MD17G1138700.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
Chr17
OG0014578
Physical Location & Seq
Forward (+)
12449533 .. 12450887
1355 bp
Loading structure...
UTR
Exon/CDS
Intron
MD17G1138700.v1.1.491

Sequence Viewer

Length: 738 bp
ATGGCGGGCGGTTCAGATCTGGCGGTTCCTTCCGTTGTGTCCAAAACTGTAATTGATCGGAGCCAAGACGCCGATAAAAGCAACAGTCACCACAAGCCTGGGAACGATGCAATGCTTACAGCACCCAAGTTGCCTAAGGCAGTGACACTGGTTTCCGCGGGTGAGACTCTTCGCCGGCCACGTGGGAGGCCAGCGGGTTCGAAGAACAAGCCAAAGCCGCCCATCATAGTCACTCGTGACAGCGCTAATGCGCTTCGAGCTCATGCTATGGAGGTAAGTTCTGGCTGTGATGTGAGTGAGACTTTAACCCACTTTGCAAGGAGGAAGCAGAGGGGTATTTGCATACTGAGTGGAAGTGGCTGTGTGACCAATGTCACGCTGCGACAACCAGCTTCCTCCGGCGCTATTGTGACGCTCCATGGCCGGTTTGAAATACTCTCATTGCTCGGGTCAATCCTGCCCCCTCCAGCCCCTCCTGGCATCACAGGCCTGACCATCTATCTTGCAGGGCCTCAGGGGCAGGTTGTGGGTGGGGGTGTGGTTGGTGCACTCATTGCTTCAGGGCCTGTCGTGATCATGGCTGCCTCCTTCATGAACGCCACTTTTGATCGCCTGCCACTGGATGAAGATGAAGTTGCTGTGGCTTTGCAAAATCAGCAGTACCAAAACGGCCGCCACCACCACCTGGACATCTCGGATTTATATGGACTTCCTCAGAACCTGATCACTAATTGGTAA
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

246

Amino Acids

25.71

Weight (kDa)

9.3

Isoelectric Point (pI)

40.72

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 86 - 198 1.9e-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
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Publication-ready
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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 1 cut(s) 511
AccB7I CCANNNNNTGG 1 cut(s) 685
AccII CGCG 1 cut(s) 158
AciI CCGC 8 cut(s) 5, 9, 23, 156, 158, 194, 218, 673
AcoI YGGCCR 3 cut(s) 176, 421, 670
AcuI CTGAAG 1 cut(s) 543
AcvI CACGTG 1 cut(s) 182
AcyI GRCGYC 1 cut(s) 69
AfaI GTAC 1 cut(s) 662
AfeI AGCGCT 1 cut(s) 244
AfiI CCNNNNNNNGG 2 cut(s) 619, 685
AgsI TTSAA 1 cut(s) 431
AjnI CCWGG 3 cut(s) 97, 475, 684
AluBI AGCT 2 cut(s) 260, 392
AluI AGCT 2 cut(s) 260, 392
Alw21I GWGCWC 2 cut(s) 262, 550
Alw26I GTCTC 2 cut(s) 158, 293
Alw44I GTGCAC 1 cut(s) 546
AlwNI CAGNNNCTG 2 cut(s) 566, 721
Ama87I CYCGRG 1 cut(s) 446
Aor51HI AGCGCT 1 cut(s) 244
AoxI GGCC 7 cut(s) 176, 188, 421, 487, 509, 563, 670
ApaLI GTGCAC 1 cut(s) 546
ApeKI GCWGC 2 cut(s) 379, 581
AspLEI GCGC 3 cut(s) 245, 253, 404
AspS9I GGNCC 2 cut(s) 509, 563
AsuHPI GGTGA 2 cut(s) 80, 173
AsuII TTCGAA 1 cut(s) 200
AvaI CYCGRG 1 cut(s) 446
AxyI CCTNAGG 2 cut(s) 135, 513
BaeGI GKGCMC 1 cut(s) 550
BanII GRGCYC 1 cut(s) 262
BauI CACGAG 1 cut(s) 234
BbrPI CACGTG 1 cut(s) 182
Bbv12I GWGCWC 2 cut(s) 262, 550
BbvI GCAGC 2 cut(s) 366, 568
BccI CCATC 2 cut(s) 230, 503
BceAI ACGGC 1 cut(s) 685
BciT130I CCWGG 3 cut(s) 99, 477, 686
BclI TGATCA 2 cut(s) 573, 723
BcoDI GTCTC 2 cut(s) 158, 293
BfoI RGCGCY 2 cut(s) 246, 405
BfuAI ACCTGC 1 cut(s) 511
BglI GCCNNNNNGGC 1 cut(s) 517
BglII AGATCT 1 cut(s) 16
BisI GCNGC 4 cut(s) 218, 380, 582, 673
BlsI GCNGC 4 cut(s) 219, 381, 583, 674
Bme1390I CCNGG 3 cut(s) 99, 477, 686
BmeT110I CYCGRG 1 cut(s) 446
BmgT120I GGNCC 2 cut(s) 509, 563
BmiI GGNNCC 2 cut(s) 27, 62
BmrFI CCNGG 3 cut(s) 99, 477, 686
BmsI GCATC 2 cut(s) 97, 489
BoxI GACNNNNGTC 1 cut(s) 371
BpmI CTGGAG 1 cut(s) 450
Bpu14I TTCGAA 1 cut(s) 200
BsaAI YACGTR 1 cut(s) 182
BsaHI GRCGYC 1 cut(s) 69
BsaJI CCNNGG 3 cut(s) 98, 156, 418
Bsc4I CCNNNNNNNGG 2 cut(s) 619, 685
Bse118I RCCGGY 2 cut(s) 174, 423
Bse1I ACTGG 2 cut(s) 153, 624
Bse21I CCTNAGG 2 cut(s) 135, 513
Bse3DI GCAATG 3 cut(s) 117, 440, 552
BseBI CCWGG 3 cut(s) 99, 477, 686
BseDI CCNNGG 3 cut(s) 98, 156, 418
BseGI GGATG 1 cut(s) 628
BseLI CCNNNNNNNGG 2 cut(s) 619, 685
BseMI GCAATG 3 cut(s) 117, 440, 552
BseMII CTCAG 3 cut(s) 338, 527, 728
BseNI ACTGG 2 cut(s) 153, 624
BseSI GKGCMC 1 cut(s) 550
BseX3I CGGCCG 1 cut(s) 670
BseXI GCAGC 2 cut(s) 366, 568
Bsh1236I CGCG 1 cut(s) 158
Bsh1285I CGRYCG 1 cut(s) 673
BshFI GGCC 7 cut(s) 178, 190, 423, 489, 511, 565, 672
BsiEI CGRYCG 1 cut(s) 673
BsiHKAI GWGCWC 2 cut(s) 262, 550
BsiHKCI CYCGRG 1 cut(s) 446
BsiSI CCGG 3 cut(s) 175, 399, 424
BslI CCNNNNNNNGG 2 cut(s) 619, 685
BsmAI GTCTC 2 cut(s) 158, 293
BsnI GGCC 7 cut(s) 178, 190, 423, 489, 511, 565, 672
BsoBI CYCGRG 1 cut(s) 446
Bsp119I TTCGAA 1 cut(s) 200
Bsp1286I GDGCHC 2 cut(s) 262, 550
Bsp143I GATC 5 cut(s) 16, 55, 573, 607, 723
Bsp19I CCATGG 1 cut(s) 418
BspACI CCGC 8 cut(s) 5, 9, 23, 156, 158, 194, 218, 673
BspANI GGCC 7 cut(s) 178, 190, 423, 489, 511, 565, 672
BspCNI CTCAG 3 cut(s) 339, 526, 727
BspFNI CGCG 1 cut(s) 158
BspHI TCATGA 1 cut(s) 591
BspLI GGNNCC 2 cut(s) 27, 62
BspMI ACCTGC 1 cut(s) 511
BspT104I TTCGAA 1 cut(s) 200
BsrDI GCAATG 3 cut(s) 117, 440, 552
BsrFI RCCGGY 2 cut(s) 174, 423
BsrI ACTGG 2 cut(s) 153, 624
BssAI RCCGGY 2 cut(s) 174, 423
BssECI CCNNGG 3 cut(s) 98, 156, 418
BssMI GATC 5 cut(s) 16, 55, 573, 607, 723
BssNI GRCGYC 1 cut(s) 69
BssSI CACGAG 1 cut(s) 234
BssT1I CCWWGG 1 cut(s) 418
Bst2BI CACGAG 1 cut(s) 234
Bst2UI CCWGG 3 cut(s) 99, 477, 686
Bst4CI ACNGT 2 cut(s) 49, 86
Bst6I CTCTTC 1 cut(s) 174
BstACI GRCGYC 1 cut(s) 69
BstAPI GCANNNNNTGC 1 cut(s) 554
BstBAI YACGTR 1 cut(s) 182
BstBI TTCGAA 1 cut(s) 200
BstC8I GCNNGC 4 cut(s) 7, 176, 192, 614
BstDEI CTNAG 4 cut(s) 135, 347, 513, 714
BstDSI CCRYGG 2 cut(s) 156, 418
BstF5I GGATG 1 cut(s) 628
BstFNI CGCG 1 cut(s) 158
BstH2I RGCGCY 2 cut(s) 246, 405
BstHHI GCGC 3 cut(s) 245, 253, 404
BstKTI GATC 5 cut(s) 19, 58, 576, 610, 726
BstMAI GTCTC 2 cut(s) 158, 293
BstMBI GATC 5 cut(s) 16, 55, 573, 607, 723
BstMCI CGRYCG 1 cut(s) 673
BstMWI GCNNNNNNNGC 6 cut(s) 217, 257, 486, 517, 554, 655
BstNI CCWGG 3 cut(s) 99, 477, 686
BstPAI GACNNNNGTC 1 cut(s) 371
BstSCI CCNGG 3 cut(s) 97, 475, 684
BstSLI GKGCMC 1 cut(s) 550
BstUI CGCG 1 cut(s) 158
BstV1I GCAGC 2 cut(s) 366, 568
BstX2I RGATCY 1 cut(s) 16
BstXI CCANNNNNNTGG 1 cut(s) 98
BstYI RGATCY 1 cut(s) 16
BstZI CGGCCG 1 cut(s) 670
Bsu36I CCTNAGG 2 cut(s) 135, 513
BsuRI GGCC 7 cut(s) 178, 190, 423, 489, 511, 565, 672
BtgI CCRYGG 2 cut(s) 156, 418
BtsCI GGATG 1 cut(s) 628
BtsI GCAGTG 1 cut(s) 147
BtsIMutI CAGTG 3 cut(s) 146, 147, 617
BveI ACCTGC 1 cut(s) 511
Cac8I GCNNGC 4 cut(s) 7, 176, 192, 614
CaiI CAGNNNCTG 2 cut(s) 566, 721
CciI TCATGA 1 cut(s) 591
CfoI GCGC 3 cut(s) 245, 253, 404
Cfr10I RCCGGY 2 cut(s) 174, 423
Cfr13I GGNCC 2 cut(s) 509, 563
Cfr42I CCGCGG 1 cut(s) 159
CseI GACGC 2 cut(s) 77, 421
Csp6I GTAC 1 cut(s) 661
CviAII CATG 4 cut(s) 263, 419, 577, 592
CviQI GTAC 1 cut(s) 661
DdeI CTNAG 4 cut(s) 135, 347, 513, 714
DpnI GATC 5 cut(s) 18, 57, 575, 609, 725
DpnII GATC 5 cut(s) 16, 55, 573, 607, 723
EaeI YGGCCR 3 cut(s) 176, 421, 670
EagI CGGCCG 1 cut(s) 670
Eam1104I CTCTTC 1 cut(s) 174
EarI CTCTTC 1 cut(s) 174
Ecl136II GAGCTC 1 cut(s) 260
EclXI CGGCCG 1 cut(s) 670
Eco130I CCWWGG 1 cut(s) 418
Eco147I AGGCCT 1 cut(s) 489
Eco24I GRGCYC 1 cut(s) 262
Eco47III AGCGCT 1 cut(s) 244
Eco52I CGGCCG 1 cut(s) 670
Eco53kI GAGCTC 1 cut(s) 260
Eco57I CTGAAG 1 cut(s) 543
Eco72I CACGTG 1 cut(s) 182
Eco81I CCTNAGG 2 cut(s) 135, 513
Eco88I CYCGRG 1 cut(s) 446
EcoICRI GAGCTC 1 cut(s) 260
EcoO109I RGGNCCY 2 cut(s) 509, 563
EcoRII CCWGG 3 cut(s) 97, 475, 684
EcoT14I CCWWGG 1 cut(s) 418
EcoT38I GRGCYC 1 cut(s) 262
ErhI CCWWGG 1 cut(s) 418
FaeI CATG 4 cut(s) 266, 422, 580, 595
FaiI YATR 9 cut(s) 227, 264, 269, 344, 420, 578, 593, 703, 705
FatI CATG 4 cut(s) 262, 418, 576, 591
FauI CCCGC 2 cut(s) 151, 187
FbaI TGATCA 2 cut(s) 573, 723
Fnu4HI GCNGC 4 cut(s) 218, 380, 582, 673
FokI GGATG 1 cut(s) 635
FriOI GRGCYC 1 cut(s) 262
Fsp4HI GCNGC 4 cut(s) 218, 380, 582, 673
GlaI GCGC 3 cut(s) 244, 252, 403
GluI GCNGC 4 cut(s) 218, 380, 582, 673
GsuI CTGGAG 1 cut(s) 450
HaeII RGCGCY 2 cut(s) 246, 405
HaeIII GGCC 7 cut(s) 178, 190, 423, 489, 511, 565, 672
HapII CCGG 3 cut(s) 175, 399, 424
HgaI GACGC 2 cut(s) 77, 421
HhaI GCGC 3 cut(s) 245, 253, 404
Hin1I GRCGYC 1 cut(s) 69
Hin1II CATG 4 cut(s) 266, 422, 580, 595
Hin6I GCGC 3 cut(s) 243, 251, 402
HinP1I GCGC 3 cut(s) 243, 251, 402
HinfI GANTC 1 cut(s) 166
HpaII CCGG 3 cut(s) 175, 399, 424
HphI GGTGA 2 cut(s) 80, 173
Hpy166II GTNNAC 1 cut(s) 548
Hpy188I TCNGA 4 cut(s) 16, 60, 697, 717
Hpy188III TCNNGA 3 cut(s) 236, 571, 592
Hpy8I GTNNAC 1 cut(s) 548
HpyAV CCTTC 2 cut(s) 39, 598
HpyCH4III ACNGT 2 cut(s) 49, 86
HpyCH4IV ACGT 1 cut(s) 181
HpyCH4V TGCA 6 cut(s) 110, 317, 342, 506, 548, 649
HpyF10VI GCNNNNNNNGC 6 cut(s) 217, 257, 486, 517, 554, 655
HpyF3I CTNAG 4 cut(s) 135, 347, 513, 714
HpySE526I ACGT 1 cut(s) 181
Hsp92I GRCGYC 1 cut(s) 69
Hsp92II CATG 4 cut(s) 266, 422, 580, 595
HspAI GCGC 3 cut(s) 243, 251, 402
KroI GCCGGC 1 cut(s) 174
KroNI GCCGGC 1 cut(s) 176
Ksp22I TGATCA 2 cut(s) 573, 723
KspI CCGCGG 1 cut(s) 159
Kzo9I GATC 5 cut(s) 16, 55, 573, 607, 723
LmnI GCTCC 2 cut(s) 60, 420
Lsp1109I GCAGC 2 cut(s) 366, 568
LweI GCATC 2 cut(s) 97, 489
MaeII ACGT 1 cut(s) 181
MaeIII GTNAC 7 cut(s) 86, 142, 229, 236, 364, 373, 409
MalI GATC 5 cut(s) 18, 57, 575, 609, 725
MboI GATC 5 cut(s) 16, 55, 573, 607, 723
MboII GAAGA 3 cut(s) 161, 214, 638
MflI RGATCY 1 cut(s) 16
MhlI GDGCHC 2 cut(s) 262, 550
MluCI AATT 2 cut(s) 51, 730
MlyI GAGTC 1 cut(s) 160
MroNI GCCGGC 1 cut(s) 174
MseI TTAA 1 cut(s) 305
MspA1I CMGCKG 2 cut(s) 158, 194
MspI CCGG 3 cut(s) 175, 399, 424
MspR9I CCNGG 3 cut(s) 99, 477, 686
MvaI CCWGG 3 cut(s) 99, 477, 686
MvnI CGCG 1 cut(s) 158
MwoI GCNNNNNNNGC 6 cut(s) 217, 257, 486, 517, 554, 655
NaeI GCCGGC 1 cut(s) 176
NcoI CCATGG 1 cut(s) 418
NdeII GATC 5 cut(s) 16, 55, 573, 607, 723
NgoMIV GCCGGC 1 cut(s) 174
NlaIII CATG 4 cut(s) 266, 422, 580, 595
NlaIV GGNNCC 2 cut(s) 27, 62
NmuCI GTSAC 7 cut(s) 86, 142, 229, 236, 364, 373, 409
NspV TTCGAA 1 cut(s) 200
PagI TCATGA 1 cut(s) 591
PceI AGGCCT 1 cut(s) 489
PcsI WCGNNNNNNNCGW 1 cut(s) 178
PdiI GCCGGC 1 cut(s) 176
PflMI CCANNNNNTGG 1 cut(s) 685
PkrI GCNGC 4 cut(s) 219, 381, 583, 674
PleI GAGTC 1 cut(s) 160
PmaCI CACGTG 1 cut(s) 182
PmlI CACGTG 1 cut(s) 182
PpsI GAGTC 1 cut(s) 160
Ppu21I YACGTR 1 cut(s) 182
PshAI GACNNNNGTC 1 cut(s) 371
Psp124BI GAGCTC 1 cut(s) 262
Psp6I CCWGG 3 cut(s) 97, 475, 684
PspCI CACGTG 1 cut(s) 182
PspGI CCWGG 3 cut(s) 97, 475, 684
PspN4I GGNNCC 2 cut(s) 27, 62
PspPI GGNCC 2 cut(s) 509, 563
PstNI CAGNNNCTG 2 cut(s) 566, 721
PsuI RGATCY 1 cut(s) 16
RsaI GTAC 1 cut(s) 662
RsaNI GTAC 1 cut(s) 661
SacI GAGCTC 1 cut(s) 262
SacII CCGCGG 1 cut(s) 159
SaqAI TTAA 1 cut(s) 305
SatI GCNGC 4 cut(s) 218, 380, 582, 673
Sau3AI GATC 5 cut(s) 16, 55, 573, 607, 723
Sau96I GGNCC 2 cut(s) 509, 563
SchI GAGTC 1 cut(s) 160
ScrFI CCNGG 3 cut(s) 99, 477, 686
SduI GDGCHC 2 cut(s) 262, 550
SetI ASST 7 cut(s) 184, 262, 276, 394, 525, 687, 723
SfaNI GCATC 2 cut(s) 97, 489
Sfr303I CCGCGG 1 cut(s) 159
SfuI TTCGAA 1 cut(s) 200
SgrBI CCGCGG 1 cut(s) 159
Sse9I AATT 2 cut(s) 51, 730
SseBI AGGCCT 1 cut(s) 489
SsiI CCGC 8 cut(s) 5, 9, 23, 156, 158, 194, 218, 673
SstI GAGCTC 1 cut(s) 262
StuI AGGCCT 1 cut(s) 489
StyD4I CCNGG 3 cut(s) 97, 475, 684
StyI CCWWGG 1 cut(s) 418
TaaI ACNGT 2 cut(s) 49, 86
TaiI ACGT 1 cut(s) 184
TaqI TCGA 2 cut(s) 200, 256
TasI AATT 2 cut(s) 51, 730
TauI GCSGC 2 cut(s) 220, 675
Tru1I TTAA 1 cut(s) 305
Tru9I TTAA 1 cut(s) 305
TscAI CASTG 3 cut(s) 147, 153, 624
TseFI GTSAC 7 cut(s) 86, 142, 229, 236, 364, 373, 409
TseI GCWGC 2 cut(s) 379, 581
Tsp45I GTSAC 7 cut(s) 86, 142, 229, 236, 364, 373, 409
TspDTI ATGAA 4 cut(s) 580, 608, 639, 645
TspGWI ACGGA 1 cut(s) 22
TspRI CASTG 3 cut(s) 147, 153, 624
Van91I CCANNNNNTGG 1 cut(s) 685
VneI GTGCAC 1 cut(s) 546
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.