Rh5DG122300

Nuclear transcription factor Y subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0008331
Physical Location & Seq
Reverse (-)
11020644 .. 11026981
6338 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG122300.1

Sequence Viewer

Length: 687 bp
ATGTCAATGACCTGGTTGATATTTATTTTGCAGCCACATTGTTTTGGGGCTCTCCACCTGCAACGCGTCCTCATGACTTCTTCTGTTCACGATCATTCCGATAGTAGTGAATCTGATGATCAGCAAAAGCATTCAGAGTCTCCGATGATTTCTTCCGCACCTGCACCTGGAATGTCTAATCCTGGAATTCCAGGCCCTATTCAGTATGTAGCCCCTCCACAGATTGGAGCAGGACATGCAGTGGCGCCAGGAGCCTACCCATATCCAGACCCTTACTACAGAAGCATCTTTGCTCCTTATGACACACAACCATATCCTCCACAACCCTATGGGGGGCAACCAACGGTCCATCTTCAGTTAATGGGAATTCAGCAAGCAGGAGTTCCATTGCCAACAGATGCGGTTGAGGAACCTGTGTTTGTAAATGCAAAACAATATCATGGCATCTTGCGACGTCGGCAGTCTCGTGCTAAAGCAGAATCTGAAAACAAAGCTCTAAAATCTCGGAAGCCTTACTTGCATGAATCTCGACACCTGCATGCACTGAGAAGAGCTAGAGGATGTGGGGGTCGGTTTCTTAATGCAAAGAAAGATGAGAATGAACAGAGTGAAGGAGACAATTCACAGGCAATTATCAACTTGAACTCTGATAAAAGTGAGCGTTCTTCCTCGGATAGAACATCCTAA

Protein Analysis

228

Amino Acids

25.18

Weight (kDa)

7.86

Isoelectric Point (pI)

73.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CBFB_NFYA PF02045 137 - 192 8.5e-27 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) 66, 169, 543
AatII GACGTC 1 cut(s) 457
Acc36I ACCTGC 3 cut(s) 66, 169, 543
AccB1I GGYRCC 1 cut(s) 244
AccB7I CCANNNNNTGG 1 cut(s) 224
AccII CGCG 1 cut(s) 66
AciI CCGC 2 cut(s) 156, 401
AcsI RAATTY 2 cut(s) 186, 366
AcuI CTGAAG 1 cut(s) 338
AcyI GRCGYC 2 cut(s) 245, 454
AfiI CCNNNNNNNGG 4 cut(s) 167, 224, 332, 333
AflIII ACRYGT 1 cut(s) 64
AgsI TTSAA 1 cut(s) 643
AjnI CCWGG 5 cut(s) 11, 166, 181, 190, 247
AluBI AGCT 2 cut(s) 494, 554
AluI AGCT 2 cut(s) 494, 554
Alw26I GTCTC 3 cut(s) 144, 468, 609
AlwNI CAGNNNCTG 1 cut(s) 482
AoxI GGCC 1 cut(s) 193
ApeKI GCWGC 1 cut(s) 31
ApoI RAATTY 2 cut(s) 186, 366
AspLEI GCGC 1 cut(s) 247
AspS9I GGNCC 2 cut(s) 194, 346
AvaII GGWCC 1 cut(s) 346
BanI GGYRCC 1 cut(s) 244
BanII GRGCYC 1 cut(s) 52
BauI CACGAG 1 cut(s) 465
BbvI GCAGC 1 cut(s) 43
BccI CCATC 1 cut(s) 357
BcgI CGANNNNNNTGC 2 cut(s) 509, 543
BciT130I CCWGG 5 cut(s) 13, 168, 183, 192, 249
BclI TGATCA 1 cut(s) 118
BcoDI GTCTC 3 cut(s) 144, 468, 609
BfaI CTAG 1 cut(s) 555
BfmI CTRYAG 1 cut(s) 277
BfoI RGCGCY 1 cut(s) 248
BfuAI ACCTGC 3 cut(s) 66, 169, 543
BisI GCNGC 1 cut(s) 32
BlsI GCNGC 1 cut(s) 33
Bme1390I CCNGG 5 cut(s) 13, 168, 183, 192, 249
Bme18I GGWCC 1 cut(s) 346
BmgT120I GGNCC 2 cut(s) 194, 346
BmiI GGNNCC 3 cut(s) 246, 253, 411
BmrFI CCNGG 5 cut(s) 13, 168, 183, 192, 249
BmsI GCATC 3 cut(s) 294, 388, 453
BsaHI GRCGYC 2 cut(s) 245, 454
BsaJI CCNNGG 1 cut(s) 669
Bsc4I CCNNNNNNNGG 4 cut(s) 167, 224, 332, 333
Bse3DI GCAATG 1 cut(s) 386
BseBI CCWGG 5 cut(s) 13, 168, 183, 192, 249
BseDI CCNNGG 1 cut(s) 669
BseGI GGATG 2 cut(s) 566, 680
BseLI CCNNNNNNNGG 4 cut(s) 167, 224, 332, 333
BseMI GCAATG 1 cut(s) 386
BseMII CTCAG 1 cut(s) 536
BseXI GCAGC 1 cut(s) 43
BsgI GTGCAG 1 cut(s) 147
Bsh1236I CGCG 1 cut(s) 66
BshFI GGCC 1 cut(s) 195
BshNI GGYRCC 1 cut(s) 244
BslI CCNNNNNNNGG 4 cut(s) 167, 224, 332, 333
BsmAI GTCTC 3 cut(s) 144, 468, 609
BsmI GAATGC 1 cut(s) 130
BsnI GGCC 1 cut(s) 195
Bsp1286I GDGCHC 1 cut(s) 52
Bsp143I GATC 2 cut(s) 91, 118
BspACI CCGC 2 cut(s) 156, 401
BspANI GGCC 1 cut(s) 195
BspCNI CTCAG 1 cut(s) 537
BspFNI CGCG 1 cut(s) 66
BspHI TCATGA 1 cut(s) 72
BspLI GGNNCC 3 cut(s) 246, 253, 411
BspMI ACCTGC 3 cut(s) 66, 169, 543
BspQI GCTCTTC 1 cut(s) 544
BspT107I GGYRCC 1 cut(s) 244
BsrDI GCAATG 1 cut(s) 386
BssECI CCNNGG 1 cut(s) 669
BssMI GATC 2 cut(s) 91, 118
BssNI GRCGYC 2 cut(s) 245, 454
BssSI CACGAG 1 cut(s) 465
Bst2BI CACGAG 1 cut(s) 465
Bst2UI CCWGG 5 cut(s) 13, 168, 183, 192, 249
Bst4CI ACNGT 1 cut(s) 346
Bst6I CTCTTC 1 cut(s) 544
BstACI GRCGYC 2 cut(s) 245, 454
BstAPI GCANNNNNTGC 1 cut(s) 236
BstC8I GCNNGC 2 cut(s) 375, 540
BstDEI CTNAG 1 cut(s) 545
BstF5I GGATG 2 cut(s) 566, 680
BstFNI CGCG 1 cut(s) 66
BstH2I RGCGCY 1 cut(s) 248
BstHHI GCGC 1 cut(s) 247
BstKTI GATC 2 cut(s) 94, 121
BstMAI GTCTC 3 cut(s) 144, 468, 609
BstMBI GATC 2 cut(s) 91, 118
BstMWI GCNNNNNNNGC 4 cut(s) 236, 251, 457, 517
BstNI CCWGG 5 cut(s) 13, 168, 183, 192, 249
BstNSI RCATGY 2 cut(s) 239, 542
BstSCI CCNGG 5 cut(s) 11, 166, 181, 190, 247
BstSFI CTRYAG 1 cut(s) 277
BstUI CGCG 1 cut(s) 66
BstV1I GCAGC 1 cut(s) 43
BsuRI GGCC 1 cut(s) 195
BtsCI GGATG 2 cut(s) 566, 680
BtsI GCAGTG 1 cut(s) 246
BtsIMutI CAGTG 2 cut(s) 246, 542
BveI ACCTGC 3 cut(s) 66, 169, 543
Cac8I GCNNGC 2 cut(s) 375, 540
CaiI CAGNNNCTG 1 cut(s) 482
CciI TCATGA 1 cut(s) 72
CfoI GCGC 1 cut(s) 247
Cfr13I GGNCC 2 cut(s) 194, 346
CseI GACGC 1 cut(s) 55
CsiI ACCWGGT 1 cut(s) 11
CviAII CATG 5 cut(s) 73, 236, 440, 521, 539
CviJI RGCY 8 cut(s) 34, 50, 195, 212, 254, 494, 511, 554
CviKI_1 RGCY 8 cut(s) 34, 50, 195, 212, 254, 494, 511, 554
DdeI CTNAG 1 cut(s) 545
DinI GGCGCC 1 cut(s) 246
DpnI GATC 2 cut(s) 93, 120
DpnII GATC 2 cut(s) 91, 118
Eam1104I CTCTTC 1 cut(s) 544
EarI CTCTTC 1 cut(s) 544
Eco24I GRGCYC 1 cut(s) 52
Eco47I GGWCC 1 cut(s) 346
Eco57I CTGAAG 1 cut(s) 338
EcoO109I RGGNCCY 1 cut(s) 194
EcoRI GAATTC 2 cut(s) 186, 366
EcoRII CCWGG 5 cut(s) 11, 166, 181, 190, 247
EcoT38I GRGCYC 1 cut(s) 52
EgeI GGCGCC 1 cut(s) 246
EheI GGCGCC 1 cut(s) 246
FaeI CATG 5 cut(s) 76, 239, 443, 524, 542
FalI AAGNNNNNCTT 2 cut(s) 500, 532
FatI CATG 5 cut(s) 72, 235, 439, 520, 538
FbaI TGATCA 1 cut(s) 118
Fnu4HI GCNGC 1 cut(s) 32
FokI GGATG 2 cut(s) 573, 667
FriOI GRGCYC 1 cut(s) 52
Fsp4HI GCNGC 1 cut(s) 32
FspBI CTAG 1 cut(s) 555
GlaI GCGC 1 cut(s) 246
GluI GCNGC 1 cut(s) 32
HaeII RGCGCY 1 cut(s) 248
HaeIII GGCC 1 cut(s) 195
HgaI GACGC 1 cut(s) 55
HhaI GCGC 1 cut(s) 247
Hin1I GRCGYC 2 cut(s) 245, 454
Hin1II CATG 5 cut(s) 76, 239, 443, 524, 542
Hin6I GCGC 1 cut(s) 245
HinP1I GCGC 1 cut(s) 245
HinfI GANTC 4 cut(s) 110, 137, 479, 524
Hpy166II GTNNAC 1 cut(s) 88
Hpy188I TCNGA 8 cut(s) 100, 115, 136, 144, 484, 507, 649, 673
Hpy188III TCNNGA 4 cut(s) 73, 89, 266, 528
Hpy8I GTNNAC 1 cut(s) 88
Hpy99I CGWCG 2 cut(s) 456, 459
HpyAV CCTTC 1 cut(s) 605
HpyCH4III ACNGT 1 cut(s) 346
HpyCH4IV ACGT 1 cut(s) 454
HpyCH4V TGCA 9 cut(s) 31, 61, 164, 239, 428, 520, 538, 542, 584
HpyF10VI GCNNNNNNNGC 4 cut(s) 236, 251, 457, 517
HpyF3I CTNAG 1 cut(s) 545
HpySE526I ACGT 1 cut(s) 454
Hsp92I GRCGYC 2 cut(s) 245, 454
Hsp92II CATG 5 cut(s) 76, 239, 443, 524, 542
HspAI GCGC 1 cut(s) 245
KasI GGCGCC 1 cut(s) 244
Ksp22I TGATCA 1 cut(s) 118
Kzo9I GATC 2 cut(s) 91, 118
LguI GCTCTTC 1 cut(s) 544
LmnI GCTCC 3 cut(s) 227, 251, 298
Lsp1109I GCAGC 1 cut(s) 43
LweI GCATC 3 cut(s) 294, 388, 453
MabI ACCWGGT 1 cut(s) 11
MaeI CTAG 1 cut(s) 555
MaeII ACGT 1 cut(s) 454
MalI GATC 2 cut(s) 93, 120
MboI GATC 2 cut(s) 91, 118
MboII GAAGA 5 cut(s) 72, 144, 344, 561, 657
MhlI GDGCHC 1 cut(s) 52
MluCI AATT 4 cut(s) 186, 366, 619, 630
MluI ACGCGT 1 cut(s) 64
Mly113I GGCGCC 1 cut(s) 245
MlyI GAGTC 1 cut(s) 146
MnlI CCTC 6 cut(s) 80, 225, 327, 400, 551, 679
MseI TTAA 2 cut(s) 359, 579
MslI CAYNNNNRTG 1 cut(s) 537
MspR9I CCNGG 5 cut(s) 13, 168, 183, 192, 249
Mva1269I GAATGC 1 cut(s) 130
MvaI CCWGG 5 cut(s) 13, 168, 183, 192, 249
MvnI CGCG 1 cut(s) 66
MwoI GCNNNNNNNGC 4 cut(s) 236, 251, 457, 517
NarI GGCGCC 1 cut(s) 245
NdeII GATC 2 cut(s) 91, 118
NlaIII CATG 5 cut(s) 76, 239, 443, 524, 542
NlaIV GGNNCC 3 cut(s) 246, 253, 411
NspI RCATGY 2 cut(s) 239, 542
PaeI GCATGC 1 cut(s) 542
PagI TCATGA 1 cut(s) 72
PaqCI CACCTGC 3 cut(s) 66, 169, 543
PciSI GCTCTTC 1 cut(s) 544
PcsI WCGNNNNNNNCGW 2 cut(s) 96, 463
PctI GAATGC 1 cut(s) 130
PfeI GAWTC 3 cut(s) 110, 479, 524
PflMI CCANNNNNTGG 1 cut(s) 224
PfoI TCCNGGA 1 cut(s) 181
PkrI GCNGC 1 cut(s) 33
PleI GAGTC 1 cut(s) 145
PluTI GGCGCC 1 cut(s) 248
PpsI GAGTC 1 cut(s) 145
Psp6I CCWGG 5 cut(s) 11, 166, 181, 190, 247
PspGI CCWGG 5 cut(s) 11, 166, 181, 190, 247
PspN4I GGNNCC 3 cut(s) 246, 253, 411
PspPI GGNCC 2 cut(s) 194, 346
PstNI CAGNNNCTG 1 cut(s) 482
RseI CAYNNNNRTG 1 cut(s) 537
SapI GCTCTTC 1 cut(s) 544
SaqAI TTAA 2 cut(s) 359, 579
SatI GCNGC 1 cut(s) 32
Sau3AI GATC 2 cut(s) 91, 118
Sau96I GGNCC 2 cut(s) 194, 346
SchI GAGTC 1 cut(s) 146
ScrFI CCNGG 5 cut(s) 13, 168, 183, 192, 249
SduI GDGCHC 1 cut(s) 52
SetI ASST 9 cut(s) 14, 60, 163, 169, 415, 457, 496, 537, 556
SexAI ACCWGGT 1 cut(s) 11
SfaNI GCATC 3 cut(s) 294, 388, 453
SfcI CTRYAG 1 cut(s) 277
SfoI GGCGCC 1 cut(s) 246
SinI GGWCC 1 cut(s) 346
SmiMI CAYNNNNRTG 1 cut(s) 537
SphI GCATGC 1 cut(s) 542
Sse9I AATT 4 cut(s) 186, 366, 619, 630
SsiI CCGC 2 cut(s) 156, 401
SspDI GGCGCC 1 cut(s) 244
SspMI CTAG 1 cut(s) 555
StyD4I CCNGG 5 cut(s) 11, 166, 181, 190, 247
TaaI ACNGT 1 cut(s) 346
TaiI ACGT 1 cut(s) 457
TaqI TCGA 1 cut(s) 529
TasI AATT 4 cut(s) 186, 366, 619, 630
TfiI GAWTC 3 cut(s) 110, 479, 524
Tru1I TTAA 2 cut(s) 359, 579
Tru9I TTAA 2 cut(s) 359, 579
TscAI CASTG 2 cut(s) 246, 549
TseI GCWGC 1 cut(s) 31
TspDTI ATGAA 2 cut(s) 537, 615
TspRI CASTG 2 cut(s) 246, 549
Van91I CCANNNNNTGG 1 cut(s) 224
VpaK11BI GGWCC 1 cut(s) 346
XapI RAATTY 2 cut(s) 186, 366
XceI RCATGY 2 cut(s) 239, 542
XspI CTAG 1 cut(s) 555
ZraI GACGTC 1 cut(s) 455
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.