Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0011508

Physical Location & Seq

Genomic Coordinates Forward (+)

85215045 .. 85218859

Gene Structure 3815 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00147350.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1026 bp

ATGATGGTGGTGATGATGGAGGACACATTGTTAGAGTTAGCAATACCAACTCATAACTTGGAAAAGAGAATTTTCGATCAAAGTTCCATCCAGTCAATGCCCCTTAATGCTAATTGCATGTCGTGGAATCCAAGTGAACGGCAAGTTTCACCGCCTTTATCGAAGGATGTGAGCTTTAAAGTGGAACTTCCACCACAACTTCATCATGATGCAAAGCATTTAGGACTTCGAGTACAACCTGACCCCGGATCATGCACAACACATTCAATTGGTCAATCTCAAGGTCAATGCCTTTCATCAGAATCTGGTGAGGATGAAACACGTGGTAAGGGTGTTGAAGGGACAATGAAGCCAGCTTTCTTGAGTAATCTAGATCTCATGCCGCATCCGCCTCAAGTTGGTTACAGCAATGTAGTGGGGCAATTCCATCCTTATGCTGATCCTTACTATGGTGGATTCCTGACTGCGTATGGACCACAGGCTATGCCCCCCATGGTTGGGATGGCACCTCCTCGAGTTCCATTGCCTCTCGATCTTCAAGAAGATGGACCCATTTATGTCAATGCAAAACAGTACCATGGAATCCTCCGAAGGAGACAGTCACGTGCAAAGTTGGAAGCTCAAAACAAACTTCTAAAAGCTCGAAAGCCATATCTTCATGAGTCTCGGCATCAACATGCACTGAACAGGGTGAGGGGTTCTGGTGGACGTTTTCTCAGCAAAAAAGAGCTCCAACAATATGATCAGAACCCCACCAGTAGCTCCAATGATCATGTTTCGGGGTCTATCAACTTGCATCAGAAGGATACACCAGAGAGAGAAAGTCATCACTCGGGAAGCAGTGATCTAGTCACTTCTGTTGCAAGTCACTCGGGCATAACAAGTGTTTCGGGTACCAATGCTATCTTTCGGCAGCCAGATCGCAGGTTCTCAGGTGGCATGTCTCCCCACATGAGTGGAGCCATGCAATTCAGTGGGGGGCTTATGGGCAGTGGAAATCAGCACTGTGCTTCTTTTGTCCGGTGA

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

341

Amino Acids

37.48

Weight (kDa)

8.61

Isoelectric Point (pI)

55.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CBFB_NFYA	PF02045	184 - 238	6e-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

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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)	915
Acc65I	GGTACC	1 cut(s)	893
AccB1I	GGYRCC	2 cut(s)	505, 893
AciI	CCGC	3 cut(s)	152, 383, 389
AclWI	GGATC	2 cut(s)	256, 434
AcsI	RAATTY	1 cut(s)	69
AcvI	CACGTG	2 cut(s)	323, 605
AfaI	GTAC	3 cut(s)	234, 575, 895
AfiI	CCNNNNNNNGG	5 cut(s)	245, 398, 449, 497, 498
AflIII	ACRYGT	1 cut(s)	320
AgsI	TTSAA	3 cut(s)	267, 338, 539
AleI	CACNNNNGTG	1 cut(s)	954
AluBI	AGCT	6 cut(s)	174, 356, 620, 641, 730, 762
AluI	AGCT	6 cut(s)	174, 356, 620, 641, 730, 762
Alw21I	GWGCWC	1 cut(s)	732
Alw26I	GTCTC	3 cut(s)	589, 669, 948
AlwI	GGATC	2 cut(s)	256, 434
AlwNI	CAGNNNCTG	1 cut(s)	305
Ama87I	CYCGRG	3 cut(s)	513, 832, 871
ApeKI	GCWGC	1 cut(s)	913
ApoI	RAATTY	1 cut(s)	69
Asp718I	GGTACC	1 cut(s)	893
AspS9I	GGNCC	2 cut(s)	473, 548
AsuC2I	CCSGG	1 cut(s)	246
AsuHPI	GGTGA	4 cut(s)	22, 141, 320, 703
AvaI	CYCGRG	3 cut(s)	513, 832, 871
AvaII	GGWCC	2 cut(s)	473, 548
BanI	GGYRCC	2 cut(s)	505, 893
BanII	GRGCYC	1 cut(s)	732
BbrPI	CACGTG	2 cut(s)	323, 605
Bbv12I	GWGCWC	1 cut(s)	732
BbvI	GCAGC	1 cut(s)	925
BccI	CCATC	5 cut(s)	10, 95, 435, 496, 539
BceAI	ACGGC	1 cut(s)	155
BcgI	CGANNNNNNTGC	4 cut(s)	852, 886, 902, 936
BciVI	GTATCC	1 cut(s)	799
BclI	TGATCA	2 cut(s)	742, 769
BcnI	CCSGG	1 cut(s)	246
BcoDI	GTCTC	3 cut(s)	589, 669, 948
BfaI	CTAG	2 cut(s)	371, 848
BfuAI	ACCTGC	1 cut(s)	915
BfuI	GTATCC	1 cut(s)	799
BglII	AGATCT	1 cut(s)	373
BisI	GCNGC	2 cut(s)	383, 914
BlsI	GCNGC	2 cut(s)	384, 915
Bme1390I	CCNGG	1 cut(s)	246
Bme18I	GGWCC	2 cut(s)	473, 548
BmeT110I	CYCGRG	3 cut(s)	513, 832, 871
BmgT120I	GGNCC	2 cut(s)	473, 548
BmiI	GGNNCC	4 cut(s)	507, 550, 895, 961
BmrFI	CCNGG	1 cut(s)	246
BmsI	GCATC	4 cut(s)	199, 394, 679, 805
BpuEI	CTTGAG	3 cut(s)	264, 378, 382
BpuMI	CCSGG	1 cut(s)	246
BsaAI	YACGTR	2 cut(s)	323, 605
BsaJI	CCNNGG	3 cut(s)	244, 492, 577
BsaWI	WCCGGW	1 cut(s)	1020
Bsc4I	CCNNNNNNNGG	5 cut(s)	245, 398, 449, 497, 498
Bse1I	ACTGG	2 cut(s)	91, 756
Bse3DI	GCAATG	2 cut(s)	415, 521
BseDI	CCNNGG	3 cut(s)	244, 492, 577
BseGI	GGATG	6 cut(s)	87, 172, 319, 385, 427, 507
BseLI	CCNNNNNNNGG	5 cut(s)	245, 398, 449, 497, 498
BseMI	GCAATG	2 cut(s)	415, 521
BseMII	CTCAG	2 cut(s)	730, 945
BseNI	ACTGG	2 cut(s)	91, 756
BseRI	GAGGAG	1 cut(s)	501
BseXI	GCAGC	1 cut(s)	925
BshNI	GGYRCC	2 cut(s)	505, 893
BsiHKAI	GWGCWC	1 cut(s)	732
BsiHKCI	CYCGRG	3 cut(s)	513, 832, 871
BsiSI	CCGG	2 cut(s)	246, 1021
BslFI	GGGAC	1 cut(s)	355
BslI	CCNNNNNNNGG	5 cut(s)	245, 398, 449, 497, 498
BsmAI	GTCTC	3 cut(s)	589, 669, 948
BsmFI	GGGAC	1 cut(s)	355
BsoBI	CYCGRG	3 cut(s)	513, 832, 871
Bsp1286I	GDGCHC	1 cut(s)	732
Bsp143I	GATC	9 cut(s)	76, 248, 373, 439, 532, 742, 769, 844, 919
Bsp19I	CCATGG	2 cut(s)	492, 577
BspACI	CCGC	3 cut(s)	152, 383, 389
BspCNI	CTCAG	2 cut(s)	729, 944
BspHI	TCATGA	2 cut(s)	205, 658
BspLI	GGNNCC	4 cut(s)	507, 550, 895, 961
BspMI	ACCTGC	1 cut(s)	915
BspPI	GGATC	2 cut(s)	256, 434
BspT107I	GGYRCC	2 cut(s)	505, 893
BsrDI	GCAATG	2 cut(s)	415, 521
BsrI	ACTGG	2 cut(s)	91, 756
BssECI	CCNNGG	3 cut(s)	244, 492, 577
BssMI	GATC	9 cut(s)	76, 248, 373, 439, 532, 742, 769, 844, 919
BssT1I	CCWWGG	2 cut(s)	492, 577
Bst4CI	ACNGT	3 cut(s)	573, 600, 1007
BstBAI	YACGTR	2 cut(s)	323, 605
BstC8I	GCNNGC	1 cut(s)	354
BstDEI	CTNAG	2 cut(s)	716, 931
BstDSI	CCRYGG	2 cut(s)	492, 577
BstF5I	GGATG	6 cut(s)	87, 172, 319, 385, 427, 507
BstKTI	GATC	9 cut(s)	79, 251, 376, 442, 535, 745, 772, 847, 922
BstMAI	GTCTC	3 cut(s)	589, 669, 948
BstMBI	GATC	9 cut(s)	76, 248, 373, 439, 532, 742, 769, 844, 919
BstMWI	GCNNNNNNNGC	1 cut(s)	388
BstNSI	RCATGY	3 cut(s)	121, 680, 943
BstSCI	CCNGG	1 cut(s)	244
BstV1I	GCAGC	1 cut(s)	925
BstX2I	RGATCY	1 cut(s)	373
BstXI	CCANNNNNNTGG	1 cut(s)	956
BstYI	RGATCY	1 cut(s)	373
BsuI	GTATCC	1 cut(s)	799
BtgI	CCRYGG	2 cut(s)	492, 577
BtsCI	GGATG	6 cut(s)	87, 172, 319, 385, 427, 507
BtsI	GCAGTG	2 cut(s)	847, 997
BtsIMutI	CAGTG	5 cut(s)	680, 847, 979, 997, 1003
BveI	ACCTGC	1 cut(s)	915
Cac8I	GCNNGC	1 cut(s)	354
CaiI	CAGNNNCTG	1 cut(s)	305
CciI	TCATGA	2 cut(s)	205, 658
Cfr13I	GGNCC	2 cut(s)	473, 548
Csp6I	GTAC	3 cut(s)	233, 574, 894
CviQI	GTAC	3 cut(s)	233, 574, 894
DdeI	CTNAG	2 cut(s)	716, 931
DpnI	GATC	9 cut(s)	78, 250, 375, 441, 534, 744, 771, 846, 921
DpnII	GATC	9 cut(s)	76, 248, 373, 439, 532, 742, 769, 844, 919
DraI	TTTAAA	1 cut(s)	178
EciI	GGCGGA	1 cut(s)	378
Ecl136II	GAGCTC	1 cut(s)	730
Eco130I	CCWWGG	2 cut(s)	492, 577
Eco24I	GRGCYC	1 cut(s)	732
Eco47I	GGWCC	2 cut(s)	473, 548
Eco53kI	GAGCTC	1 cut(s)	730
Eco72I	CACGTG	2 cut(s)	323, 605
Eco88I	CYCGRG	3 cut(s)	513, 832, 871
EcoICRI	GAGCTC	1 cut(s)	730
EcoT14I	CCWWGG	2 cut(s)	492, 577
EcoT38I	GRGCYC	1 cut(s)	732
ErhI	CCWWGG	2 cut(s)	492, 577
FalI	AAGNNNNNCTT	2 cut(s)	171, 203
FaqI	GGGAC	1 cut(s)	355
FbaI	TGATCA	2 cut(s)	742, 769
Fnu4HI	GCNGC	2 cut(s)	383, 914
FokI	GGATG	6 cut(s)	74, 179, 326, 372, 414, 514
FriOI	GRGCYC	1 cut(s)	732
Fsp4HI	GCNGC	2 cut(s)	383, 914
FspBI	CTAG	2 cut(s)	371, 848
GluI	GCNGC	2 cut(s)	383, 914
HapII	CCGG	2 cut(s)	246, 1021
HinfI	GANTC	5 cut(s)	127, 302, 456, 582, 662
HpaII	CCGG	2 cut(s)	246, 1021
HphI	GGTGA	4 cut(s)	22, 141, 320, 703
Hpy166II	GTNNAC	2 cut(s)	137, 707
Hpy188I	TCNGA	4 cut(s)	301, 590, 747, 801
Hpy188III	TCNNGA	8 cut(s)	206, 361, 371, 460, 530, 539, 659, 834
Hpy8I	GTNNAC	2 cut(s)	137, 707
HpyAV	CCTTC	4 cut(s)	157, 332, 585, 796
HpyCH4III	ACNGT	3 cut(s)	573, 600, 1007
HpyCH4IV	ACGT	3 cut(s)	322, 604, 709
HpyCH4V	TGCA	9 cut(s)	117, 212, 255, 566, 608, 680, 796, 863, 967
HpyF10VI	GCNNNNNNNGC	1 cut(s)	388
HpyF3I	CTNAG	2 cut(s)	716, 931
HpySE526I	ACGT	3 cut(s)	322, 604, 709
KpnI	GGTACC	1 cut(s)	897
Ksp22I	TGATCA	2 cut(s)	742, 769
Kzo9I	GATC	9 cut(s)	76, 248, 373, 439, 532, 742, 769, 844, 919
LmnI	GCTCC	3 cut(s)	735, 767, 959
Lsp1109I	GCAGC	1 cut(s)	925
LweI	GCATC	4 cut(s)	199, 394, 679, 805
MaeI	CTAG	2 cut(s)	371, 848
MaeII	ACGT	3 cut(s)	322, 604, 709
MaeIII	GTNAC	4 cut(s)	401, 600, 850, 866
MalI	GATC	9 cut(s)	78, 250, 375, 441, 534, 744, 771, 846, 921
MboI	GATC	9 cut(s)	76, 248, 373, 439, 532, 742, 769, 844, 919
MboII	GAAGA	3 cut(s)	527, 554, 647
MfeI	CAATTG	1 cut(s)	267
MflI	RGATCY	1 cut(s)	373
MhlI	GDGCHC	1 cut(s)	732
MluCI	AATT	5 cut(s)	69, 112, 267, 422, 968
MlyI	GAGTC	1 cut(s)	671
MmeI	TCCRAC	2 cut(s)	594, 757
MnlI	CCTC	8 cut(s)	13, 304, 402, 519, 522, 537, 596, 687
MseI	TTAA	2 cut(s)	105, 177
MslI	CAYNNNNRTG	4 cut(s)	207, 432, 675, 954
MspI	CCGG	2 cut(s)	246, 1021
MspR9I	CCNGG	1 cut(s)	246
MunI	CAATTG	1 cut(s)	267
MwoI	GCNNNNNNNGC	1 cut(s)	388
NciI	CCSGG	1 cut(s)	246
NcoI	CCATGG	2 cut(s)	492, 577
NdeII	GATC	9 cut(s)	76, 248, 373, 439, 532, 742, 769, 844, 919
NlaIV	GGNNCC	4 cut(s)	507, 550, 895, 961
NmeAIII	GCCGAG	1 cut(s)	646
NmuCI	GTSAC	3 cut(s)	600, 850, 866
NspI	RCATGY	3 cut(s)	121, 680, 943
OliI	CACNNNNGTG	1 cut(s)	954
PaeR7I	CTCGAG	1 cut(s)	513
PagI	TCATGA	2 cut(s)	205, 658
PfeI	GAWTC	4 cut(s)	127, 302, 456, 582
PkrI	GCNGC	2 cut(s)	384, 915
PleI	GAGTC	1 cut(s)	670
PmaCI	CACGTG	2 cut(s)	323, 605
PmlI	CACGTG	2 cut(s)	323, 605
PpsI	GAGTC	1 cut(s)	670
Ppu21I	YACGTR	2 cut(s)	323, 605
Psp124BI	GAGCTC	1 cut(s)	732
PspCI	CACGTG	2 cut(s)	323, 605
PspN4I	GGNNCC	4 cut(s)	507, 550, 895, 961
PspPI	GGNCC	2 cut(s)	473, 548
PspXI	VCTCGAGB	1 cut(s)	513
PstNI	CAGNNNCTG	1 cut(s)	305
PsuI	RGATCY	1 cut(s)	373
RsaI	GTAC	3 cut(s)	234, 575, 895
RsaNI	GTAC	3 cut(s)	233, 574, 894
RseI	CAYNNNNRTG	4 cut(s)	207, 432, 675, 954
SacI	GAGCTC	1 cut(s)	732
SaqAI	TTAA	2 cut(s)	105, 177
SatI	GCNGC	2 cut(s)	383, 914
Sau3AI	GATC	9 cut(s)	76, 248, 373, 439, 532, 742, 769, 844, 919
Sau96I	GGNCC	2 cut(s)	473, 548
SchI	GAGTC	1 cut(s)	671
ScrFI	CCNGG	1 cut(s)	246
SduI	GDGCHC	1 cut(s)	732
SfaNI	GCATC	4 cut(s)	199, 394, 679, 805
Sfr274I	CTCGAG	1 cut(s)	513
SinI	GGWCC	2 cut(s)	473, 548
SlaI	CTCGAG	1 cut(s)	513
SmiMI	CAYNNNNRTG	4 cut(s)	207, 432, 675, 954
SmlI	CTYRAG	4 cut(s)	279, 361, 393, 513
SmoI	CTYRAG	4 cut(s)	279, 361, 393, 513
Sse9I	AATT	5 cut(s)	69, 112, 267, 422, 968
SsiI	CCGC	3 cut(s)	152, 383, 389
SspMI	CTAG	2 cut(s)	371, 848
SstI	GAGCTC	1 cut(s)	732
StyD4I	CCNGG	1 cut(s)	244
StyI	CCWWGG	2 cut(s)	492, 577
TaaI	ACNGT	3 cut(s)	573, 600, 1007
TaiI	ACGT	3 cut(s)	325, 607, 712
TaqI	TCGA	6 cut(s)	75, 161, 229, 514, 531, 643
TasI	AATT	5 cut(s)	69, 112, 267, 422, 968
TatI	WGTACW	1 cut(s)	232
TauI	GCSGC	1 cut(s)	385
TfiI	GAWTC	4 cut(s)	127, 302, 456, 582
Tru1I	TTAA	2 cut(s)	105, 177
Tru9I	TTAA	2 cut(s)	105, 177
TscAI	CASTG	5 cut(s)	687, 847, 979, 997, 1010
TseFI	GTSAC	3 cut(s)	600, 850, 866
TseI	GCWGC	1 cut(s)	913
Tsp45I	GTSAC	3 cut(s)	600, 850, 866
TspDTI	ATGAA	5 cut(s)	191, 285, 330, 362, 647
TspRI	CASTG	5 cut(s)	687, 847, 979, 997, 1010
VpaK11BI	GGWCC	2 cut(s)	473, 548
XapI	RAATTY	1 cut(s)	69
XbaI	TCTAGA	1 cut(s)	370
XceI	RCATGY	3 cut(s)	121, 680, 943
XcmI	CCANNNNNNNNNTGG	1 cut(s)	499
XhoI	CTCGAG	1 cut(s)	513
XspI	CTAG	2 cut(s)	371, 848

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