Rh3AG205300

Nuclear transcription factor Y subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3A
OG0005317
Physical Location & Seq
Reverse (-)
20366795 .. 20371270
4476 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3AG205300.1

Sequence Viewer

Length: 870 bp
ATGGCTATGCAAACTGTTTATTTCAAAGAACATGAAGGACTTGGGCAGTTGTCATCAGTGTTACCTTGGTGGGGTACTGCCTTTGGATCTCAACAAGTTCATGGCGAATCCTGTGGCCAGTCAAAACCTTTTACCATGGAGCTTCCCAATAATGGAGACCAACCCACTGCCACTAAGAAACCCGGGCGGGGCACTGAACAAGGACTGGATAAAGGGAACACAAATCAGTTCACTATCTTCCCTGGGGATGGGAAAAAATCTCAGCCAGCGATCTCTCTGCAATCATCCCCACCAAAACATCGTGGTCATTTTGAGCTAGGATTCAGCCAACCTATGGGACGCATTATGCTGCCACTGAATTTGACTACAGATGAAGGACCAATTTATGTCAATGCTAAGCAATACCACGGAATCATCAGGCGCCGACAATCCCGTGCAAAGGCAGTCATGGAGAACAGAGCAGCTAGACACCGTAAGCCCTATATGCATGAATCACGCCATCTTCATGCCATGCGCCGACCAAGGGGATGTGGTGGTCGTTTTCTGAATACCAAGAACAATGGGAAAGGTAGAAATGAAATGAAGCTAGTTGGTGATGTGCAGCTGTTCAGGCACTCCGGTTCTCAGAGCTCTGAAGTCCTGCAATCTGAGAGTGGAACTTTGAACTCATCAAAAACAAATGGCAGCAGTTCCAACATATCAGGCTCAGAGGTGACCAGTACGTACTCGAGGGGAGATCCTTTTTCAATGAATCATCATCATCTCGGGCCCTCTGTGCGTTATCTGTCAGACATGATGGATGGTCGTGGCATGGTTATGCCCACAAAATGGATTGCAGCAGTGGATAACTGCTGCAACCTCAAAGTCTGA

Protein Analysis

289

Amino Acids

31.97

Weight (kDa)

9.91

Isoelectric Point (pI)

47.73

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CBFB_NFYA PF02045 127 - 181 7.7e-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

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 420
AccB7I CCANNNNNTGG 2 cut(s) 334, 828
AciI CCGC 1 cut(s) 187
AclWI GGATC 2 cut(s) 94, 731
AcoI YGGCCR 1 cut(s) 115
AcsI RAATTY 1 cut(s) 358
AcuI CTGAAG 1 cut(s) 654
AcyI GRCGYC 1 cut(s) 421
AfaI GTAC 3 cut(s) 76, 721, 725
AfiI CCNNNNNNNGG 8 cut(s) 71, 152, 188, 248, 334, 439, 523, 828
AgsI TTSAA 3 cut(s) 25, 664, 747
AjnI CCWGG 1 cut(s) 241
AluBI AGCT 6 cut(s) 142, 316, 464, 586, 604, 630
AluI AGCT 6 cut(s) 142, 316, 464, 586, 604, 630
Alw21I GWGCWC 1 cut(s) 632
Alw26I GTCTC 1 cut(s) 150
AlwI GGATC 2 cut(s) 94, 731
Ama87I CYCGRG 3 cut(s) 182, 727, 764
AoxI GGCC 2 cut(s) 115, 767
ApaI GGGCCC 1 cut(s) 771
ApeKI GCWGC 6 cut(s) 349, 461, 601, 684, 836, 852
ApoI RAATTY 1 cut(s) 358
AspLEI GCGC 2 cut(s) 423, 516
AspS9I GGNCC 3 cut(s) 377, 767, 768
AsuC2I CCSGG 2 cut(s) 183, 184
AsuHPI GGTGA 2 cut(s) 605, 724
AvaI CYCGRG 3 cut(s) 182, 727, 764
AvaII GGWCC 1 cut(s) 377
BaeGI GKGCMC 2 cut(s) 194, 771
BalI TGGCCA 1 cut(s) 117
BanI GGYRCC 1 cut(s) 420
BanII GRGCYC 2 cut(s) 632, 771
Bbv12I GWGCWC 1 cut(s) 632
BbvI GCAGC 6 cut(s) 336, 473, 613, 696, 839, 848
BccI CCATC 4 cut(s) 242, 507, 790, 794
BcgI CGANNNNNNTGC 2 cut(s) 259, 293
BciT130I CCWGG 1 cut(s) 243
BcnI CCSGG 2 cut(s) 183, 184
BcoDI GTCTC 1 cut(s) 150
BfaI CTAG 3 cut(s) 317, 465, 587
BfmI CTRYAG 1 cut(s) 366
BfoI RGCGCY 1 cut(s) 424
BisI GCNGC 6 cut(s) 350, 462, 602, 685, 837, 853
BlpI GCTNAGC 1 cut(s) 396
BlsI GCNGC 6 cut(s) 351, 463, 603, 686, 838, 854
Bme1390I CCNGG 3 cut(s) 183, 184, 243
Bme18I GGWCC 1 cut(s) 377
BmeT110I CYCGRG 3 cut(s) 182, 727, 764
BmgT120I GGNCC 3 cut(s) 377, 767, 768
BmiI GGNNCC 2 cut(s) 422, 769
BmrFI CCNGG 3 cut(s) 183, 184, 243
Bpu1102I GCTNAGC 1 cut(s) 396
BpuMI CCSGG 2 cut(s) 183, 184
BsaAI YACGTR 1 cut(s) 723
BsaHI GRCGYC 1 cut(s) 421
BsaI GGTCTC 1 cut(s) 150
BsaJI CCNNGG 7 cut(s) 65, 135, 182, 241, 242, 406, 521
BsaWI WCCGGW 1 cut(s) 617
Bsc4I CCNNNNNNNGG 8 cut(s) 71, 152, 188, 248, 334, 439, 523, 828
Bse1I ACTGG 3 cut(s) 118, 210, 717
BseBI CCWGG 1 cut(s) 243
BseDI CCNNGG 7 cut(s) 65, 135, 182, 241, 242, 406, 521
BseGI GGATG 4 cut(s) 253, 284, 533, 805
BseLI CCNNNNNNNGG 8 cut(s) 71, 152, 188, 248, 334, 439, 523, 828
BseMII CTCAG 4 cut(s) 275, 638, 639, 720
BseNI ACTGG 3 cut(s) 118, 210, 717
BseSI GKGCMC 2 cut(s) 194, 771
BseXI GCAGC 6 cut(s) 336, 473, 613, 696, 839, 848
BsgI GTGCAG 1 cut(s) 620
BshFI GGCC 2 cut(s) 117, 769
BshNI GGYRCC 1 cut(s) 420
BsiHKAI GWGCWC 1 cut(s) 632
BsiHKCI CYCGRG 3 cut(s) 182, 727, 764
BsiSI CCGG 2 cut(s) 183, 618
BslFI GGGAC 1 cut(s) 351
BslI CCNNNNNNNGG 8 cut(s) 71, 152, 188, 248, 334, 439, 523, 828
BsmAI GTCTC 1 cut(s) 150
BsmFI GGGAC 1 cut(s) 351
BsnI GGCC 2 cut(s) 117, 769
Bso31I GGTCTC 1 cut(s) 150
BsoBI CYCGRG 3 cut(s) 182, 727, 764
Bsp120I GGGCCC 1 cut(s) 767
Bsp1286I GDGCHC 3 cut(s) 194, 632, 771
Bsp143I GATC 3 cut(s) 86, 270, 736
Bsp1720I GCTNAGC 1 cut(s) 396
Bsp19I CCATGG 1 cut(s) 135
BspACI CCGC 1 cut(s) 187
BspANI GGCC 2 cut(s) 117, 769
BspCNI CTCAG 4 cut(s) 274, 637, 640, 719
BspLI GGNNCC 2 cut(s) 422, 769
BspPI GGATC 2 cut(s) 94, 731
BspT107I GGYRCC 1 cut(s) 420
BspTNI GGTCTC 1 cut(s) 150
BsrI ACTGG 3 cut(s) 118, 210, 717
BssECI CCNNGG 7 cut(s) 65, 135, 182, 241, 242, 406, 521
BssMI GATC 3 cut(s) 86, 270, 736
BssNI GRCGYC 1 cut(s) 421
BssT1I CCWWGG 3 cut(s) 65, 135, 521
Bst2UI CCWGG 1 cut(s) 243
Bst4CI ACNGT 2 cut(s) 16, 473
BstACI GRCGYC 1 cut(s) 421
BstBAI YACGTR 1 cut(s) 723
BstC8I GCNNGC 1 cut(s) 267
BstDEI CTNAG 6 cut(s) 174, 261, 396, 624, 648, 706
BstDSI CCRYGG 2 cut(s) 135, 406
BstEII GGTNACC 1 cut(s) 712
BstF5I GGATG 4 cut(s) 253, 284, 533, 805
BstH2I RGCGCY 1 cut(s) 424
BstHHI GCGC 2 cut(s) 423, 516
BstKTI GATC 3 cut(s) 89, 273, 739
BstMAI GTCTC 1 cut(s) 150
BstMBI GATC 3 cut(s) 86, 270, 736
BstMWI GCNNNNNNNGC 3 cut(s) 484, 610, 775
BstNI CCWGG 1 cut(s) 243
BstPI GGTNACC 1 cut(s) 712
BstSCI CCNGG 3 cut(s) 181, 182, 241
BstSFI CTRYAG 1 cut(s) 366
BstSLI GKGCMC 2 cut(s) 194, 771
BstSNI TACGTA 1 cut(s) 723
BstV1I GCAGC 6 cut(s) 336, 473, 613, 696, 839, 848
BstX2I RGATCY 2 cut(s) 86, 736
BstYI RGATCY 2 cut(s) 86, 736
BsuRI GGCC 2 cut(s) 117, 769
BtgI CCRYGG 2 cut(s) 135, 406
BtsCI GGATG 4 cut(s) 253, 284, 533, 805
BtsI GCAGTG 2 cut(s) 165, 846
BtsIMutI CAGTG 5 cut(s) 63, 165, 192, 353, 846
Cac8I GCNNGC 1 cut(s) 267
CfoI GCGC 2 cut(s) 423, 516
Cfr13I GGNCC 3 cut(s) 377, 767, 768
Cfr9I CCCGGG 1 cut(s) 182
CseI GACGC 1 cut(s) 348
Csp6I GTAC 3 cut(s) 75, 720, 724
CspCI CAANNNNNGTGG 2 cut(s) 342, 377
CviAII CATG 9 cut(s) 32, 101, 136, 448, 488, 506, 511, 793, 811
CviQI GTAC 3 cut(s) 75, 720, 724
DdeI CTNAG 6 cut(s) 174, 261, 396, 624, 648, 706
DinI GGCGCC 1 cut(s) 422
DpnI GATC 3 cut(s) 88, 272, 738
DpnII GATC 3 cut(s) 86, 270, 736
EaeI YGGCCR 1 cut(s) 115
Ecl136II GAGCTC 1 cut(s) 630
Eco105I TACGTA 1 cut(s) 723
Eco130I CCWWGG 3 cut(s) 65, 135, 521
Eco24I GRGCYC 2 cut(s) 632, 771
Eco31I GGTCTC 1 cut(s) 150
Eco47I GGWCC 1 cut(s) 377
Eco53kI GAGCTC 1 cut(s) 630
Eco57I CTGAAG 1 cut(s) 654
Eco88I CYCGRG 3 cut(s) 182, 727, 764
Eco91I GGTNACC 1 cut(s) 712
EcoICRI GAGCTC 1 cut(s) 630
EcoO109I RGGNCCY 1 cut(s) 768
EcoO65I GGTNACC 1 cut(s) 712
EcoRII CCWGG 1 cut(s) 241
EcoT14I CCWWGG 3 cut(s) 65, 135, 521
EcoT22I ATGCAT 1 cut(s) 489
EcoT38I GRGCYC 2 cut(s) 632, 771
EgeI GGCGCC 1 cut(s) 422
EheI GGCGCC 1 cut(s) 422
ErhI CCWWGG 3 cut(s) 65, 135, 521
FaeI CATG 9 cut(s) 35, 104, 139, 451, 491, 509, 514, 796, 814
FaqI GGGAC 1 cut(s) 351
FatI CATG 9 cut(s) 31, 100, 135, 447, 487, 505, 510, 792, 810
FauI CCCGC 1 cut(s) 180
Fnu4HI GCNGC 6 cut(s) 350, 462, 602, 685, 837, 853
FokI GGATG 4 cut(s) 260, 271, 540, 812
FriOI GRGCYC 2 cut(s) 632, 771
Fsp4HI GCNGC 6 cut(s) 350, 462, 602, 685, 837, 853
FspBI CTAG 3 cut(s) 317, 465, 587
GlaI GCGC 2 cut(s) 422, 515
GluI GCNGC 6 cut(s) 350, 462, 602, 685, 837, 853
HaeII RGCGCY 1 cut(s) 424
HaeIII GGCC 2 cut(s) 117, 769
HapII CCGG 2 cut(s) 183, 618
HgaI GACGC 1 cut(s) 348
HhaI GCGC 2 cut(s) 423, 516
Hin1I GRCGYC 1 cut(s) 421
Hin1II CATG 9 cut(s) 35, 104, 139, 451, 491, 509, 514, 796, 814
Hin6I GCGC 2 cut(s) 421, 514
HinP1I GCGC 2 cut(s) 421, 514
HinfI GANTC 5 cut(s) 107, 321, 411, 491, 751
HpaII CCGG 2 cut(s) 183, 618
HphI GGTGA 2 cut(s) 605, 724
Hpy166II GTNNAC 1 cut(s) 231
Hpy188I TCNGA 7 cut(s) 546, 627, 634, 649, 709, 790, 869
Hpy8I GTNNAC 1 cut(s) 231
HpyAV CCTTC 2 cut(s) 29, 368
HpyCH4III ACNGT 2 cut(s) 16, 473
HpyCH4IV ACGT 1 cut(s) 722
HpyCH4V TGCA 8 cut(s) 10, 280, 437, 487, 601, 643, 836, 855
HpyF10VI GCNNNNNNNGC 3 cut(s) 484, 610, 775
HpyF3I CTNAG 6 cut(s) 174, 261, 396, 624, 648, 706
HpySE526I ACGT 1 cut(s) 722
Hsp92I GRCGYC 1 cut(s) 421
Hsp92II CATG 9 cut(s) 35, 104, 139, 451, 491, 509, 514, 796, 814
HspAI GCGC 2 cut(s) 421, 514
KasI GGCGCC 1 cut(s) 420
Kzo9I GATC 3 cut(s) 86, 270, 736
LmnI GCTCC 1 cut(s) 139
Lsp1109I GCAGC 6 cut(s) 336, 473, 613, 696, 839, 848
MaeI CTAG 3 cut(s) 317, 465, 587
MaeII ACGT 1 cut(s) 722
MaeIII GTNAC 2 cut(s) 60, 712
MalI GATC 3 cut(s) 88, 272, 738
MboI GATC 3 cut(s) 86, 270, 736
MboII GAAGA 2 cut(s) 229, 494
MflI RGATCY 2 cut(s) 86, 736
MhlI GDGCHC 3 cut(s) 194, 632, 771
MlsI TGGCCA 1 cut(s) 117
MluCI AATT 2 cut(s) 358, 381
MluNI TGGCCA 1 cut(s) 117
Mly113I GGCGCC 1 cut(s) 421
MmeI TCCRAC 1 cut(s) 717
MnlI CCTC 4 cut(s) 703, 723, 781, 869
Mox20I TGGCCA 1 cut(s) 117
Mph1103I ATGCAT 1 cut(s) 489
MscI TGGCCA 1 cut(s) 117
MslI CAYNNNNRTG 2 cut(s) 504, 815
Msp20I TGGCCA 1 cut(s) 117
MspA1I CMGCKG 1 cut(s) 604
MspI CCGG 2 cut(s) 183, 618
MspR9I CCNGG 3 cut(s) 183, 184, 243
MvaI CCWGG 1 cut(s) 243
MwoI GCNNNNNNNGC 3 cut(s) 484, 610, 775
NarI GGCGCC 1 cut(s) 421
NciI CCSGG 2 cut(s) 183, 184
NcoI CCATGG 1 cut(s) 135
NdeII GATC 3 cut(s) 86, 270, 736
NlaIII CATG 9 cut(s) 35, 104, 139, 451, 491, 509, 514, 796, 814
NlaIV GGNNCC 2 cut(s) 422, 769
NmuCI GTSAC 1 cut(s) 712
NsiI ATGCAT 1 cut(s) 489
PaeR7I CTCGAG 1 cut(s) 727
PasI CCCWGGG 1 cut(s) 242
PfeI GAWTC 5 cut(s) 107, 321, 411, 491, 751
PflMI CCANNNNNTGG 2 cut(s) 334, 828
PkrI GCNGC 6 cut(s) 351, 463, 603, 686, 838, 854
PluTI GGCGCC 1 cut(s) 424
Ppu21I YACGTR 1 cut(s) 723
Psp124BI GAGCTC 1 cut(s) 632
Psp6I CCWGG 1 cut(s) 241
PspEI GGTNACC 1 cut(s) 712
PspGI CCWGG 1 cut(s) 241
PspN4I GGNNCC 2 cut(s) 422, 769
PspOMI GGGCCC 1 cut(s) 767
PspPI GGNCC 3 cut(s) 377, 767, 768
PspXI VCTCGAGB 1 cut(s) 727
PsuI RGATCY 2 cut(s) 86, 736
PvuII CAGCTG 1 cut(s) 604
RsaI GTAC 3 cut(s) 76, 721, 725
RsaNI GTAC 3 cut(s) 75, 720, 724
RseI CAYNNNNRTG 2 cut(s) 504, 815
SacI GAGCTC 1 cut(s) 632
SatI GCNGC 6 cut(s) 350, 462, 602, 685, 837, 853
Sau3AI GATC 3 cut(s) 86, 270, 736
Sau96I GGNCC 3 cut(s) 377, 767, 768
ScrFI CCNGG 3 cut(s) 183, 184, 243
SduI GDGCHC 3 cut(s) 194, 632, 771
SfcI CTRYAG 1 cut(s) 366
SfoI GGCGCC 1 cut(s) 422
Sfr274I CTCGAG 1 cut(s) 727
SinI GGWCC 1 cut(s) 377
SlaI CTCGAG 1 cut(s) 727
SmaI CCCGGG 1 cut(s) 184
SmiMI CAYNNNNRTG 2 cut(s) 504, 815
SmlI CTYRAG 1 cut(s) 727
SmoI CTYRAG 1 cut(s) 727
SnaBI TACGTA 1 cut(s) 723
Sse9I AATT 2 cut(s) 358, 381
SsiI CCGC 1 cut(s) 187
SspDI GGCGCC 1 cut(s) 420
SspMI CTAG 3 cut(s) 317, 465, 587
SstI GAGCTC 1 cut(s) 632
StyD4I CCNGG 3 cut(s) 181, 182, 241
StyI CCWWGG 3 cut(s) 65, 135, 521
TaaI ACNGT 2 cut(s) 16, 473
TaiI ACGT 1 cut(s) 725
TaqI TCGA 1 cut(s) 728
TasI AATT 2 cut(s) 358, 381
TfiI GAWTC 5 cut(s) 107, 321, 411, 491, 751
TscAI CASTG 5 cut(s) 63, 172, 199, 360, 846
TseFI GTSAC 1 cut(s) 712
TseI GCWGC 6 cut(s) 349, 461, 601, 684, 836, 852
Tsp45I GTSAC 1 cut(s) 712
TspDTI ATGAA 8 cut(s) 48, 89, 387, 494, 504, 591, 596, 764
TspGWI ACGGA 1 cut(s) 423
TspMI CCCGGG 1 cut(s) 182
TspRI CASTG 5 cut(s) 63, 172, 199, 360, 846
Van91I CCANNNNNTGG 2 cut(s) 334, 828
VpaK11BI GGWCC 1 cut(s) 377
XapI RAATTY 1 cut(s) 358
XhoI CTCGAG 1 cut(s) 727
XmaI CCCGGG 1 cut(s) 182
XspI CTAG 3 cut(s) 317, 465, 587
Zsp2I ATGCAT 1 cut(s) 489
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.