Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0011508

Physical Location & Seq

Genomic Coordinates Reverse (-)

7513612 .. 7515437

Gene Structure 1826 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG089800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 909 bp

ATGTCGTGGAATCCAAGTGAACGGCAAGTCTCACCGCCTTTATCGAAGGATGTGAGCTTTAAAGTGGAACTTCCACCACAACTTCATCATGATGCAAAGCATTTAGGACTTCGAGTACAACCTGACCCCGGATCATGCACAACACATTCAATTGGTCAATCTCAAGGTCAATGCCTGTCATCAGAATCTGGTGAGGATGAAACACGTGGTAAGGGTGTTGAAGGGACAATGAAGCCAGCTTTCTTGAGTAATCTAGATCTCATGCCGCATCCTCCTCAAGTTGGTTACAGCAATGTAGTGGGTCAATTCCATCCTTATGCTGATCCTTACTACAGTGGATTCCTGACTGCGTATGGACCACAAGCTATGCCTCCCATGGTTGGGATGGTGCCTCCTCGAGTTCCATTGCCTCTCGATCTTCAAGAAGATGGACCCATTTATGTCAATGCAAAACAGTACCATGGAATCCTCCGAAGGAGACAGTCACGTGCAAAGTTGGAAGCTCAAAACAAACTTCTAAAAGCTCGAAAGCCATATCTTCATGAGTCTCGGCATCAACATGCACTGAACAGGGTAAGGGGTTCTGGTGGACGTTTTCTCAGCAAAAAAGAGCTCCAACAATATGATCAGAACCCCACCAGCAGCTCCAATGATCATGTTTCGGGGTCTATCAACTTGCATCAGAAGGATACACCAGAGAGAGAAAGTCATCACTCGGGAAGCAGTGATCTAGTCACTTCTGTTGCAAGTCACTCGGGCATAACAAGTGTTTCCGGTACCAATGCTATCTTTCGGCAGCCAGATCGCAGGTTCTCAGGTGGCATGCCTCCCCATATGAGTGGAGCCATGCAGTTCAGTGGGGGGCTTATGGGCAGTGGAAATCAGCACTGTGCTTCTTTTGTCCGGTGA

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

302

Amino Acids

33.1

Weight (kDa)

9.22

Isoelectric Point (pI)

51.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CBFB_NFYA	PF02045	145 - 199	4.9e-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)

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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)	798
Acc65I	GGTACC	1 cut(s)	776
AccB1I	GGYRCC	2 cut(s)	388, 776
AciI	CCGC	2 cut(s)	35, 266
AclWI	GGATC	2 cut(s)	139, 317
AcvI	CACGTG	2 cut(s)	206, 488
AfaI	GTAC	3 cut(s)	117, 458, 778
AfiI	CCNNNNNNNGG	4 cut(s)	128, 281, 380, 381
AflIII	ACRYGT	1 cut(s)	203
AgsI	TTSAA	3 cut(s)	150, 221, 422
AluBI	AGCT	7 cut(s)	57, 239, 365, 503, 524, 613, 645
AluI	AGCT	7 cut(s)	57, 239, 365, 503, 524, 613, 645
Alw21I	GWGCWC	1 cut(s)	615
Alw26I	GTCTC	3 cut(s)	34, 472, 552
AlwI	GGATC	2 cut(s)	139, 317
AlwNI	CAGNNNCTG	1 cut(s)	188
Ama87I	CYCGRG	3 cut(s)	396, 715, 754
ApeKI	GCWGC	2 cut(s)	642, 796
Asp718I	GGTACC	1 cut(s)	776
AspS9I	GGNCC	2 cut(s)	356, 431
AsuC2I	CCSGG	1 cut(s)	129
AsuHPI	GGTGA	2 cut(s)	24, 203
AvaI	CYCGRG	3 cut(s)	396, 715, 754
AvaII	GGWCC	2 cut(s)	356, 431
BanI	GGYRCC	2 cut(s)	388, 776
BanII	GRGCYC	1 cut(s)	615
BbrPI	CACGTG	2 cut(s)	206, 488
Bbv12I	GWGCWC	1 cut(s)	615
BbvI	GCAGC	2 cut(s)	654, 808
BccI	CCATC	3 cut(s)	318, 379, 422
BceAI	ACGGC	1 cut(s)	38
BcgI	CGANNNNNNTGC	4 cut(s)	735, 769, 785, 819
BciVI	GTATCC	1 cut(s)	682
BclI	TGATCA	2 cut(s)	625, 652
BcnI	CCSGG	1 cut(s)	129
BcoDI	GTCTC	3 cut(s)	34, 472, 552
BfaI	CTAG	2 cut(s)	254, 731
BfmI	CTRYAG	1 cut(s)	331
BfuAI	ACCTGC	1 cut(s)	798
BfuI	GTATCC	1 cut(s)	682
BglII	AGATCT	1 cut(s)	256
BisI	GCNGC	3 cut(s)	266, 643, 797
BlsI	GCNGC	3 cut(s)	267, 644, 798
Bme1390I	CCNGG	1 cut(s)	129
Bme18I	GGWCC	2 cut(s)	356, 431
BmeT110I	CYCGRG	3 cut(s)	396, 715, 754
BmgT120I	GGNCC	2 cut(s)	356, 431
BmiI	GGNNCC	4 cut(s)	390, 433, 778, 844
BmrFI	CCNGG	1 cut(s)	129
BmsI	GCATC	4 cut(s)	82, 277, 562, 688
BpuEI	CTTGAG	3 cut(s)	147, 261, 265
BpuMI	CCSGG	1 cut(s)	129
BsaAI	YACGTR	2 cut(s)	206, 488
BsaJI	CCNNGG	3 cut(s)	127, 375, 460
BsaWI	WCCGGW	2 cut(s)	773, 903
Bsc4I	CCNNNNNNNGG	4 cut(s)	128, 281, 380, 381
Bse3DI	GCAATG	2 cut(s)	298, 404
BseDI	CCNNGG	3 cut(s)	127, 375, 460
BseGI	GGATG	5 cut(s)	55, 202, 268, 310, 390
BseLI	CCNNNNNNNGG	4 cut(s)	128, 281, 380, 381
BseMI	GCAATG	2 cut(s)	298, 404
BseMII	CTCAG	2 cut(s)	613, 828
BseRI	GAGGAG	2 cut(s)	264, 384
BseXI	GCAGC	2 cut(s)	654, 808
BshNI	GGYRCC	2 cut(s)	388, 776
BsiHKAI	GWGCWC	1 cut(s)	615
BsiHKCI	CYCGRG	3 cut(s)	396, 715, 754
BsiSI	CCGG	3 cut(s)	129, 774, 904
BslFI	GGGAC	1 cut(s)	238
BslI	CCNNNNNNNGG	4 cut(s)	128, 281, 380, 381
BsmAI	GTCTC	3 cut(s)	34, 472, 552
BsmFI	GGGAC	1 cut(s)	238
BsoBI	CYCGRG	3 cut(s)	396, 715, 754
Bsp1286I	GDGCHC	1 cut(s)	615
Bsp143I	GATC	8 cut(s)	131, 256, 322, 415, 625, 652, 727, 802
Bsp19I	CCATGG	2 cut(s)	375, 460
BspACI	CCGC	2 cut(s)	35, 266
BspCNI	CTCAG	2 cut(s)	612, 827
BspHI	TCATGA	2 cut(s)	88, 541
BspLI	GGNNCC	4 cut(s)	390, 433, 778, 844
BspMI	ACCTGC	1 cut(s)	798
BspPI	GGATC	2 cut(s)	139, 317
BspT107I	GGYRCC	2 cut(s)	388, 776
BsrDI	GCAATG	2 cut(s)	298, 404
BssECI	CCNNGG	3 cut(s)	127, 375, 460
BssMI	GATC	8 cut(s)	131, 256, 322, 415, 625, 652, 727, 802
BssT1I	CCWWGG	2 cut(s)	375, 460
Bst4CI	ACNGT	4 cut(s)	335, 456, 483, 890
BstBAI	YACGTR	2 cut(s)	206, 488
BstC8I	GCNNGC	2 cut(s)	237, 824
BstDEI	CTNAG	2 cut(s)	599, 814
BstDSI	CCRYGG	2 cut(s)	375, 460
BstF5I	GGATG	5 cut(s)	55, 202, 268, 310, 390
BstKTI	GATC	8 cut(s)	134, 259, 325, 418, 628, 655, 730, 805
BstMAI	GTCTC	3 cut(s)	34, 472, 552
BstMBI	GATC	8 cut(s)	131, 256, 322, 415, 625, 652, 727, 802
BstNSI	RCATGY	2 cut(s)	563, 826
BstSCI	CCNGG	1 cut(s)	127
BstSFI	CTRYAG	1 cut(s)	331
BstV1I	GCAGC	2 cut(s)	654, 808
BstX2I	RGATCY	1 cut(s)	256
BstXI	CCANNNNNNTGG	1 cut(s)	839
BstYI	RGATCY	1 cut(s)	256
BsuI	GTATCC	1 cut(s)	682
BtgI	CCRYGG	2 cut(s)	375, 460
BtsCI	GGATG	5 cut(s)	55, 202, 268, 310, 390
BtsI	GCAGTG	2 cut(s)	730, 880
BtsIMutI	CAGTG	6 cut(s)	340, 563, 730, 862, 880, 886
BveI	ACCTGC	1 cut(s)	798
Cac8I	GCNNGC	2 cut(s)	237, 824
CaiI	CAGNNNCTG	1 cut(s)	188
CciI	TCATGA	2 cut(s)	88, 541
Cfr13I	GGNCC	2 cut(s)	356, 431
Csp6I	GTAC	3 cut(s)	116, 457, 777
CviQI	GTAC	3 cut(s)	116, 457, 777
DdeI	CTNAG	2 cut(s)	599, 814
DpnI	GATC	8 cut(s)	133, 258, 324, 417, 627, 654, 729, 804
DpnII	GATC	8 cut(s)	131, 256, 322, 415, 625, 652, 727, 802
DraI	TTTAAA	1 cut(s)	61
Ecl136II	GAGCTC	1 cut(s)	613
Eco130I	CCWWGG	2 cut(s)	375, 460
Eco24I	GRGCYC	1 cut(s)	615
Eco47I	GGWCC	2 cut(s)	356, 431
Eco53kI	GAGCTC	1 cut(s)	613
Eco72I	CACGTG	2 cut(s)	206, 488
Eco88I	CYCGRG	3 cut(s)	396, 715, 754
EcoICRI	GAGCTC	1 cut(s)	613
EcoT14I	CCWWGG	2 cut(s)	375, 460
EcoT38I	GRGCYC	1 cut(s)	615
ErhI	CCWWGG	2 cut(s)	375, 460
FalI	AAGNNNNNCTT	2 cut(s)	54, 86
FaqI	GGGAC	1 cut(s)	238
FauNDI	CATATG	1 cut(s)	834
FbaI	TGATCA	2 cut(s)	625, 652
Fnu4HI	GCNGC	3 cut(s)	266, 643, 797
FokI	GGATG	5 cut(s)	62, 209, 255, 297, 397
FriOI	GRGCYC	1 cut(s)	615
Fsp4HI	GCNGC	3 cut(s)	266, 643, 797
FspBI	CTAG	2 cut(s)	254, 731
GluI	GCNGC	3 cut(s)	266, 643, 797
HapII	CCGG	3 cut(s)	129, 774, 904
HinfI	GANTC	5 cut(s)	10, 185, 339, 465, 545
HpaII	CCGG	3 cut(s)	129, 774, 904
HphI	GGTGA	2 cut(s)	24, 203
Hpy166II	GTNNAC	2 cut(s)	20, 590
Hpy188I	TCNGA	4 cut(s)	184, 473, 630, 684
Hpy188III	TCNNGA	8 cut(s)	89, 244, 254, 343, 413, 422, 542, 717
Hpy8I	GTNNAC	2 cut(s)	20, 590
HpyAV	CCTTC	4 cut(s)	40, 215, 468, 679
HpyCH4III	ACNGT	4 cut(s)	335, 456, 483, 890
HpyCH4IV	ACGT	3 cut(s)	205, 487, 592
HpyCH4V	TGCA	8 cut(s)	95, 138, 449, 491, 563, 679, 746, 850
HpyF3I	CTNAG	2 cut(s)	599, 814
HpySE526I	ACGT	3 cut(s)	205, 487, 592
KpnI	GGTACC	1 cut(s)	780
Ksp22I	TGATCA	2 cut(s)	625, 652
Kzo9I	GATC	8 cut(s)	131, 256, 322, 415, 625, 652, 727, 802
LmnI	GCTCC	3 cut(s)	618, 650, 842
Lsp1109I	GCAGC	2 cut(s)	654, 808
LweI	GCATC	4 cut(s)	82, 277, 562, 688
MaeI	CTAG	2 cut(s)	254, 731
MaeII	ACGT	3 cut(s)	205, 487, 592
MaeIII	GTNAC	4 cut(s)	284, 483, 733, 749
MalI	GATC	8 cut(s)	133, 258, 324, 417, 627, 654, 729, 804
MboI	GATC	8 cut(s)	131, 256, 322, 415, 625, 652, 727, 802
MboII	GAAGA	3 cut(s)	410, 437, 530
MfeI	CAATTG	1 cut(s)	150
MflI	RGATCY	1 cut(s)	256
MhlI	GDGCHC	1 cut(s)	615
MluCI	AATT	2 cut(s)	150, 305
MlyI	GAGTC	1 cut(s)	554
MmeI	TCCRAC	2 cut(s)	477, 640
MnlI	CCTC	9 cut(s)	187, 282, 285, 381, 402, 405, 420, 479, 837
MseI	TTAA	1 cut(s)	60
MslI	CAYNNNNRTG	4 cut(s)	90, 315, 558, 837
MspI	CCGG	3 cut(s)	129, 774, 904
MspR9I	CCNGG	1 cut(s)	129
MunI	CAATTG	1 cut(s)	150
NciI	CCSGG	1 cut(s)	129
NcoI	CCATGG	2 cut(s)	375, 460
NdeI	CATATG	1 cut(s)	834
NdeII	GATC	8 cut(s)	131, 256, 322, 415, 625, 652, 727, 802
NlaIV	GGNNCC	4 cut(s)	390, 433, 778, 844
NmeAIII	GCCGAG	1 cut(s)	529
NmuCI	GTSAC	3 cut(s)	483, 733, 749
NspI	RCATGY	2 cut(s)	563, 826
PaeI	GCATGC	1 cut(s)	826
PaeR7I	CTCGAG	1 cut(s)	396
PagI	TCATGA	2 cut(s)	88, 541
PfeI	GAWTC	4 cut(s)	10, 185, 339, 465
PkrI	GCNGC	3 cut(s)	267, 644, 798
PleI	GAGTC	1 cut(s)	553
PmaCI	CACGTG	2 cut(s)	206, 488
PmlI	CACGTG	2 cut(s)	206, 488
PpsI	GAGTC	1 cut(s)	553
Ppu21I	YACGTR	2 cut(s)	206, 488
Psp124BI	GAGCTC	1 cut(s)	615
PspCI	CACGTG	2 cut(s)	206, 488
PspN4I	GGNNCC	4 cut(s)	390, 433, 778, 844
PspPI	GGNCC	2 cut(s)	356, 431
PspXI	VCTCGAGB	1 cut(s)	396
PstNI	CAGNNNCTG	1 cut(s)	188
PsuI	RGATCY	1 cut(s)	256
RsaI	GTAC	3 cut(s)	117, 458, 778
RsaNI	GTAC	3 cut(s)	116, 457, 777
RseI	CAYNNNNRTG	4 cut(s)	90, 315, 558, 837
SacI	GAGCTC	1 cut(s)	615
SaqAI	TTAA	1 cut(s)	60
SatI	GCNGC	3 cut(s)	266, 643, 797
Sau3AI	GATC	8 cut(s)	131, 256, 322, 415, 625, 652, 727, 802
Sau96I	GGNCC	2 cut(s)	356, 431
SchI	GAGTC	1 cut(s)	554
ScrFI	CCNGG	1 cut(s)	129
SduI	GDGCHC	1 cut(s)	615
SfaNI	GCATC	4 cut(s)	82, 277, 562, 688
SfcI	CTRYAG	1 cut(s)	331
Sfr274I	CTCGAG	1 cut(s)	396
SinI	GGWCC	2 cut(s)	356, 431
SlaI	CTCGAG	1 cut(s)	396
SmiMI	CAYNNNNRTG	4 cut(s)	90, 315, 558, 837
SmlI	CTYRAG	4 cut(s)	162, 244, 276, 396
SmoI	CTYRAG	4 cut(s)	162, 244, 276, 396
SphI	GCATGC	1 cut(s)	826
Sse9I	AATT	2 cut(s)	150, 305
SsiI	CCGC	2 cut(s)	35, 266
SspMI	CTAG	2 cut(s)	254, 731
SstI	GAGCTC	1 cut(s)	615
StyD4I	CCNGG	1 cut(s)	127
StyI	CCWWGG	2 cut(s)	375, 460
TaaI	ACNGT	4 cut(s)	335, 456, 483, 890
TaiI	ACGT	3 cut(s)	208, 490, 595
TaqI	TCGA	5 cut(s)	44, 112, 397, 414, 526
TasI	AATT	2 cut(s)	150, 305
TatI	WGTACW	1 cut(s)	115
TauI	GCSGC	1 cut(s)	268
TfiI	GAWTC	4 cut(s)	10, 185, 339, 465
Tru1I	TTAA	1 cut(s)	60
Tru9I	TTAA	1 cut(s)	60
TscAI	CASTG	6 cut(s)	340, 570, 730, 862, 880, 893
TseFI	GTSAC	3 cut(s)	483, 733, 749
TseI	GCWGC	2 cut(s)	642, 796
Tsp45I	GTSAC	3 cut(s)	483, 733, 749
TspDTI	ATGAA	4 cut(s)	74, 213, 245, 530
TspRI	CASTG	6 cut(s)	340, 570, 730, 862, 880, 893
VpaK11BI	GGWCC	2 cut(s)	356, 431
XbaI	TCTAGA	1 cut(s)	253
XceI	RCATGY	2 cut(s)	563, 826
XcmI	CCANNNNNNNNNTGG	1 cut(s)	382
XhoI	CTCGAG	1 cut(s)	396
XspI	CTAG	2 cut(s)	254, 731

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