Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0001387

Physical Location & Seq

Genomic Coordinates Forward (+)

28864185 .. 28864967

Gene Structure 783 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G023190.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 747 bp

ATGGATCAGCAAGGGCATGGGCATCCAACAACAATGGGAGTCCCAGGTAGTGCAGGTCAAGTATCATATGGTGTGAACCCATATCAGCCTAGCCACATGATGGGACTCTCTCCAACTGGATCGGTTGGAATGATGCAATCTCCCACTCAGCTGGGAGCTTATCAGCACATCCACCAGCAACAACAACAGCAACTACAGCAACAACTCCAAAACTTTTGGTCAGGTCAGTATCAAGAAATTGAGCAGGCTAATGATTTCAAGAACCATAGTTTACTATTGGCCAGGATTAAGAAGATTATGAATGCTGATGAGGATGTAAGGATGATATCTGCTGAAGCTCCGGTCATATTTTCCAGGGCCTGTGAGATGTTTATTCTGGAGTTGACACTACGGTCTTGGGACCACACAGAGGAGAACAAAAGGAGAACATTGCAAAAGAATGACATTGCGGCAGCAATTACAAGGACTGATATATTTGACTTTCTAGTTGATATTGTCCCCAGAGAGGATTTGAAAGATGAGGTTCTTGCATCAATCCCAAGAGGTGGGAATGTTCCAGTTGTTGGTCCAGCTGATGGTCTTCCTTACTATTACATGCCTGCTCAACATCCACCACAGGTTGGTGCTCCCGGGATGATGGTGGGAAAGCCTGTGATGGATCAAAATATGTATGGCCAACCGACACATCCATACATGGCTCAGCCAGCTTGGCCTCAGCAACAACAGCCGCACAAAGATTCTGAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006355 GO:0007154 GO:0007165 GO:0008150 GO:0009719 GO:0009725 GO:0009737 GO:0009738 GO:0009739 GO:0009740 GO:0009755 GO:0009889 GO:0009987 GO:0010029 GO:0010033 GO:0010099 GO:0010468 GO:0010476 GO:0010556 GO:0019219 GO:0019222 GO:0023052 GO:0031323 GO:0031326 GO:0032870 GO:0033993 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044444 GO:0044464 GO:0048518 GO:0048580 GO:0048582 GO:0048583 GO:0048584 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051094 GO:0051171 GO:0051239 GO:0051240 GO:0051252 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0071215 GO:0071229 GO:0071310 GO:0071370 GO:0071396 GO:0071495 GO:0080090 GO:0097159 GO:0097305 GO:0097306 GO:0140110 GO:1900140 GO:1901363 GO:1901700 GO:1901701 GO:1903506 GO:2000026 GO:2000030 GO:2000112 GO:2000306 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04612 ko05152 map04612 map05152

Pfam Domains

Protein Families

CBFD_NFYB_HMF

Protein Analysis

248

Amino Acids

27.82

Weight (kDa)

5.63

Isoelectric Point (pI)

62.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Histone	PF00125	82 - 153	1.7e-14	Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF	PF00808	93 - 153	2.7e-14	Histone-like transcription factor (CBF/NF-Y) and archaeal histone

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: OG0001387)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G08970 AT1G08970 AT1G08970 AT1G08970 AT1G54830 AT1G54830 AT1G54830
fragaria_vesca	FvH4_4g14750 FvH4_6g05540 FvH4_6g05540
malus_domestica	MD04G1207500.v1.1 MD12G1221800.v1.1 MD13G1185200.v1.1 MD16G1185900.v1.1
prunus_persica	Prupe.1G152500_v2.0.a1 Prupe.1G152500_v2.0.a1 Prupe.1G152500_v2.0.a1 Prupe.1G152500_v2.0.a1 Prupe.1G152500_v2.0.a1 Prupe.1G152500_v2.0.a1 Prupe.6G328500_v2.0.a1 Prupe.6G328500_v2.0.a1 Prupe.6G328500_v2.0.a1
pyrus_communis	pycom04g18370 pycom12g20790 pycom13g15980 pycom16g15560
rosa_chinensis	RchiOBHm_Chr3g0454311 RchiOBHm_Chr4g0417851
rosa_laevigata	RLG00000007894 RLG00000025463
rosa_multiflora	Rmu_sc0001340.1_g000002 Rmu_sc0004911.1_g000014 Rmu_sc0005844.1_g000004 Rmu_sc0007543.1_g000006
rosa_roxburghii	Rroxscaffold_165G00437130 Rroxscaffold_5G00361270 Rroxscaffold_6G00425220
rosa_rugosa	Rorug02G0654100 Rorug04G0149700.1 Rorug04G0149800
rosa_samantha	Rh3AG058100 Rh3BG059800 Rh3CG059000 Rh3CG291100 Rh3DG060300 Rh4AG212100 Rh4BG218900 Rh4CG223100 Rh4DG209900
rosa_wichuraiana	Rw3G004450 Rw3G023190 Rw4G017990

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	391
Acc36I	ACCTGC	1 cut(s)	44
AccB7I	CCANNNNNTGG	5 cut(s)	100, 545, 563, 575, 620
AciI	CCGC	2 cut(s)	449, 728
AclWI	GGATC	3 cut(s)	12, 127, 666
AcoI	YGGCCR	2 cut(s)	279, 673
AcuI	CTGAAG	1 cut(s)	354
AfiI	CCNNNNNNNGG	7 cut(s)	100, 409, 505, 545, 563, 575, 620
AgsI	TTSAA	2 cut(s)	259, 514
AjnI	CCWGG	3 cut(s)	43, 281, 353
AluBI	AGCT	5 cut(s)	151, 158, 338, 572, 707
AluI	AGCT	5 cut(s)	151, 158, 338, 572, 707
Alw21I	GWGCWC	1 cut(s)	628
AlwI	GGATC	3 cut(s)	12, 127, 666
AlwNI	CAGNNNCTG	1 cut(s)	360
Ama87I	CYCGRG	1 cut(s)	629
AoxI	GGCC	4 cut(s)	279, 357, 673, 710
ApeKI	GCWGC	1 cut(s)	452
AspS9I	GGNCC	3 cut(s)	357, 400, 566
AsuC2I	CCSGG	2 cut(s)	630, 631
AvaI	CYCGRG	1 cut(s)	629
AvaII	GGWCC	2 cut(s)	400, 566
BalI	TGGCCA	2 cut(s)	281, 675
BbsI	GAAGAC	1 cut(s)	572
Bbv12I	GWGCWC	1 cut(s)	628
BbvCI	CCTCAGC	1 cut(s)	714
BbvI	GCAGC	1 cut(s)	464
BccI	CCATC	4 cut(s)	94, 569, 631, 649
BciT130I	CCWGG	3 cut(s)	45, 283, 355
BcnI	CCSGG	2 cut(s)	630, 631
BfaI	CTAG	2 cut(s)	90, 485
BfmI	CTRYAG	1 cut(s)	194
BfuAI	ACCTGC	1 cut(s)	44
BglI	GCCNNNNNGGC	1 cut(s)	709
BisI	GCNGC	3 cut(s)	450, 453, 728
BlpI	GCTNAGC	1 cut(s)	699
BlsI	GCNGC	3 cut(s)	451, 454, 729
Bme1390I	CCNGG	5 cut(s)	45, 283, 355, 630, 631
Bme18I	GGWCC	2 cut(s)	400, 566
BmeT110I	CYCGRG	1 cut(s)	629
BmgT120I	GGNCC	3 cut(s)	357, 400, 566
BmiI	GGNNCC	1 cut(s)	401
BmrFI	CCNGG	5 cut(s)	45, 283, 355, 630, 631
BmsI	GCATC	3 cut(s)	31, 123, 539
BpiI	GAAGAC	1 cut(s)	572
BpmI	CTGGAG	1 cut(s)	398
Bpu10I	CCTNAGC	1 cut(s)	714
Bpu1102I	GCTNAGC	1 cut(s)	699
BpuMI	CCSGG	2 cut(s)	630, 631
BsaJI	CCNNGG	3 cut(s)	43, 354, 629
BsaWI	WCCGGW	1 cut(s)	340
Bsc4I	CCNNNNNNNGG	7 cut(s)	100, 409, 505, 545, 563, 575, 620
Bse1I	ACTGG	2 cut(s)	121, 557
Bse3DI	GCAATG	2 cut(s)	428, 444
BseBI	CCWGG	3 cut(s)	45, 283, 355
BseDI	CCNNGG	3 cut(s)	43, 354, 629
BseGI	GGATG	7 cut(s)	22, 168, 319, 327, 607, 639, 685
BseLI	CCNNNNNNNGG	7 cut(s)	100, 409, 505, 545, 563, 575, 620
BseMI	GCAATG	2 cut(s)	428, 444
BseMII	CTCAG	4 cut(s)	161, 713, 728, 732
BseNI	ACTGG	2 cut(s)	121, 557
BseRI	GAGGAG	1 cut(s)	425
BseXI	GCAGC	1 cut(s)	464
BseYI	CCCAGC	1 cut(s)	151
BsgI	GTGCAG	1 cut(s)	72
BshFI	GGCC	4 cut(s)	281, 359, 675, 712
BsiHKAI	GWGCWC	1 cut(s)	628
BsiHKCI	CYCGRG	1 cut(s)	629
BsiSI	CCGG	2 cut(s)	341, 630
BslFI	GGGAC	4 cut(s)	26, 117, 413, 482
BslI	CCNNNNNNNGG	7 cut(s)	100, 409, 505, 545, 563, 575, 620
BsmFI	GGGAC	4 cut(s)	26, 117, 413, 482
BsmI	GAATGC	1 cut(s)	307
BsnI	GGCC	4 cut(s)	281, 359, 675, 712
BsoBI	CYCGRG	1 cut(s)	629
Bsp1286I	GDGCHC	1 cut(s)	628
Bsp143I	GATC	3 cut(s)	4, 119, 658
Bsp1720I	GCTNAGC	1 cut(s)	699
BspACI	CCGC	2 cut(s)	449, 728
BspANI	GGCC	4 cut(s)	281, 359, 675, 712
BspCNI	CTCAG	4 cut(s)	160, 712, 727, 733
BspLI	GGNNCC	1 cut(s)	401
BspMI	ACCTGC	1 cut(s)	44
BspPI	GGATC	3 cut(s)	12, 127, 666
BsrDI	GCAATG	2 cut(s)	428, 444
BsrI	ACTGG	2 cut(s)	121, 557
BssECI	CCNNGG	3 cut(s)	43, 354, 629
BssMI	GATC	3 cut(s)	4, 119, 658
Bst2UI	CCWGG	3 cut(s)	45, 283, 355
Bst4CI	ACNGT	1 cut(s)	393
BstC8I	GCNNGC	3 cut(s)	246, 600, 705
BstDEI	CTNAG	4 cut(s)	147, 699, 714, 741
BstF5I	GGATG	7 cut(s)	22, 168, 319, 327, 607, 639, 685
BstKTI	GATC	3 cut(s)	7, 122, 661
BstMBI	GATC	3 cut(s)	4, 119, 658
BstMWI	GCNNNNNNNGC	4 cut(s)	196, 704, 709, 724
BstNI	CCWGG	3 cut(s)	45, 283, 355
BstNSI	RCATGY	1 cut(s)	598
BstSCI	CCNGG	5 cut(s)	43, 281, 353, 628, 629
BstSFI	CTRYAG	1 cut(s)	194
BstV1I	GCAGC	1 cut(s)	464
BstV2I	GAAGAC	1 cut(s)	572
BstXI	CCANNNNNNTGG	1 cut(s)	151
BsuRI	GGCC	4 cut(s)	281, 359, 675, 712
BtsCI	GGATG	7 cut(s)	22, 168, 319, 327, 607, 639, 685
BveI	ACCTGC	1 cut(s)	44
Cac8I	GCNNGC	3 cut(s)	246, 600, 705
CaiI	CAGNNNCTG	1 cut(s)	360
Cfr13I	GGNCC	3 cut(s)	357, 400, 566
Cfr9I	CCCGGG	1 cut(s)	629
CviAII	CATG	4 cut(s)	17, 97, 595, 694
DdeI	CTNAG	4 cut(s)	147, 699, 714, 741
DpnI	GATC	3 cut(s)	6, 121, 660
DpnII	GATC	3 cut(s)	4, 119, 658
DrdI	GACNNNNNNGTC	1 cut(s)	391
DseDI	GACNNNNNNGTC	1 cut(s)	391
EaeI	YGGCCR	2 cut(s)	279, 673
Eco32I	GATATC	1 cut(s)	327
Eco47I	GGWCC	2 cut(s)	400, 566
Eco57I	CTGAAG	1 cut(s)	354
Eco88I	CYCGRG	1 cut(s)	629
EcoO109I	RGGNCCY	1 cut(s)	357
EcoRII	CCWGG	3 cut(s)	43, 281, 353
EcoRV	GATATC	1 cut(s)	327
FaeI	CATG	4 cut(s)	20, 100, 598, 697
FaqI	GGGAC	4 cut(s)	26, 117, 413, 482
FatI	CATG	4 cut(s)	16, 96, 594, 693
FauNDI	CATATG	1 cut(s)	67
Fnu4HI	GCNGC	3 cut(s)	450, 453, 728
FokI	GGATG	7 cut(s)	9, 155, 326, 334, 594, 646, 672
Fsp4HI	GCNGC	3 cut(s)	450, 453, 728
FspBI	CTAG	2 cut(s)	90, 485
GluI	GCNGC	3 cut(s)	450, 453, 728
GsaI	CCCAGC	1 cut(s)	155
GsuI	CTGGAG	1 cut(s)	398
HaeIII	GGCC	4 cut(s)	281, 359, 675, 712
HapII	CCGG	2 cut(s)	341, 630
Hin1II	CATG	4 cut(s)	20, 100, 598, 697
HincII	GTYRAC	1 cut(s)	384
HindII	GTYRAC	1 cut(s)	384
HinfI	GANTC	3 cut(s)	39, 105, 737
HpaII	CCGG	2 cut(s)	341, 630
Hpy166II	GTNNAC	3 cut(s)	76, 272, 384
Hpy188I	TCNGA	1 cut(s)	742
Hpy188III	TCNNGA	3 cut(s)	233, 259, 377
Hpy8I	GTNNAC	3 cut(s)	76, 272, 384
HpyCH4III	ACNGT	1 cut(s)	393
HpyCH4V	TGCA	4 cut(s)	53, 136, 433, 530
HpyF10VI	GCNNNNNNNGC	4 cut(s)	196, 704, 709, 724
HpyF3I	CTNAG	4 cut(s)	147, 699, 714, 741
Hsp92II	CATG	4 cut(s)	20, 100, 598, 697
Kzo9I	GATC	3 cut(s)	4, 119, 658
LmnI	GCTCC	3 cut(s)	155, 343, 631
Lsp1109I	GCAGC	1 cut(s)	464
LweI	GCATC	3 cut(s)	31, 123, 539
MaeI	CTAG	2 cut(s)	90, 485
MalI	GATC	3 cut(s)	6, 121, 660
MboI	GATC	3 cut(s)	4, 119, 658
MboII	GAAGA	2 cut(s)	304, 572
MhlI	GDGCHC	1 cut(s)	628
MlsI	TGGCCA	2 cut(s)	281, 675
MluCI	AATT	2 cut(s)	237, 456
MluNI	TGGCCA	2 cut(s)	281, 675
MlyI	GAGTC	2 cut(s)	48, 99
MmeI	TCCRAC	3 cut(s)	50, 106, 137
MnlI	CCTC	6 cut(s)	304, 403, 499, 514, 536, 723
Mox20I	TGGCCA	2 cut(s)	281, 675
MscI	TGGCCA	2 cut(s)	281, 675
MseI	TTAA	1 cut(s)	288
Msp20I	TGGCCA	2 cut(s)	281, 675
MspA1I	CMGCKG	2 cut(s)	151, 572
MspI	CCGG	2 cut(s)	341, 630
MspR9I	CCNGG	5 cut(s)	45, 283, 355, 630, 631
Mva1269I	GAATGC	1 cut(s)	307
MvaI	CCWGG	3 cut(s)	45, 283, 355
MwoI	GCNNNNNNNGC	4 cut(s)	196, 704, 709, 724
NciI	CCSGG	2 cut(s)	630, 631
NdeI	CATATG	1 cut(s)	67
NdeII	GATC	3 cut(s)	4, 119, 658
NlaIII	CATG	4 cut(s)	20, 100, 598, 697
NlaIV	GGNNCC	1 cut(s)	401
NspI	RCATGY	1 cut(s)	598
PctI	GAATGC	1 cut(s)	307
PfeI	GAWTC	1 cut(s)	737
PflMI	CCANNNNNTGG	5 cut(s)	100, 545, 563, 575, 620
PkrI	GCNGC	3 cut(s)	451, 454, 729
PleI	GAGTC	2 cut(s)	47, 99
PpsI	GAGTC	2 cut(s)	47, 99
Psp6I	CCWGG	3 cut(s)	43, 281, 353
PspFI	CCCAGC	1 cut(s)	151
PspGI	CCWGG	3 cut(s)	43, 281, 353
PspN4I	GGNNCC	1 cut(s)	401
PspPI	GGNCC	3 cut(s)	357, 400, 566
PstNI	CAGNNNCTG	1 cut(s)	360
PvuII	CAGCTG	2 cut(s)	151, 572
SaqAI	TTAA	1 cut(s)	288
SatI	GCNGC	3 cut(s)	450, 453, 728
Sau3AI	GATC	3 cut(s)	4, 119, 658
Sau96I	GGNCC	3 cut(s)	357, 400, 566
SchI	GAGTC	2 cut(s)	48, 99
ScrFI	CCNGG	5 cut(s)	45, 283, 355, 630, 631
SduI	GDGCHC	1 cut(s)	628
SfaNI	GCATC	3 cut(s)	31, 123, 539
SfcI	CTRYAG	1 cut(s)	194
SinI	GGWCC	2 cut(s)	400, 566
SmaI	CCCGGG	1 cut(s)	631
Sse9I	AATT	2 cut(s)	237, 456
SsiI	CCGC	2 cut(s)	449, 728
SspMI	CTAG	2 cut(s)	90, 485
StyD4I	CCNGG	5 cut(s)	43, 281, 353, 628, 629
TaaI	ACNGT	1 cut(s)	393
TasI	AATT	2 cut(s)	237, 456
TauI	GCSGC	2 cut(s)	452, 730
TfiI	GAWTC	1 cut(s)	737
Tru1I	TTAA	1 cut(s)	288
Tru9I	TTAA	1 cut(s)	288
TseI	GCWGC	1 cut(s)	452
TspDTI	ATGAA	1 cut(s)	314
TspMI	CCCGGG	1 cut(s)	629
Van91I	CCANNNNNTGG	5 cut(s)	100, 545, 563, 575, 620
VpaK11BI	GGWCC	2 cut(s)	400, 566
XceI	RCATGY	1 cut(s)	598
XmaI	CCCGGG	1 cut(s)	629
XspI	CTAG	2 cut(s)	90, 485

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