RchiOBHm_Chr1g0316201

Nuclear transcription factor Y subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0007525
Physical Location & Seq
Forward (+)
3470665 .. 3472571
1907 bp
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UTR
Exon/CDS
Intron
PRQ54665

Sequence Viewer

Length: 543 bp
ATGCCCTTGCCCCTTGAAATGGAAGAGGAGCCTGTTTATGTAAATGCCAAGCAATACCATGGTATTTTGAGACGAAGACAGTCACGTGCTAAAGCTGAGCTTGAAAGGAAGCTTATAAAAGTTAGGAAGCCATATCTTCATGAGTCTCGTCACCAGCATGCGTTGAGGAGAGCAAGGGGTTGTGGAGGCCGTTTCCTTAATACGAAGAAGCAAGATGATAGTGATGCAAATTCCTCATCAGAAAAAACCATTAATTTGGATGCAAATTTTTCACCCAAATCTGCCAAATCTGGTTTTGAGTGCTTTCCTAATGATAGCAATGGCAATTTCGTTTCCTCCAATGTCCAGCAAGAAGGATCAGGTTCATGGTTCAGGACACTCAATAACCACACACTCTCCAACGGTAATGGCAGTGGCCATGTCCCGTCATCATTAACGTATCGTACAACATTTAATGACGGCAAGGAAGGTGTTTTCCTTGGTCAACAGAAGGAAACAATTCAGTTGAATGGATCCTCTCGTGGGGCCATTCACAGTAAATGA

Protein Analysis

180

Amino Acids

20.13

Weight (kDa)

9.76

Isoelectric Point (pI)

53.75

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CBFB_NFYA PF02045 10 - 65 4.4e-27 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

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 116
AclWI GGATC 3 cut(s) 364, 507, 520
AcoI YGGCCR 1 cut(s) 415
AcsI RAATTY 2 cut(s) 229, 265
AcvI CACGTG 1 cut(s) 86
AfaI GTAC 1 cut(s) 445
AfiI CCNNNNNNNGG 2 cut(s) 19, 522
AgsI TTSAA 3 cut(s) 17, 104, 508
AluBI AGCT 3 cut(s) 95, 100, 112
AluI AGCT 3 cut(s) 95, 100, 112
Alw26I GTCTC 2 cut(s) 64, 150
AlwI GGATC 3 cut(s) 364, 507, 520
AoxI GGCC 3 cut(s) 187, 415, 525
ApoI RAATTY 2 cut(s) 229, 265
AseI ATTAAT 1 cut(s) 252
Asp700I GAANNNNTTC 1 cut(s) 498
AspS9I GGNCC 1 cut(s) 525
AsuHPI GGTGA 2 cut(s) 143, 264
BalI TGGCCA 1 cut(s) 417
BamHI GGATCC 1 cut(s) 512
BauI CACGAG 1 cut(s) 519
BbrPI CACGTG 1 cut(s) 86
BbsI GAAGAC 1 cut(s) 82
BceAI ACGGC 2 cut(s) 174, 475
BcoDI GTCTC 2 cut(s) 64, 150
BlpI GCTNAGC 1 cut(s) 96
BmgT120I GGNCC 1 cut(s) 525
BmiI GGNNCC 3 cut(s) 30, 514, 526
BmsI GCATC 2 cut(s) 214, 250
BpiI GAAGAC 1 cut(s) 82
Bpu1102I GCTNAGC 1 cut(s) 96
BsaAI YACGTR 1 cut(s) 86
BsaJI CCNNGG 2 cut(s) 58, 478
BsaXI ACNNNNNCTCC 2 cut(s) 380, 410
Bsc4I CCNNNNNNNGG 2 cut(s) 19, 522
Bse3DI GCAATG 1 cut(s) 325
BseDI CCNNGG 2 cut(s) 58, 478
BseGI GGATG 1 cut(s) 265
BseLI CCNNNNNNNGG 2 cut(s) 19, 522
BseMI GCAATG 1 cut(s) 325
BseMII CTCAG 1 cut(s) 87
BseRI GAGGAG 2 cut(s) 41, 181
BshFI GGCC 3 cut(s) 189, 417, 527
BslFI GGGAC 1 cut(s) 407
BslI CCNNNNNNNGG 2 cut(s) 19, 522
BsmAI GTCTC 2 cut(s) 64, 150
BsmBI CGTCTC 1 cut(s) 64
BsmFI GGGAC 1 cut(s) 407
BsnI GGCC 3 cut(s) 189, 417, 527
Bsp143I GATC 2 cut(s) 356, 512
Bsp1720I GCTNAGC 1 cut(s) 96
Bsp19I CCATGG 1 cut(s) 58
BspANI GGCC 3 cut(s) 189, 417, 527
BspCNI CTCAG 1 cut(s) 88
BspHI TCATGA 1 cut(s) 139
BspLI GGNNCC 3 cut(s) 30, 514, 526
BspPI GGATC 3 cut(s) 364, 507, 520
BsrDI GCAATG 1 cut(s) 325
BssECI CCNNGG 2 cut(s) 58, 478
BssMI GATC 2 cut(s) 356, 512
BssSI CACGAG 1 cut(s) 519
BssT1I CCWWGG 2 cut(s) 58, 478
Bst2BI CACGAG 1 cut(s) 519
Bst4CI ACNGT 3 cut(s) 81, 404, 536
Bst6I CTCTTC 1 cut(s) 18
BstBAI YACGTR 1 cut(s) 86
BstC8I GCNNGC 1 cut(s) 159
BstDEI CTNAG 1 cut(s) 96
BstDSI CCRYGG 1 cut(s) 58
BstF5I GGATG 1 cut(s) 265
BstKTI GATC 2 cut(s) 359, 515
BstMAI GTCTC 2 cut(s) 64, 150
BstMBI GATC 2 cut(s) 356, 512
BstNSI RCATGY 1 cut(s) 161
BstV2I GAAGAC 1 cut(s) 82
BstX2I RGATCY 1 cut(s) 512
BstXI CCANNNNNNTGG 1 cut(s) 256
BstYI RGATCY 1 cut(s) 512
BsuRI GGCC 3 cut(s) 189, 417, 527
BtgI CCRYGG 1 cut(s) 58
BtsCI GGATG 1 cut(s) 265
BtsI GCAGTG 1 cut(s) 418
BtsIMutI CAGTG 1 cut(s) 418
Cac8I GCNNGC 1 cut(s) 159
CciI TCATGA 1 cut(s) 139
Cfr13I GGNCC 1 cut(s) 525
Csp6I GTAC 1 cut(s) 444
CviAII CATG 5 cut(s) 59, 140, 158, 366, 419
CviJI RGCY 8 cut(s) 31, 95, 100, 112, 130, 189, 417, 527
CviKI_1 RGCY 8 cut(s) 31, 95, 100, 112, 130, 189, 417, 527
CviQI GTAC 1 cut(s) 444
DdeI CTNAG 1 cut(s) 96
DpnI GATC 2 cut(s) 358, 514
DpnII GATC 2 cut(s) 356, 512
EaeI YGGCCR 1 cut(s) 415
Eam1104I CTCTTC 1 cut(s) 18
EarI CTCTTC 1 cut(s) 18
Eco130I CCWWGG 2 cut(s) 58, 478
Eco72I CACGTG 1 cut(s) 86
EcoT14I CCWWGG 2 cut(s) 58, 478
ErhI CCWWGG 2 cut(s) 58, 478
Esp3I CGTCTC 1 cut(s) 64
FaeI CATG 5 cut(s) 62, 143, 161, 369, 422
FaiI YATR 8 cut(s) 39, 60, 116, 133, 141, 159, 367, 420
FalI AAGNNNNNCTT 2 cut(s) 84, 116
FaqI GGGAC 1 cut(s) 407
FatI CATG 5 cut(s) 58, 139, 157, 365, 418
FokI GGATG 1 cut(s) 272
HaeIII GGCC 3 cut(s) 189, 417, 527
Hin1II CATG 5 cut(s) 62, 143, 161, 369, 422
HincII GTYRAC 1 cut(s) 485
HindII GTYRAC 1 cut(s) 485
HindIII AAGCTT 1 cut(s) 110
HinfI GANTC 1 cut(s) 143
HphI GGTGA 2 cut(s) 143, 264
Hpy166II GTNNAC 1 cut(s) 485
Hpy188I TCNGA 1 cut(s) 241
Hpy188III TCNNGA 2 cut(s) 140, 373
Hpy8I GTNNAC 1 cut(s) 485
HpyAV CCTTC 3 cut(s) 347, 461, 484
HpyCH4III ACNGT 3 cut(s) 81, 404, 536
HpyCH4IV ACGT 2 cut(s) 85, 437
HpyCH4V TGCA 2 cut(s) 227, 263
HpyF3I CTNAG 1 cut(s) 96
HpySE526I ACGT 2 cut(s) 85, 437
Hsp92II CATG 5 cut(s) 62, 143, 161, 369, 422
Kzo9I GATC 2 cut(s) 356, 512
LmnI GCTCC 1 cut(s) 28
LpnPI CCDG 6 cut(s) 45, 167, 276, 345, 358, 359
LweI GCATC 2 cut(s) 214, 250
MaeII ACGT 2 cut(s) 85, 437
MaeIII GTNAC 2 cut(s) 81, 149
MalI GATC 2 cut(s) 358, 514
MboI GATC 2 cut(s) 356, 512
MboII GAAGA 4 cut(s) 35, 87, 128, 217
MflI RGATCY 1 cut(s) 512
MlsI TGGCCA 1 cut(s) 417
MluCI AATT 5 cut(s) 229, 253, 265, 325, 498
MluNI TGGCCA 1 cut(s) 417
MlyI GAGTC 1 cut(s) 152
MmeI TCCRAC 1 cut(s) 423
MnlI CCTC 6 cut(s) 19, 159, 179, 244, 346, 526
Mox20I TGGCCA 1 cut(s) 417
MroXI GAANNNNTTC 1 cut(s) 498
MscI TGGCCA 1 cut(s) 417
MseI TTAA 4 cut(s) 198, 252, 434, 453
MslI CAYNNNNRTG 1 cut(s) 156
Msp20I TGGCCA 1 cut(s) 417
NcoI CCATGG 1 cut(s) 58
NdeII GATC 2 cut(s) 356, 512
NlaIII CATG 5 cut(s) 62, 143, 161, 369, 422
NlaIV GGNNCC 3 cut(s) 30, 514, 526
NmuCI GTSAC 2 cut(s) 81, 149
NspI RCATGY 1 cut(s) 161
PaeI GCATGC 1 cut(s) 161
PagI TCATGA 1 cut(s) 139
PdmI GAANNNNTTC 1 cut(s) 498
PleI GAGTC 1 cut(s) 151
PmaCI CACGTG 1 cut(s) 86
PmlI CACGTG 1 cut(s) 86
PpsI GAGTC 1 cut(s) 151
Ppu21I YACGTR 1 cut(s) 86
PshBI ATTAAT 1 cut(s) 252
PsiI TTATAA 1 cut(s) 116
PspCI CACGTG 1 cut(s) 86
PspN4I GGNNCC 3 cut(s) 30, 514, 526
PspPI GGNCC 1 cut(s) 525
PsuI RGATCY 1 cut(s) 512
RsaI GTAC 1 cut(s) 445
RsaNI GTAC 1 cut(s) 444
RseI CAYNNNNRTG 1 cut(s) 156
SaqAI TTAA 4 cut(s) 198, 252, 434, 453
Sau3AI GATC 2 cut(s) 356, 512
Sau96I GGNCC 1 cut(s) 525
SchI GAGTC 1 cut(s) 152
SetI ASST 7 cut(s) 88, 97, 102, 114, 364, 440, 472
SfaNI GCATC 2 cut(s) 214, 250
SmiMI CAYNNNNRTG 1 cut(s) 156
SphI GCATGC 1 cut(s) 161
Sse9I AATT 5 cut(s) 229, 253, 265, 325, 498
StyI CCWWGG 2 cut(s) 58, 478
TaaI ACNGT 3 cut(s) 81, 404, 536
TaiI ACGT 2 cut(s) 88, 440
TasI AATT 5 cut(s) 229, 253, 265, 325, 498
Tru1I TTAA 4 cut(s) 198, 252, 434, 453
Tru9I TTAA 4 cut(s) 198, 252, 434, 453
TscAI CASTG 1 cut(s) 418
TseFI GTSAC 2 cut(s) 81, 149
Tsp45I GTSAC 2 cut(s) 81, 149
TspDTI ATGAA 2 cut(s) 128, 354
TspRI CASTG 1 cut(s) 418
VspI ATTAAT 1 cut(s) 252
XapI RAATTY 2 cut(s) 229, 265
XceI RCATGY 1 cut(s) 161
XmnI GAANNNNTTC 1 cut(s) 498
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.