RLG00000023772

Nuclear transcription factor Y subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr5
OG0005317
Physical Location & Seq
Forward (+)
28065619 .. 28069536
3918 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000023772

Sequence Viewer

Length: 1011 bp
ATGGCTATGCAAACTGTTTATTTCAAAGAACATGAAGGACTTGGGCAGTTTTCATCAGTGTTACCTTGGTGGGGTACTGCCTTTGGATCTCAACAAGTTTATGGCGAATCCTGTGGTCAGTCGAAACCTTTTACCATGGAGCTTCCCAATAATGGAGATCAACTCACTGCCACTAAGCAACCCGGGCGGGGCACTGAACAAGGACTGGATAAAGGGAACACAAATCAGTTCACTATCTTCCCTGGGGATGGGAAAAAATCTCAGCCAGCGATCTCTCTCCAATTATCCCCACCAAAATATCGTGGTCATTTTGAGCTGGGATTCAGCCAACCTATGGGACGCATTATGCTGCCACTGAATTTGACTACAGATGAAGGACCAATTTATGTCAATGCTAAGCAATACCACGGAATCATCCGGCGCCGACAATCCCGTGCAAAGGCAGTCATGGAGAACAGAGCAGCTAGACACCGTAAGCCCTATATGCATGAATCACGCCATCTTCATGCCATGCGCCGACCAAGGGGATGTGGTGGTCGTTTTCTGAATACCAAGACTTCAAACAATGGGAAAGGTAGAAATGAAATGAAGCAAGTTGGTGAAGTGCAGCTGTTTAGGCACTCCGGTTCTCAGAACTCTGAAGTCATGCAATCCGAGAGTGGAACTTTGAACTCATCAAAAACAAATGGCAGCAGTTCCAACATATCAGGCTCAGAGGTGACCAGTACGTACTCTAGGGGAGATCTTGATCGTTTTTCAATGAATCATCATCATCTCGGGCCCTCAGTGCATTCTCTGTCAGACATGATGGATGGTCGTGGCATGGTTATGCCCACAAAATGGATTGCAGCAGTGGATAACTGCTGCAACCTCAAAGATTGTCCTGCCACCATTTGGTTGCTATCAGAAGGCAATTCATTCTTGGCTCGGTGCAGCGGGGTGTTTACTTCCATTCCAAGCAATTCTTTTGTGCGGATGGCTAGTGAAAACCCCCAACGCATCACAAAGTAA

Protein Analysis

337

Amino Acids

37.27

Weight (kDa)

9.69

Isoelectric Point (pI)

41.46

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CBFB_NFYA PF02045 127 - 181 9.8e-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 3 cut(s) 334, 840, 894
AciI CCGC 3 cut(s) 187, 936, 973
AclWI GGATC 1 cut(s) 94
AcsI RAATTY 1 cut(s) 358
AcuI CTGAAG 1 cut(s) 660
AcyI GRCGYC 1 cut(s) 421
AfaI GTAC 3 cut(s) 76, 727, 731
AfiI CCNNNNNNNGG 9 cut(s) 71, 152, 188, 248, 334, 439, 523, 840, 894
AgsI TTSAA 4 cut(s) 25, 561, 670, 759
AjnI CCWGG 1 cut(s) 241
AluBI AGCT 4 cut(s) 142, 316, 464, 610
AluI AGCT 4 cut(s) 142, 316, 464, 610
AlwI GGATC 1 cut(s) 94
Ama87I CYCGRG 2 cut(s) 182, 776
AoxI GGCC 1 cut(s) 779
ApaI GGGCCC 1 cut(s) 783
ApeKI GCWGC 7 cut(s) 349, 461, 607, 690, 848, 864, 933
ApoI RAATTY 1 cut(s) 358
AspLEI GCGC 2 cut(s) 423, 516
AspS9I GGNCC 3 cut(s) 377, 779, 780
AsuC2I CCSGG 2 cut(s) 183, 184
AsuHPI GGTGA 2 cut(s) 611, 730
AvaI CYCGRG 2 cut(s) 182, 776
AvaII GGWCC 1 cut(s) 377
BaeGI GKGCMC 2 cut(s) 194, 783
BanI GGYRCC 1 cut(s) 420
BanII GRGCYC 1 cut(s) 783
BbvI GCAGC 7 cut(s) 336, 473, 619, 702, 851, 860, 945
BccI CCATC 5 cut(s) 242, 507, 802, 806, 970
BciT130I CCWGG 1 cut(s) 243
BcnI CCSGG 2 cut(s) 183, 184
BfaI CTAG 3 cut(s) 465, 735, 981
BfmI CTRYAG 1 cut(s) 366
BfoI RGCGCY 1 cut(s) 424
BglII AGATCT 1 cut(s) 742
BisI GCNGC 7 cut(s) 350, 462, 608, 691, 849, 865, 934
BlpI GCTNAGC 1 cut(s) 396
BlsI GCNGC 7 cut(s) 351, 463, 609, 692, 850, 866, 935
Bme1390I CCNGG 3 cut(s) 183, 184, 243
Bme18I GGWCC 1 cut(s) 377
BmeT110I CYCGRG 2 cut(s) 182, 776
BmgT120I GGNCC 3 cut(s) 377, 779, 780
BmiI GGNNCC 2 cut(s) 422, 781
BmrFI CCNGG 3 cut(s) 183, 184, 243
BplI GAGNNNNNCTC 2 cut(s) 147, 179
Bpu1102I GCTNAGC 1 cut(s) 396
BpuMI CCSGG 2 cut(s) 183, 184
BsaAI YACGTR 1 cut(s) 729
BsaBI GATNNNNATC 1 cut(s) 747
BsaHI GRCGYC 1 cut(s) 421
BsaJI CCNNGG 7 cut(s) 65, 135, 182, 241, 242, 406, 521
BsaWI WCCGGW 1 cut(s) 623
Bsc4I CCNNNNNNNGG 9 cut(s) 71, 152, 188, 248, 334, 439, 523, 840, 894
Bse1I ACTGG 2 cut(s) 210, 723
Bse8I GATNNNNATC 1 cut(s) 747
BseBI CCWGG 1 cut(s) 243
BseDI CCNNGG 7 cut(s) 65, 135, 182, 241, 242, 406, 521
BseGI GGATG 5 cut(s) 253, 414, 533, 817, 981
BseJI GATNNNNATC 1 cut(s) 747
BseLI CCNNNNNNNGG 9 cut(s) 71, 152, 188, 248, 334, 439, 523, 840, 894
BseMII CTCAG 4 cut(s) 275, 644, 726, 798
BseNI ACTGG 2 cut(s) 210, 723
BseSI GKGCMC 2 cut(s) 194, 783
BseXI GCAGC 7 cut(s) 336, 473, 619, 702, 851, 860, 945
BseYI CCCAGC 1 cut(s) 316
BsgI GTGCAG 2 cut(s) 626, 952
BshFI GGCC 1 cut(s) 781
BshNI GGYRCC 1 cut(s) 420
BsiHKCI CYCGRG 2 cut(s) 182, 776
BsiSI CCGG 3 cut(s) 183, 418, 624
BslFI GGGAC 1 cut(s) 351
BslI CCNNNNNNNGG 9 cut(s) 71, 152, 188, 248, 334, 439, 523, 840, 894
BsmFI GGGAC 1 cut(s) 351
BsmI GAATGC 1 cut(s) 790
BsnI GGCC 1 cut(s) 781
BsoBI CYCGRG 2 cut(s) 182, 776
Bsp120I GGGCCC 1 cut(s) 779
Bsp1286I GDGCHC 2 cut(s) 194, 783
Bsp143I GATC 5 cut(s) 86, 157, 270, 742, 748
Bsp1720I GCTNAGC 1 cut(s) 396
Bsp19I CCATGG 1 cut(s) 135
BspACI CCGC 3 cut(s) 187, 936, 973
BspANI GGCC 1 cut(s) 781
BspCNI CTCAG 4 cut(s) 274, 643, 725, 797
BspLI GGNNCC 2 cut(s) 422, 781
BspPI GGATC 1 cut(s) 94
BspT107I GGYRCC 1 cut(s) 420
BsrI ACTGG 2 cut(s) 210, 723
BssECI CCNNGG 7 cut(s) 65, 135, 182, 241, 242, 406, 521
BssMI GATC 5 cut(s) 86, 157, 270, 742, 748
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) 729
BstC8I GCNNGC 1 cut(s) 267
BstDEI CTNAG 6 cut(s) 174, 261, 396, 630, 712, 784
BstDSI CCRYGG 2 cut(s) 135, 406
BstEII GGTNACC 1 cut(s) 718
BstF5I GGATG 5 cut(s) 253, 414, 533, 817, 981
BstH2I RGCGCY 1 cut(s) 424
BstHHI GCGC 2 cut(s) 423, 516
BstKTI GATC 5 cut(s) 89, 160, 273, 745, 751
BstMBI GATC 5 cut(s) 86, 157, 270, 742, 748
BstMWI GCNNNNNNNGC 4 cut(s) 184, 484, 616, 787
BstNI CCWGG 1 cut(s) 243
BstPI GGTNACC 1 cut(s) 718
BstSCI CCNGG 3 cut(s) 181, 182, 241
BstSFI CTRYAG 1 cut(s) 366
BstSLI GKGCMC 2 cut(s) 194, 783
BstSNI TACGTA 1 cut(s) 729
BstV1I GCAGC 7 cut(s) 336, 473, 619, 702, 851, 860, 945
BstX2I RGATCY 2 cut(s) 86, 742
BstYI RGATCY 2 cut(s) 86, 742
BsuRI GGCC 1 cut(s) 781
BtgI CCRYGG 2 cut(s) 135, 406
BtsCI GGATG 5 cut(s) 253, 414, 533, 817, 981
BtsI GCAGTG 2 cut(s) 165, 858
BtsIMutI CAGTG 6 cut(s) 63, 165, 192, 353, 792, 858
Cac8I GCNNGC 1 cut(s) 267
CfoI GCGC 2 cut(s) 423, 516
Cfr13I GGNCC 3 cut(s) 377, 779, 780
Cfr9I CCCGGG 1 cut(s) 182
CseI GACGC 1 cut(s) 348
Csp6I GTAC 3 cut(s) 75, 726, 730
CspCI CAANNNNNGTGG 2 cut(s) 342, 377
CviAII CATG 9 cut(s) 32, 136, 448, 488, 506, 511, 646, 805, 823
CviQI GTAC 3 cut(s) 75, 726, 730
DdeI CTNAG 6 cut(s) 174, 261, 396, 630, 712, 784
DinI GGCGCC 1 cut(s) 422
DpnI GATC 5 cut(s) 88, 159, 272, 744, 750
DpnII GATC 5 cut(s) 86, 157, 270, 742, 748
Eco105I TACGTA 1 cut(s) 729
Eco130I CCWWGG 3 cut(s) 65, 135, 521
Eco24I GRGCYC 1 cut(s) 783
Eco47I GGWCC 1 cut(s) 377
Eco57I CTGAAG 1 cut(s) 660
Eco88I CYCGRG 2 cut(s) 182, 776
Eco91I GGTNACC 1 cut(s) 718
EcoO109I RGGNCCY 1 cut(s) 780
EcoO65I GGTNACC 1 cut(s) 718
EcoRII CCWGG 1 cut(s) 241
EcoT14I CCWWGG 3 cut(s) 65, 135, 521
EcoT22I ATGCAT 1 cut(s) 489
EcoT38I GRGCYC 1 cut(s) 783
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, 139, 451, 491, 509, 514, 649, 808, 826
FalI AAGNNNNNCTT 2 cut(s) 949, 981
FaqI GGGAC 1 cut(s) 351
FatI CATG 9 cut(s) 31, 135, 447, 487, 505, 510, 645, 804, 822
FauI CCCGC 2 cut(s) 180, 929
Fnu4HI GCNGC 7 cut(s) 350, 462, 608, 691, 849, 865, 934
FokI GGATG 5 cut(s) 260, 401, 540, 824, 988
FriOI GRGCYC 1 cut(s) 783
Fsp4HI GCNGC 7 cut(s) 350, 462, 608, 691, 849, 865, 934
FspBI CTAG 3 cut(s) 465, 735, 981
GlaI GCGC 2 cut(s) 422, 515
GluI GCNGC 7 cut(s) 350, 462, 608, 691, 849, 865, 934
GsaI CCCAGC 1 cut(s) 320
HaeII RGCGCY 1 cut(s) 424
HaeIII GGCC 1 cut(s) 781
HapII CCGG 3 cut(s) 183, 418, 624
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, 139, 451, 491, 509, 514, 649, 808, 826
Hin6I GCGC 2 cut(s) 421, 514
HinP1I GCGC 2 cut(s) 421, 514
HinfI GANTC 5 cut(s) 107, 321, 411, 491, 763
HpaII CCGG 3 cut(s) 183, 418, 624
HphI GGTGA 2 cut(s) 611, 730
Hpy166II GTNNAC 2 cut(s) 231, 945
Hpy188I TCNGA 7 cut(s) 546, 633, 640, 655, 715, 802, 907
Hpy188III TCNNGA 1 cut(s) 746
Hpy8I GTNNAC 2 cut(s) 231, 945
HpyAV CCTTC 3 cut(s) 29, 368, 902
HpyCH4III ACNGT 2 cut(s) 16, 473
HpyCH4IV ACGT 1 cut(s) 728
HpyCH4V TGCA 9 cut(s) 10, 437, 487, 607, 649, 790, 848, 867, 933
HpyF10VI GCNNNNNNNGC 4 cut(s) 184, 484, 616, 787
HpyF3I CTNAG 6 cut(s) 174, 261, 396, 630, 712, 784
HpySE526I ACGT 1 cut(s) 728
Hsp92I GRCGYC 1 cut(s) 421
Hsp92II CATG 9 cut(s) 35, 139, 451, 491, 509, 514, 649, 808, 826
HspAI GCGC 2 cut(s) 421, 514
KasI GGCGCC 1 cut(s) 420
Kzo9I GATC 5 cut(s) 86, 157, 270, 742, 748
LmnI GCTCC 1 cut(s) 139
Lsp1109I GCAGC 7 cut(s) 336, 473, 619, 702, 851, 860, 945
MaeI CTAG 3 cut(s) 465, 735, 981
MaeII ACGT 1 cut(s) 728
MaeIII GTNAC 2 cut(s) 60, 718
MalI GATC 5 cut(s) 88, 159, 272, 744, 750
MboI GATC 5 cut(s) 86, 157, 270, 742, 748
MboII GAAGA 2 cut(s) 229, 494
MflI RGATCY 2 cut(s) 86, 742
MhlI GDGCHC 2 cut(s) 194, 783
MluCI AATT 5 cut(s) 281, 358, 381, 913, 961
Mly113I GGCGCC 1 cut(s) 421
MmeI TCCRAC 1 cut(s) 723
MnlI CCTC 3 cut(s) 709, 793, 881
Mph1103I ATGCAT 1 cut(s) 489
MslI CAYNNNNRTG 2 cut(s) 504, 827
MspA1I CMGCKG 2 cut(s) 610, 936
MspI CCGG 3 cut(s) 183, 418, 624
MspR9I CCNGG 3 cut(s) 183, 184, 243
Mva1269I GAATGC 1 cut(s) 790
MvaI CCWGG 1 cut(s) 243
MwoI GCNNNNNNNGC 4 cut(s) 184, 484, 616, 787
NarI GGCGCC 1 cut(s) 421
NciI CCSGG 2 cut(s) 183, 184
NcoI CCATGG 1 cut(s) 135
NdeII GATC 5 cut(s) 86, 157, 270, 742, 748
NlaIII CATG 9 cut(s) 35, 139, 451, 491, 509, 514, 649, 808, 826
NlaIV GGNNCC 2 cut(s) 422, 781
NmuCI GTSAC 1 cut(s) 718
NsiI ATGCAT 1 cut(s) 489
PasI CCCWGGG 1 cut(s) 242
PctI GAATGC 1 cut(s) 790
PfeI GAWTC 5 cut(s) 107, 321, 411, 491, 763
PflMI CCANNNNNTGG 3 cut(s) 334, 840, 894
PkrI GCNGC 7 cut(s) 351, 463, 609, 692, 850, 866, 935
PluTI GGCGCC 1 cut(s) 424
Ppu21I YACGTR 1 cut(s) 729
Psp6I CCWGG 1 cut(s) 241
PspEI GGTNACC 1 cut(s) 718
PspFI CCCAGC 1 cut(s) 316
PspGI CCWGG 1 cut(s) 241
PspN4I GGNNCC 2 cut(s) 422, 781
PspOMI GGGCCC 1 cut(s) 779
PspPI GGNCC 3 cut(s) 377, 779, 780
PsuI RGATCY 2 cut(s) 86, 742
PvuII CAGCTG 1 cut(s) 610
RsaI GTAC 3 cut(s) 76, 727, 731
RsaNI GTAC 3 cut(s) 75, 726, 730
RseI CAYNNNNRTG 2 cut(s) 504, 827
SatI GCNGC 7 cut(s) 350, 462, 608, 691, 849, 865, 934
Sau3AI GATC 5 cut(s) 86, 157, 270, 742, 748
Sau96I GGNCC 3 cut(s) 377, 779, 780
ScrFI CCNGG 3 cut(s) 183, 184, 243
SduI GDGCHC 2 cut(s) 194, 783
SfcI CTRYAG 1 cut(s) 366
SfoI GGCGCC 1 cut(s) 422
SinI GGWCC 1 cut(s) 377
SmaI CCCGGG 1 cut(s) 184
SmiMI CAYNNNNRTG 2 cut(s) 504, 827
SnaBI TACGTA 1 cut(s) 729
Sse9I AATT 5 cut(s) 281, 358, 381, 913, 961
SsiI CCGC 3 cut(s) 187, 936, 973
SspDI GGCGCC 1 cut(s) 420
SspMI CTAG 3 cut(s) 465, 735, 981
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) 731
TaqI TCGA 1 cut(s) 122
TasI AATT 5 cut(s) 281, 358, 381, 913, 961
TfiI GAWTC 5 cut(s) 107, 321, 411, 491, 763
TscAI CASTG 6 cut(s) 63, 172, 199, 360, 792, 858
TseFI GTSAC 1 cut(s) 718
TseI GCWGC 7 cut(s) 349, 461, 607, 690, 848, 864, 933
Tsp45I GTSAC 1 cut(s) 718
TspDTI ATGAA 9 cut(s) 42, 48, 387, 494, 504, 597, 602, 776, 906
TspGWI ACGGA 1 cut(s) 423
TspMI CCCGGG 1 cut(s) 182
TspRI CASTG 6 cut(s) 63, 172, 199, 360, 792, 858
Van91I CCANNNNNTGG 3 cut(s) 334, 840, 894
VpaK11BI GGWCC 1 cut(s) 377
XapI RAATTY 1 cut(s) 358
XmaI CCCGGG 1 cut(s) 182
XspI CTAG 3 cut(s) 465, 735, 981
Zsp2I ATGCAT 1 cut(s) 489
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.