Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0008922

Physical Location & Seq

Genomic Coordinates Reverse (-)

318926 .. 320562

Gene Structure 1637 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG004400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 714 bp

ATGGAACAGGGAGGTTTCCATGGCTACCAAAAGACCCAAAACACGAGCTCCGGGCTGAAACTGTCAGAGATCAACATGAGGCTGGCTGAGATCAACCACACCAAGAATAGCGCTGCTATCACCAACAATGGTGCTGCTGCTGCTACTAATGAGAATGAATGCACTGTGCGAGAGCAAGACCGTTTCATGCCCATTGCCAATGTGATCAGAATCATGCGCAAGATCCTGCCCCCGCATGCCAAGATCTCAGACGACGCCAAGGAAACAATCCAAGAGTGTGTCTCAGAGTACATCAGCTTCATCACAGGGGAGGCCAATGAGCGTTGCCAGCGTGAGCAGCGCAAGACCATTACTGCCGAAGACGTGCTGTGGGCAATGAGCAAGCTGGGGTTCGATGACTACATTGAGCCCCTCACTCTCTACCTCCACCGCTTCCGCGAGATGGAGGGAGATCGTGGCTCCATGAGGGCCGAGGCTTTGATGAAGACTAGTAGTAGGGCAATGACTGCGGCAGAGTATCATGCAGCTGCAGCAGGCTCTTTCGCTGGTTTTGCTCCTTTTCATCACCATGGCTTTTTCGGATACTTGAAGGATGCGTCCATATCCAATGGGGCAGCTGGTACATCTTTGTCCCAGCAGGCTAATGCTGTTGCTGCAATGGCAAATGGTGATCACCAGGCATCACATTCCCAGTATGATGATAACAATAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003700 GO:0005488 GO:0005515 GO:0006355 GO:0007154 GO:0007165 GO:0008134 GO:0008150 GO:0009719 GO:0009725 GO:0009737 GO:0009738 GO:0009755 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010033 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0019219 GO:0019222 GO:0023052 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032870 GO:0033613 GO:0033993 GO:0042221 GO:0045893 GO:0045935 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0071215 GO:0071229 GO:0071310 GO:0071396 GO:0071495 GO:0080090 GO:0097305 GO:0097306 GO:0140110 GO:1901700 GO:1901701 GO:1902680 GO:1903506 GO:1903508 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04612 ko05152 ko05166 map04612 map05152 map05166

Pfam Domains

Protein Families

CBFD_NFYB_HMF

Protein Analysis

237

Amino Acids

26.13

Weight (kDa)

6.06

Isoelectric Point (pI)

30.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Histone	PF00125	48 - 126	5.2e-07	Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF	PF00808	62 - 126	4.9e-26	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

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0008922)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G47670 AT5G47670 AT5G47670
fragaria_vesca	FvH4_3g00320 FvH4_3g00320 FvH4_3g11540
malus_domestica	MD05G1361600.v1.1 MD10G1339000.v1.1
prunus_persica	Prupe.4G003800_v2.0.a1 Prupe.4G003800_v2.0.a1
pyrus_communis	pycom05g32810 pycom10g28870
rosa_chinensis	RchiOBHm_Chr5g0000501
rosa_laevigata	RLG00000030872
rosa_multiflora	Rmu_sc0003949.1_g000009
rosa_roxburghii	Rroxscaffold_1G00075680
rosa_rugosa	Rorug04G0384300
rosa_samantha	Rh5AG004100 Rh5BG005500 Rh5CG004500 Rh5DG004400
rosa_wichuraiana	Rw5G000410

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	218
AccII	CGCG	1 cut(s)	438
AciI	CCGC	4 cut(s)	233, 430, 436, 509
AclWI	GGATC	1 cut(s)	217
AcyI	GRCGYC	1 cut(s)	255
AfaI	GTAC	2 cut(s)	290, 622
AfeI	AGCGCT	1 cut(s)	112
AfiI	CCNNNNNNNGG	1 cut(s)	442
AgsI	TTSAA	1 cut(s)	589
AhlI	ACTAGT	1 cut(s)	488
AjiI	CACGTC	1 cut(s)	364
AjnI	CCWGG	1 cut(s)	675
AluBI	AGCT	5 cut(s)	48, 297, 385, 527, 617
AluI	AGCT	5 cut(s)	48, 297, 385, 527, 617
Alw21I	GWGCWC	1 cut(s)	50
Alw26I	GTCTC	1 cut(s)	286
AlwI	GGATC	1 cut(s)	217
Aor51HI	AGCGCT	1 cut(s)	112
AoxI	GGCC	2 cut(s)	312, 468
AspLEI	GCGC	3 cut(s)	113, 219, 342
AspS9I	GGNCC	1 cut(s)	468
AsuC2I	CCSGG	1 cut(s)	52
AsuHPI	GGTGA	4 cut(s)	112, 557, 665, 680
BanII	GRGCYC	2 cut(s)	50, 411
BarI	GAAGNNNNNNTAC	2 cut(s)	281, 313
BauI	CACGAG	1 cut(s)	43
BbsI	GAAGAC	2 cut(s)	366, 491
Bbv12I	GWGCWC	1 cut(s)	50
BccI	CCATC	1 cut(s)	436
BciT130I	CCWGG	1 cut(s)	677
BciVI	GTATCC	1 cut(s)	575
BclI	TGATCA	2 cut(s)	204, 670
BcnI	CCSGG	1 cut(s)	52
BcoDI	GTCTC	1 cut(s)	286
BcuI	ACTAGT	1 cut(s)	488
BfaI	CTAG	1 cut(s)	489
BfmI	CTRYAG	1 cut(s)	528
BfoI	RGCGCY	1 cut(s)	114
BfuI	GTATCC	1 cut(s)	575
BglII	AGATCT	1 cut(s)	243
Bme1390I	CCNGG	2 cut(s)	52, 677
BmgBI	CACGTC	1 cut(s)	364
BmgT120I	GGNCC	1 cut(s)	468
BmiI	GGNNCC	1 cut(s)	460
BmrFI	CCNGG	2 cut(s)	52, 677
BmrI	ACTGGG	1 cut(s)	685
BmsI	GCATC	2 cut(s)	583, 689
BmuI	ACTGGG	1 cut(s)	685
BpiI	GAAGAC	2 cut(s)	366, 491
BplI	GAGNNNNNCTC	2 cut(s)	266, 298
BpuMI	CCSGG	1 cut(s)	52
BsaBI	GATNNNNATC	1 cut(s)	209
BsaHI	GRCGYC	1 cut(s)	255
BsaJI	CCNNGG	4 cut(s)	19, 258, 471, 568
BsaXI	ACNNNNNCTCC	2 cut(s)	32, 62
Bsc4I	CCNNNNNNNGG	1 cut(s)	442
Bse1I	ACTGG	1 cut(s)	691
Bse3DI	GCAATG	4 cut(s)	192, 381, 507, 663
Bse8I	GATNNNNATC	1 cut(s)	209
BseBI	CCWGG	1 cut(s)	677
BseDI	CCNNGG	4 cut(s)	19, 258, 471, 568
BseGI	GGATG	1 cut(s)	598
BseJI	GATNNNNATC	1 cut(s)	209
BseLI	CCNNNNNNNGG	1 cut(s)	442
BseMI	GCAATG	4 cut(s)	192, 381, 507, 663
BseMII	CTCAG	3 cut(s)	78, 261, 297
BseNI	ACTGG	1 cut(s)	691
BseYI	CCCAGC	2 cut(s)	385, 633
Bsh1236I	CGCG	1 cut(s)	438
BshFI	GGCC	2 cut(s)	314, 470
BsiHKAI	GWGCWC	1 cut(s)	50
BsiSI	CCGG	1 cut(s)	51
BslFI	GGGAC	1 cut(s)	616
BslI	CCNNNNNNNGG	1 cut(s)	442
BsmAI	GTCTC	1 cut(s)	286
BsmFI	GGGAC	1 cut(s)	616
BsmI	GAATGC	1 cut(s)	164
BsnI	GGCC	2 cut(s)	314, 470
Bsp1286I	GDGCHC	2 cut(s)	50, 411
Bsp143I	GATC	7 cut(s)	69, 90, 204, 222, 243, 451, 670
Bsp19I	CCATGG	2 cut(s)	19, 568
BspACI	CCGC	4 cut(s)	233, 430, 436, 509
BspANI	GGCC	2 cut(s)	314, 470
BspCNI	CTCAG	3 cut(s)	79, 260, 296
BspFNI	CGCG	1 cut(s)	438
BspLI	GGNNCC	1 cut(s)	460
BspMAI	CTGCAG	1 cut(s)	532
BspPI	GGATC	1 cut(s)	217
BsrDI	GCAATG	4 cut(s)	192, 381, 507, 663
BsrI	ACTGG	1 cut(s)	691
BssECI	CCNNGG	4 cut(s)	19, 258, 471, 568
BssMI	GATC	7 cut(s)	69, 90, 204, 222, 243, 451, 670
BssNI	GRCGYC	1 cut(s)	255
BssSI	CACGAG	1 cut(s)	43
BssT1I	CCWWGG	3 cut(s)	19, 258, 568
Bst2BI	CACGAG	1 cut(s)	43
Bst2UI	CCWGG	1 cut(s)	677
Bst4CI	ACNGT	3 cut(s)	63, 166, 182
BstACI	GRCGYC	1 cut(s)	255
BstAPI	GCANNNNNTGC	1 cut(s)	506
BstC8I	GCNNGC	6 cut(s)	84, 237, 329, 383, 535, 639
BstDEI	CTNAG	3 cut(s)	87, 247, 283
BstDSI	CCRYGG	2 cut(s)	19, 568
BstF5I	GGATG	1 cut(s)	598
BstFNI	CGCG	1 cut(s)	438
BstH2I	RGCGCY	1 cut(s)	114
BstHHI	GCGC	3 cut(s)	113, 219, 342
BstKTI	GATC	7 cut(s)	72, 93, 207, 225, 246, 454, 673
BstMAI	GTCTC	1 cut(s)	286
BstMBI	GATC	7 cut(s)	69, 90, 204, 222, 243, 451, 670
BstMWI	GCNNNNNNNGC	8 cut(s)	140, 328, 337, 506, 530, 551, 653, 659
BstNI	CCWGG	1 cut(s)	677
BstNSI	RCATGY	1 cut(s)	239
BstSCI	CCNGG	2 cut(s)	50, 675
BstSFI	CTRYAG	1 cut(s)	528
BstUI	CGCG	1 cut(s)	438
BstV2I	GAAGAC	2 cut(s)	366, 491
BstX2I	RGATCY	2 cut(s)	222, 243
BstYI	RGATCY	2 cut(s)	222, 243
BsuI	GTATCC	1 cut(s)	575
BsuRI	GGCC	2 cut(s)	314, 470
BtgI	CCRYGG	2 cut(s)	19, 568
BtrI	CACGTC	1 cut(s)	364
BtsCI	GGATG	1 cut(s)	598
BtsIMutI	CAGTG	1 cut(s)	162
Cac8I	GCNNGC	6 cut(s)	84, 237, 329, 383, 535, 639
CfoI	GCGC	3 cut(s)	113, 219, 342
Cfr13I	GGNCC	1 cut(s)	468
CseI	GACGC	2 cut(s)	263, 585
Csp6I	GTAC	2 cut(s)	289, 621
CviAII	CATG	8 cut(s)	20, 76, 187, 214, 236, 463, 521, 569
CviQI	GTAC	2 cut(s)	289, 621
DdeI	CTNAG	3 cut(s)	87, 247, 283
DpnI	GATC	7 cut(s)	71, 92, 206, 224, 245, 453, 672
DpnII	GATC	7 cut(s)	69, 90, 204, 222, 243, 451, 670
Ecl136II	GAGCTC	1 cut(s)	48
Eco130I	CCWWGG	3 cut(s)	19, 258, 568
Eco24I	GRGCYC	2 cut(s)	50, 411
Eco47III	AGCGCT	1 cut(s)	112
Eco53kI	GAGCTC	1 cut(s)	48
EcoICRI	GAGCTC	1 cut(s)	48
EcoRII	CCWGG	1 cut(s)	675
EcoT14I	CCWWGG	3 cut(s)	19, 258, 568
EcoT38I	GRGCYC	2 cut(s)	50, 411
ErhI	CCWWGG	3 cut(s)	19, 258, 568
FaeI	CATG	8 cut(s)	23, 79, 190, 217, 239, 466, 524, 572
FaqI	GGGAC	1 cut(s)	616
FatI	CATG	8 cut(s)	19, 75, 186, 213, 235, 462, 520, 568
FauI	CCCGC	1 cut(s)	240
FbaI	TGATCA	2 cut(s)	204, 670
FokI	GGATG	1 cut(s)	605
FriOI	GRGCYC	2 cut(s)	50, 411
FspBI	CTAG	1 cut(s)	489
FspI	TGCGCA	1 cut(s)	218
GlaI	GCGC	3 cut(s)	112, 218, 341
GsaI	CCCAGC	2 cut(s)	389, 637
HaeII	RGCGCY	1 cut(s)	114
HaeIII	GGCC	2 cut(s)	314, 470
HapII	CCGG	1 cut(s)	51
HgaI	GACGC	2 cut(s)	263, 585
HhaI	GCGC	3 cut(s)	113, 219, 342
Hin1I	GRCGYC	1 cut(s)	255
Hin1II	CATG	8 cut(s)	23, 79, 190, 217, 239, 466, 524, 572
Hin6I	GCGC	3 cut(s)	111, 217, 340
HinP1I	GCGC	3 cut(s)	111, 217, 340
HinfI	GANTC	1 cut(s)	210
HpaII	CCGG	1 cut(s)	51
HphI	GGTGA	4 cut(s)	112, 557, 665, 680
Hpy188I	TCNGA	5 cut(s)	67, 209, 250, 286, 581
Hpy99I	CGWCG	1 cut(s)	257
HpyAV	CCTTC	1 cut(s)	583
HpyCH4III	ACNGT	3 cut(s)	63, 166, 182
HpyCH4IV	ACGT	1 cut(s)	363
HpyCH4V	TGCA	4 cut(s)	162, 524, 530, 656
HpyF10VI	GCNNNNNNNGC	8 cut(s)	140, 328, 337, 506, 530, 551, 653, 659
HpyF3I	CTNAG	3 cut(s)	87, 247, 283
HpySE526I	ACGT	1 cut(s)	363
Hsp92I	GRCGYC	1 cut(s)	255
Hsp92II	CATG	8 cut(s)	23, 79, 190, 217, 239, 466, 524, 572
HspAI	GCGC	3 cut(s)	111, 217, 340
Ksp22I	TGATCA	2 cut(s)	204, 670
Kzo9I	GATC	7 cut(s)	69, 90, 204, 222, 243, 451, 670
LmnI	GCTCC	3 cut(s)	53, 464, 559
LweI	GCATC	2 cut(s)	583, 689
MaeI	CTAG	1 cut(s)	489
MaeII	ACGT	1 cut(s)	363
MalI	GATC	7 cut(s)	71, 92, 206, 224, 245, 453, 672
MboI	GATC	7 cut(s)	69, 90, 204, 222, 243, 451, 670
MboII	GAAGA	2 cut(s)	371, 496
MflI	RGATCY	2 cut(s)	222, 243
MhlI	GDGCHC	2 cut(s)	50, 411
MnlI	CCTC	8 cut(s)	5, 72, 304, 422, 434, 439, 459, 466
MslI	CAYNNNNRTG	1 cut(s)	567
MspA1I	CMGCKG	2 cut(s)	527, 617
MspI	CCGG	1 cut(s)	51
MspR9I	CCNGG	2 cut(s)	52, 677
Mva1269I	GAATGC	1 cut(s)	164
MvaI	CCWGG	1 cut(s)	677
MvnI	CGCG	1 cut(s)	438
MwoI	GCNNNNNNNGC	8 cut(s)	140, 328, 337, 506, 530, 551, 653, 659
NciI	CCSGG	1 cut(s)	52
NcoI	CCATGG	2 cut(s)	19, 568
NdeII	GATC	7 cut(s)	69, 90, 204, 222, 243, 451, 670
NlaIII	CATG	8 cut(s)	23, 79, 190, 217, 239, 466, 524, 572
NlaIV	GGNNCC	1 cut(s)	460
NmeAIII	GCCGAG	1 cut(s)	496
NsbI	TGCGCA	1 cut(s)	218
NspI	RCATGY	1 cut(s)	239
PaeI	GCATGC	1 cut(s)	239
PctI	GAATGC	1 cut(s)	164
PfeI	GAWTC	1 cut(s)	210
Psp124BI	GAGCTC	1 cut(s)	50
Psp6I	CCWGG	1 cut(s)	675
PspFI	CCCAGC	2 cut(s)	385, 633
PspGI	CCWGG	1 cut(s)	675
PspN4I	GGNNCC	1 cut(s)	460
PspPI	GGNCC	1 cut(s)	468
PstI	CTGCAG	1 cut(s)	532
PsuI	RGATCY	2 cut(s)	222, 243
PvuII	CAGCTG	2 cut(s)	527, 617
RsaI	GTAC	2 cut(s)	290, 622
RsaNI	GTAC	2 cut(s)	289, 621
RseI	CAYNNNNRTG	1 cut(s)	567
SacI	GAGCTC	1 cut(s)	50
Sau3AI	GATC	7 cut(s)	69, 90, 204, 222, 243, 451, 670
Sau96I	GGNCC	1 cut(s)	468
ScrFI	CCNGG	2 cut(s)	52, 677
SduI	GDGCHC	2 cut(s)	50, 411
SetI	ASST	8 cut(s)	16, 50, 299, 366, 387, 426, 529, 619
SfaNI	GCATC	2 cut(s)	583, 689
SfcI	CTRYAG	1 cut(s)	528
SmiMI	CAYNNNNRTG	1 cut(s)	567
SpeI	ACTAGT	1 cut(s)	488
SphI	GCATGC	1 cut(s)	239
SsiI	CCGC	4 cut(s)	233, 430, 436, 509
SspMI	CTAG	1 cut(s)	489
SstI	GAGCTC	1 cut(s)	50
StyD4I	CCNGG	2 cut(s)	50, 675
StyI	CCWWGG	3 cut(s)	19, 258, 568
TaaI	ACNGT	3 cut(s)	63, 166, 182
TaiI	ACGT	1 cut(s)	366
TaqI	TCGA	1 cut(s)	393
TatI	WGTACW	1 cut(s)	288
TauI	GCSGC	1 cut(s)	512
TfiI	GAWTC	1 cut(s)	210
TscAI	CASTG	1 cut(s)	169
TspDTI	ATGAA	5 cut(s)	171, 175, 289, 497, 551
TspRI	CASTG	1 cut(s)	169
XceI	RCATGY	1 cut(s)	239
XspI	CTAG	1 cut(s)	489

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