Rroxscaffold_6G00405310

Nuclear transcription factor Y subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0005317
Physical Location & Seq
Forward (+)
27748426 .. 27753520
5095 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00405310.1

Sequence Viewer

Length: 951 bp
ATGGCTATGCAAACTGTTTATTTCAAAGAACATGAAGGACTTGGGCAGTTGTCATCAGTGTTACCTTGGTGGGGTACTGCCTTTGGATCTCAACAAGTTTATGGCGAATCCTGTGGCCAGTCGAAACCTTTTACCATGGAGCTTCCCAATAATGGAGACCAACTCACTGCCACTAAGCAACCCGGGCGGAGCACTGAACAAGGACTGGATAAAGGGAACACAAATCAGTTCACTATCTTCCCTGGGGATGGGAAAAAATCATCGCCAGCGATCTCTCAGCAATCATCCCCACCAAAATATCGTGGTCATTTTGAGCTGGGATTCAGCCAACCTATGATTTGTGGAAAATATCCTTACATGGATCAATGTTATGGACTCTTCTCAACATATGGACCTCAAGTTCCGGGACGCATTATGCTACCACTGAATTTGACTACAGATGAAGGACCAATTTATGTCAATGCTAAGCAATACCACGGAATCATCCGGCGCCGAGAATCCCGTGCAAAGGCAGTCATGGAGAACAGAGCAGCTAGACACCGTAAGCCCTATATGCATGAATCACGCCATCTTCATGCCATGCGCCGACCAAGGGGATGTGGTGGTCGTTTTCTGAATACCAAGACTTCGAACAATGGGAAAGGTAGAAATGAAATGAAGCTAGTTGGTGCAGTGCGGCTGTTTAGGCACTCCGGTTCTCAGAGCTCTGAAGTCCTGCAATCCGAGAGTGGAACTTTGAACTCATCAAAAACAAATGGCAGCAGTTCCAACATATCAGGCTCAGAGGTGACCAGTACGTACTCTAGGGGAGATCTTGATCGTTTTTCAATGAATCATCATCATCTCAGGCCCTCAGTGCATTCTCTGTCAGACATGATGGATGGTCGTGGCATGGTTATGCCCACAAGATGGAATGCAGCAGTGGATAACTGCTGCAACCTCAAAGTCTGA

Protein Analysis

316

Amino Acids

35.15

Weight (kDa)

9.69

Isoelectric Point (pI)

50.54

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CBFB_NFYA PF02045 150 - 204 8.4e-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
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 489
AccB7I CCANNNNNTGG 1 cut(s) 909
AciI CCGC 2 cut(s) 187, 676
AclWI GGATC 2 cut(s) 94, 369
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 3 cut(s) 76, 796, 800
AfiI CCNNNNNNNGG 6 cut(s) 71, 152, 248, 508, 592, 909
AgsI TTSAA 3 cut(s) 25, 739, 828
AjnI CCWGG 1 cut(s) 241
AloI GAACNNNNNNTCC 2 cut(s) 384, 416
AluBI AGCT 5 cut(s) 142, 316, 533, 661, 705
AluI AGCT 5 cut(s) 142, 316, 533, 661, 705
Alw21I GWGCWC 2 cut(s) 194, 707
Alw26I GTCTC 1 cut(s) 150
AlwI GGATC 2 cut(s) 94, 369
Ama87I CYCGRG 1 cut(s) 182
AoxI GGCC 2 cut(s) 115, 848
ApeKI GCWGC 4 cut(s) 530, 759, 917, 933
ApoI RAATTY 1 cut(s) 427
AspLEI GCGC 2 cut(s) 492, 585
AspS9I GGNCC 3 cut(s) 392, 446, 849
AsuC2I CCSGG 3 cut(s) 183, 184, 405
AsuHPI GGTGA 1 cut(s) 799
AsuII TTCGAA 1 cut(s) 629
AvaI CYCGRG 1 cut(s) 182
AvaII GGWCC 2 cut(s) 392, 446
BalI TGGCCA 1 cut(s) 117
BanI GGYRCC 1 cut(s) 489
BanII GRGCYC 1 cut(s) 707
Bbv12I GWGCWC 2 cut(s) 194, 707
BbvI GCAGC 4 cut(s) 542, 771, 920, 929
BccI CCATC 5 cut(s) 242, 576, 871, 875, 903
BciT130I CCWGG 1 cut(s) 243
BcnI CCSGG 3 cut(s) 183, 184, 405
BcoDI GTCTC 1 cut(s) 150
BfaI CTAG 3 cut(s) 534, 662, 804
BfmI CTRYAG 1 cut(s) 435
BfoI RGCGCY 1 cut(s) 493
BglII AGATCT 1 cut(s) 811
BisI GCNGC 5 cut(s) 531, 677, 760, 918, 934
BlpI GCTNAGC 1 cut(s) 465
BlsI GCNGC 5 cut(s) 532, 678, 761, 919, 935
Bme1390I CCNGG 4 cut(s) 183, 184, 243, 405
Bme18I GGWCC 2 cut(s) 392, 446
BmeT110I CYCGRG 1 cut(s) 182
BmgT120I GGNCC 3 cut(s) 392, 446, 849
BmiI GGNNCC 1 cut(s) 491
BmrFI CCNGG 4 cut(s) 183, 184, 243, 405
BplI GAGNNNNNCTC 2 cut(s) 147, 179
Bpu1102I GCTNAGC 1 cut(s) 465
Bpu14I TTCGAA 1 cut(s) 629
BpuEI CTTGAG 1 cut(s) 381
BpuMI CCSGG 3 cut(s) 183, 184, 405
BsaAI YACGTR 1 cut(s) 798
BsaBI GATNNNNATC 1 cut(s) 816
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 6 cut(s) 71, 152, 248, 508, 592, 909
Bse1I ACTGG 3 cut(s) 118, 210, 792
Bse8I GATNNNNATC 1 cut(s) 816
BseBI CCWGG 1 cut(s) 243
BseDI CCNNGG 7 cut(s) 65, 135, 182, 241, 242, 475, 590
BseGI GGATG 5 cut(s) 253, 284, 483, 602, 886
BseJI GATNNNNATC 1 cut(s) 816
BseLI CCNNNNNNNGG 6 cut(s) 71, 152, 248, 508, 592, 909
BseMII CTCAG 5 cut(s) 290, 713, 795, 859, 867
BseNI ACTGG 3 cut(s) 118, 210, 792
BseXI GCAGC 4 cut(s) 542, 771, 920, 929
BseYI CCCAGC 1 cut(s) 316
BsgI GTGCAG 1 cut(s) 690
BshFI GGCC 2 cut(s) 117, 850
BshNI GGYRCC 1 cut(s) 489
BsiHKAI GWGCWC 2 cut(s) 194, 707
BsiHKCI CYCGRG 1 cut(s) 182
BsiSI CCGG 4 cut(s) 183, 404, 487, 693
BslFI GGGAC 1 cut(s) 420
BslI CCNNNNNNNGG 6 cut(s) 71, 152, 248, 508, 592, 909
BsmAI GTCTC 1 cut(s) 150
BsmFI GGGAC 1 cut(s) 420
BsmI GAATGC 2 cut(s) 859, 919
BsnI GGCC 2 cut(s) 117, 850
Bso31I GGTCTC 1 cut(s) 150
BsoBI CYCGRG 1 cut(s) 182
Bsp119I TTCGAA 1 cut(s) 629
Bsp1286I GDGCHC 2 cut(s) 194, 707
Bsp143I GATC 5 cut(s) 86, 270, 361, 811, 817
Bsp1720I GCTNAGC 1 cut(s) 465
Bsp19I CCATGG 1 cut(s) 135
BspACI CCGC 2 cut(s) 187, 676
BspANI GGCC 2 cut(s) 117, 850
BspCNI CTCAG 5 cut(s) 289, 712, 794, 858, 866
BspLI GGNNCC 1 cut(s) 491
BspPI GGATC 2 cut(s) 94, 369
BspT104I TTCGAA 1 cut(s) 629
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 5 cut(s) 86, 270, 361, 811, 817
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
BstBAI YACGTR 1 cut(s) 798
BstBI TTCGAA 1 cut(s) 629
BstC8I GCNNGC 1 cut(s) 267
BstDEI CTNAG 7 cut(s) 174, 276, 465, 699, 781, 845, 853
BstDSI CCRYGG 2 cut(s) 135, 475
BstEII GGTNACC 1 cut(s) 787
BstF5I GGATG 5 cut(s) 253, 284, 483, 602, 886
BstH2I RGCGCY 1 cut(s) 493
BstHHI GCGC 2 cut(s) 492, 585
BstKTI GATC 5 cut(s) 89, 273, 364, 814, 820
BstMAI GTCTC 1 cut(s) 150
BstMBI GATC 5 cut(s) 86, 270, 361, 811, 817
BstMWI GCNNNNNNNGC 4 cut(s) 184, 553, 685, 856
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
BstSNI TACGTA 1 cut(s) 798
BstV1I GCAGC 4 cut(s) 542, 771, 920, 929
BstX2I RGATCY 2 cut(s) 86, 811
BstYI RGATCY 2 cut(s) 86, 811
BsuRI GGCC 2 cut(s) 117, 850
BtgI CCRYGG 2 cut(s) 135, 475
BtgZI GCGATG 1 cut(s) 246
BtsCI GGATG 5 cut(s) 253, 284, 483, 602, 886
BtsI GCAGTG 3 cut(s) 165, 678, 927
BtsIMutI CAGTG 7 cut(s) 63, 165, 192, 422, 678, 861, 927
Cac8I GCNNGC 1 cut(s) 267
CfoI GCGC 2 cut(s) 492, 585
Cfr13I GGNCC 3 cut(s) 392, 446, 849
Cfr9I CCCGGG 1 cut(s) 182
CseI GACGC 1 cut(s) 417
Csp6I GTAC 3 cut(s) 75, 795, 799
CspCI CAANNNNNGTGG 2 cut(s) 411, 446
CviAII CATG 9 cut(s) 32, 136, 358, 517, 557, 575, 580, 874, 892
CviQI GTAC 3 cut(s) 75, 795, 799
DdeI CTNAG 7 cut(s) 174, 276, 465, 699, 781, 845, 853
DinI GGCGCC 1 cut(s) 491
DpnI GATC 5 cut(s) 88, 272, 363, 813, 819
DpnII GATC 5 cut(s) 86, 270, 361, 811, 817
EaeI YGGCCR 1 cut(s) 115
Eam1104I CTCTTC 1 cut(s) 383
EarI CTCTTC 1 cut(s) 383
EciI GGCGGA 1 cut(s) 202
Ecl136II GAGCTC 1 cut(s) 705
Eco105I TACGTA 1 cut(s) 798
Eco130I CCWWGG 3 cut(s) 65, 135, 590
Eco24I GRGCYC 1 cut(s) 707
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 1 cut(s) 182
Eco91I GGTNACC 1 cut(s) 787
EcoICRI GAGCTC 1 cut(s) 705
EcoO109I RGGNCCY 1 cut(s) 849
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 1 cut(s) 707
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, 139, 361, 520, 560, 578, 583, 877, 895
FaqI GGGAC 1 cut(s) 420
FatI CATG 9 cut(s) 31, 135, 357, 516, 556, 574, 579, 873, 891
FauNDI CATATG 1 cut(s) 388
Fnu4HI GCNGC 5 cut(s) 531, 677, 760, 918, 934
FokI GGATG 5 cut(s) 260, 271, 470, 609, 893
FriOI GRGCYC 1 cut(s) 707
Fsp4HI GCNGC 5 cut(s) 531, 677, 760, 918, 934
FspBI CTAG 3 cut(s) 534, 662, 804
GlaI GCGC 2 cut(s) 491, 584
GluI GCNGC 5 cut(s) 531, 677, 760, 918, 934
GsaI CCCAGC 1 cut(s) 320
HaeII RGCGCY 1 cut(s) 493
HaeIII GGCC 2 cut(s) 117, 850
HapII CCGG 4 cut(s) 183, 404, 487, 693
HgaI GACGC 1 cut(s) 417
HhaI GCGC 2 cut(s) 492, 585
Hin1I GRCGYC 1 cut(s) 490
Hin1II CATG 9 cut(s) 35, 139, 361, 520, 560, 578, 583, 877, 895
Hin6I GCGC 2 cut(s) 490, 583
HinP1I GCGC 2 cut(s) 490, 583
HinfI GANTC 7 cut(s) 107, 321, 375, 480, 497, 560, 832
HpaII CCGG 4 cut(s) 183, 404, 487, 693
HphI GGTGA 1 cut(s) 799
Hpy166II GTNNAC 1 cut(s) 231
Hpy188I TCNGA 7 cut(s) 615, 702, 709, 724, 784, 871, 950
Hpy188III TCNNGA 1 cut(s) 815
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) 797
HpyCH4V TGCA 8 cut(s) 10, 506, 556, 671, 718, 859, 917, 936
HpyF10VI GCNNNNNNNGC 4 cut(s) 184, 553, 685, 856
HpyF3I CTNAG 7 cut(s) 174, 276, 465, 699, 781, 845, 853
HpySE526I ACGT 1 cut(s) 797
Hsp92I GRCGYC 1 cut(s) 490
Hsp92II CATG 9 cut(s) 35, 139, 361, 520, 560, 578, 583, 877, 895
HspAI GCGC 2 cut(s) 490, 583
KasI GGCGCC 1 cut(s) 489
Kzo9I GATC 5 cut(s) 86, 270, 361, 811, 817
LmnI GCTCC 2 cut(s) 139, 189
Lsp1109I GCAGC 4 cut(s) 542, 771, 920, 929
MaeI CTAG 3 cut(s) 534, 662, 804
MaeII ACGT 1 cut(s) 797
MaeIII GTNAC 2 cut(s) 60, 787
MalI GATC 5 cut(s) 88, 272, 363, 813, 819
MboI GATC 5 cut(s) 86, 270, 361, 811, 817
MboII GAAGA 3 cut(s) 229, 370, 563
MflI RGATCY 2 cut(s) 86, 811
MhlI GDGCHC 2 cut(s) 194, 707
MlsI TGGCCA 1 cut(s) 117
MluCI AATT 2 cut(s) 427, 450
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 4 cut(s) 405, 778, 862, 950
Mox20I TGGCCA 1 cut(s) 117
Mph1103I ATGCAT 1 cut(s) 558
MscI TGGCCA 1 cut(s) 117
MslI CAYNNNNRTG 2 cut(s) 573, 896
Msp20I TGGCCA 1 cut(s) 117
MspI CCGG 4 cut(s) 183, 404, 487, 693
MspR9I CCNGG 4 cut(s) 183, 184, 243, 405
Mva1269I GAATGC 2 cut(s) 859, 919
MvaI CCWGG 1 cut(s) 243
MwoI GCNNNNNNNGC 4 cut(s) 184, 553, 685, 856
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 5 cut(s) 86, 270, 361, 811, 817
NlaIII CATG 9 cut(s) 35, 139, 361, 520, 560, 578, 583, 877, 895
NlaIV GGNNCC 1 cut(s) 491
NmeAIII GCCGAG 1 cut(s) 518
NmuCI GTSAC 1 cut(s) 787
NsiI ATGCAT 1 cut(s) 558
NspV TTCGAA 1 cut(s) 629
PasI CCCWGGG 1 cut(s) 242
PctI GAATGC 2 cut(s) 859, 919
PfeI GAWTC 6 cut(s) 107, 321, 480, 497, 560, 832
PflMI CCANNNNNTGG 1 cut(s) 909
PfoI TCCNGGA 1 cut(s) 403
PkrI GCNGC 5 cut(s) 532, 678, 761, 919, 935
PleI GAGTC 1 cut(s) 369
PluTI GGCGCC 1 cut(s) 493
PpsI GAGTC 1 cut(s) 369
Ppu21I YACGTR 1 cut(s) 798
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 1 cut(s) 491
PspPI GGNCC 3 cut(s) 392, 446, 849
PsuI RGATCY 2 cut(s) 86, 811
RsaI GTAC 3 cut(s) 76, 796, 800
RsaNI GTAC 3 cut(s) 75, 795, 799
RseI CAYNNNNRTG 2 cut(s) 573, 896
SacI GAGCTC 1 cut(s) 707
SatI GCNGC 5 cut(s) 531, 677, 760, 918, 934
Sau3AI GATC 5 cut(s) 86, 270, 361, 811, 817
Sau96I GGNCC 3 cut(s) 392, 446, 849
SchI GAGTC 1 cut(s) 369
ScrFI CCNGG 4 cut(s) 183, 184, 243, 405
SduI GDGCHC 2 cut(s) 194, 707
SfcI CTRYAG 1 cut(s) 435
SfoI GGCGCC 1 cut(s) 491
SfuI TTCGAA 1 cut(s) 629
SinI GGWCC 2 cut(s) 392, 446
SmaI CCCGGG 1 cut(s) 184
SmiMI CAYNNNNRTG 2 cut(s) 573, 896
SmlI CTYRAG 1 cut(s) 396
SmoI CTYRAG 1 cut(s) 396
SnaBI TACGTA 1 cut(s) 798
Sse9I AATT 2 cut(s) 427, 450
SsiI CCGC 2 cut(s) 187, 676
SspDI GGCGCC 1 cut(s) 489
SspMI CTAG 3 cut(s) 534, 662, 804
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) 800
TaqI TCGA 2 cut(s) 122, 629
TasI AATT 2 cut(s) 427, 450
TauI GCSGC 1 cut(s) 679
TfiI GAWTC 6 cut(s) 107, 321, 480, 497, 560, 832
TscAI CASTG 7 cut(s) 63, 172, 199, 429, 678, 861, 927
TseFI GTSAC 1 cut(s) 787
TseI GCWGC 4 cut(s) 530, 759, 917, 933
Tsp45I GTSAC 1 cut(s) 787
TspDTI ATGAA 7 cut(s) 48, 456, 563, 573, 666, 671, 845
TspGWI ACGGA 1 cut(s) 492
TspMI CCCGGG 1 cut(s) 182
TspRI CASTG 7 cut(s) 63, 172, 199, 429, 678, 861, 927
Van91I CCANNNNNTGG 1 cut(s) 909
VpaK11BI GGWCC 2 cut(s) 392, 446
XapI RAATTY 1 cut(s) 427
XmaI CCCGGG 1 cut(s) 182
XspI CTAG 3 cut(s) 534, 662, 804
Zsp2I ATGCAT 1 cut(s) 558
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.