Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0011508

Physical Location & Seq

Genomic Coordinates Reverse (-)

7565323 .. 7569256

Gene Structure 3934 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG092400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 930 bp

ATGCCCCTTAATGCTAATTGCATGTCGTGGAATCCAAGTGAACGGCATGTTTCACCGCCTTTATCGAAGGATGTGAGCTTTAAAGTGGAACTTCCACCACAACTTCATCATGATGCAAAGCATTTAGGACTTCGAGTACAACCTGACCCCGGATCATGCACAACACATTCAATTGGTCAATCTCAAGGTCAATGCCTTTCATCAGAATCTGGTGAGGATGAAACACGTGGTAAGGGTGTTGAAGGGACAATGAAGCCAGCTTTCTTGAGTAATCTAGATCTCATGCCGCATCCTCCTCAAGTTGGTTACAGCAATGTAGTGGGTCAATTCCATCCTTATGCTGATCCTTACTACGGAGGATTCCTGACTGCGTATGGACCACAAGCTATGTCCCCCATGGTTGGGATGGCACCTCCTCGAGTTCCATTGCCTCTCGATCTTCAAGAAGATGGACCCATTTATGTCAATGCAAAACAGTACCATGGAATCCTCCGAAGGAGACAGTCACGTGCAAAGTTGGAAGCTCAAAACAAACTTCTAAAAGCTCGAAAGCCATATCTTCATGAGTCGCGGCATCAACATGCACTGAACAGGGTAAGGGGTTCTGGTGGACGTTTTCTCAGCAAAAAAGAGCTCCAACAATATGATCAGAACCCCACCAGTAGCTCCAATGATCATGTTTCGGGGTCTATCAACTTGCATCAGAAGGATACACCAGAGAGAGAAAGTCATCACTCGGGAAGCAGTGATCTCATCACTTCTGTTGCAAGTCACTCGGGCATAACAAGTGTTTCCGGTACCAATGCCATCTTTCGGCAGCCAGATCGCAGGTTCTCAGGTGGCATGCCTCCCCACATGAGTGGAGCCATGCAATTCAGTGGGGGGCTTATGGGCAGTGGAAATCAGCACTGTGCTTCTTTTGTCCGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04612 ko05152 map04612 map05152

Pfam Domains

Protein Families

CBFB_NFYA

Protein Analysis

309

Amino Acids

33.8

Weight (kDa)

9.14

Isoelectric Point (pI)

54.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CBFB_NFYA	PF02045	152 - 206	5.1e-28	CCAAT-binding transcription factor (CBF-B/NF-YA) subunit B

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

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

Orthologous Genes (Group: OG0011508)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g08160 FvH4_1g08160 FvH4_1g08160
malus_domestica	MD02G1086200.v1.1 MD15G1213400.v1.1
prunus_persica	Prupe.7G203500_v2.0.a1
pyrus_communis	pycom02g06940 pycom15g18980
rosa_chinensis	RchiOBHm_Chr2g0094231
rosa_laevigata	RLG00000016468
rosa_multiflora	Rmu_sc0002193.1_g000009 Rmu_sc0006198.1_g000014
rosa_roxburghii	Rroxscaffold_2G00147350
rosa_rugosa	Rorug02G0042000 Rorug02G0042100 Rorug02G0042200
rosa_samantha	Rh2AG089800 Rh2BG089900 Rh2CG092400 Rh2DG088700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	819
Acc65I	GGTACC	1 cut(s)	797
AccB1I	GGYRCC	2 cut(s)	409, 797
AccII	CGCG	1 cut(s)	571
AciI	CCGC	3 cut(s)	56, 287, 571
AclWI	GGATC	2 cut(s)	160, 338
AcvI	CACGTG	2 cut(s)	227, 509
AfaI	GTAC	3 cut(s)	138, 479, 799
AfiI	CCNNNNNNNGG	6 cut(s)	149, 302, 353, 401, 402, 813
AflIII	ACRYGT	1 cut(s)	224
AgsI	TTSAA	3 cut(s)	171, 242, 443
AleI	CACNNNNGTG	1 cut(s)	858
AluBI	AGCT	7 cut(s)	78, 260, 386, 524, 545, 634, 666
AluI	AGCT	7 cut(s)	78, 260, 386, 524, 545, 634, 666
Alw21I	GWGCWC	1 cut(s)	636
Alw26I	GTCTC	1 cut(s)	493
AlwI	GGATC	2 cut(s)	160, 338
AlwNI	CAGNNNCTG	1 cut(s)	209
Ama87I	CYCGRG	3 cut(s)	417, 736, 775
ApeKI	GCWGC	1 cut(s)	817
Asp718I	GGTACC	1 cut(s)	797
AspS9I	GGNCC	2 cut(s)	377, 452
AsuC2I	CCSGG	1 cut(s)	150
AsuHPI	GGTGA	2 cut(s)	45, 224
AvaI	CYCGRG	3 cut(s)	417, 736, 775
AvaII	GGWCC	2 cut(s)	377, 452
BanI	GGYRCC	2 cut(s)	409, 797
BanII	GRGCYC	1 cut(s)	636
BbrPI	CACGTG	2 cut(s)	227, 509
Bbv12I	GWGCWC	1 cut(s)	636
BbvI	GCAGC	1 cut(s)	829
BccI	CCATC	4 cut(s)	339, 400, 443, 815
BceAI	ACGGC	1 cut(s)	59
BcgI	CGANNNNNNTGC	4 cut(s)	756, 790, 806, 840
BciVI	GTATCC	1 cut(s)	703
BclI	TGATCA	2 cut(s)	646, 673
BcnI	CCSGG	1 cut(s)	150
BcoDI	GTCTC	1 cut(s)	493
BfaI	CTAG	1 cut(s)	275
BfuAI	ACCTGC	1 cut(s)	819
BfuI	GTATCC	1 cut(s)	703
BglII	AGATCT	1 cut(s)	277
BisI	GCNGC	3 cut(s)	287, 572, 818
BlsI	GCNGC	3 cut(s)	288, 573, 819
Bme1390I	CCNGG	1 cut(s)	150
Bme18I	GGWCC	2 cut(s)	377, 452
BmeT110I	CYCGRG	3 cut(s)	417, 736, 775
BmgT120I	GGNCC	2 cut(s)	377, 452
BmiI	GGNNCC	4 cut(s)	411, 454, 799, 865
BmrFI	CCNGG	1 cut(s)	150
BmsI	GCATC	4 cut(s)	103, 298, 583, 709
BpuEI	CTTGAG	3 cut(s)	168, 282, 286
BpuMI	CCSGG	1 cut(s)	150
BsaAI	YACGTR	2 cut(s)	227, 509
BsaJI	CCNNGG	3 cut(s)	148, 396, 481
BsaWI	WCCGGW	2 cut(s)	794, 924
Bsc4I	CCNNNNNNNGG	6 cut(s)	149, 302, 353, 401, 402, 813
Bse1I	ACTGG	1 cut(s)	660
Bse3DI	GCAATG	2 cut(s)	319, 425
BseDI	CCNNGG	3 cut(s)	148, 396, 481
BseGI	GGATG	5 cut(s)	76, 223, 289, 331, 411
BseLI	CCNNNNNNNGG	6 cut(s)	149, 302, 353, 401, 402, 813
BseMI	GCAATG	2 cut(s)	319, 425
BseMII	CTCAG	2 cut(s)	634, 849
BseNI	ACTGG	1 cut(s)	660
BseRI	GAGGAG	2 cut(s)	285, 405
BseXI	GCAGC	1 cut(s)	829
Bsh1236I	CGCG	1 cut(s)	571
BshNI	GGYRCC	2 cut(s)	409, 797
BsiHKAI	GWGCWC	1 cut(s)	636
BsiHKCI	CYCGRG	3 cut(s)	417, 736, 775
BsiSI	CCGG	3 cut(s)	150, 795, 925
BslFI	GGGAC	2 cut(s)	259, 376
BslI	CCNNNNNNNGG	6 cut(s)	149, 302, 353, 401, 402, 813
BsmAI	GTCTC	1 cut(s)	493
BsmFI	GGGAC	2 cut(s)	259, 376
BsoBI	CYCGRG	3 cut(s)	417, 736, 775
Bsp1286I	GDGCHC	1 cut(s)	636
Bsp143I	GATC	8 cut(s)	152, 277, 343, 436, 646, 673, 748, 823
Bsp19I	CCATGG	2 cut(s)	396, 481
BspACI	CCGC	3 cut(s)	56, 287, 571
BspCNI	CTCAG	2 cut(s)	633, 848
BspFNI	CGCG	1 cut(s)	571
BspHI	TCATGA	2 cut(s)	109, 562
BspLI	GGNNCC	4 cut(s)	411, 454, 799, 865
BspMI	ACCTGC	1 cut(s)	819
BspPI	GGATC	2 cut(s)	160, 338
BspT107I	GGYRCC	2 cut(s)	409, 797
BsrDI	GCAATG	2 cut(s)	319, 425
BsrI	ACTGG	1 cut(s)	660
BssECI	CCNNGG	3 cut(s)	148, 396, 481
BssMI	GATC	8 cut(s)	152, 277, 343, 436, 646, 673, 748, 823
BssT1I	CCWWGG	2 cut(s)	396, 481
Bst4CI	ACNGT	3 cut(s)	477, 504, 911
BstBAI	YACGTR	2 cut(s)	227, 509
BstC8I	GCNNGC	2 cut(s)	258, 845
BstDEI	CTNAG	2 cut(s)	620, 835
BstDSI	CCRYGG	2 cut(s)	396, 481
BstF5I	GGATG	5 cut(s)	76, 223, 289, 331, 411
BstFNI	CGCG	1 cut(s)	571
BstKTI	GATC	8 cut(s)	155, 280, 346, 439, 649, 676, 751, 826
BstMAI	GTCTC	1 cut(s)	493
BstMBI	GATC	8 cut(s)	152, 277, 343, 436, 646, 673, 748, 823
BstNSI	RCATGY	4 cut(s)	25, 50, 584, 847
BstSCI	CCNGG	1 cut(s)	148
BstUI	CGCG	1 cut(s)	571
BstV1I	GCAGC	1 cut(s)	829
BstX2I	RGATCY	1 cut(s)	277
BstXI	CCANNNNNNTGG	1 cut(s)	860
BstYI	RGATCY	1 cut(s)	277
BsuI	GTATCC	1 cut(s)	703
BtgI	CCRYGG	2 cut(s)	396, 481
BtsCI	GGATG	5 cut(s)	76, 223, 289, 331, 411
BtsI	GCAGTG	2 cut(s)	751, 901
BtsIMutI	CAGTG	5 cut(s)	584, 751, 883, 901, 907
BveI	ACCTGC	1 cut(s)	819
Cac8I	GCNNGC	2 cut(s)	258, 845
CaiI	CAGNNNCTG	1 cut(s)	209
CciI	TCATGA	2 cut(s)	109, 562
Cfr13I	GGNCC	2 cut(s)	377, 452
Csp6I	GTAC	3 cut(s)	137, 478, 798
CviQI	GTAC	3 cut(s)	137, 478, 798
DdeI	CTNAG	2 cut(s)	620, 835
DpnI	GATC	8 cut(s)	154, 279, 345, 438, 648, 675, 750, 825
DpnII	GATC	8 cut(s)	152, 277, 343, 436, 646, 673, 748, 823
DraI	TTTAAA	1 cut(s)	82
Ecl136II	GAGCTC	1 cut(s)	634
Eco130I	CCWWGG	2 cut(s)	396, 481
Eco24I	GRGCYC	1 cut(s)	636
Eco47I	GGWCC	2 cut(s)	377, 452
Eco53kI	GAGCTC	1 cut(s)	634
Eco72I	CACGTG	2 cut(s)	227, 509
Eco88I	CYCGRG	3 cut(s)	417, 736, 775
EcoICRI	GAGCTC	1 cut(s)	634
EcoT14I	CCWWGG	2 cut(s)	396, 481
EcoT38I	GRGCYC	1 cut(s)	636
ErhI	CCWWGG	2 cut(s)	396, 481
FalI	AAGNNNNNCTT	2 cut(s)	75, 107
FaqI	GGGAC	2 cut(s)	259, 376
FbaI	TGATCA	2 cut(s)	646, 673
Fnu4HI	GCNGC	3 cut(s)	287, 572, 818
FokI	GGATG	5 cut(s)	83, 230, 276, 318, 418
FriOI	GRGCYC	1 cut(s)	636
Fsp4HI	GCNGC	3 cut(s)	287, 572, 818
FspBI	CTAG	1 cut(s)	275
GluI	GCNGC	3 cut(s)	287, 572, 818
HapII	CCGG	3 cut(s)	150, 795, 925
HinfI	GANTC	5 cut(s)	31, 206, 360, 486, 566
HpaII	CCGG	3 cut(s)	150, 795, 925
HphI	GGTGA	2 cut(s)	45, 224
Hpy166II	GTNNAC	2 cut(s)	41, 611
Hpy188I	TCNGA	4 cut(s)	205, 494, 651, 705
Hpy188III	TCNNGA	8 cut(s)	110, 265, 275, 364, 434, 443, 563, 738
Hpy8I	GTNNAC	2 cut(s)	41, 611
HpyAV	CCTTC	4 cut(s)	61, 236, 489, 700
HpyCH4III	ACNGT	3 cut(s)	477, 504, 911
HpyCH4IV	ACGT	3 cut(s)	226, 508, 613
HpyCH4V	TGCA	9 cut(s)	21, 116, 159, 470, 512, 584, 700, 767, 871
HpyF3I	CTNAG	2 cut(s)	620, 835
HpySE526I	ACGT	3 cut(s)	226, 508, 613
KpnI	GGTACC	1 cut(s)	801
Ksp22I	TGATCA	2 cut(s)	646, 673
Kzo9I	GATC	8 cut(s)	152, 277, 343, 436, 646, 673, 748, 823
LmnI	GCTCC	3 cut(s)	639, 671, 863
Lsp1109I	GCAGC	1 cut(s)	829
LweI	GCATC	4 cut(s)	103, 298, 583, 709
MaeI	CTAG	1 cut(s)	275
MaeII	ACGT	3 cut(s)	226, 508, 613
MaeIII	GTNAC	3 cut(s)	305, 504, 770
MalI	GATC	8 cut(s)	154, 279, 345, 438, 648, 675, 750, 825
MboI	GATC	8 cut(s)	152, 277, 343, 436, 646, 673, 748, 823
MboII	GAAGA	3 cut(s)	431, 458, 551
MfeI	CAATTG	1 cut(s)	171
MflI	RGATCY	1 cut(s)	277
MhlI	GDGCHC	1 cut(s)	636
MluCI	AATT	4 cut(s)	16, 171, 326, 872
MlyI	GAGTC	1 cut(s)	575
MmeI	TCCRAC	2 cut(s)	498, 661
MnlI	CCTC	9 cut(s)	208, 303, 306, 350, 423, 426, 441, 500, 858
MseI	TTAA	2 cut(s)	9, 81
MslI	CAYNNNNRTG	4 cut(s)	111, 336, 579, 858
MspI	CCGG	3 cut(s)	150, 795, 925
MspR9I	CCNGG	1 cut(s)	150
MunI	CAATTG	1 cut(s)	171
MvnI	CGCG	1 cut(s)	571
NciI	CCSGG	1 cut(s)	150
NcoI	CCATGG	2 cut(s)	396, 481
NdeII	GATC	8 cut(s)	152, 277, 343, 436, 646, 673, 748, 823
NlaIV	GGNNCC	4 cut(s)	411, 454, 799, 865
NmuCI	GTSAC	2 cut(s)	504, 770
NspI	RCATGY	4 cut(s)	25, 50, 584, 847
OliI	CACNNNNGTG	1 cut(s)	858
PaeI	GCATGC	1 cut(s)	847
PaeR7I	CTCGAG	1 cut(s)	417
PagI	TCATGA	2 cut(s)	109, 562
PfeI	GAWTC	4 cut(s)	31, 206, 360, 486
PkrI	GCNGC	3 cut(s)	288, 573, 819
PleI	GAGTC	1 cut(s)	574
PmaCI	CACGTG	2 cut(s)	227, 509
PmlI	CACGTG	2 cut(s)	227, 509
PpsI	GAGTC	1 cut(s)	574
Ppu21I	YACGTR	2 cut(s)	227, 509
Psp124BI	GAGCTC	1 cut(s)	636
PspCI	CACGTG	2 cut(s)	227, 509
PspN4I	GGNNCC	4 cut(s)	411, 454, 799, 865
PspPI	GGNCC	2 cut(s)	377, 452
PspXI	VCTCGAGB	1 cut(s)	417
PstNI	CAGNNNCTG	1 cut(s)	209
PsuI	RGATCY	1 cut(s)	277
RsaI	GTAC	3 cut(s)	138, 479, 799
RsaNI	GTAC	3 cut(s)	137, 478, 798
RseI	CAYNNNNRTG	4 cut(s)	111, 336, 579, 858
SacI	GAGCTC	1 cut(s)	636
SaqAI	TTAA	2 cut(s)	9, 81
SatI	GCNGC	3 cut(s)	287, 572, 818
Sau3AI	GATC	8 cut(s)	152, 277, 343, 436, 646, 673, 748, 823
Sau96I	GGNCC	2 cut(s)	377, 452
SchI	GAGTC	1 cut(s)	575
ScrFI	CCNGG	1 cut(s)	150
SduI	GDGCHC	1 cut(s)	636
SfaNI	GCATC	4 cut(s)	103, 298, 583, 709
Sfr274I	CTCGAG	1 cut(s)	417
SinI	GGWCC	2 cut(s)	377, 452
SlaI	CTCGAG	1 cut(s)	417
SmiMI	CAYNNNNRTG	4 cut(s)	111, 336, 579, 858
SmlI	CTYRAG	4 cut(s)	183, 265, 297, 417
SmoI	CTYRAG	4 cut(s)	183, 265, 297, 417
SphI	GCATGC	1 cut(s)	847
Sse9I	AATT	4 cut(s)	16, 171, 326, 872
SsiI	CCGC	3 cut(s)	56, 287, 571
SspMI	CTAG	1 cut(s)	275
SstI	GAGCTC	1 cut(s)	636
StyD4I	CCNGG	1 cut(s)	148
StyI	CCWWGG	2 cut(s)	396, 481
TaaI	ACNGT	3 cut(s)	477, 504, 911
TaiI	ACGT	3 cut(s)	229, 511, 616
TaqI	TCGA	5 cut(s)	65, 133, 418, 435, 547
TasI	AATT	4 cut(s)	16, 171, 326, 872
TatI	WGTACW	1 cut(s)	136
TauI	GCSGC	2 cut(s)	289, 574
TfiI	GAWTC	4 cut(s)	31, 206, 360, 486
Tru1I	TTAA	2 cut(s)	9, 81
Tru9I	TTAA	2 cut(s)	9, 81
TscAI	CASTG	5 cut(s)	591, 751, 883, 901, 914
TseFI	GTSAC	2 cut(s)	504, 770
TseI	GCWGC	1 cut(s)	817
Tsp45I	GTSAC	2 cut(s)	504, 770
TspDTI	ATGAA	5 cut(s)	95, 189, 234, 266, 551
TspGWI	ACGGA	1 cut(s)	369
TspRI	CASTG	5 cut(s)	591, 751, 883, 901, 914
VpaK11BI	GGWCC	2 cut(s)	377, 452
XbaI	TCTAGA	1 cut(s)	274
XceI	RCATGY	4 cut(s)	25, 50, 584, 847
XcmI	CCANNNNNNNNNTGG	1 cut(s)	403
XhoI	CTCGAG	1 cut(s)	417
XspI	CTAG	1 cut(s)	275

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