RchiOBHm_Chr3g0476401

Nuclear transcription factor Y subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0005317
Physical Location & Seq
Reverse (-)
22314763 .. 22319804
5042 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ44182

Sequence Viewer

Length: 921 bp
ATGGCTATGCAAACTGTTTATTTCAAAGAACATGAAGGACTTGGGCAGTTGTCATCAGTGTTACCTTGGTGGGGTACTGCCTTTGGATCTCAACAAGTTCATGGCGAATCCTGTGGCCAGTCAAAACCTTTTACCATGGAGCTTCCCAATAGTGGAGACCAACTCACTGCCCCTAAGCAACCCGGGCGGGGCACTGAACAAGGACTGGATAAAGGGAACACAAATCAGTTCACTATCTTCCCTGGGGATGGGAAAAAATCTCAGCCAGCGATCTCTCTGCAATCATCCCCACCAAAATATCGTGGTCATTTTGAGCTGGGATTCAGCCAACCTATGATTTGTGGAAAATATCCATACATGGATCAATGCTATGGACTCTTCTCAACATATGGACCTCAAGTTCCGGGACGTATTATGCTGCCACTGAATTTGACTACAGATGAAGGACCAATTTATGTCAATGCTAAGCAATACCACGGAATCATCCGGCGCCGACAATCCCGTGCAAAGGCAGTCATGGAGAATAGAGCAGCTAGACACCGTAAGCCCTATATGCATGAATCACGCCATCTTCATGCCATGCGCCGACCAAGGGGATGTGGTGGTCGTTTTCTGAATACCAAGACTGCGAATAATGGGATAGGTAGAAATGAAATTAAGCTAGTTGGTGATGTGCAGCTGTTTAGGCACTCCGGTTCTCAGAGCTCTGAAGTCCTGCAATCTGAGAGTGGAACTTTGAACTCATCAAAATCAAATGGCAGCAGTTCCAACATATCAGGCTCAGAGGTGACCAGTATGTACTCGAGGGGAGATCCTTTTTCAATGAATCATCATCATCTCGGGCCCTCTGTGCATTATGGCATGGTTATGCCCACAAAATGGATTGCAGCAGTGGATAACTGCTGCAACCTCAAAGTCTGA

Protein Analysis

306

Amino Acids

33.82

Weight (kDa)

9.56

Isoelectric Point (pI)

52.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CBFB_NFYA PF02045 150 - 204 8.5e-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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 489
AccB7I CCANNNNNTGG 1 cut(s) 879
AciI CCGC 1 cut(s) 187
AclWI GGATC 3 cut(s) 94, 369, 806
AcoI YGGCCR 1 cut(s) 115
AcsI RAATTY 1 cut(s) 427
AcuI CTGAAG 1 cut(s) 729
AcyI GRCGYC 1 cut(s) 490
AfaI GTAC 2 cut(s) 76, 800
AfiI CCNNNNNNNGG 7 cut(s) 71, 152, 188, 248, 508, 592, 879
AgsI TTSAA 3 cut(s) 25, 739, 822
AjnI CCWGG 1 cut(s) 241
AloI GAACNNNNNNTCC 2 cut(s) 384, 416
AluBI AGCT 6 cut(s) 142, 316, 533, 661, 679, 705
AluI AGCT 6 cut(s) 142, 316, 533, 661, 679, 705
Alw21I GWGCWC 1 cut(s) 707
Alw26I GTCTC 1 cut(s) 150
AlwI GGATC 3 cut(s) 94, 369, 806
Ama87I CYCGRG 3 cut(s) 182, 802, 839
AoxI GGCC 2 cut(s) 115, 842
ApaI GGGCCC 1 cut(s) 846
ApeKI GCWGC 6 cut(s) 418, 530, 676, 759, 887, 903
ApoI RAATTY 1 cut(s) 427
AspLEI GCGC 2 cut(s) 492, 585
AspS9I GGNCC 4 cut(s) 392, 446, 842, 843
AsuC2I CCSGG 3 cut(s) 183, 184, 405
AsuHPI GGTGA 2 cut(s) 680, 799
AvaI CYCGRG 3 cut(s) 182, 802, 839
AvaII GGWCC 2 cut(s) 392, 446
BaeGI GKGCMC 2 cut(s) 194, 846
BalI TGGCCA 1 cut(s) 117
BanI GGYRCC 1 cut(s) 489
BanII GRGCYC 2 cut(s) 707, 846
Bbv12I GWGCWC 1 cut(s) 707
BbvI GCAGC 6 cut(s) 405, 542, 688, 771, 890, 899
BccI CCATC 2 cut(s) 242, 576
BcgI CGANNNNNNTGC 2 cut(s) 259, 293
BciT130I CCWGG 1 cut(s) 243
BcnI CCSGG 3 cut(s) 183, 184, 405
BcoDI GTCTC 1 cut(s) 150
BfaI CTAG 2 cut(s) 534, 662
BfmI CTRYAG 1 cut(s) 435
BfoI RGCGCY 1 cut(s) 493
BisI GCNGC 6 cut(s) 419, 531, 677, 760, 888, 904
BlpI GCTNAGC 1 cut(s) 465
BlsI GCNGC 6 cut(s) 420, 532, 678, 761, 889, 905
Bme1390I CCNGG 4 cut(s) 183, 184, 243, 405
Bme18I GGWCC 2 cut(s) 392, 446
BmeT110I CYCGRG 3 cut(s) 182, 802, 839
BmgT120I GGNCC 4 cut(s) 392, 446, 842, 843
BmiI GGNNCC 2 cut(s) 491, 844
BmrFI CCNGG 4 cut(s) 183, 184, 243, 405
BplI GAGNNNNNCTC 2 cut(s) 147, 179
Bpu10I CCTNAGC 1 cut(s) 174
Bpu1102I GCTNAGC 1 cut(s) 465
BpuEI CTTGAG 1 cut(s) 381
BpuMI CCSGG 3 cut(s) 183, 184, 405
BsaHI GRCGYC 1 cut(s) 490
BsaI GGTCTC 1 cut(s) 150
BsaJI CCNNGG 7 cut(s) 65, 135, 182, 241, 242, 475, 590
BsaWI WCCGGW 1 cut(s) 692
Bsc4I CCNNNNNNNGG 7 cut(s) 71, 152, 188, 248, 508, 592, 879
Bse1I ACTGG 3 cut(s) 118, 210, 792
BseBI CCWGG 1 cut(s) 243
BseDI CCNNGG 7 cut(s) 65, 135, 182, 241, 242, 475, 590
BseGI GGATG 4 cut(s) 253, 284, 483, 602
BseLI CCNNNNNNNGG 7 cut(s) 71, 152, 188, 248, 508, 592, 879
BseMII CTCAG 4 cut(s) 275, 713, 714, 795
BseNI ACTGG 3 cut(s) 118, 210, 792
BseSI GKGCMC 2 cut(s) 194, 846
BseXI GCAGC 6 cut(s) 405, 542, 688, 771, 890, 899
BseYI CCCAGC 1 cut(s) 316
BsgI GTGCAG 1 cut(s) 695
BshFI GGCC 2 cut(s) 117, 844
BshNI GGYRCC 1 cut(s) 489
BsiHKAI GWGCWC 1 cut(s) 707
BsiHKCI CYCGRG 3 cut(s) 182, 802, 839
BsiSI CCGG 4 cut(s) 183, 404, 487, 693
BslFI GGGAC 1 cut(s) 420
BslI CCNNNNNNNGG 7 cut(s) 71, 152, 188, 248, 508, 592, 879
BsmAI GTCTC 1 cut(s) 150
BsmFI GGGAC 1 cut(s) 420
BsnI GGCC 2 cut(s) 117, 844
Bso31I GGTCTC 1 cut(s) 150
BsoBI CYCGRG 3 cut(s) 182, 802, 839
Bsp120I GGGCCC 1 cut(s) 842
Bsp1286I GDGCHC 3 cut(s) 194, 707, 846
Bsp143I GATC 4 cut(s) 86, 270, 361, 811
Bsp1720I GCTNAGC 1 cut(s) 465
Bsp19I CCATGG 1 cut(s) 135
BspACI CCGC 1 cut(s) 187
BspANI GGCC 2 cut(s) 117, 844
BspCNI CTCAG 4 cut(s) 274, 712, 715, 794
BspLI GGNNCC 2 cut(s) 491, 844
BspPI GGATC 3 cut(s) 94, 369, 806
BspT107I GGYRCC 1 cut(s) 489
BspTNI GGTCTC 1 cut(s) 150
BsrI ACTGG 3 cut(s) 118, 210, 792
BssECI CCNNGG 7 cut(s) 65, 135, 182, 241, 242, 475, 590
BssMI GATC 4 cut(s) 86, 270, 361, 811
BssNI GRCGYC 1 cut(s) 490
BssT1I CCWWGG 3 cut(s) 65, 135, 590
Bst2UI CCWGG 1 cut(s) 243
Bst4CI ACNGT 2 cut(s) 16, 542
Bst6I CTCTTC 1 cut(s) 383
BstACI GRCGYC 1 cut(s) 490
BstC8I GCNNGC 1 cut(s) 267
BstDEI CTNAG 6 cut(s) 174, 261, 465, 699, 723, 781
BstDSI CCRYGG 2 cut(s) 135, 475
BstEII GGTNACC 1 cut(s) 787
BstF5I GGATG 4 cut(s) 253, 284, 483, 602
BstH2I RGCGCY 1 cut(s) 493
BstHHI GCGC 2 cut(s) 492, 585
BstKTI GATC 4 cut(s) 89, 273, 364, 814
BstMAI GTCTC 1 cut(s) 150
BstMBI GATC 4 cut(s) 86, 270, 361, 811
BstMWI GCNNNNNNNGC 4 cut(s) 184, 553, 685, 850
BstNI CCWGG 1 cut(s) 243
BstPI GGTNACC 1 cut(s) 787
BstSCI CCNGG 4 cut(s) 181, 182, 241, 403
BstSFI CTRYAG 1 cut(s) 435
BstSLI GKGCMC 2 cut(s) 194, 846
BstV1I GCAGC 6 cut(s) 405, 542, 688, 771, 890, 899
BstX2I RGATCY 2 cut(s) 86, 811
BstYI RGATCY 2 cut(s) 86, 811
BsuRI GGCC 2 cut(s) 117, 844
BtgI CCRYGG 2 cut(s) 135, 475
BtsCI GGATG 4 cut(s) 253, 284, 483, 602
BtsI GCAGTG 2 cut(s) 165, 897
BtsIMutI CAGTG 5 cut(s) 63, 165, 192, 422, 897
Cac8I GCNNGC 1 cut(s) 267
CfoI GCGC 2 cut(s) 492, 585
Cfr13I GGNCC 4 cut(s) 392, 446, 842, 843
Cfr9I CCCGGG 1 cut(s) 182
Csp6I GTAC 2 cut(s) 75, 799
CspCI CAANNNNNGTGG 2 cut(s) 411, 446
CviAII CATG 9 cut(s) 32, 101, 136, 358, 517, 557, 575, 580, 862
CviQI GTAC 2 cut(s) 75, 799
DdeI CTNAG 6 cut(s) 174, 261, 465, 699, 723, 781
DinI GGCGCC 1 cut(s) 491
DpnI GATC 4 cut(s) 88, 272, 363, 813
DpnII GATC 4 cut(s) 86, 270, 361, 811
EaeI YGGCCR 1 cut(s) 115
Eam1104I CTCTTC 1 cut(s) 383
EarI CTCTTC 1 cut(s) 383
Ecl136II GAGCTC 1 cut(s) 705
Eco130I CCWWGG 3 cut(s) 65, 135, 590
Eco24I GRGCYC 2 cut(s) 707, 846
Eco31I GGTCTC 1 cut(s) 150
Eco47I GGWCC 2 cut(s) 392, 446
Eco53kI GAGCTC 1 cut(s) 705
Eco57I CTGAAG 1 cut(s) 729
Eco88I CYCGRG 3 cut(s) 182, 802, 839
Eco91I GGTNACC 1 cut(s) 787
EcoICRI GAGCTC 1 cut(s) 705
EcoO109I RGGNCCY 1 cut(s) 843
EcoO65I GGTNACC 1 cut(s) 787
EcoRII CCWGG 1 cut(s) 241
EcoT14I CCWWGG 3 cut(s) 65, 135, 590
EcoT22I ATGCAT 1 cut(s) 558
EcoT38I GRGCYC 2 cut(s) 707, 846
EgeI GGCGCC 1 cut(s) 491
EheI GGCGCC 1 cut(s) 491
ErhI CCWWGG 3 cut(s) 65, 135, 590
FaeI CATG 9 cut(s) 35, 104, 139, 361, 520, 560, 578, 583, 865
FaqI GGGAC 1 cut(s) 420
FatI CATG 9 cut(s) 31, 100, 135, 357, 516, 556, 574, 579, 861
FauI CCCGC 1 cut(s) 180
FauNDI CATATG 1 cut(s) 388
Fnu4HI GCNGC 6 cut(s) 419, 531, 677, 760, 888, 904
FokI GGATG 4 cut(s) 260, 271, 470, 609
FriOI GRGCYC 2 cut(s) 707, 846
Fsp4HI GCNGC 6 cut(s) 419, 531, 677, 760, 888, 904
FspBI CTAG 2 cut(s) 534, 662
GlaI GCGC 2 cut(s) 491, 584
GluI GCNGC 6 cut(s) 419, 531, 677, 760, 888, 904
GsaI CCCAGC 1 cut(s) 320
HaeII RGCGCY 1 cut(s) 493
HaeIII GGCC 2 cut(s) 117, 844
HapII CCGG 4 cut(s) 183, 404, 487, 693
HhaI GCGC 2 cut(s) 492, 585
Hin1I GRCGYC 1 cut(s) 490
Hin1II CATG 9 cut(s) 35, 104, 139, 361, 520, 560, 578, 583, 865
Hin6I GCGC 2 cut(s) 490, 583
HinP1I GCGC 2 cut(s) 490, 583
HinfI GANTC 6 cut(s) 107, 321, 375, 480, 560, 826
HpaII CCGG 4 cut(s) 183, 404, 487, 693
HphI GGTGA 2 cut(s) 680, 799
Hpy166II GTNNAC 1 cut(s) 231
Hpy188I TCNGA 6 cut(s) 615, 702, 709, 724, 784, 920
Hpy8I GTNNAC 1 cut(s) 231
HpyAV CCTTC 2 cut(s) 29, 437
HpyCH4III ACNGT 2 cut(s) 16, 542
HpyCH4IV ACGT 1 cut(s) 409
HpyCH4V TGCA 9 cut(s) 10, 280, 506, 556, 676, 718, 853, 887, 906
HpyF10VI GCNNNNNNNGC 4 cut(s) 184, 553, 685, 850
HpyF3I CTNAG 6 cut(s) 174, 261, 465, 699, 723, 781
HpySE526I ACGT 1 cut(s) 409
Hsp92I GRCGYC 1 cut(s) 490
Hsp92II CATG 9 cut(s) 35, 104, 139, 361, 520, 560, 578, 583, 865
HspAI GCGC 2 cut(s) 490, 583
KasI GGCGCC 1 cut(s) 489
Kzo9I GATC 4 cut(s) 86, 270, 361, 811
LmnI GCTCC 1 cut(s) 139
Lsp1109I GCAGC 6 cut(s) 405, 542, 688, 771, 890, 899
MaeI CTAG 2 cut(s) 534, 662
MaeII ACGT 1 cut(s) 409
MaeIII GTNAC 2 cut(s) 60, 787
MalI GATC 4 cut(s) 88, 272, 363, 813
MboI GATC 4 cut(s) 86, 270, 361, 811
MboII GAAGA 3 cut(s) 229, 370, 563
MflI RGATCY 2 cut(s) 86, 811
MhlI GDGCHC 3 cut(s) 194, 707, 846
MlsI TGGCCA 1 cut(s) 117
MluCI AATT 3 cut(s) 427, 450, 654
MluNI TGGCCA 1 cut(s) 117
Mly113I GGCGCC 1 cut(s) 490
MlyI GAGTC 1 cut(s) 369
MmeI TCCRAC 1 cut(s) 792
MnlI CCTC 5 cut(s) 405, 778, 798, 856, 920
Mox20I TGGCCA 1 cut(s) 117
Mph1103I ATGCAT 1 cut(s) 558
MscI TGGCCA 1 cut(s) 117
MseI TTAA 1 cut(s) 657
MslI CAYNNNNRTG 2 cut(s) 573, 866
Msp20I TGGCCA 1 cut(s) 117
MspA1I CMGCKG 1 cut(s) 679
MspI CCGG 4 cut(s) 183, 404, 487, 693
MspR9I CCNGG 4 cut(s) 183, 184, 243, 405
MvaI CCWGG 1 cut(s) 243
MwoI GCNNNNNNNGC 4 cut(s) 184, 553, 685, 850
NarI GGCGCC 1 cut(s) 490
NciI CCSGG 3 cut(s) 183, 184, 405
NcoI CCATGG 1 cut(s) 135
NdeI CATATG 1 cut(s) 388
NdeII GATC 4 cut(s) 86, 270, 361, 811
NlaIII CATG 9 cut(s) 35, 104, 139, 361, 520, 560, 578, 583, 865
NlaIV GGNNCC 2 cut(s) 491, 844
NmuCI GTSAC 1 cut(s) 787
NsiI ATGCAT 1 cut(s) 558
PaeR7I CTCGAG 1 cut(s) 802
PasI CCCWGGG 1 cut(s) 242
PfeI GAWTC 5 cut(s) 107, 321, 480, 560, 826
PflMI CCANNNNNTGG 1 cut(s) 879
PfoI TCCNGGA 1 cut(s) 403
PkrI GCNGC 6 cut(s) 420, 532, 678, 761, 889, 905
PleI GAGTC 1 cut(s) 369
PluTI GGCGCC 1 cut(s) 493
PpsI GAGTC 1 cut(s) 369
Psp124BI GAGCTC 1 cut(s) 707
Psp6I CCWGG 1 cut(s) 241
PspEI GGTNACC 1 cut(s) 787
PspFI CCCAGC 1 cut(s) 316
PspGI CCWGG 1 cut(s) 241
PspN4I GGNNCC 2 cut(s) 491, 844
PspOMI GGGCCC 1 cut(s) 842
PspPI GGNCC 4 cut(s) 392, 446, 842, 843
PspXI VCTCGAGB 1 cut(s) 802
PsuI RGATCY 2 cut(s) 86, 811
PvuII CAGCTG 1 cut(s) 679
RsaI GTAC 2 cut(s) 76, 800
RsaNI GTAC 2 cut(s) 75, 799
RseI CAYNNNNRTG 2 cut(s) 573, 866
SacI GAGCTC 1 cut(s) 707
SaqAI TTAA 1 cut(s) 657
SatI GCNGC 6 cut(s) 419, 531, 677, 760, 888, 904
Sau3AI GATC 4 cut(s) 86, 270, 361, 811
Sau96I GGNCC 4 cut(s) 392, 446, 842, 843
SchI GAGTC 1 cut(s) 369
ScrFI CCNGG 4 cut(s) 183, 184, 243, 405
SduI GDGCHC 3 cut(s) 194, 707, 846
SfcI CTRYAG 1 cut(s) 435
SfoI GGCGCC 1 cut(s) 491
Sfr274I CTCGAG 1 cut(s) 802
SinI GGWCC 2 cut(s) 392, 446
SlaI CTCGAG 1 cut(s) 802
SmaI CCCGGG 1 cut(s) 184
SmiMI CAYNNNNRTG 2 cut(s) 573, 866
SmlI CTYRAG 2 cut(s) 396, 802
SmoI CTYRAG 2 cut(s) 396, 802
Sse9I AATT 3 cut(s) 427, 450, 654
SsiI CCGC 1 cut(s) 187
SspDI GGCGCC 1 cut(s) 489
SspMI CTAG 2 cut(s) 534, 662
SstI GAGCTC 1 cut(s) 707
StyD4I CCNGG 4 cut(s) 181, 182, 241, 403
StyI CCWWGG 3 cut(s) 65, 135, 590
TaaI ACNGT 2 cut(s) 16, 542
TaiI ACGT 1 cut(s) 412
TaqI TCGA 1 cut(s) 803
TasI AATT 3 cut(s) 427, 450, 654
TatI WGTACW 1 cut(s) 798
TfiI GAWTC 5 cut(s) 107, 321, 480, 560, 826
Tru1I TTAA 1 cut(s) 657
Tru9I TTAA 1 cut(s) 657
TscAI CASTG 5 cut(s) 63, 172, 199, 429, 897
TseFI GTSAC 1 cut(s) 787
TseI GCWGC 6 cut(s) 418, 530, 676, 759, 887, 903
Tsp45I GTSAC 1 cut(s) 787
TspDTI ATGAA 7 cut(s) 48, 89, 456, 563, 573, 666, 839
TspGWI ACGGA 1 cut(s) 492
TspMI CCCGGG 1 cut(s) 182
TspRI CASTG 5 cut(s) 63, 172, 199, 429, 897
Van91I CCANNNNNTGG 1 cut(s) 879
VpaK11BI GGWCC 2 cut(s) 392, 446
XapI RAATTY 1 cut(s) 427
XhoI CTCGAG 1 cut(s) 802
XmaI CCCGGG 1 cut(s) 182
XspI CTAG 2 cut(s) 534, 662
Zsp2I ATGCAT 1 cut(s) 558
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.