MD16G1212800.v1.1

Transcription factor that specifically binds AT-rich DNA sequences related to the nuclear matrix attachment regions (MARs)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr16
OG0004329
Physical Location & Seq
Reverse (-)
20364140 .. 20364985
846 bp
Loading structure...
UTR
Exon/CDS
Intron
MD16G1212800.v1.1.491

Sequence Viewer

Length: 846 bp
ATGGACCCGGTAGCCACCAATTCATCAACGCTGAACAAGCAGCGCGGCCTTGAAATCTCTATAAACGAAAACAGCGGCAGAAGCAGCGGCAGAGACGAGGATGACGACAGAGACCATACTGAGCCCAAAGAAGGTGCGGTCGAGATTGGATCCCGCCGGCCAAGAGGCCGCCCTCCAGGATCCAAAAACAAGCCCAAACCTCCCATCTTCGTCACCCGTGATAGCCCCAACTCCCTCCGCAGCCATGTCATGGAGGTGGCCAGCGGCACTGACGTGGCGGAGAGCGTGGCGCAGTTCGCTAGGCGGCGGCAGAGAGGCATGTGTATTCTTAGCGGGAGTGGCTCGGTCGCCAACGTAACCCTAAGACAACCTGCGGCTCCAGGAGCTGTGGTGGTGCTTCATGGGAGGTTTGAGATTTTGTCTCTGAGTGGGGCGTTCCTTCCTGGTCCCGCCCCTCCCGGGTTTACTGGGCTGACGGTTTACTTAGCCGGCGGGCAGGGGCAGGTGGTTGGGGGCAGTGTGATGGGGTCACTAGTGGCAGCAGGGCCAGTGATGGTGATGGCAGCAACATTTGCAAATGCTACTTATGAGAGGTTGCCTCTTGAGGAGGATGAGGAGGGTGGAGGAGGTGGAGGAGGCCATAATAATGGAGGTTCCCCAACTGGTGGTGGGAGCAGTGGAACCCAGTTGGGGAGTGGGGGGCATCATCATCAGCAGCAGCAACTCCCTGATCCTTCATCTGGACTTCCAAATATTTACAGCTATCATCTGCCTCCAAATCTGATCCCTAATGGTGGCCATGGACAGCTTGGGCATGAGGCGTATGCTAATTGGGCGCATTCATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DUF296

Protein Analysis

282

Amino Acids

28.99

Weight (kDa)

6.41

Isoelectric Point (pI)

55.71

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 80 - 192 9e-25 Plants and Prokaryotes Conserved (PCC) domain
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 493
Acc36I ACCTGC 2 cut(s) 379, 493
AccB7I CCANNNNNTGG 2 cut(s) 250, 665
AccII CGCG 1 cut(s) 45
AclWI GGATC 6 cut(s) 144, 157, 174, 187, 725, 778
AcoI YGGCCR 3 cut(s) 158, 258, 796
AfiI CCNNNNNNNGG 7 cut(s) 131, 250, 459, 665, 690, 740, 794
AgsI TTSAA 1 cut(s) 53
AhlI ACTAGT 1 cut(s) 532
AjiI CACGTC 1 cut(s) 274
AjnI CCWGG 3 cut(s) 175, 379, 442
AleI CACNNNNGTG 1 cut(s) 272
AluBI AGCT 3 cut(s) 386, 762, 808
AluI AGCT 3 cut(s) 386, 762, 808
Alw26I GTCTC 3 cut(s) 87, 105, 426
AlwI GGATC 6 cut(s) 144, 157, 174, 187, 725, 778
AlwNI CAGNNNCTG 1 cut(s) 386
Ama87I CYCGRG 1 cut(s) 458
AoxI GGCC 7 cut(s) 46, 158, 166, 258, 545, 637, 796
ApeKI GCWGC 7 cut(s) 40, 84, 240, 539, 563, 715, 718
AspLEI GCGC 3 cut(s) 45, 292, 838
AspS9I GGNCC 3 cut(s) 4, 446, 545
AsuC2I CCSGG 3 cut(s) 8, 459, 460
AsuHPI GGTGA 2 cut(s) 205, 568
AvaI CYCGRG 1 cut(s) 458
AvaII GGWCC 2 cut(s) 4, 446
BalI TGGCCA 2 cut(s) 260, 798
BamHI GGATCC 2 cut(s) 149, 179
BanII GRGCYC 1 cut(s) 126
BbvI GCAGC 7 cut(s) 52, 96, 252, 551, 575, 727, 730
BccI CCATC 4 cut(s) 212, 517, 547, 553
BciT130I CCWGG 3 cut(s) 177, 381, 444
BcnI CCSGG 3 cut(s) 8, 459, 460
BcoDI GTCTC 3 cut(s) 87, 105, 426
BcuI ACTAGT 1 cut(s) 532
BfaI CTAG 2 cut(s) 300, 533
BfuAI ACCTGC 2 cut(s) 379, 493
Bme1390I CCNGG 6 cut(s) 8, 177, 381, 444, 459, 460
Bme18I GGWCC 2 cut(s) 4, 446
BmeT110I CYCGRG 1 cut(s) 458
BmgBI CACGTC 1 cut(s) 274
BmgT120I GGNCC 3 cut(s) 4, 446, 545
BmiI GGNNCC 7 cut(s) 6, 151, 181, 378, 448, 655, 682
BmrFI CCNGG 6 cut(s) 8, 177, 381, 444, 459, 460
BmrI ACTGGG 2 cut(s) 477, 679
BmsI GCATC 1 cut(s) 712
BmuI ACTGGG 2 cut(s) 477, 679
BplI GAGNNNNNCTC 2 cut(s) 583, 615
BpmI CTGGAG 2 cut(s) 159, 363
BpuEI CTTGAG 1 cut(s) 623
BpuMI CCSGG 3 cut(s) 8, 459, 460
BsaI GGTCTC 1 cut(s) 105
BsaJI CCNNGG 2 cut(s) 458, 799
BsaXI ACNNNNNCTCC 2 cut(s) 375, 405
Bsc4I CCNNNNNNNGG 7 cut(s) 131, 250, 459, 665, 690, 740, 794
Bse118I RCCGGY 2 cut(s) 156, 488
Bse1I ACTGG 4 cut(s) 472, 548, 667, 685
BseBI CCWGG 3 cut(s) 177, 381, 444
BseDI CCNNGG 2 cut(s) 458, 799
BseGI GGATG 2 cut(s) 106, 616
BseLI CCNNNNNNNGG 7 cut(s) 131, 250, 459, 665, 690, 740, 794
BseMII CTCAG 2 cut(s) 111, 416
BseNI ACTGG 4 cut(s) 472, 548, 667, 685
BseRI GAGGAG 4 cut(s) 620, 629, 639, 648
BseXI GCAGC 7 cut(s) 52, 96, 252, 551, 575, 727, 730
Bsh1236I CGCG 1 cut(s) 45
Bsh1285I CGRYCG 2 cut(s) 141, 348
BshFI GGCC 7 cut(s) 48, 160, 168, 260, 547, 639, 798
BsiEI CGRYCG 2 cut(s) 141, 348
BsiHKCI CYCGRG 1 cut(s) 458
BsiSI CCGG 4 cut(s) 8, 157, 459, 489
BslFI GGGAC 1 cut(s) 432
BslI CCNNNNNNNGG 7 cut(s) 131, 250, 459, 665, 690, 740, 794
BsmAI GTCTC 3 cut(s) 87, 105, 426
BsmBI CGTCTC 1 cut(s) 87
BsmFI GGGAC 1 cut(s) 432
BsmI GAATGC 1 cut(s) 838
BsnI GGCC 7 cut(s) 48, 160, 168, 260, 547, 639, 798
Bso31I GGTCTC 1 cut(s) 105
BsoBI CYCGRG 1 cut(s) 458
Bsp1286I GDGCHC 1 cut(s) 126
Bsp143I GATC 4 cut(s) 149, 179, 730, 783
Bsp19I CCATGG 1 cut(s) 799
BspANI GGCC 7 cut(s) 48, 160, 168, 260, 547, 639, 798
BspCNI CTCAG 2 cut(s) 112, 417
BspFNI CGCG 1 cut(s) 45
BspHI TCATGA 1 cut(s) 842
BspLI GGNNCC 7 cut(s) 6, 151, 181, 378, 448, 655, 682
BspMI ACCTGC 2 cut(s) 379, 493
BspPI GGATC 6 cut(s) 144, 157, 174, 187, 725, 778
BspTNI GGTCTC 1 cut(s) 105
BsrFI RCCGGY 2 cut(s) 156, 488
BsrI ACTGG 4 cut(s) 472, 548, 667, 685
BssAI RCCGGY 2 cut(s) 156, 488
BssECI CCNNGG 2 cut(s) 458, 799
BssMI GATC 4 cut(s) 149, 179, 730, 783
BssT1I CCWWGG 1 cut(s) 799
Bst2UI CCWGG 3 cut(s) 177, 381, 444
Bst4CI ACNGT 1 cut(s) 478
BstAPI GCANNNNNTGC 1 cut(s) 572
BstC8I GCNNGC 4 cut(s) 158, 262, 490, 494
BstDEI CTNAG 5 cut(s) 120, 329, 362, 425, 484
BstDSI CCRYGG 1 cut(s) 799
BstF5I GGATG 2 cut(s) 106, 616
BstFNI CGCG 1 cut(s) 45
BstHHI GCGC 3 cut(s) 45, 292, 838
BstKTI GATC 4 cut(s) 152, 182, 733, 786
BstMAI GTCTC 3 cut(s) 87, 105, 426
BstMBI GATC 4 cut(s) 149, 179, 730, 783
BstMCI CGRYCG 2 cut(s) 141, 348
BstMWI GCNNNNNNNGC 8 cut(s) 37, 81, 84, 296, 339, 383, 572, 833
BstNI CCWGG 3 cut(s) 177, 381, 444
BstNSI RCATGY 1 cut(s) 322
BstSCI CCNGG 6 cut(s) 6, 175, 379, 442, 457, 458
BstUI CGCG 1 cut(s) 45
BstV1I GCAGC 7 cut(s) 52, 96, 252, 551, 575, 727, 730
BstX2I RGATCY 2 cut(s) 149, 179
BstXI CCANNNNNNTGG 1 cut(s) 647
BstYI RGATCY 2 cut(s) 149, 179
BsuRI GGCC 7 cut(s) 48, 160, 168, 260, 547, 639, 798
BtgI CCRYGG 1 cut(s) 799
BtrI CACGTC 1 cut(s) 274
BtsCI GGATG 2 cut(s) 106, 616
BtsI GCAGTG 2 cut(s) 523, 682
BtsIMutI CAGTG 4 cut(s) 267, 523, 555, 682
BveI ACCTGC 2 cut(s) 379, 493
Cac8I GCNNGC 4 cut(s) 158, 262, 490, 494
CaiI CAGNNNCTG 1 cut(s) 386
CciI TCATGA 1 cut(s) 842
CfoI GCGC 3 cut(s) 45, 292, 838
Cfr10I RCCGGY 2 cut(s) 156, 488
Cfr13I GGNCC 3 cut(s) 4, 446, 545
Cfr9I CCCGGG 1 cut(s) 458
CviAII CATG 7 cut(s) 245, 250, 319, 401, 800, 815, 843
DdeI CTNAG 5 cut(s) 120, 329, 362, 425, 484
DpnI GATC 4 cut(s) 151, 181, 732, 785
DpnII GATC 4 cut(s) 149, 179, 730, 783
EaeI YGGCCR 3 cut(s) 158, 258, 796
EciI GGCGGA 1 cut(s) 293
Eco130I CCWWGG 1 cut(s) 799
Eco24I GRGCYC 1 cut(s) 126
Eco31I GGTCTC 1 cut(s) 105
Eco47I GGWCC 2 cut(s) 4, 446
Eco88I CYCGRG 1 cut(s) 458
EcoRII CCWGG 3 cut(s) 175, 379, 442
EcoT14I CCWWGG 1 cut(s) 799
EcoT38I GRGCYC 1 cut(s) 126
ErhI CCWWGG 1 cut(s) 799
Esp3I CGTCTC 1 cut(s) 87
FaeI CATG 7 cut(s) 248, 253, 322, 404, 803, 818, 846
FaqI GGGAC 1 cut(s) 432
FatI CATG 7 cut(s) 244, 249, 318, 400, 799, 814, 842
FauI CCCGC 4 cut(s) 161, 326, 457, 485
FokI GGATG 2 cut(s) 113, 623
FriOI GRGCYC 1 cut(s) 126
FspBI CTAG 2 cut(s) 300, 533
GlaI GCGC 3 cut(s) 44, 291, 837
GsuI CTGGAG 2 cut(s) 159, 363
HaeIII GGCC 7 cut(s) 48, 160, 168, 260, 547, 639, 798
HapII CCGG 4 cut(s) 8, 157, 459, 489
HhaI GCGC 3 cut(s) 45, 292, 838
Hin1II CATG 7 cut(s) 248, 253, 322, 404, 803, 818, 846
Hin6I GCGC 3 cut(s) 43, 290, 836
HinP1I GCGC 3 cut(s) 43, 290, 836
HpaII CCGG 4 cut(s) 8, 157, 459, 489
HphI GGTGA 2 cut(s) 205, 568
Hpy166II GTNNAC 2 cut(s) 465, 481
Hpy188I TCNGA 2 cut(s) 426, 783
Hpy188III TCNNGA 4 cut(s) 142, 602, 741, 843
Hpy8I GTNNAC 2 cut(s) 465, 481
HpyAV CCTTC 3 cut(s) 125, 449, 744
HpyCH4III ACNGT 1 cut(s) 478
HpyCH4IV ACGT 2 cut(s) 273, 354
HpyCH4V TGCA 1 cut(s) 575
HpyF10VI GCNNNNNNNGC 8 cut(s) 37, 81, 84, 296, 339, 383, 572, 833
HpyF3I CTNAG 5 cut(s) 120, 329, 362, 425, 484
HpySE526I ACGT 2 cut(s) 273, 354
Hsp92II CATG 7 cut(s) 248, 253, 322, 404, 803, 818, 846
HspAI GCGC 3 cut(s) 43, 290, 836
KroI GCCGGC 2 cut(s) 156, 488
KroNI GCCGGC 2 cut(s) 158, 490
Kzo9I GATC 4 cut(s) 149, 179, 730, 783
LmnI GCTCC 3 cut(s) 382, 383, 672
Lsp1109I GCAGC 7 cut(s) 52, 96, 252, 551, 575, 727, 730
LweI GCATC 1 cut(s) 712
MaeI CTAG 2 cut(s) 300, 533
MaeII ACGT 2 cut(s) 273, 354
MaeIII GTNAC 3 cut(s) 211, 355, 528
MalI GATC 4 cut(s) 151, 181, 732, 785
MboI GATC 4 cut(s) 149, 179, 730, 783
MboII GAAGA 1 cut(s) 199
MflI RGATCY 2 cut(s) 149, 179
MhlI GDGCHC 1 cut(s) 126
MlsI TGGCCA 2 cut(s) 260, 798
MluCI AATT 2 cut(s) 19, 829
MluNI TGGCCA 2 cut(s) 260, 798
Mox20I TGGCCA 2 cut(s) 260, 798
MroNI GCCGGC 2 cut(s) 156, 488
MscI TGGCCA 2 cut(s) 260, 798
MslI CAYNNNNRTG 3 cut(s) 254, 272, 645
Msp20I TGGCCA 2 cut(s) 260, 798
MspA1I CMGCKG 3 cut(s) 75, 87, 264
MspI CCGG 4 cut(s) 8, 157, 459, 489
MspR9I CCNGG 6 cut(s) 8, 177, 381, 444, 459, 460
Mva1269I GAATGC 1 cut(s) 838
MvaI CCWGG 3 cut(s) 177, 381, 444
MvnI CGCG 1 cut(s) 45
MwoI GCNNNNNNNGC 8 cut(s) 37, 81, 84, 296, 339, 383, 572, 833
NaeI GCCGGC 2 cut(s) 158, 490
NciI CCSGG 3 cut(s) 8, 459, 460
NcoI CCATGG 1 cut(s) 799
NdeII GATC 4 cut(s) 149, 179, 730, 783
NgoMIV GCCGGC 2 cut(s) 156, 488
NlaIII CATG 7 cut(s) 248, 253, 322, 404, 803, 818, 846
NlaIV GGNNCC 7 cut(s) 6, 151, 181, 378, 448, 655, 682
NmuCI GTSAC 2 cut(s) 211, 528
NspI RCATGY 1 cut(s) 322
OliI CACNNNNGTG 1 cut(s) 272
PagI TCATGA 1 cut(s) 842
PaqCI CACCTGC 1 cut(s) 493
PcsI WCGNNNNNNNCGW 1 cut(s) 102
PctI GAATGC 1 cut(s) 838
PdiI GCCGGC 2 cut(s) 158, 490
PflMI CCANNNNNTGG 2 cut(s) 250, 665
PfoI TCCNGGA 2 cut(s) 175, 379
Psp6I CCWGG 3 cut(s) 175, 379, 442
PspGI CCWGG 3 cut(s) 175, 379, 442
PspN4I GGNNCC 7 cut(s) 6, 151, 181, 378, 448, 655, 682
PspPI GGNCC 3 cut(s) 4, 446, 545
PstNI CAGNNNCTG 1 cut(s) 386
PsuI RGATCY 2 cut(s) 149, 179
RseI CAYNNNNRTG 3 cut(s) 254, 272, 645
Sau3AI GATC 4 cut(s) 149, 179, 730, 783
Sau96I GGNCC 3 cut(s) 4, 446, 545
ScrFI CCNGG 6 cut(s) 8, 177, 381, 444, 459, 460
SduI GDGCHC 1 cut(s) 126
SfaNI GCATC 1 cut(s) 712
SinI GGWCC 2 cut(s) 4, 446
SmaI CCCGGG 1 cut(s) 460
SmiMI CAYNNNNRTG 3 cut(s) 254, 272, 645
SmlI CTYRAG 1 cut(s) 602
SmoI CTYRAG 1 cut(s) 602
SpeI ACTAGT 1 cut(s) 532
Sse9I AATT 2 cut(s) 19, 829
SspI AATATT 1 cut(s) 754
SspMI CTAG 2 cut(s) 300, 533
StyD4I CCNGG 6 cut(s) 6, 175, 379, 442, 457, 458
StyI CCWWGG 1 cut(s) 799
TaaI ACNGT 1 cut(s) 478
TaiI ACGT 2 cut(s) 276, 357
TaqI TCGA 1 cut(s) 141
TaqII GACCGA 1 cut(s) 334
TasI AATT 2 cut(s) 19, 829
TauI GCSGC 8 cut(s) 48, 78, 90, 171, 267, 307, 310, 377
TscAI CASTG 4 cut(s) 274, 523, 555, 682
TseFI GTSAC 2 cut(s) 211, 528
TseI GCWGC 7 cut(s) 40, 84, 240, 539, 563, 715, 718
Tsp45I GTSAC 2 cut(s) 211, 528
TspDTI ATGAA 4 cut(s) 12, 389, 726, 831
TspMI CCCGGG 1 cut(s) 458
TspRI CASTG 4 cut(s) 274, 523, 555, 682
Van91I CCANNNNNTGG 2 cut(s) 250, 665
VpaK11BI GGWCC 2 cut(s) 4, 446
XceI RCATGY 1 cut(s) 322
XcmI CCANNNNNNNNNTGG 2 cut(s) 692, 806
XmaI CCCGGG 1 cut(s) 458
XspI CTAG 2 cut(s) 300, 533
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.