MD03G1183400.v1.1

Nuclear transcription factor Y subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr03
OG0014888
Physical Location & Seq
Reverse (-)
25025010 .. 25025594
585 bp
Loading structure...
UTR
Exon/CDS
Intron
MD03G1183400.v1.1.491

Sequence Viewer

Length: 585 bp
ATGGCGGACTCGGACAACGACTCGGGGGGAGCGCACACGAAGAGCGAGCTCTCGCCGCGGGAACAGGACCGATTGCTGCCTATAGCGAACGTGAGCCGGATCATGAAGAAGGCGCTGCCGGCGAACGCGAAGATCTCGAAAGACGCGAAGGAGACGGTGCAGGAGTGCGTGTCGGAGTTCATAAGCTTCATCACCGGCGAGGCCTCCGACAAGTGTCAGAGGGAGAAGAGGAAGACAATCAACGGCGACGATTTGCTGTGGGCGATGACGACGTTAGGGTTCGAGGAGTACGTGGAGCCTCTGAAGGTTTATTTGCAGAGGTTTAGGGAGATGGAAGGGGAGAAGAGCAGCGTGTCGGCGCGTGACAAGGACGGGAGCGGTGGCGGGAATGGTGGGGTTGGGTATGAGGGCGGTGGTGGGAGCAGTGGCGGAGCTGGGGTATACTGGCAGCAGCAACAGCAGCAGCAGCAGCAGCAGCAGCATCAGGGACACGTGTACGGCGGGAGTGGGTTTCATCAGATGGGTGTGAGTGGAGTTGGGATGGGGAAGAGTGGGTCCGGATCTAACATGGGTAGGCCCAGATGA

Protein Analysis

195

Amino Acids

20.84

Weight (kDa)

6.44

Isoelectric Point (pI)

37.25

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Histone PF00125 20 - 89 4.8e-06 Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF PF00808 25 - 89 2e-27 Histone-like transcription factor (CBF/NF-Y) and archaeal histone
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0014888)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G47640
fragaria_vesca FvH4_3g29360
malus_domestica MD03G1183400.v1.1 MD11G1200400.v1.1
prunus_persica Prupe.4G242700_v2.0.a1
pyrus_communis pycom03g13700 pycom11g17280
rosa_chinensis RchiOBHm_Chr5g0053731
rosa_laevigata RLG00000034898
rosa_multiflora Rmu_sc0001759.1_g000047
rosa_roxburghii Rroxscaffold_1G00026870
rosa_rugosa Rorug05G0281800
rosa_samantha Rh5AG352700 Rh5BG364400 Rh5DG379200
rosa_wichuraiana Rw5G033320

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 378
AccI GTMKAC 1 cut(s) 441
AccII CGCG 4 cut(s) 58, 128, 146, 361
AccIII TCCGGA 1 cut(s) 557
AciI CCGC 8 cut(s) 5, 56, 58, 378, 384, 411, 429, 501
AclWI GGATC 2 cut(s) 107, 568
AcuI CTGAAG 1 cut(s) 323
AcvI CACGTG 1 cut(s) 493
AfaI GTAC 2 cut(s) 290, 497
AflIII ACRYGT 2 cut(s) 490, 492
AluBI AGCT 3 cut(s) 49, 186, 434
AluI AGCT 3 cut(s) 49, 186, 434
Alw21I GWGCWC 1 cut(s) 51
Alw26I GTCTC 1 cut(s) 146
AlwI GGATC 2 cut(s) 107, 568
Ama87I CYCGRG 1 cut(s) 22
Aor13HI TCCGGA 1 cut(s) 557
AoxI GGCC 2 cut(s) 201, 575
AspLEI GCGC 3 cut(s) 34, 115, 361
AspS9I GGNCC 3 cut(s) 67, 555, 576
AsuHPI GGTGA 1 cut(s) 184
AvaI CYCGRG 1 cut(s) 22
AvaII GGWCC 2 cut(s) 67, 555
BanII GRGCYC 1 cut(s) 51
BbrPI CACGTG 1 cut(s) 493
BbsI GAAGAC 1 cut(s) 239
Bbv12I GWGCWC 1 cut(s) 51
BccI CCATC 3 cut(s) 325, 514, 535
BceAI ACGGC 2 cut(s) 259, 514
BcoDI GTCTC 1 cut(s) 146
BfmI CTRYAG 1 cut(s) 81
BfoI RGCGCY 1 cut(s) 116
BglII AGATCT 1 cut(s) 132
Bme18I GGWCC 2 cut(s) 67, 555
BmeT110I CYCGRG 1 cut(s) 22
BmgT120I GGNCC 3 cut(s) 67, 555, 576
BmiI GGNNCC 2 cut(s) 297, 556
BmsI GCATC 1 cut(s) 490
BoxI GACNNNNGTC 1 cut(s) 213
BpiI GAAGAC 1 cut(s) 239
BsaAI YACGTR 2 cut(s) 292, 493
BsaJI CCNNGG 1 cut(s) 56
BsaWI WCCGGW 1 cut(s) 557
BsaXI ACNNNNNCTCC 4 cut(s) 155, 185, 423, 453
Bse118I RCCGGY 2 cut(s) 118, 194
Bse1I ACTGG 1 cut(s) 449
BseAI TCCGGA 1 cut(s) 557
BseDI CCNNGG 1 cut(s) 56
BseGI GGATG 1 cut(s) 546
BseNI ACTGG 1 cut(s) 449
BseRI GAGGAG 1 cut(s) 299
BseYI CCCAGC 1 cut(s) 434
BsgI GTGCAG 1 cut(s) 179
Bsh1236I CGCG 4 cut(s) 58, 128, 146, 361
BshFI GGCC 2 cut(s) 203, 577
BsiHKAI GWGCWC 1 cut(s) 51
BsiHKCI CYCGRG 1 cut(s) 22
BsiSI CCGG 4 cut(s) 97, 119, 195, 558
BslFI GGGAC 1 cut(s) 501
BsmAI GTCTC 1 cut(s) 146
BsmBI CGTCTC 1 cut(s) 146
BsmFI GGGAC 1 cut(s) 501
BsnI GGCC 2 cut(s) 203, 577
BsoBI CYCGRG 1 cut(s) 22
Bsp1286I GDGCHC 1 cut(s) 51
Bsp13I TCCGGA 1 cut(s) 557
Bsp143I GATC 3 cut(s) 99, 132, 560
BspACI CCGC 8 cut(s) 5, 56, 58, 378, 384, 411, 429, 501
BspANI GGCC 2 cut(s) 203, 577
BspEI TCCGGA 1 cut(s) 557
BspFNI CGCG 4 cut(s) 58, 128, 146, 361
BspHI TCATGA 1 cut(s) 102
BspLI GGNNCC 2 cut(s) 297, 556
BspPI GGATC 2 cut(s) 107, 568
BspQI GCTCTTC 2 cut(s) 35, 338
BsrBI CCGCTC 1 cut(s) 378
BsrFI RCCGGY 2 cut(s) 118, 194
BsrI ACTGG 1 cut(s) 449
BssAI RCCGGY 2 cut(s) 118, 194
BssECI CCNNGG 1 cut(s) 56
BssMI GATC 3 cut(s) 99, 132, 560
BssNAI GTATAC 1 cut(s) 442
Bst1107I GTATAC 1 cut(s) 442
Bst4CI ACNGT 1 cut(s) 157
Bst6I CTCTTC 4 cut(s) 35, 221, 338, 542
BstBAI YACGTR 2 cut(s) 292, 493
BstC8I GCNNGC 2 cut(s) 47, 120
BstDSI CCRYGG 1 cut(s) 56
BstF5I GGATG 1 cut(s) 546
BstFNI CGCG 4 cut(s) 58, 128, 146, 361
BstH2I RGCGCY 1 cut(s) 116
BstHHI GCGC 3 cut(s) 34, 115, 361
BstKTI GATC 3 cut(s) 102, 135, 563
BstMAI GTCTC 1 cut(s) 146
BstMBI GATC 3 cut(s) 99, 132, 560
BstMWI GCNNNNNNNGC 9 cut(s) 55, 119, 457, 460, 466, 469, 472, 475, 478
BstPAI GACNNNNGTC 1 cut(s) 213
BstSFI CTRYAG 1 cut(s) 81
BstUI CGCG 4 cut(s) 58, 128, 146, 361
BstV2I GAAGAC 1 cut(s) 239
BstX2I RGATCY 2 cut(s) 132, 560
BstYI RGATCY 2 cut(s) 132, 560
BstZ17I GTATAC 1 cut(s) 442
BsuRI GGCC 2 cut(s) 203, 577
BtgI CCRYGG 1 cut(s) 56
BtgZI GCGATG 1 cut(s) 278
BtsCI GGATG 1 cut(s) 546
BtsI GCAGTG 1 cut(s) 430
BtsIMutI CAGTG 1 cut(s) 430
Cac8I GCNNGC 2 cut(s) 47, 120
CciI TCATGA 1 cut(s) 102
CfoI GCGC 3 cut(s) 34, 115, 361
Cfr10I RCCGGY 2 cut(s) 118, 194
Cfr13I GGNCC 3 cut(s) 67, 555, 576
Cfr42I CCGCGG 1 cut(s) 59
CseI GACGC 1 cut(s) 152
Csp6I GTAC 2 cut(s) 289, 496
CviAII CATG 2 cut(s) 103, 568
CviJI RGCY 7 cut(s) 49, 96, 186, 203, 298, 434, 577
CviKI_1 RGCY 7 cut(s) 49, 96, 186, 203, 298, 434, 577
CviQI GTAC 2 cut(s) 289, 496
DpnI GATC 3 cut(s) 101, 134, 562
DpnII GATC 3 cut(s) 99, 132, 560
Eam1104I CTCTTC 4 cut(s) 35, 221, 338, 542
EarI CTCTTC 4 cut(s) 35, 221, 338, 542
EciI GGCGGA 2 cut(s) 20, 444
Ecl136II GAGCTC 1 cut(s) 49
Eco147I AGGCCT 1 cut(s) 203
Eco24I GRGCYC 1 cut(s) 51
Eco47I GGWCC 2 cut(s) 67, 555
Eco53kI GAGCTC 1 cut(s) 49
Eco57I CTGAAG 1 cut(s) 323
Eco72I CACGTG 1 cut(s) 493
Eco88I CYCGRG 1 cut(s) 22
EcoICRI GAGCTC 1 cut(s) 49
EcoT38I GRGCYC 1 cut(s) 51
Esp3I CGTCTC 1 cut(s) 146
FaeI CATG 2 cut(s) 106, 571
FaiI YATR 6 cut(s) 83, 104, 182, 405, 442, 569
FaqI GGGAC 1 cut(s) 501
FatI CATG 2 cut(s) 102, 567
FauI CCCGC 3 cut(s) 51, 377, 494
FblI GTMKAC 1 cut(s) 441
FokI GGATG 1 cut(s) 553
FriOI GRGCYC 1 cut(s) 51
GlaI GCGC 3 cut(s) 33, 114, 360
GsaI CCCAGC 1 cut(s) 438
HaeII RGCGCY 1 cut(s) 116
HaeIII GGCC 2 cut(s) 203, 577
HapII CCGG 4 cut(s) 97, 119, 195, 558
HgaI GACGC 1 cut(s) 152
HhaI GCGC 3 cut(s) 34, 115, 361
Hin1II CATG 2 cut(s) 106, 571
Hin6I GCGC 3 cut(s) 32, 113, 359
HinP1I GCGC 3 cut(s) 32, 113, 359
HindIII AAGCTT 1 cut(s) 184
HinfI GANTC 2 cut(s) 8, 20
HpaII CCGG 4 cut(s) 97, 119, 195, 558
HphI GGTGA 1 cut(s) 184
Hpy166II GTNNAC 2 cut(s) 442, 496
Hpy188I TCNGA 6 cut(s) 13, 175, 208, 219, 303, 519
Hpy188III TCNNGA 3 cut(s) 103, 136, 558
Hpy8I GTNNAC 2 cut(s) 442, 496
Hpy99I CGWCG 2 cut(s) 251, 274
HpyAV CCTTC 4 cut(s) 103, 142, 298, 329
HpyCH4III ACNGT 1 cut(s) 157
HpyCH4IV ACGT 4 cut(s) 90, 272, 291, 492
HpyCH4V TGCA 2 cut(s) 160, 316
HpyF10VI GCNNNNNNNGC 9 cut(s) 55, 119, 457, 460, 466, 469, 472, 475, 478
HpySE526I ACGT 4 cut(s) 90, 272, 291, 492
Hsp92II CATG 2 cut(s) 106, 571
HspAI GCGC 3 cut(s) 32, 113, 359
Kpn2I TCCGGA 1 cut(s) 557
KroI GCCGGC 1 cut(s) 118
KroNI GCCGGC 1 cut(s) 120
KspI CCGCGG 1 cut(s) 59
Kzo9I GATC 3 cut(s) 99, 132, 560
LguI GCTCTTC 2 cut(s) 35, 338
LmnI GCTCC 5 cut(s) 29, 295, 375, 420, 431
LpnPI CCDG 9 cut(s) 50, 110, 132, 146, 208, 420, 430, 470, 571
LweI GCATC 1 cut(s) 490
MaeII ACGT 4 cut(s) 90, 272, 291, 492
MaeIII GTNAC 1 cut(s) 362
MalI GATC 3 cut(s) 101, 134, 562
MbiI CCGCTC 1 cut(s) 378
MboI GATC 3 cut(s) 99, 132, 560
MboII GAAGA 7 cut(s) 52, 118, 142, 238, 244, 355, 559
MflI RGATCY 2 cut(s) 132, 560
MhlI GDGCHC 1 cut(s) 51
MlyI GAGTC 2 cut(s) 2, 14
MmeI TCCRAC 2 cut(s) 153, 231
MnlI CCTC 8 cut(s) 193, 213, 214, 222, 277, 309, 312, 400
MroI TCCGGA 1 cut(s) 557
MroNI GCCGGC 1 cut(s) 118
MspA1I CMGCKG 1 cut(s) 58
MspI CCGG 4 cut(s) 97, 119, 195, 558
MvnI CGCG 4 cut(s) 58, 128, 146, 361
MwoI GCNNNNNNNGC 9 cut(s) 55, 119, 457, 460, 466, 469, 472, 475, 478
NaeI GCCGGC 1 cut(s) 120
NdeII GATC 3 cut(s) 99, 132, 560
NgoMIV GCCGGC 1 cut(s) 118
NlaIII CATG 2 cut(s) 106, 571
NlaIV GGNNCC 2 cut(s) 297, 556
NmuCI GTSAC 1 cut(s) 362
PagI TCATGA 1 cut(s) 102
PceI AGGCCT 1 cut(s) 203
PciSI GCTCTTC 2 cut(s) 35, 338
PcsI WCGNNNNNNNCGW 2 cut(s) 143, 288
PdiI GCCGGC 1 cut(s) 120
PleI GAGTC 2 cut(s) 2, 14
PmaCI CACGTG 1 cut(s) 493
PmlI CACGTG 1 cut(s) 493
PpsI GAGTC 2 cut(s) 2, 14
Ppu21I YACGTR 2 cut(s) 292, 493
PshAI GACNNNNGTC 1 cut(s) 213
Psp124BI GAGCTC 1 cut(s) 51
PspCI CACGTG 1 cut(s) 493
PspFI CCCAGC 1 cut(s) 434
PspN4I GGNNCC 2 cut(s) 297, 556
PspPI GGNCC 3 cut(s) 67, 555, 576
PsuI RGATCY 2 cut(s) 132, 560
RsaI GTAC 2 cut(s) 290, 497
RsaNI GTAC 2 cut(s) 289, 496
SacI GAGCTC 1 cut(s) 51
SacII CCGCGG 1 cut(s) 59
SapI GCTCTTC 2 cut(s) 35, 338
Sau3AI GATC 3 cut(s) 99, 132, 560
Sau96I GGNCC 3 cut(s) 67, 555, 576
SchI GAGTC 2 cut(s) 2, 14
SduI GDGCHC 1 cut(s) 51
SetI ASST 9 cut(s) 51, 93, 188, 275, 294, 309, 323, 436, 495
SfaNI GCATC 1 cut(s) 490
SfcI CTRYAG 1 cut(s) 81
Sfr303I CCGCGG 1 cut(s) 59
SgrAI CRCCGGYG 1 cut(s) 194
SgrBI CCGCGG 1 cut(s) 59
SinI GGWCC 2 cut(s) 67, 555
SseBI AGGCCT 1 cut(s) 203
SsiI CCGC 8 cut(s) 5, 56, 58, 378, 384, 411, 429, 501
SstI GAGCTC 1 cut(s) 51
StuI AGGCCT 1 cut(s) 203
TaaI ACNGT 1 cut(s) 157
TaiI ACGT 4 cut(s) 93, 275, 294, 495
TaqI TCGA 2 cut(s) 137, 282
TaqII GACCGA 1 cut(s) 84
TauI GCSGC 1 cut(s) 58
TscAI CASTG 1 cut(s) 430
TseFI GTSAC 1 cut(s) 362
Tsp45I GTSAC 1 cut(s) 362
TspDTI ATGAA 4 cut(s) 119, 169, 178, 503
TspRI CASTG 1 cut(s) 430
VpaK11BI GGWCC 2 cut(s) 67, 555
XmiI GTMKAC 1 cut(s) 441
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.