)	267
Sau3AI	GATC	4 cut(s)	132, 233, 333, 559
Sau96I	GGNCC	1 cut(s)	82
SchI	GAGTC	2 cut(s)	121, 376
ScrFI	CCNGG	5 cut(s)	20, 119, 137, 170, 282
SfaNI	GCATC	1 cut(s)	283
SfuI	TTCGAA	1 cut(s)	613
SinI	GGWCC	1 cut(s)	82
Sse9I	AATT	7 cut(s)	205, 272, 368, 451, 457, 469, 583
SseBI	AGGCCT	1 cut(s)	117
SsiI	CCGC	1 cut(s)	392
StuI	AGGCCT	1 cut(s)	117
StyD4I	CCNGG	5 cut(s)	18, 117, 135, 168, 280
TaiI	ACGT	2 cut(s)	38, 65
TaqI	TCGA	3 cut(s)	236, 248, 613
TasI	AATT	7 cut(s)	205, 272, 368, 451, 457, 469, 583
TatI	WGTACW	1 cut(s)	57
TfiI	GAWTC	2 cut(s)	245, 610
TscAI	CASTG	1 cut(s)	369
TseI	GCWGC	1 cut(s)	266
TspDTI	ATGAA	1 cut(s)	276
TspRI	CASTG	1 cut(s)	369
VpaK11BI	GGWCC	1 cut(s)	82
XagI	CCTNNNNNAGG	1 cut(s)	285
XapI	RAATTY	4 cut(s)	205, 451, 457, 469
XceI	RCATGY	1 cut(s)	58
XmnI	GAANNNNTTC	1 cut(s)	218
ZraI	GACGTC	1 cut(s)	36

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