MD09G1151100.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
Chr09
OG0014578
Physical Location & Seq
Forward (+)
11932173 .. 11933396
1224 bp
Loading structure...
UTR
Exon/CDS
Intron
MD09G1151100.v1.1.491

Sequence Viewer

Length: 792 bp
ATGGCAGGAGGTGCAGATCTGGCGGCTCCTTCCGTTGTGTCGAAAACTGTAATTGATCGGAGACAAGATGCCGATAAAAGCAACAGTCACCACAGGCCTGGGATTGATGCAATGCCTATGGCACCCAAGTTGCCTAAGGAAGTGACACCGGTTCCTGCGGGGGAGACTCTTCGCCGGCCGCGTGGGAGGCCAGCAGGTTCGAAGAACAAGCCGAAGCCGCCCATCATAGTCACCCGCGACAGCGCTAATGCGCTTCGTGCTCATGCAATGGAGGTAAGTTCTGGCTGTGATGTGAGTGAGAGTTTAACCAACTTTGCAAGGAGGAAGCAGAGGGGCATTTGCATATTGAGTGGAAGTGGCTGTGTGACCAATGTCACACTGCGACAACCAGCTTCATCTGGCGCTATCGTGACCCTCCATGGCCGGTTTGAAATCCTCTCATTGCTCGGGTCAATCCTACCCCCGCCAGCCCCTCCAGGGATCACAGGTCTAACCATATATCTTGCAGGGGCTCAGGGGCAGGTTATGGGAGGGGGTGTGGTCGGTGCGCTCATTGCTTCGGGCCCTGTGGTGATCATGGCTGCTTCGTTCATGAACGCCACTTTTGATCGCCTGCCACAGGATGAAGAGGAAGTTGCTGCGGCTTTGCAAAATCAGCACCACCAAAACGGCCGCCACCACCACGTGGACATCTCGGATTTATATGGACTTCCTCAGAACCTGATCACTAATGGTAATGTCCCTCCTGAGGTGTACTCCTGGGGATCCGGCCGAACTATGTCAAAAACTTGA
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

264

Amino Acids

27.62

Weight (kDa)

9.47

Isoelectric Point (pI)

46.71

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 86 - 198 3.8e-24 Plants and Prokaryotes Conserved (PCC) domain
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

Orthologous Genes (Group: OG0014578)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G42940
fragaria_vesca FvH4_6g38311
malus_domestica MD09G1151100.v1.1 MD17G1138700.v1.1
prunus_persica Prupe.3G173700_v2.0.a1
pyrus_communis pycom09g07090 pycom17g13180
rosa_chinensis RchiOBHm_Chr2g0151621
rosa_laevigata RLG00000020564
rosa_multiflora Rmu_sc0005287.1_g000005
rosa_roxburghii Rroxscaffold_2G00096310
rosa_rugosa Rorug02G0427300
rosa_samantha Rh2AG488200 Rh2BG500800 Rh2CG474700 Rh2DG511900
rosa_wichuraiana Rw2G040020

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 2 cut(s) 185, 511
AccB1I GGYRCC 1 cut(s) 121
AccB7I CCANNNNNTGG 1 cut(s) 685
AccII CGCG 2 cut(s) 181, 237
AciI CCGC 8 cut(s) 23, 158, 179, 218, 235, 464, 641, 673
AclWI GGATC 3 cut(s) 488, 759, 772
AcoI YGGCCR 4 cut(s) 176, 421, 670, 769
AcvI CACGTG 1 cut(s) 685
AdeI CACNNNGTG 1 cut(s) 685
AfaI GTAC 1 cut(s) 755
AfeI AGCGCT 1 cut(s) 244
AfiI CCNNNNNNNGG 4 cut(s) 477, 619, 685, 748
AgeI ACCGGT 1 cut(s) 148
AgsI TTSAA 1 cut(s) 431
AjnI CCWGG 3 cut(s) 97, 475, 758
AluBI AGCT 1 cut(s) 392
AluI AGCT 1 cut(s) 392
Alw21I GWGCWC 1 cut(s) 262
Alw26I GTCTC 2 cut(s) 55, 158
AlwI GGATC 3 cut(s) 488, 759, 772
AlwNI CAGNNNCTG 1 cut(s) 721
Ama87I CYCGRG 1 cut(s) 446
Aor51HI AGCGCT 1 cut(s) 244
AoxI GGCC 7 cut(s) 95, 176, 188, 421, 562, 670, 769
ApaI GGGCCC 1 cut(s) 566
ApeKI GCWGC 2 cut(s) 581, 638
AsiGI ACCGGT 1 cut(s) 148
AspLEI GCGC 4 cut(s) 245, 253, 404, 550
AspS9I GGNCC 2 cut(s) 562, 563
AsuHPI GGTGA 3 cut(s) 80, 223, 583
AsuII TTCGAA 1 cut(s) 200
AvaI CYCGRG 1 cut(s) 446
AxyI CCTNAGG 2 cut(s) 135, 747
BaeGI GKGCMC 1 cut(s) 566
BamHI GGATCC 1 cut(s) 764
BanI GGYRCC 1 cut(s) 121
BanII GRGCYC 2 cut(s) 514, 566
BbrPI CACGTG 1 cut(s) 685
Bbv12I GWGCWC 1 cut(s) 262
BbvI GCAGC 2 cut(s) 568, 625
BccI CCATC 1 cut(s) 230
BceAI ACGGC 1 cut(s) 685
BciT130I CCWGG 3 cut(s) 99, 477, 760
BclI TGATCA 2 cut(s) 573, 723
BcoDI GTCTC 2 cut(s) 55, 158
BfoI RGCGCY 2 cut(s) 246, 405
BfuAI ACCTGC 2 cut(s) 185, 511
BglII AGATCT 1 cut(s) 16
BisI GCNGC 7 cut(s) 24, 179, 218, 582, 639, 642, 673
BlsI GCNGC 7 cut(s) 25, 180, 219, 583, 640, 643, 674
Bme1390I CCNGG 3 cut(s) 99, 477, 760
BmeT110I CYCGRG 1 cut(s) 446
BmgT120I GGNCC 2 cut(s) 562, 563
BmiI GGNNCC 5 cut(s) 27, 123, 153, 564, 766
BmrFI CCNGG 3 cut(s) 99, 477, 760
BmsI GCATC 2 cut(s) 58, 97
BoxI GACNNNNGTC 1 cut(s) 371
BplI GAGNNNNNCTC 2 cut(s) 740, 772
BpmI CTGGAG 1 cut(s) 459
Bpu10I CCTNAGC 1 cut(s) 513
Bpu14I TTCGAA 1 cut(s) 200
BsaAI YACGTR 1 cut(s) 685
BsaJI CCNNGG 4 cut(s) 98, 418, 476, 759
BsaWI WCCGGW 1 cut(s) 148
BsaXI ACNNNNNCTCC 2 cut(s) 522, 552
Bsc4I CCNNNNNNNGG 4 cut(s) 477, 619, 685, 748
Bse118I RCCGGY 3 cut(s) 148, 174, 423
Bse21I CCTNAGG 2 cut(s) 135, 747
Bse3DI GCAATG 4 cut(s) 117, 273, 440, 552
BseBI CCWGG 3 cut(s) 99, 477, 760
BseDI CCNNGG 4 cut(s) 98, 418, 476, 759
BseGI GGATG 1 cut(s) 628
BseLI CCNNNNNNNGG 4 cut(s) 477, 619, 685, 748
BseMI GCAATG 4 cut(s) 117, 273, 440, 552
BseMII CTCAG 3 cut(s) 527, 728, 738
BseSI GKGCMC 1 cut(s) 566
BseX3I CGGCCG 3 cut(s) 176, 670, 769
BseXI GCAGC 2 cut(s) 568, 625
BsgI GTGCAG 1 cut(s) 33
Bsh1236I CGCG 2 cut(s) 181, 237
Bsh1285I CGRYCG 3 cut(s) 179, 673, 772
BshFI GGCC 7 cut(s) 97, 178, 190, 423, 564, 672, 771
BshNI GGYRCC 1 cut(s) 121
BshTI ACCGGT 1 cut(s) 148
BsiEI CGRYCG 3 cut(s) 179, 673, 772
BsiHKAI GWGCWC 1 cut(s) 262
BsiHKCI CYCGRG 1 cut(s) 446
BsiSI CCGG 4 cut(s) 149, 175, 424, 768
BslFI GGGAC 1 cut(s) 725
BslI CCNNNNNNNGG 4 cut(s) 477, 619, 685, 748
BsmAI GTCTC 2 cut(s) 55, 158
BsmFI GGGAC 1 cut(s) 725
BsnI GGCC 7 cut(s) 97, 178, 190, 423, 564, 672, 771
BsoBI CYCGRG 1 cut(s) 446
Bsp119I TTCGAA 1 cut(s) 200
Bsp120I GGGCCC 1 cut(s) 562
Bsp1286I GDGCHC 3 cut(s) 262, 514, 566
Bsp143I GATC 7 cut(s) 16, 55, 480, 573, 607, 723, 764
Bsp19I CCATGG 1 cut(s) 418
BspACI CCGC 8 cut(s) 23, 158, 179, 218, 235, 464, 641, 673
BspANI GGCC 7 cut(s) 97, 178, 190, 423, 564, 672, 771
BspCNI CTCAG 3 cut(s) 526, 727, 739
BspFNI CGCG 2 cut(s) 181, 237
BspHI TCATGA 1 cut(s) 591
BspLI GGNNCC 5 cut(s) 27, 123, 153, 564, 766
BspMI ACCTGC 2 cut(s) 185, 511
BspPI GGATC 3 cut(s) 488, 759, 772
BspT104I TTCGAA 1 cut(s) 200
BspT107I GGYRCC 1 cut(s) 121
BsrDI GCAATG 4 cut(s) 117, 273, 440, 552
BsrFI RCCGGY 3 cut(s) 148, 174, 423
BssAI RCCGGY 3 cut(s) 148, 174, 423
BssECI CCNNGG 4 cut(s) 98, 418, 476, 759
BssMI GATC 7 cut(s) 16, 55, 480, 573, 607, 723, 764
BssT1I CCWWGG 1 cut(s) 418
Bst2UI CCWGG 3 cut(s) 99, 477, 760
Bst4CI ACNGT 2 cut(s) 49, 86
Bst6I CTCTTC 2 cut(s) 174, 621
BstAPI GCANNNNNTGC 1 cut(s) 11
BstBAI YACGTR 1 cut(s) 685
BstBI TTCGAA 1 cut(s) 200
BstC8I GCNNGC 4 cut(s) 176, 192, 468, 614
BstDEI CTNAG 4 cut(s) 135, 513, 714, 747
BstDSI CCRYGG 1 cut(s) 418
BstENI CCTNNNNNAGG 1 cut(s) 617
BstF5I GGATG 1 cut(s) 628
BstFNI CGCG 2 cut(s) 181, 237
BstH2I RGCGCY 2 cut(s) 246, 405
BstHHI GCGC 4 cut(s) 245, 253, 404, 550
BstKTI GATC 7 cut(s) 19, 58, 483, 576, 610, 726, 767
BstMAI GTCTC 2 cut(s) 55, 158
BstMBI GATC 7 cut(s) 16, 55, 480, 573, 607, 723, 764
BstMCI CGRYCG 3 cut(s) 179, 673, 772
BstMWI GCNNNNNNNGC 7 cut(s) 11, 20, 187, 217, 257, 554, 655
BstNI CCWGG 3 cut(s) 99, 477, 760
BstPAI GACNNNNGTC 1 cut(s) 371
BstSCI CCNGG 3 cut(s) 97, 475, 758
BstSLI GKGCMC 1 cut(s) 566
BstUI CGCG 2 cut(s) 181, 237
BstV1I GCAGC 2 cut(s) 568, 625
BstX2I RGATCY 2 cut(s) 16, 764
BstXI CCANNNNNNTGG 1 cut(s) 98
BstYI RGATCY 2 cut(s) 16, 764
BstZI CGGCCG 3 cut(s) 176, 670, 769
Bsu36I CCTNAGG 2 cut(s) 135, 747
BsuRI GGCC 7 cut(s) 97, 178, 190, 423, 564, 672, 771
BtgI CCRYGG 1 cut(s) 418
BtsCI GGATG 1 cut(s) 628
BtsI GCAGTG 1 cut(s) 377
BtsIMutI CAGTG 1 cut(s) 377
BveI ACCTGC 2 cut(s) 185, 511
Cac8I GCNNGC 4 cut(s) 176, 192, 468, 614
CaiI CAGNNNCTG 1 cut(s) 721
CciI TCATGA 1 cut(s) 591
CfoI GCGC 4 cut(s) 245, 253, 404, 550
Cfr10I RCCGGY 3 cut(s) 148, 174, 423
Cfr13I GGNCC 2 cut(s) 562, 563
Csp6I GTAC 1 cut(s) 754
CspAI ACCGGT 1 cut(s) 148
CviAII CATG 4 cut(s) 263, 419, 577, 592
CviQI GTAC 1 cut(s) 754
DdeI CTNAG 4 cut(s) 135, 513, 714, 747
DpnI GATC 7 cut(s) 18, 57, 482, 575, 609, 725, 766
DpnII GATC 7 cut(s) 16, 55, 480, 573, 607, 723, 764
DraIII CACNNNGTG 1 cut(s) 685
EaeI YGGCCR 4 cut(s) 176, 421, 670, 769
EagI CGGCCG 3 cut(s) 176, 670, 769
Eam1104I CTCTTC 2 cut(s) 174, 621
EarI CTCTTC 2 cut(s) 174, 621
EclXI CGGCCG 3 cut(s) 176, 670, 769
Eco130I CCWWGG 1 cut(s) 418
Eco147I AGGCCT 1 cut(s) 97
Eco24I GRGCYC 2 cut(s) 514, 566
Eco47III AGCGCT 1 cut(s) 244
Eco52I CGGCCG 3 cut(s) 176, 670, 769
Eco72I CACGTG 1 cut(s) 685
Eco81I CCTNAGG 2 cut(s) 135, 747
Eco88I CYCGRG 1 cut(s) 446
EcoNI CCTNNNNNAGG 1 cut(s) 617
EcoO109I RGGNCCY 1 cut(s) 563
EcoRII CCWGG 3 cut(s) 97, 475, 758
EcoT14I CCWWGG 1 cut(s) 418
EcoT38I GRGCYC 2 cut(s) 514, 566
ErhI CCWWGG 1 cut(s) 418
FaeI CATG 4 cut(s) 266, 422, 580, 595
FaqI GGGAC 1 cut(s) 725
FatI CATG 4 cut(s) 262, 418, 576, 591
FauI CCCGC 3 cut(s) 151, 242, 471
FbaI TGATCA 2 cut(s) 573, 723
Fnu4HI GCNGC 7 cut(s) 24, 179, 218, 582, 639, 642, 673
FokI GGATG 1 cut(s) 635
FriOI GRGCYC 2 cut(s) 514, 566
Fsp4HI GCNGC 7 cut(s) 24, 179, 218, 582, 639, 642, 673
GlaI GCGC 4 cut(s) 244, 252, 403, 549
GluI GCNGC 7 cut(s) 24, 179, 218, 582, 639, 642, 673
GsuI CTGGAG 1 cut(s) 459
HaeII RGCGCY 2 cut(s) 246, 405
HaeIII GGCC 7 cut(s) 97, 178, 190, 423, 564, 672, 771
HapII CCGG 4 cut(s) 149, 175, 424, 768
HhaI GCGC 4 cut(s) 245, 253, 404, 550
Hin1II CATG 4 cut(s) 266, 422, 580, 595
Hin6I GCGC 4 cut(s) 243, 251, 402, 548
HinP1I GCGC 4 cut(s) 243, 251, 402, 548
HinfI GANTC 1 cut(s) 166
HpaII CCGG 4 cut(s) 149, 175, 424, 768
HphI GGTGA 3 cut(s) 80, 223, 583
Hpy166II GTNNAC 2 cut(s) 688, 754
Hpy188I TCNGA 3 cut(s) 60, 697, 717
Hpy188III TCNNGA 3 cut(s) 409, 592, 746
Hpy8I GTNNAC 2 cut(s) 688, 754
HpyAV CCTTC 1 cut(s) 39
HpyCH4III ACNGT 2 cut(s) 49, 86
HpyCH4IV ACGT 1 cut(s) 684
HpyCH4V TGCA 7 cut(s) 14, 110, 266, 317, 342, 506, 649
HpyF10VI GCNNNNNNNGC 7 cut(s) 11, 20, 187, 217, 257, 554, 655
HpyF3I CTNAG 4 cut(s) 135, 513, 714, 747
HpySE526I ACGT 1 cut(s) 684
Hsp92II CATG 4 cut(s) 266, 422, 580, 595
HspAI GCGC 4 cut(s) 243, 251, 402, 548
KroI GCCGGC 1 cut(s) 174
KroNI GCCGGC 1 cut(s) 176
Ksp22I TGATCA 2 cut(s) 573, 723
Kzo9I GATC 7 cut(s) 16, 55, 480, 573, 607, 723, 764
LmnI GCTCC 1 cut(s) 31
Lsp1109I GCAGC 2 cut(s) 568, 625
LweI GCATC 2 cut(s) 58, 97
MaeII ACGT 1 cut(s) 684
MaeIII GTNAC 6 cut(s) 86, 142, 229, 364, 373, 409
MalI GATC 7 cut(s) 18, 57, 482, 575, 609, 725, 766
MboI GATC 7 cut(s) 16, 55, 480, 573, 607, 723, 764
MboII GAAGA 3 cut(s) 161, 214, 638
MflI RGATCY 2 cut(s) 16, 764
MhlI GDGCHC 3 cut(s) 262, 514, 566
MluCI AATT 1 cut(s) 51
MlyI GAGTC 1 cut(s) 160
MroNI GCCGGC 1 cut(s) 174
MseI TTAA 1 cut(s) 305
MspI CCGG 4 cut(s) 149, 175, 424, 768
MspR9I CCNGG 3 cut(s) 99, 477, 760
MvaI CCWGG 3 cut(s) 99, 477, 760
MvnI CGCG 2 cut(s) 181, 237
MwoI GCNNNNNNNGC 7 cut(s) 11, 20, 187, 217, 257, 554, 655
NaeI GCCGGC 1 cut(s) 176
NcoI CCATGG 1 cut(s) 418
NdeII GATC 7 cut(s) 16, 55, 480, 573, 607, 723, 764
NgoMIV GCCGGC 1 cut(s) 174
NlaIII CATG 4 cut(s) 266, 422, 580, 595
NlaIV GGNNCC 5 cut(s) 27, 123, 153, 564, 766
NmuCI GTSAC 6 cut(s) 86, 142, 229, 364, 373, 409
NspV TTCGAA 1 cut(s) 200
PagI TCATGA 1 cut(s) 591
PceI AGGCCT 1 cut(s) 97
PcsI WCGNNNNNNNCGW 1 cut(s) 178
PdiI GCCGGC 1 cut(s) 176
PflMI CCANNNNNTGG 1 cut(s) 685
PinAI ACCGGT 1 cut(s) 148
PkrI GCNGC 7 cut(s) 25, 180, 219, 583, 640, 643, 674
PleI GAGTC 1 cut(s) 160
PmaCI CACGTG 1 cut(s) 685
PmlI CACGTG 1 cut(s) 685
PpsI GAGTC 1 cut(s) 160
Ppu21I YACGTR 1 cut(s) 685
PshAI GACNNNNGTC 1 cut(s) 371
Psp6I CCWGG 3 cut(s) 97, 475, 758
PspCI CACGTG 1 cut(s) 685
PspGI CCWGG 3 cut(s) 97, 475, 758
PspN4I GGNNCC 5 cut(s) 27, 123, 153, 564, 766
PspOMI GGGCCC 1 cut(s) 562
PspPI GGNCC 2 cut(s) 562, 563
PstNI CAGNNNCTG 1 cut(s) 721
PsuI RGATCY 2 cut(s) 16, 764
RsaI GTAC 1 cut(s) 755
RsaNI GTAC 1 cut(s) 754
SaqAI TTAA 1 cut(s) 305
SatI GCNGC 7 cut(s) 24, 179, 218, 582, 639, 642, 673
Sau3AI GATC 7 cut(s) 16, 55, 480, 573, 607, 723, 764
Sau96I GGNCC 2 cut(s) 562, 563
SchI GAGTC 1 cut(s) 160
ScrFI CCNGG 3 cut(s) 99, 477, 760
SduI GDGCHC 3 cut(s) 262, 514, 566
SetI ASST 9 cut(s) 13, 199, 276, 394, 490, 525, 687, 723, 753
SfaNI GCATC 2 cut(s) 58, 97
SfuI TTCGAA 1 cut(s) 200
Sse9I AATT 1 cut(s) 51
SseBI AGGCCT 1 cut(s) 97
SsiI CCGC 8 cut(s) 23, 158, 179, 218, 235, 464, 641, 673
StuI AGGCCT 1 cut(s) 97
StyD4I CCNGG 3 cut(s) 97, 475, 758
StyI CCWWGG 1 cut(s) 418
TaaI ACNGT 2 cut(s) 49, 86
TaiI ACGT 1 cut(s) 687
TaqI TCGA 2 cut(s) 41, 200
TasI AATT 1 cut(s) 51
TatI WGTACW 1 cut(s) 753
TauI GCSGC 5 cut(s) 26, 181, 220, 644, 675
Tru1I TTAA 1 cut(s) 305
Tru9I TTAA 1 cut(s) 305
TscAI CASTG 1 cut(s) 384
TseFI GTSAC 6 cut(s) 86, 142, 229, 364, 373, 409
TseI GCWGC 2 cut(s) 581, 638
Tsp45I GTSAC 6 cut(s) 86, 142, 229, 364, 373, 409
TspDTI ATGAA 4 cut(s) 384, 580, 608, 639
TspGWI ACGGA 1 cut(s) 22
TspRI CASTG 1 cut(s) 384
Van91I CCANNNNNTGG 1 cut(s) 685
XagI CCTNNNNNAGG 1 cut(s) 617
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.