Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0004151

Physical Location & Seq

Genomic Coordinates Forward (+)

23052602 .. 23057457

Gene Structure 4856 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00101060.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1032 bp

ATGTCTGGGAAAATTTTGCAGATTAGTTTACCATCCCCTAGTTTGGAATTAATTGGACACCTGGTTGCTGATTGGTGGACAATTCAAGTAAAAGTTCAGTCATCTATATCGAAAAGTGTAATCTTGAAGATGGGTGTGCCACTACAACATTGTCGTAACACCACGAAATCTGGAATACACCTTCAAGATCAGGATTCATCCTCAACTCAATCCACTGGTCAATCGCGCTCTGAATTGGCTAGTTTGAAAGAAGGCAACCCTTGTGGGCAAGGCGTAGTTTCAGGATATAATGAAACACAGGGGTGGCCTGTTGGGGGCCACAAGAAATCTCTCTCCTCAATCACAAGTCAGGAACTTGTCTTCCCTTCACAACTTGATTTTAGCCATTCCATGGCTCATGTTCCATTCCACTGTGCTGAACCATACTTTGGTGGCTTACTTGCTGCTTATGGGCCACAGGCAATGTCAAACTATGTCCTAAAGTTTCATCATCCCCAGATGATGGGGATTTCTCCTGGTCGGGTTCCCTTGCCTCTTGATCTCACAGAAAATGAACCGATTTATGTAAACGCAAAACAATACCGTGCAATTCTGAGACGCAGGCAATTTCGTGCCAAGCTTGAAGCTCAAAACAAGCTTACCAAAGTTCGGAAGCCGTATCTTCATGAATCTCGACATGTTCATGCATTAAAGAGGGCTAGGGGATCTGGTGGGCGCTTTCTCAACATGAAAAAGCTCCAAGATTCCAAGCCTAACTCCGCAAGCCATAGAGTGGATGCTTCAGGTTCTGTTCAGATACATTTGACCGGAAATATGTCAGAATCTGATGTTCATGAGGCTGACAACTTTCGAGATGGTGCTTCCACAACCTCTTGCTCCGACGTCACTAGCACCTCTAACAGTGACGACATCTTTCCACGGCAAGATTTCAGGTTCTCTGGCTACCCGTATCACATTGGTGGGATGCTGCAAGTTCTGCTAGTTGATGTGCGTGGTGGCGGAAACCAGCACCATGTTTCCATCTTCCGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001101 GO:0003006 GO:0003674 GO:0003700 GO:0006355 GO:0006950 GO:0007154 GO:0007165 GO:0007275 GO:0008150 GO:0009314 GO:0009414 GO:0009415 GO:0009416 GO:0009628 GO:0009637 GO:0009719 GO:0009725 GO:0009737 GO:0009738 GO:0009755 GO:0009785 GO:0009790 GO:0009791 GO:0009793 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010033 GO:0010035 GO:0010154 GO:0010262 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0019219 GO:0019222 GO:0022414 GO:0023052 GO:0030522 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032501 GO:0032502 GO:0032870 GO:0033993 GO:0042221 GO:0045892 GO:0045934 GO:0048316 GO:0048519 GO:0048523 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0051716 GO:0060255 GO:0061458 GO:0065007 GO:0070887 GO:0071214 GO:0071215 GO:0071229 GO:0071310 GO:0071396 GO:0071478 GO:0071482 GO:0071483 GO:0071495 GO:0080090 GO:0097305 GO:0097306 GO:0104004 GO:0140110 GO:1901700 GO:1901701 GO:1902679 GO:1903506 GO:1903507 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04612 ko05152 map04612 map05152

Pfam Domains

Protein Families

CBFB_NFYA

Protein Analysis

343

Amino Acids

37.87

Weight (kDa)

9.46

Isoelectric Point (pI)

51.75

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CBFB_NFYA	PF02045	185 - 240	2.5e-26	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: OG0004151)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G17590 AT1G17590 AT1G17590 AT1G17590 AT1G72830 AT1G72830 AT1G72830
fragaria_vesca	FvH4_6g34360 FvH4_6g34360 FvH4_6g34360
malus_domestica	MD09G1186200.v1.1
prunus_persica	Prupe.3G043900_v2.0.a1 Prupe.3G043900_v2.0.a1 Prupe.3G043900_v2.0.a1 Prupe.3G043900_v2.0.a1 Prupe.3G043900_v2.0.a1 Prupe.3G043900_v2.0.a1 Prupe.3G043900_v2.0.a1
pyrus_communis	pycom09g10340
rosa_chinensis	RchiOBHm_Chr2g0144701
rosa_laevigata	RLG00000020102
rosa_multiflora	Rmu_co8510597.1_g000001 Rmu_sc0000227.1_g000003 Rmu_sc0037791.1_g000001
rosa_roxburghii	Rroxscaffold_2G00101060
rosa_rugosa	Rorug02G0388800 Rorug02G0388900 Rorug02G0389000
rosa_samantha	Rh2AG440800 Rh2BG451200 Rh2CG428000 Rh2DG461200
rosa_wichuraiana	Rw2G036060

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	885
AccB7I	CCANNNNNTGG	4 cut(s)	391, 428, 502, 772
AccII	CGCG	1 cut(s)	226
AciI	CCGC	2 cut(s)	759, 999
AclWI	GGATC	1 cut(s)	712
AcsI	RAATTY	1 cut(s)	12
AcuI	CTGAAG	1 cut(s)	765
AcyI	GRCGYC	1 cut(s)	882
AfiI	CCNNNNNNNGG	8 cut(s)	43, 314, 391, 428, 502, 648, 772, 1026
AflIII	ACRYGT	1 cut(s)	676
AgsI	TTSAA	5 cut(s)	86, 127, 185, 247, 623
AjnI	CCWGG	2 cut(s)	60, 514
AjuI	GAANNNNNNNTTGG	2 cut(s)	411, 443
AleI	CACNNNNGTG	2 cut(s)	301, 957
AloI	GAACNNNNNNTCC	2 cut(s)	345, 377
AluBI	AGCT	4 cut(s)	619, 626, 637, 736
AluI	AGCT	4 cut(s)	619, 626, 637, 736
Alw26I	GTCTC	1 cut(s)	589
AlwI	GGATC	1 cut(s)	712
AlwNI	CAGNNNCTG	2 cut(s)	788, 824
AoxI	GGCC	3 cut(s)	305, 316, 452
ApeKI	GCWGC	2 cut(s)	443, 967
ApoI	RAATTY	1 cut(s)	12
AseI	ATTAAT	1 cut(s)	50
AspLEI	GCGC	2 cut(s)	228, 717
AspS9I	GGNCC	2 cut(s)	316, 452
BbsI	GAAGAC	1 cut(s)	352
BbvI	GCAGC	2 cut(s)	430, 954
BccI	CCATC	5 cut(s)	40, 124, 496, 848, 1028
BceAI	ACGGC	2 cut(s)	640, 935
BciT130I	CCWGG	2 cut(s)	62, 516
BcoDI	GTCTC	1 cut(s)	589
BfaI	CTAG	5 cut(s)	39, 240, 699, 888, 980
BfoI	RGCGCY	1 cut(s)	718
BisI	GCNGC	2 cut(s)	444, 968
BlsI	GCNGC	2 cut(s)	445, 969
Bme1390I	CCNGG	2 cut(s)	62, 516
BmgT120I	GGNCC	2 cut(s)	316, 452
BmiI	GGNNCC	2 cut(s)	317, 525
BmrFI	CCNGG	2 cut(s)	62, 516
BmsI	GCATC	2 cut(s)	766, 954
BpiI	GAAGAC	1 cut(s)	352
BsaHI	GRCGYC	1 cut(s)	882
BsaJI	CCNNGG	2 cut(s)	390, 917
BsaWI	WCCGGW	2 cut(s)	806, 1026
Bsc4I	CCNNNNNNNGG	8 cut(s)	43, 314, 391, 428, 502, 648, 772, 1026
Bse1I	ACTGG	1 cut(s)	220
Bse3DI	GCAATG	1 cut(s)	468
BseBI	CCWGG	2 cut(s)	62, 516
BseDI	CCNNGG	2 cut(s)	390, 917
BseGI	GGATG	5 cut(s)	32, 197, 490, 781, 969
BseLI	CCNNNNNNNGG	8 cut(s)	43, 314, 391, 428, 502, 648, 772, 1026
BseMI	GCAATG	1 cut(s)	468
BseMII	CTCAG	1 cut(s)	584
BseNI	ACTGG	1 cut(s)	220
BseRI	GAGGAG	1 cut(s)	325
BseXI	GCAGC	2 cut(s)	430, 954
Bsh1236I	CGCG	1 cut(s)	226
BshFI	GGCC	3 cut(s)	307, 318, 454
BsiSI	CCGG	2 cut(s)	807, 1027
BslI	CCNNNNNNNGG	8 cut(s)	43, 314, 391, 428, 502, 648, 772, 1026
BsmAI	GTCTC	1 cut(s)	589
BsmBI	CGTCTC	1 cut(s)	589
BsnI	GGCC	3 cut(s)	307, 318, 454
Bsp143I	GATC	3 cut(s)	187, 538, 704
Bsp19I	CCATGG	1 cut(s)	390
BspACI	CCGC	2 cut(s)	759, 999
BspANI	GGCC	3 cut(s)	307, 318, 454
BspCNI	CTCAG	1 cut(s)	585
BspFNI	CGCG	1 cut(s)	226
BspHI	TCATGA	2 cut(s)	664, 832
BspLI	GGNNCC	2 cut(s)	317, 525
BspPI	GGATC	1 cut(s)	712
BsrDI	GCAATG	1 cut(s)	468
BsrI	ACTGG	1 cut(s)	220
BssECI	CCNNGG	2 cut(s)	390, 917
BssMI	GATC	3 cut(s)	187, 538, 704
BssNI	GRCGYC	1 cut(s)	882
BssT1I	CCWWGG	1 cut(s)	390
Bst2UI	CCWGG	2 cut(s)	62, 516
Bst4CI	ACNGT	3 cut(s)	413, 584, 902
BstACI	GRCGYC	1 cut(s)	882
BstAPI	GCANNNNNTGC	1 cut(s)	976
BstC8I	GCNNGC	2 cut(s)	602, 763
BstDEI	CTNAG	1 cut(s)	593
BstDSI	CCRYGG	2 cut(s)	390, 917
BstF5I	GGATG	5 cut(s)	32, 197, 490, 781, 969
BstFNI	CGCG	1 cut(s)	226
BstH2I	RGCGCY	1 cut(s)	718
BstHHI	GCGC	2 cut(s)	228, 717
BstKTI	GATC	3 cut(s)	190, 541, 707
BstMAI	GTCTC	1 cut(s)	589
BstMBI	GATC	3 cut(s)	187, 538, 704
BstMWI	GCNNNNNNNGC	1 cut(s)	976
BstNI	CCWGG	2 cut(s)	62, 516
BstNSI	RCATGY	1 cut(s)	680
BstSCI	CCNGG	2 cut(s)	60, 514
BstUI	CGCG	1 cut(s)	226
BstV1I	GCAGC	2 cut(s)	430, 954
BstV2I	GAAGAC	1 cut(s)	352
BstX2I	RGATCY	1 cut(s)	704
BstYI	RGATCY	1 cut(s)	704
BsuRI	GGCC	3 cut(s)	307, 318, 454
BtgI	CCRYGG	2 cut(s)	390, 917
BtsCI	GGATG	5 cut(s)	32, 197, 490, 781, 969
BtsIMutI	CAGTG	3 cut(s)	213, 409, 907
Cac8I	GCNNGC	2 cut(s)	602, 763
CaiI	CAGNNNCTG	2 cut(s)	788, 824
CciI	TCATGA	2 cut(s)	664, 832
CfoI	GCGC	2 cut(s)	228, 717
Cfr13I	GGNCC	2 cut(s)	316, 452
CseI	GACGC	1 cut(s)	606
CsiI	ACCWGGT	1 cut(s)	60
CspCI	CAANNNNNGTGG	2 cut(s)	244, 279
CviAII	CATG	8 cut(s)	391, 398, 665, 677, 683, 727, 833, 1013
DdeI	CTNAG	1 cut(s)	593
DpnI	GATC	3 cut(s)	189, 540, 706
DpnII	GATC	3 cut(s)	187, 538, 704
EciI	GGCGGA	1 cut(s)	1014
Eco130I	CCWWGG	1 cut(s)	390
Eco57I	CTGAAG	1 cut(s)	765
EcoRII	CCWGG	2 cut(s)	60, 514
EcoT14I	CCWWGG	1 cut(s)	390
EcoT22I	ATGCAT	1 cut(s)	688
ErhI	CCWWGG	1 cut(s)	390
Esp3I	CGTCTC	1 cut(s)	589
FaeI	CATG	8 cut(s)	394, 401, 668, 680, 686, 730, 836, 1016
FatI	CATG	8 cut(s)	390, 397, 664, 676, 682, 726, 832, 1012
Fnu4HI	GCNGC	2 cut(s)	444, 968
FokI	GGATG	5 cut(s)	19, 184, 477, 788, 976
Fsp4HI	GCNGC	2 cut(s)	444, 968
FspBI	CTAG	5 cut(s)	39, 240, 699, 888, 980
GlaI	GCGC	2 cut(s)	227, 716
GluI	GCNGC	2 cut(s)	444, 968
HaeII	RGCGCY	1 cut(s)	718
HaeIII	GGCC	3 cut(s)	307, 318, 454
HapII	CCGG	2 cut(s)	807, 1027
HgaI	GACGC	1 cut(s)	606
HhaI	GCGC	2 cut(s)	228, 717
Hin1I	GRCGYC	1 cut(s)	882
Hin1II	CATG	8 cut(s)	394, 401, 668, 680, 686, 730, 836, 1016
Hin6I	GCGC	2 cut(s)	226, 715
HinP1I	GCGC	2 cut(s)	226, 715
HindIII	AAGCTT	2 cut(s)	617, 635
HinfI	GANTC	4 cut(s)	194, 668, 743, 821
HpaII	CCGG	2 cut(s)	807, 1027
Hpy166II	GTNNAC	3 cut(s)	29, 78, 568
Hpy188I	TCNGA	7 cut(s)	232, 594, 651, 795, 820, 826, 880
Hpy8I	GTNNAC	3 cut(s)	29, 78, 568
Hpy99I	CGWCG	1 cut(s)	884
HpyAV	CCTTC	3 cut(s)	191, 245, 375
HpyCH4III	ACNGT	3 cut(s)	413, 584, 902
HpyCH4IV	ACGT	1 cut(s)	882
HpyCH4V	TGCA	4 cut(s)	19, 587, 686, 970
HpyF10VI	GCNNNNNNNGC	1 cut(s)	976
HpyF3I	CTNAG	1 cut(s)	593
HpySE526I	ACGT	1 cut(s)	882
Hsp92I	GRCGYC	1 cut(s)	882
Hsp92II	CATG	8 cut(s)	394, 401, 668, 680, 686, 730, 836, 1016
HspAI	GCGC	2 cut(s)	226, 715
Kzo9I	GATC	3 cut(s)	187, 538, 704
LmnI	GCTCC	2 cut(s)	741, 881
Lsp1109I	GCAGC	2 cut(s)	430, 954
LweI	GCATC	2 cut(s)	766, 954
MabI	ACCWGGT	1 cut(s)	60
MaeI	CTAG	5 cut(s)	39, 240, 699, 888, 980
MaeII	ACGT	1 cut(s)	882
MaeIII	GTNAC	3 cut(s)	155, 883, 902
MalI	GATC	3 cut(s)	189, 540, 706
MboI	GATC	3 cut(s)	187, 538, 704
MboII	GAAGA	4 cut(s)	139, 352, 653, 1015
MflI	RGATCY	1 cut(s)	704
MluCI	AATT	7 cut(s)	12, 47, 51, 81, 233, 588, 605
MmeI	TCCRAC	1 cut(s)	903
MnlI	CCTC	7 cut(s)	211, 346, 543, 687, 829, 880, 904
Mph1103I	ATGCAT	1 cut(s)	688
MseI	TTAA	2 cut(s)	50, 689
MslI	CAYNNNNRTG	3 cut(s)	301, 681, 957
MspI	CCGG	2 cut(s)	807, 1027
MspR9I	CCNGG	2 cut(s)	62, 516
MvaI	CCWGG	2 cut(s)	62, 516
MvnI	CGCG	1 cut(s)	226
MwoI	GCNNNNNNNGC	1 cut(s)	976
NcoI	CCATGG	1 cut(s)	390
NdeII	GATC	3 cut(s)	187, 538, 704
NlaIII	CATG	8 cut(s)	394, 401, 668, 680, 686, 730, 836, 1016
NlaIV	GGNNCC	2 cut(s)	317, 525
NmuCI	GTSAC	2 cut(s)	883, 902
NsiI	ATGCAT	1 cut(s)	688
NspI	RCATGY	1 cut(s)	680
OliI	CACNNNNGTG	2 cut(s)	301, 957
PagI	TCATGA	2 cut(s)	664, 832
PciI	ACATGT	1 cut(s)	676
PfeI	GAWTC	4 cut(s)	194, 668, 743, 821
PflMI	CCANNNNNTGG	4 cut(s)	391, 428, 502, 772
PkrI	GCNGC	2 cut(s)	445, 969
PscI	ACATGT	1 cut(s)	676
PshBI	ATTAAT	1 cut(s)	50
Psp6I	CCWGG	2 cut(s)	60, 514
PspGI	CCWGG	2 cut(s)	60, 514
PspN4I	GGNNCC	2 cut(s)	317, 525
PspPI	GGNCC	2 cut(s)	316, 452
PstNI	CAGNNNCTG	2 cut(s)	788, 824
PsuI	RGATCY	1 cut(s)	704
RseI	CAYNNNNRTG	3 cut(s)	301, 681, 957
SaqAI	TTAA	2 cut(s)	50, 689
SatI	GCNGC	2 cut(s)	444, 968
Sau3AI	GATC	3 cut(s)	187, 538, 704
Sau96I	GGNCC	2 cut(s)	316, 452
ScrFI	CCNGG	2 cut(s)	62, 516
SexAI	ACCWGGT	1 cut(s)	60
SfaNI	GCATC	2 cut(s)	766, 954
SmiMI	CAYNNNNRTG	3 cut(s)	301, 681, 957
Sse9I	AATT	7 cut(s)	12, 47, 51, 81, 233, 588, 605
SsiI	CCGC	2 cut(s)	759, 999
SspMI	CTAG	5 cut(s)	39, 240, 699, 888, 980
StyD4I	CCNGG	2 cut(s)	60, 514
StyI	CCWWGG	1 cut(s)	390
TaaI	ACNGT	3 cut(s)	413, 584, 902
TaiI	ACGT	1 cut(s)	885
TaqI	TCGA	3 cut(s)	110, 673, 850
TasI	AATT	7 cut(s)	12, 47, 51, 81, 233, 588, 605
TfiI	GAWTC	4 cut(s)	194, 668, 743, 821
Tru1I	TTAA	2 cut(s)	50, 689
Tru9I	TTAA	2 cut(s)	50, 689
TscAI	CASTG	3 cut(s)	220, 416, 907
TseFI	GTSAC	2 cut(s)	883, 902
TseI	GCWGC	2 cut(s)	443, 967
Tsp45I	GTSAC	2 cut(s)	883, 902
TspDTI	ATGAA	9 cut(s)	186, 306, 476, 567, 653, 671, 681, 743, 821
TspRI	CASTG	3 cut(s)	220, 416, 907
Van91I	CCANNNNNTGG	4 cut(s)	391, 428, 502, 772
VspI	ATTAAT	1 cut(s)	50
XapI	RAATTY	1 cut(s)	12
XceI	RCATGY	1 cut(s)	680
XspI	CTAG	5 cut(s)	39, 240, 699, 888, 980
ZraI	GACGTC	1 cut(s)	883
Zsp2I	ATGCAT	1 cut(s)	688

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