Rmu_sc0001878.1_g000008

Nuclear transcription factor Y subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0001878.1
OG0008331
Physical Location & Seq
Forward (+)
28584 .. 37132
8549 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1026 bp
atgtatggcggctctgtccgtatcctcacctctgcagaccacccttggttaccaaccctcgctcatgacttccatcggagctctagagtcgaatttgcaacaacacgaaaggatcgtcagaaacagcaggagaaaaagccacattgttttggggctctccacctgcaacgcgtcctcatgacttcttctgttcacgatcattccgatagtagtgaatctgatgatcagcaaaagcattcagagtctccgatgatttcttccgcacctgcacctggaatgtctaatcctggaattccaggccctattcagtatgtagcccctccacagattggagcaggacatgcagtggcgccaggagcctacccatatccagacccttactacagaagcatctttgctccttatgacacacaaccatatcctccacaaccctatggggggcaaccaacggtccatcttcagttaatgggaattcagcaagcaggagttccattgccaacagatgcggttgaggaacctgtgtttgtaaatgcaaaacaatatcatggcatcttgcgacgtcggcagtctcgtgctaaagcagaatctgaaaacaaagctctaaaatctcggaagccttacttgcatgaatctcgacacctgcatgcactgagaagagctagaggatgtgggggtcggtttcttaatgcaaagaaagatgagaatgaacagagtgaaggagacaattcacaggcaattatcaacttgaactctgataaaaagagaggaaaaaaaaatggaagaaagagaaaccataggagacttcaccagagctcagtcactggtcgccggaatccggccaacttttgttggaatccggtgaccggcagccggattcccgtcaccgactatcaaaatactctaaagaagtctttcttaatccccgttaggagacttcaccggagctcagtcactggtcgccggaatccggccaacttttgttggaatccggtgaccggcagccggattcccgtcaccgactattga

Protein Analysis

341

Amino Acids

38.31

Weight (kDa)

10.1

Isoelectric Point (pI)

67.78

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CBFB_NFYA PF02045 172 - 227 1.7e-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)
AarI CACCTGC 3 cut(s) 171, 274, 648
AatII GACGTC 1 cut(s) 562
Acc36I ACCTGC 3 cut(s) 171, 274, 648
AccB1I GGYRCC 1 cut(s) 349
AccB7I CCANNNNNTGG 1 cut(s) 329
AccII CGCG 1 cut(s) 171
AciI CCGC 3 cut(s) 9, 261, 506
AclWI GGATC 1 cut(s) 120
AcoI YGGCCR 2 cut(s) 837, 969
AcsI RAATTY 3 cut(s) 92, 291, 471
AcuI CTGAAG 1 cut(s) 443
AcyI GRCGYC 2 cut(s) 350, 559
AflIII ACRYGT 1 cut(s) 169
AgsI TTSAA 1 cut(s) 748
AjnI CCWGG 4 cut(s) 271, 286, 295, 352
AluBI AGCT 5 cut(s) 81, 599, 659, 813, 945
AluI AGCT 5 cut(s) 81, 599, 659, 813, 945
Alw21I GWGCWC 3 cut(s) 83, 815, 947
Alw26I GTCTC 5 cut(s) 249, 573, 714, 793, 925
AlwI GGATC 1 cut(s) 120
AlwNI CAGNNNCTG 3 cut(s) 587, 821, 953
AoxI GGCC 3 cut(s) 298, 837, 969
ApeKI GCWGC 2 cut(s) 867, 999
ApoI RAATTY 3 cut(s) 92, 291, 471
ArsI GACNNNNNNTTYG 2 cut(s) 100, 132
Asp700I GAANNNNTTC 1 cut(s) 911
AspLEI GCGC 1 cut(s) 352
AspS9I GGNCC 2 cut(s) 299, 451
AsuHPI GGTGA 7 cut(s) 19, 797, 871, 874, 929, 1003, 1006
AvaII GGWCC 1 cut(s) 451
BanI GGYRCC 1 cut(s) 349
BanII GRGCYC 4 cut(s) 83, 157, 815, 947
BauI CACGAG 1 cut(s) 570
Bbv12I GWGCWC 3 cut(s) 83, 815, 947
BbvI GCAGC 2 cut(s) 879, 1011
BccI CCATC 2 cut(s) 81, 462
BcgI CGANNNNNNTGC 2 cut(s) 614, 648
BciT130I CCWGG 4 cut(s) 273, 288, 297, 354
BciVI GTATCC 1 cut(s) 32
BclI TGATCA 1 cut(s) 223
BcoDI GTCTC 5 cut(s) 249, 573, 714, 793, 925
BfaI CTAG 2 cut(s) 84, 660
BfmI CTRYAG 2 cut(s) 33, 382
BfoI RGCGCY 1 cut(s) 353
BfuAI ACCTGC 3 cut(s) 171, 274, 648
BfuI GTATCC 1 cut(s) 32
BisI GCNGC 3 cut(s) 10, 868, 1000
BlsI GCNGC 3 cut(s) 11, 869, 1001
Bme1390I CCNGG 4 cut(s) 273, 288, 297, 354
Bme18I GGWCC 1 cut(s) 451
BmgT120I GGNCC 2 cut(s) 299, 451
BmiI GGNNCC 3 cut(s) 351, 358, 516
BmrFI CCNGG 4 cut(s) 273, 288, 297, 354
BmsI GCATC 3 cut(s) 399, 493, 558
BsaHI GRCGYC 2 cut(s) 350, 559
BsaJI CCNNGG 1 cut(s) 44
BsaWI WCCGGW 3 cut(s) 856, 939, 988
Bse118I RCCGGY 2 cut(s) 863, 995
Bse1I ACTGG 2 cut(s) 826, 958
Bse3DI GCAATG 1 cut(s) 491
BseBI CCWGG 4 cut(s) 273, 288, 297, 354
BseDI CCNNGG 1 cut(s) 44
BseGI GGATG 1 cut(s) 671
BseMI GCAATG 1 cut(s) 491
BseMII CTCAG 3 cut(s) 641, 828, 960
BseNI ACTGG 2 cut(s) 826, 958
BseXI GCAGC 2 cut(s) 879, 1011
BsgI GTGCAG 1 cut(s) 252
Bsh1236I CGCG 1 cut(s) 171
BshFI GGCC 3 cut(s) 300, 839, 971
BshNI GGYRCC 1 cut(s) 349
BsiHKAI GWGCWC 3 cut(s) 83, 815, 947
BsmAI GTCTC 5 cut(s) 249, 573, 714, 793, 925
BsmI GAATGC 1 cut(s) 235
BsnI GGCC 3 cut(s) 300, 839, 971
Bsp1286I GDGCHC 4 cut(s) 83, 157, 815, 947
Bsp143I GATC 3 cut(s) 112, 196, 223
BspACI CCGC 3 cut(s) 9, 261, 506
BspANI GGCC 3 cut(s) 300, 839, 971
BspCNI CTCAG 3 cut(s) 642, 827, 959
BspFNI CGCG 1 cut(s) 171
BspHI TCATGA 2 cut(s) 64, 177
BspLI GGNNCC 3 cut(s) 351, 358, 516
BspMAI CTGCAG 1 cut(s) 37
BspMI ACCTGC 3 cut(s) 171, 274, 648
BspPI GGATC 1 cut(s) 120
BspQI GCTCTTC 1 cut(s) 649
BspT107I GGYRCC 1 cut(s) 349
BsrDI GCAATG 1 cut(s) 491
BsrFI RCCGGY 2 cut(s) 863, 995
BsrI ACTGG 2 cut(s) 826, 958
BssAI RCCGGY 2 cut(s) 863, 995
BssECI CCNNGG 1 cut(s) 44
BssMI GATC 3 cut(s) 112, 196, 223
BssNI GRCGYC 2 cut(s) 350, 559
BssSI CACGAG 1 cut(s) 570
BssT1I CCWWGG 1 cut(s) 44
Bst2BI CACGAG 1 cut(s) 570
Bst2UI CCWGG 4 cut(s) 273, 288, 297, 354
Bst4CI ACNGT 1 cut(s) 451
Bst6I CTCTTC 1 cut(s) 649
BstACI GRCGYC 2 cut(s) 350, 559
BstAPI GCANNNNNTGC 1 cut(s) 341
BstC8I GCNNGC 2 cut(s) 480, 645
BstDEI CTNAG 3 cut(s) 650, 814, 946
BstEII GGTNACC 3 cut(s) 48, 859, 991
BstF5I GGATG 1 cut(s) 671
BstFNI CGCG 1 cut(s) 171
BstH2I RGCGCY 1 cut(s) 353
BstHHI GCGC 1 cut(s) 352
BstKTI GATC 3 cut(s) 115, 199, 226
BstMAI GTCTC 5 cut(s) 249, 573, 714, 793, 925
BstMBI GATC 3 cut(s) 112, 196, 223
BstMWI GCNNNNNNNGC 4 cut(s) 341, 356, 562, 622
BstNI CCWGG 4 cut(s) 273, 288, 297, 354
BstNSI RCATGY 2 cut(s) 344, 647
BstPI GGTNACC 3 cut(s) 48, 859, 991
BstSCI CCNGG 4 cut(s) 271, 286, 295, 352
BstSFI CTRYAG 2 cut(s) 33, 382
BstUI CGCG 1 cut(s) 171
BstV1I GCAGC 2 cut(s) 879, 1011
BsuI GTATCC 1 cut(s) 32
BsuRI GGCC 3 cut(s) 300, 839, 971
BtsCI GGATG 1 cut(s) 671
BtsI GCAGTG 1 cut(s) 351
BtsIMutI CAGTG 4 cut(s) 351, 647, 819, 951
BveI ACCTGC 3 cut(s) 171, 274, 648
Cac8I GCNNGC 2 cut(s) 480, 645
CaiI CAGNNNCTG 3 cut(s) 587, 821, 953
CciI TCATGA 2 cut(s) 64, 177
CfoI GCGC 1 cut(s) 352
Cfr10I RCCGGY 2 cut(s) 863, 995
Cfr13I GGNCC 2 cut(s) 299, 451
CseI GACGC 1 cut(s) 160
CviAII CATG 6 cut(s) 65, 178, 341, 545, 626, 644
DdeI CTNAG 3 cut(s) 650, 814, 946
DinI GGCGCC 1 cut(s) 351
DpnI GATC 3 cut(s) 114, 198, 225
DpnII GATC 3 cut(s) 112, 196, 223
EaeI YGGCCR 2 cut(s) 837, 969
Eam1104I CTCTTC 1 cut(s) 649
EarI CTCTTC 1 cut(s) 649
Ecl136II GAGCTC 3 cut(s) 81, 813, 945
Eco130I CCWWGG 1 cut(s) 44
Eco24I GRGCYC 4 cut(s) 83, 157, 815, 947
Eco47I GGWCC 1 cut(s) 451
Eco53kI GAGCTC 3 cut(s) 81, 813, 945
Eco57I CTGAAG 1 cut(s) 443
Eco91I GGTNACC 3 cut(s) 48, 859, 991
EcoICRI GAGCTC 3 cut(s) 81, 813, 945
EcoO109I RGGNCCY 1 cut(s) 299
EcoO65I GGTNACC 3 cut(s) 48, 859, 991
EcoRI GAATTC 2 cut(s) 291, 471
EcoRII CCWGG 4 cut(s) 271, 286, 295, 352
EcoT14I CCWWGG 1 cut(s) 44
EcoT38I GRGCYC 4 cut(s) 83, 157, 815, 947
EgeI GGCGCC 1 cut(s) 351
EheI GGCGCC 1 cut(s) 351
ErhI CCWWGG 1 cut(s) 44
FaeI CATG 6 cut(s) 68, 181, 344, 548, 629, 647
FalI AAGNNNNNCTT 4 cut(s) 605, 637, 899, 931
FatI CATG 6 cut(s) 64, 177, 340, 544, 625, 643
FbaI TGATCA 1 cut(s) 223
Fnu4HI GCNGC 3 cut(s) 10, 868, 1000
FokI GGATG 1 cut(s) 678
FriOI GRGCYC 4 cut(s) 83, 157, 815, 947
Fsp4HI GCNGC 3 cut(s) 10, 868, 1000
FspBI CTAG 2 cut(s) 84, 660
GlaI GCGC 1 cut(s) 351
GluI GCNGC 3 cut(s) 10, 868, 1000
HaeII RGCGCY 1 cut(s) 353
HaeIII GGCC 3 cut(s) 300, 839, 971
HgaI GACGC 1 cut(s) 160
HhaI GCGC 1 cut(s) 352
Hin1I GRCGYC 2 cut(s) 350, 559
Hin1II CATG 6 cut(s) 68, 181, 344, 548, 629, 647
Hin6I GCGC 1 cut(s) 350
HinP1I GCGC 1 cut(s) 350
HphI GGTGA 7 cut(s) 19, 797, 871, 874, 929, 1003, 1006
Hpy166II GTNNAC 1 cut(s) 193
Hpy188I TCNGA 9 cut(s) 78, 120, 205, 220, 241, 249, 589, 612, 754
Hpy188III TCNNGA 6 cut(s) 65, 84, 178, 194, 371, 633
Hpy8I GTNNAC 1 cut(s) 193
Hpy99I CGWCG 2 cut(s) 561, 564
HpyAV CCTTC 1 cut(s) 710
HpyCH4III ACNGT 1 cut(s) 451
HpyCH4IV ACGT 1 cut(s) 559
HpyF10VI GCNNNNNNNGC 4 cut(s) 341, 356, 562, 622
HpyF3I CTNAG 3 cut(s) 650, 814, 946
HpySE526I ACGT 1 cut(s) 559
Hsp92I GRCGYC 2 cut(s) 350, 559
Hsp92II CATG 6 cut(s) 68, 181, 344, 548, 629, 647
HspAI GCGC 1 cut(s) 350
KasI GGCGCC 1 cut(s) 349
Ksp22I TGATCA 1 cut(s) 223
Kzo9I GATC 3 cut(s) 112, 196, 223
LguI GCTCTTC 1 cut(s) 649
LmnI GCTCC 5 cut(s) 78, 332, 356, 403, 942
Lsp1109I GCAGC 2 cut(s) 879, 1011
LweI GCATC 3 cut(s) 399, 493, 558
MaeI CTAG 2 cut(s) 84, 660
MaeII ACGT 1 cut(s) 559
MaeIII GTNAC 7 cut(s) 48, 817, 859, 880, 949, 991, 1012
MalI GATC 3 cut(s) 114, 198, 225
MboI GATC 3 cut(s) 112, 196, 223
MboII GAAGA 5 cut(s) 177, 249, 449, 666, 792
MhlI GDGCHC 4 cut(s) 83, 157, 815, 947
MluCI AATT 5 cut(s) 92, 291, 471, 724, 735
MluI ACGCGT 1 cut(s) 169
Mly113I GGCGCC 1 cut(s) 350
MlyI GAGTC 2 cut(s) 96, 251
MmeI TCCRAC 2 cut(s) 830, 962
MnlI CCTC 9 cut(s) 35, 40, 68, 185, 330, 432, 505, 656, 758
MroXI GAANNNNTTC 1 cut(s) 911
MseI TTAA 3 cut(s) 464, 684, 917
MslI CAYNNNNRTG 1 cut(s) 642
MspR9I CCNGG 4 cut(s) 273, 288, 297, 354
Mva1269I GAATGC 1 cut(s) 235
MvaI CCWGG 4 cut(s) 273, 288, 297, 354
MvnI CGCG 1 cut(s) 171
MwoI GCNNNNNNNGC 4 cut(s) 341, 356, 562, 622
NarI GGCGCC 1 cut(s) 350
NdeII GATC 3 cut(s) 112, 196, 223
NlaIII CATG 6 cut(s) 68, 181, 344, 548, 629, 647
NlaIV GGNNCC 3 cut(s) 351, 358, 516
NmuCI GTSAC 6 cut(s) 817, 859, 880, 949, 991, 1012
NspI RCATGY 2 cut(s) 344, 647
PaeI GCATGC 1 cut(s) 647
PagI TCATGA 2 cut(s) 64, 177
PaqCI CACCTGC 3 cut(s) 171, 274, 648
PciSI GCTCTTC 1 cut(s) 649
PcsI WCGNNNNNNNCGW 3 cut(s) 112, 201, 568
PctI GAATGC 1 cut(s) 235
PdmI GAANNNNTTC 1 cut(s) 911
PfeI GAWTC 9 cut(s) 215, 584, 629, 832, 853, 874, 964, 985, 1006
PflMI CCANNNNNTGG 1 cut(s) 329
PfoI TCCNGGA 1 cut(s) 286
PkrI GCNGC 3 cut(s) 11, 869, 1001
PleI GAGTC 2 cut(s) 95, 250
PluTI GGCGCC 1 cut(s) 353
PpsI GAGTC 2 cut(s) 95, 250
Psp124BI GAGCTC 3 cut(s) 83, 815, 947
Psp6I CCWGG 4 cut(s) 271, 286, 295, 352
PspEI GGTNACC 3 cut(s) 48, 859, 991
PspGI CCWGG 4 cut(s) 271, 286, 295, 352
PspN4I GGNNCC 3 cut(s) 351, 358, 516
PspPI GGNCC 2 cut(s) 299, 451
PstI CTGCAG 1 cut(s) 37
PstNI CAGNNNCTG 3 cut(s) 587, 821, 953
RseI CAYNNNNRTG 1 cut(s) 642
SacI GAGCTC 3 cut(s) 83, 815, 947
SapI GCTCTTC 1 cut(s) 649
SaqAI TTAA 3 cut(s) 464, 684, 917
SatI GCNGC 3 cut(s) 10, 868, 1000
Sau3AI GATC 3 cut(s) 112, 196, 223
Sau96I GGNCC 2 cut(s) 299, 451
SchI GAGTC 2 cut(s) 96, 251
ScrFI CCNGG 4 cut(s) 273, 288, 297, 354
SduI GDGCHC 4 cut(s) 83, 157, 815, 947
SfaNI GCATC 3 cut(s) 399, 493, 558
SfcI CTRYAG 2 cut(s) 33, 382
SfoI GGCGCC 1 cut(s) 351
SinI GGWCC 1 cut(s) 451
SmiMI CAYNNNNRTG 1 cut(s) 642
SphI GCATGC 1 cut(s) 647
Sse9I AATT 5 cut(s) 92, 291, 471, 724, 735
SsiI CCGC 3 cut(s) 9, 261, 506
SspDI GGCGCC 1 cut(s) 349
SspMI CTAG 2 cut(s) 84, 660
SstI GAGCTC 3 cut(s) 83, 815, 947
StyD4I CCNGG 4 cut(s) 271, 286, 295, 352
StyI CCWWGG 1 cut(s) 44
TaaI ACNGT 1 cut(s) 451
TaiI ACGT 1 cut(s) 562
TaqI TCGA 2 cut(s) 90, 634
TasI AATT 5 cut(s) 92, 291, 471, 724, 735
TauI GCSGC 1 cut(s) 12
TfiI GAWTC 9 cut(s) 215, 584, 629, 832, 853, 874, 964, 985, 1006
Tru1I TTAA 3 cut(s) 464, 684, 917
Tru9I TTAA 3 cut(s) 464, 684, 917
TscAI CASTG 4 cut(s) 351, 654, 826, 958
TseFI GTSAC 6 cut(s) 817, 859, 880, 949, 991, 1012
TseI GCWGC 2 cut(s) 867, 999
Tsp45I GTSAC 6 cut(s) 817, 859, 880, 949, 991, 1012
TspDTI ATGAA 2 cut(s) 642, 720
TspGWI ACGGA 1 cut(s) 8
TspRI CASTG 4 cut(s) 351, 654, 826, 958
Van91I CCANNNNNTGG 1 cut(s) 329
VpaK11BI GGWCC 1 cut(s) 451
XapI RAATTY 3 cut(s) 92, 291, 471
XbaI TCTAGA 1 cut(s) 83
XceI RCATGY 2 cut(s) 344, 647
XmnI GAANNNNTTC 1 cut(s) 911
XspI CTAG 2 cut(s) 84, 660
ZraI GACGTC 1 cut(s) 560
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.