Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0003710

Physical Location & Seq

Genomic Coordinates Reverse (-)

55614231 .. 55617280

Gene Structure 3050 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG322200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 606 bp

ATGGTCGTCAGATTTCTCTCCAAAACGCGCGAAATACAAACCCACCGCCTCTCTCTCTACACAGGGATTGTTCTGATAATGGCGGAGGCACCGACGAGTCCGGCTGGCGGGAGCCACGAGAGCGGCGGCGAGCAAAGCCCGCAGAACGGGAGCAGCAGCAACGTGAGGGAGCAGGACAGGTACCTCCCAATCGCGAACATCAGTCGGATTATGAAGAAGGCGCTGCCGCAAAACGGCAAGATCGCCAAGGACGCTAAGGACACTGTTCAGGAATGCGTCTCCGAATTCATCAGCTTCGTCACCAGCGAGGCCAGCGATAAGTGCCAGAAGGAGAAGAGGAAGACGATTAACGGTGACGATTTGCTGTGGGCGATGGCTACGTTAGGGTTTGAGGACTATATTGAGCCGCTCAGGATTTACTTGGCTAGGTACAGGGAGGGTGATGCAAAGGGTTCTGCAAGGGGTGGAGAAGGGTCTGCTAAAGGGAATCCTGTTGGAGCTATGACTGGGCAAAATTCACAGTTTGTTCATCAGCCACCACTGAACTACGTCAATAACCAAGAGGATTATTATGTGCCTTTGAACAATATGGGGAATGGAAATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko04612 ko05152 ko05166 map04612 map05152 map05166

Pfam Domains

Protein Families

CBFD_NFYB_HMF

Protein Analysis

201

Amino Acids

22.07

Weight (kDa)

6.84

Isoelectric Point (pI)

39.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Histone	PF00125	51 - 125	6.8e-06	Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF	PF00808	61 - 125	3.9e-28	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

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Publication-ready

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

Orthologous Genes (Group: OG0003710)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G38880 AT2G38880 AT2G38880 AT2G38880 AT2G38880 AT2G38880 AT2G38880 AT2G38880 AT2G38880 AT2G38880 AT2G38880
fragaria_vesca	FvH4_7g20270 FvH4_7g20270 FvH4_7g20270 FvH4_7g20270
malus_domestica	MD01G1112400.v1.1 MD07G1180200.v1.1
prunus_persica	Prupe.2G219500_v2.0.a1 Prupe.2G219500_v2.0.a1 Prupe.2G219500_v2.0.a1 Prupe.2G219500_v2.0.a1
pyrus_communis	pycom01g14090 pycom07g17350
rosa_chinensis	RchiOBHm_Chr1g0364211
rosa_multiflora	Rmu_sc0000071.1_g000003
rosa_roxburghii	Rroxscaffold_4G00292560
rosa_rugosa	Rorug01G0314800 Rorug01G0314900 Rorug01G0315000
rosa_samantha	Rh1AG322200 Rh1BG285000 Rh1CG301500 Rh1DG316400
rosa_wichuraiana	Rw1G028540

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	180
AccB1I	GGYRCC	2 cut(s)	88, 180
AccBSI	CCGCTC	2 cut(s)	123, 409
AccII	CGCG	3 cut(s)	28, 30, 194
AciI	CCGC	8 cut(s)	46, 83, 108, 123, 126, 140, 227, 407
AcsI	RAATTY	2 cut(s)	284, 514
AfaI	GTAC	2 cut(s)	182, 431
AfiI	CCNNNNNNNGG	3 cut(s)	107, 146, 233
AgsI	TTSAA	1 cut(s)	583
AluBI	AGCT	2 cut(s)	294, 500
AluI	AGCT	2 cut(s)	294, 500
Alw26I	GTCTC	1 cut(s)	283
AoxI	GGCC	1 cut(s)	309
ApeKI	GCWGC	3 cut(s)	153, 156, 223
ApoI	RAATTY	2 cut(s)	284, 514
Asp718I	GGTACC	1 cut(s)	180
AspLEI	GCGC	2 cut(s)	30, 223
AsuHPI	GGTGA	3 cut(s)	292, 365, 452
BanI	GGYRCC	2 cut(s)	88, 180
BauI	CACGAG	1 cut(s)	116
BbsI	GAAGAC	1 cut(s)	347
BbvI	GCAGC	3 cut(s)	165, 168, 210
BccI	CCATC	1 cut(s)	367
BceAI	ACGGC	1 cut(s)	250
BcoDI	GTCTC	1 cut(s)	283
BfaI	CTAG	1 cut(s)	426
BfoI	RGCGCY	1 cut(s)	224
BisI	GCNGC	7 cut(s)	124, 127, 154, 157, 224, 227, 407
BlsI	GCNGC	7 cut(s)	125, 128, 155, 158, 225, 228, 408
BmiI	GGNNCC	3 cut(s)	90, 113, 182
BmrI	ACTGGG	1 cut(s)	516
BmsI	GCATC	1 cut(s)	433
BmuI	ACTGGG	1 cut(s)	516
BpiI	GAAGAC	1 cut(s)	347
Bpu10I	CCTNAGC	2 cut(s)	255, 410
BsaJI	CCNNGG	1 cut(s)	246
Bsc4I	CCNNNNNNNGG	3 cut(s)	107, 146, 233
Bse1I	ACTGG	1 cut(s)	511
BseDI	CCNNGG	1 cut(s)	246
BseLI	CCNNNNNNNGG	3 cut(s)	107, 146, 233
BseMII	CTCAG	1 cut(s)	424
BseNI	ACTGG	1 cut(s)	511
BseXI	GCAGC	3 cut(s)	165, 168, 210
Bsh1236I	CGCG	3 cut(s)	28, 30, 194
BshFI	GGCC	1 cut(s)	311
BshNI	GGYRCC	2 cut(s)	88, 180
BsiSI	CCGG	1 cut(s)	101
BslI	CCNNNNNNNGG	3 cut(s)	107, 146, 233
BsmAI	GTCTC	1 cut(s)	283
BsmBI	CGTCTC	1 cut(s)	283
BsmI	GAATGC	1 cut(s)	278
BsnI	GGCC	1 cut(s)	311
Bsp143I	GATC	1 cut(s)	240
Bsp68I	TCGCGA	1 cut(s)	194
BspACI	CCGC	8 cut(s)	46, 83, 108, 123, 126, 140, 227, 407
BspANI	GGCC	1 cut(s)	311
BspCNI	CTCAG	1 cut(s)	423
BspFNI	CGCG	3 cut(s)	28, 30, 194
BspLI	GGNNCC	3 cut(s)	90, 113, 182
BspT107I	GGYRCC	2 cut(s)	88, 180
BsrBI	CCGCTC	2 cut(s)	123, 409
BsrI	ACTGG	1 cut(s)	511
BssECI	CCNNGG	1 cut(s)	246
BssMI	GATC	1 cut(s)	240
BssSI	CACGAG	1 cut(s)	116
BssT1I	CCWWGG	1 cut(s)	246
Bst2BI	CACGAG	1 cut(s)	116
Bst4CI	ACNGT	3 cut(s)	265, 353, 522
Bst6I	CTCTTC	1 cut(s)	329
BstC8I	GCNNGC	4 cut(s)	106, 131, 140, 313
BstDEI	CTNAG	2 cut(s)	255, 410
BstFNI	CGCG	3 cut(s)	28, 30, 194
BstH2I	RGCGCY	1 cut(s)	224
BstHHI	GCGC	2 cut(s)	30, 223
BstKTI	GATC	1 cut(s)	243
BstMAI	GTCTC	1 cut(s)	283
BstMBI	GATC	1 cut(s)	240
BstMWI	GCNNNNNNNGC	6 cut(s)	120, 135, 139, 251, 312, 321
BstUI	CGCG	3 cut(s)	28, 30, 194
BstV1I	GCAGC	3 cut(s)	165, 168, 210
BstV2I	GAAGAC	1 cut(s)	347
BsuRI	GGCC	1 cut(s)	311
BtgZI	GCGATG	1 cut(s)	386
BtsIMutI	CAGTG	2 cut(s)	261, 539
BtuMI	TCGCGA	1 cut(s)	194
Cac8I	GCNNGC	4 cut(s)	106, 131, 140, 313
CfoI	GCGC	2 cut(s)	30, 223
CseI	GACGC	2 cut(s)	260, 265
Csp6I	GTAC	2 cut(s)	181, 430
CviQI	GTAC	2 cut(s)	181, 430
DdeI	CTNAG	2 cut(s)	255, 410
DpnI	GATC	1 cut(s)	242
DpnII	GATC	1 cut(s)	240
Eam1104I	CTCTTC	1 cut(s)	329
EarI	CTCTTC	1 cut(s)	329
EciI	GGCGGA	1 cut(s)	98
Eco130I	CCWWGG	1 cut(s)	246
EcoRI	GAATTC	1 cut(s)	284
EcoT14I	CCWWGG	1 cut(s)	246
ErhI	CCWWGG	1 cut(s)	246
Esp3I	CGTCTC	1 cut(s)	283
FaiI	YATR	5 cut(s)	212, 399, 503, 573, 590
FauI	CCCGC	2 cut(s)	101, 147
Fnu4HI	GCNGC	7 cut(s)	124, 127, 154, 157, 224, 227, 407
Fsp4HI	GCNGC	7 cut(s)	124, 127, 154, 157, 224, 227, 407
FspBI	CTAG	1 cut(s)	426
GlaI	GCGC	2 cut(s)	29, 222
GluI	GCNGC	7 cut(s)	124, 127, 154, 157, 224, 227, 407
HaeII	RGCGCY	1 cut(s)	224
HaeIII	GGCC	1 cut(s)	311
HapII	CCGG	1 cut(s)	101
HgaI	GACGC	2 cut(s)	260, 265
HhaI	GCGC	2 cut(s)	30, 223
Hin6I	GCGC	2 cut(s)	28, 221
HinP1I	GCGC	2 cut(s)	28, 221
HinfI	GANTC	2 cut(s)	97, 487
HpaII	CCGG	1 cut(s)	101
HphI	GGTGA	3 cut(s)	292, 365, 452
Hpy188I	TCNGA	4 cut(s)	11, 75, 207, 283
Hpy188III	TCNNGA	3 cut(s)	193, 269, 412
Hpy99I	CGWCG	1 cut(s)	97
HpyAV	CCTTC	3 cut(s)	211, 322, 464
HpyCH4III	ACNGT	3 cut(s)	265, 353, 522
HpyCH4IV	ACGT	3 cut(s)	162, 380, 549
HpyCH4V	TGCA	2 cut(s)	446, 458
HpyF10VI	GCNNNNNNNGC	6 cut(s)	120, 135, 139, 251, 312, 321
HpyF3I	CTNAG	2 cut(s)	255, 410
HpySE526I	ACGT	3 cut(s)	162, 380, 549
HspAI	GCGC	2 cut(s)	28, 221
KpnI	GGTACC	1 cut(s)	184
Kzo9I	GATC	1 cut(s)	240
LmnI	GCTCC	4 cut(s)	111, 150, 169, 497
Lsp1109I	GCAGC	3 cut(s)	165, 168, 210
LweI	GCATC	1 cut(s)	433
MaeI	CTAG	1 cut(s)	426
MaeII	ACGT	3 cut(s)	162, 380, 549
MaeIII	GTNAC	2 cut(s)	298, 353
MalI	GATC	1 cut(s)	242
MbiI	CCGCTC	2 cut(s)	123, 409
MboI	GATC	1 cut(s)	240
MboII	GAAGA	3 cut(s)	226, 346, 352
MluCI	AATT	3 cut(s)	284, 514, 601
MlyI	GAGTC	1 cut(s)	106
MmeI	TCCRAC	2 cut(s)	185, 475
MnlI	CCTC	9 cut(s)	59, 79, 159, 194, 301, 330, 385, 430, 556
MseI	TTAA	1 cut(s)	348
MspI	CCGG	1 cut(s)	101
Mva1269I	GAATGC	1 cut(s)	278
MvnI	CGCG	3 cut(s)	28, 30, 194
MwoI	GCNNNNNNNGC	6 cut(s)	120, 135, 139, 251, 312, 321
NdeII	GATC	1 cut(s)	240
NlaIV	GGNNCC	3 cut(s)	90, 113, 182
NmuCI	GTSAC	2 cut(s)	298, 353
NruI	TCGCGA	1 cut(s)	194
PcsI	WCGNNNNNNNCGW	1 cut(s)	303
PctI	GAATGC	1 cut(s)	278
PfeI	GAWTC	1 cut(s)	487
PkrI	GCNGC	7 cut(s)	125, 128, 155, 158, 225, 228, 408
PleI	GAGTC	1 cut(s)	105
PpsI	GAGTC	1 cut(s)	105
PspN4I	GGNNCC	3 cut(s)	90, 113, 182
RruI	TCGCGA	1 cut(s)	194
RsaI	GTAC	2 cut(s)	182, 431
RsaNI	GTAC	2 cut(s)	181, 430
SaqAI	TTAA	1 cut(s)	348
SatI	GCNGC	7 cut(s)	124, 127, 154, 157, 224, 227, 407
Sau3AI	GATC	1 cut(s)	240
SchI	GAGTC	1 cut(s)	106
SetI	ASST	8 cut(s)	165, 182, 186, 296, 383, 431, 502, 552
SfaNI	GCATC	1 cut(s)	433
Sse9I	AATT	3 cut(s)	284, 514, 601
SsiI	CCGC	8 cut(s)	46, 83, 108, 123, 126, 140, 227, 407
SspMI	CTAG	1 cut(s)	426
StyI	CCWWGG	1 cut(s)	246
TaaI	ACNGT	3 cut(s)	265, 353, 522
TaiI	ACGT	3 cut(s)	165, 383, 552
TasI	AATT	3 cut(s)	284, 514, 601
TauI	GCSGC	4 cut(s)	126, 129, 229, 409
TfiI	GAWTC	1 cut(s)	487
Tru1I	TTAA	1 cut(s)	348
Tru9I	TTAA	1 cut(s)	348
TscAI	CASTG	2 cut(s)	268, 546
TseFI	GTSAC	2 cut(s)	298, 353
TseI	GCWGC	3 cut(s)	153, 156, 223
Tsp45I	GTSAC	2 cut(s)	298, 353
TspDTI	ATGAA	3 cut(s)	227, 277, 518
TspRI	CASTG	2 cut(s)	268, 546
XapI	RAATTY	2 cut(s)	284, 514
XspI	CTAG	1 cut(s)	426

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