MD13G1209900.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
Chr13
OG0004329
Physical Location & Seq
Reverse (-)
19525710 .. 19526594
885 bp
Loading structure...
UTR
Exon/CDS
Intron
MD13G1209900.v1.1.491

Sequence Viewer

Length: 885 bp
ATGGACCCGGTAGTCACCAATTCGCCAACTCTGAGCAAGCAGCGGGAGCTCGAAATTTCCATAAACGAAACCAACAGCGGTAGAAGCAGTGGCAGAGACGATGATGACGACAGAGACCATGATGAGCCCAAAGAAGGCGCAGTCGAGATTGGATCCCGCAGGCCAAGAGGTCGCCCTCCAGGATCCAAAAACAAGCCCAAACCCCCCATCTTCGTCACCCGGGACAGCCCCAACTCCCTCCGTAGTCACGTCATGGAGGTTGCCGGCGGCGCTGACGTGGCGGAGAGCGTGGCGCAGTTCGCCAGGAGGCGGCAGAGAGGCGTGTGTGTTCTCAGCGGGAGTGGCTCGGTCGCCAACGTAACCCTCAGACAACCTGCGGCTCCAGGAGCTGTGGTGGCGCTTCACGGGAGGTTTGAAATTTTGTCTCTGAGTGGGGCGTTCCTTCCCGGTCCTGCCCCTCCCGGGTCTACTGGGCTGACGGTTTATTTAGCCGGTGGGCAGGGGCAGGTGGTTGGAGGAAGTGTGGTGGGGTCACTAGTGGCGGCAGGCCCAGTGATGGTGGTGGCAGCAACATTTGCAAATGCTACTTATGAGAGGCTGCCTCTTGAGGAGGATGAGGAGGGTGGAGGAAGTGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGGCATAATAATGGAGGTTCCCCAACTGGTGGTGGGAGCAGTGGAGCCCAATTGGGGGGTGGGGGGCATCATCAGCAGCAGCAACTCCCTGATCCTTCATCTGGACTTCCCAATATTTACAGTCATCATCTGCCTCCAAATCTGATCCCCAATGGTGGCCATGGACATCTTGGGCATGAGGCTTATGCTAATTGGGCGCATTCAAGACCACCTTTCTAA
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

295

Amino Acids

29.74

Weight (kDa)

6.3

Isoelectric Point (pI)

56.91

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 81 - 193 1.3e-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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 496
AasI GACNNNNNNGTC 1 cut(s) 11
Acc36I ACCTGC 2 cut(s) 382, 496
AccB7I CCANNNNNTGG 1 cut(s) 695
AccI GTMKAC 1 cut(s) 467
AciI CCGC 9 cut(s) 43, 78, 157, 267, 281, 310, 336, 377, 542
AclWI GGATC 6 cut(s) 147, 160, 177, 190, 752, 805
AcoI YGGCCR 1 cut(s) 823
AcsI RAATTY 2 cut(s) 54, 417
AfiI CCNNNNNNNGG 9 cut(s) 134, 309, 462, 556, 695, 720, 721, 767, 821
AgsI TTSAA 2 cut(s) 416, 870
AhlI ACTAGT 1 cut(s) 535
AjiI CACGTC 2 cut(s) 250, 277
AjnI CCWGG 3 cut(s) 178, 302, 382
AluBI AGCT 2 cut(s) 49, 389
AluI AGCT 2 cut(s) 49, 389
Alw21I GWGCWC 1 cut(s) 51
Alw26I GTCTC 3 cut(s) 90, 108, 429
AlwI GGATC 6 cut(s) 147, 160, 177, 190, 752, 805
AlwNI CAGNNNCTG 1 cut(s) 389
Ama87I CYCGRG 2 cut(s) 219, 461
AoxI GGCC 3 cut(s) 161, 547, 823
ApeKI GCWGC 5 cut(s) 40, 566, 598, 742, 745
ApoI RAATTY 2 cut(s) 54, 417
AspLEI GCGC 5 cut(s) 140, 272, 295, 400, 865
AspS9I GGNCC 3 cut(s) 4, 449, 548
AsuC2I CCSGG 6 cut(s) 8, 220, 221, 447, 462, 463
AsuHPI GGTGA 2 cut(s) 7, 208
AvaI CYCGRG 2 cut(s) 219, 461
AvaII GGWCC 2 cut(s) 4, 449
BalI TGGCCA 1 cut(s) 825
BamHI GGATCC 2 cut(s) 152, 182
BanII GRGCYC 3 cut(s) 51, 129, 715
Bbv12I GWGCWC 1 cut(s) 51
BbvI GCAGC 5 cut(s) 52, 578, 585, 754, 757
BccI CCATC 2 cut(s) 215, 550
BciT130I CCWGG 3 cut(s) 180, 304, 384
BcnI CCSGG 6 cut(s) 8, 220, 221, 447, 462, 463
BcoDI GTCTC 3 cut(s) 90, 108, 429
BcuI ACTAGT 1 cut(s) 535
BfaI CTAG 1 cut(s) 536
BfoI RGCGCY 2 cut(s) 273, 401
BfuAI ACCTGC 2 cut(s) 382, 496
BisI GCNGC 9 cut(s) 41, 268, 311, 378, 543, 567, 599, 743, 746
BlsI GCNGC 9 cut(s) 42, 269, 312, 379, 544, 568, 600, 744, 747
Bme1390I CCNGG 9 cut(s) 8, 180, 220, 221, 304, 384, 447, 462, 463
Bme18I GGWCC 2 cut(s) 4, 449
BmeT110I CYCGRG 2 cut(s) 219, 461
BmgBI CACGTC 2 cut(s) 250, 277
BmgT120I GGNCC 3 cut(s) 4, 449, 548
BmiI GGNNCC 6 cut(s) 6, 154, 184, 381, 685, 712
BmrFI CCNGG 9 cut(s) 8, 180, 220, 221, 304, 384, 447, 462, 463
BmrI ACTGGG 2 cut(s) 480, 545
BmsI GCATC 1 cut(s) 742
BmuI ACTGGG 2 cut(s) 480, 545
BplI GAGNNNNNCTC 2 cut(s) 586, 618
BpmI CTGGAG 2 cut(s) 162, 366
BpuEI CTTGAG 1 cut(s) 626
BpuMI CCSGG 6 cut(s) 8, 220, 221, 447, 462, 463
BsaI GGTCTC 1 cut(s) 108
BsaJI CCNNGG 3 cut(s) 219, 461, 826
BsaXI ACNNNNNCTCC 4 cut(s) 378, 408, 507, 537
Bsc4I CCNNNNNNNGG 9 cut(s) 134, 309, 462, 556, 695, 720, 721, 767, 821
Bse118I RCCGGY 2 cut(s) 263, 491
Bse1I ACTGG 3 cut(s) 475, 551, 697
BseBI CCWGG 3 cut(s) 180, 304, 384
BseDI CCNNGG 3 cut(s) 219, 461, 826
BseGI GGATG 1 cut(s) 619
BseLI CCNNNNNNNGG 9 cut(s) 134, 309, 462, 556, 695, 720, 721, 767, 821
BseMII CTCAG 4 cut(s) 23, 346, 379, 419
BseNI ACTGG 3 cut(s) 475, 551, 697
BseXI GCAGC 5 cut(s) 52, 578, 585, 754, 757
Bsh1285I CGRYCG 1 cut(s) 351
BshFI GGCC 3 cut(s) 163, 549, 825
BsiEI CGRYCG 1 cut(s) 351
BsiHKAI GWGCWC 1 cut(s) 51
BsiHKCI CYCGRG 2 cut(s) 219, 461
BsiSI CCGG 6 cut(s) 8, 220, 264, 447, 462, 492
BslFI GGGAC 1 cut(s) 236
BslI CCNNNNNNNGG 9 cut(s) 134, 309, 462, 556, 695, 720, 721, 767, 821
BsmAI GTCTC 3 cut(s) 90, 108, 429
BsmBI CGTCTC 1 cut(s) 90
BsmFI GGGAC 1 cut(s) 236
BsmI GAATGC 1 cut(s) 865
BsnI GGCC 3 cut(s) 163, 549, 825
Bso31I GGTCTC 1 cut(s) 108
BsoBI CYCGRG 2 cut(s) 219, 461
Bsp1286I GDGCHC 3 cut(s) 51, 129, 715
Bsp143I GATC 4 cut(s) 152, 182, 757, 810
Bsp19I CCATGG 1 cut(s) 826
BspACI CCGC 9 cut(s) 43, 78, 157, 267, 281, 310, 336, 377, 542
BspANI GGCC 3 cut(s) 163, 549, 825
BspCNI CTCAG 4 cut(s) 24, 345, 378, 420
BspLI GGNNCC 6 cut(s) 6, 154, 184, 381, 685, 712
BspMI ACCTGC 2 cut(s) 382, 496
BspPI GGATC 6 cut(s) 147, 160, 177, 190, 752, 805
BspTNI GGTCTC 1 cut(s) 108
BsrFI RCCGGY 2 cut(s) 263, 491
BsrI ACTGG 3 cut(s) 475, 551, 697
BssAI RCCGGY 2 cut(s) 263, 491
BssECI CCNNGG 3 cut(s) 219, 461, 826
BssMI GATC 4 cut(s) 152, 182, 757, 810
BssT1I CCWWGG 1 cut(s) 826
Bst2UI CCWGG 3 cut(s) 180, 304, 384
Bst4CI ACNGT 2 cut(s) 481, 788
BstAPI GCANNNNNTGC 1 cut(s) 575
BstC8I GCNNGC 4 cut(s) 38, 161, 265, 547
BstDEI CTNAG 4 cut(s) 32, 332, 365, 428
BstDSI CCRYGG 1 cut(s) 826
BstF5I GGATG 1 cut(s) 619
BstH2I RGCGCY 2 cut(s) 273, 401
BstHHI GCGC 5 cut(s) 140, 272, 295, 400, 865
BstKTI GATC 4 cut(s) 155, 185, 760, 813
BstMAI GTCTC 3 cut(s) 90, 108, 429
BstMBI GATC 4 cut(s) 152, 182, 757, 810
BstMCI CGRYCG 1 cut(s) 351
BstNI CCWGG 3 cut(s) 180, 304, 384
BstSCI CCNGG 9 cut(s) 6, 178, 218, 219, 302, 382, 445, 460, 461
BstV1I GCAGC 5 cut(s) 52, 578, 585, 754, 757
BstX2I RGATCY 2 cut(s) 152, 182
BstYI RGATCY 2 cut(s) 152, 182
BsuRI GGCC 3 cut(s) 163, 549, 825
BtgI CCRYGG 1 cut(s) 826
BtrI CACGTC 2 cut(s) 250, 277
BtsCI GGATG 1 cut(s) 619
BtsI GCAGTG 2 cut(s) 94, 712
BtsIMutI CAGTG 3 cut(s) 94, 558, 712
BveI ACCTGC 2 cut(s) 382, 496
Cac8I GCNNGC 4 cut(s) 38, 161, 265, 547
CaiI CAGNNNCTG 1 cut(s) 389
CfoI GCGC 5 cut(s) 140, 272, 295, 400, 865
Cfr10I RCCGGY 2 cut(s) 263, 491
Cfr13I GGNCC 3 cut(s) 4, 449, 548
Cfr9I CCCGGG 2 cut(s) 219, 461
CviAII CATG 4 cut(s) 119, 253, 827, 842
DdeI CTNAG 4 cut(s) 32, 332, 365, 428
DpnI GATC 4 cut(s) 154, 184, 759, 812
DpnII GATC 4 cut(s) 152, 182, 757, 810
DrdI GACNNNNNNGTC 1 cut(s) 11
DseDI GACNNNNNNGTC 1 cut(s) 11
EaeI YGGCCR 1 cut(s) 823
EciI GGCGGA 1 cut(s) 296
Ecl136II GAGCTC 1 cut(s) 49
Eco130I CCWWGG 1 cut(s) 826
Eco24I GRGCYC 3 cut(s) 51, 129, 715
Eco31I GGTCTC 1 cut(s) 108
Eco47I GGWCC 2 cut(s) 4, 449
Eco53kI GAGCTC 1 cut(s) 49
Eco88I CYCGRG 2 cut(s) 219, 461
EcoICRI GAGCTC 1 cut(s) 49
EcoRII CCWGG 3 cut(s) 178, 302, 382
EcoT14I CCWWGG 1 cut(s) 826
EcoT38I GRGCYC 3 cut(s) 51, 129, 715
ErhI CCWWGG 1 cut(s) 826
Esp3I CGTCTC 1 cut(s) 90
FaeI CATG 4 cut(s) 122, 256, 830, 845
FaiI YATR 8 cut(s) 62, 120, 254, 591, 672, 828, 843, 852
FalI AAGNNNNNCTT 1 cut(s) 862
FaqI GGGAC 1 cut(s) 236
FatI CATG 4 cut(s) 118, 252, 826, 841
FauI CCCGC 3 cut(s) 36, 164, 329
FblI GTMKAC 1 cut(s) 467
Fnu4HI GCNGC 9 cut(s) 41, 268, 311, 378, 543, 567, 599, 743, 746
FokI GGATG 1 cut(s) 626
FriOI GRGCYC 3 cut(s) 51, 129, 715
Fsp4HI GCNGC 9 cut(s) 41, 268, 311, 378, 543, 567, 599, 743, 746
FspBI CTAG 1 cut(s) 536
GlaI GCGC 5 cut(s) 139, 271, 294, 399, 864
GluI GCNGC 9 cut(s) 41, 268, 311, 378, 543, 567, 599, 743, 746
GsuI CTGGAG 2 cut(s) 162, 366
HaeII RGCGCY 2 cut(s) 273, 401
HaeIII GGCC 3 cut(s) 163, 549, 825
HapII CCGG 6 cut(s) 8, 220, 264, 447, 462, 492
HhaI GCGC 5 cut(s) 140, 272, 295, 400, 865
Hin1II CATG 4 cut(s) 122, 256, 830, 845
Hin6I GCGC 5 cut(s) 138, 270, 293, 398, 863
HinP1I GCGC 5 cut(s) 138, 270, 293, 398, 863
HpaII CCGG 6 cut(s) 8, 220, 264, 447, 462, 492
HphI GGTGA 2 cut(s) 7, 208
Hpy166II GTNNAC 1 cut(s) 468
Hpy188I TCNGA 4 cut(s) 33, 368, 429, 810
Hpy188III TCNNGA 4 cut(s) 145, 605, 768, 870
Hpy8I GTNNAC 1 cut(s) 468
HpyAV CCTTC 3 cut(s) 128, 452, 771
HpyCH4III ACNGT 2 cut(s) 481, 788
HpyCH4IV ACGT 3 cut(s) 249, 276, 357
HpyCH4V TGCA 1 cut(s) 578
HpyF3I CTNAG 4 cut(s) 32, 332, 365, 428
HpySE526I ACGT 3 cut(s) 249, 276, 357
Hsp92II CATG 4 cut(s) 122, 256, 830, 845
HspAI GCGC 5 cut(s) 138, 270, 293, 398, 863
KroI GCCGGC 1 cut(s) 263
KroNI GCCGGC 1 cut(s) 265
Kzo9I GATC 4 cut(s) 152, 182, 757, 810
LmnI GCTCC 5 cut(s) 46, 385, 386, 702, 710
Lsp1109I GCAGC 5 cut(s) 52, 578, 585, 754, 757
LweI GCATC 1 cut(s) 742
MaeI CTAG 1 cut(s) 536
MaeII ACGT 3 cut(s) 249, 276, 357
MaeIII GTNAC 5 cut(s) 13, 214, 245, 358, 531
MalI GATC 4 cut(s) 154, 184, 759, 812
MboI GATC 4 cut(s) 152, 182, 757, 810
MboII GAAGA 1 cut(s) 202
MfeI CAATTG 1 cut(s) 716
MflI RGATCY 2 cut(s) 152, 182
MhlI GDGCHC 3 cut(s) 51, 129, 715
MlsI TGGCCA 1 cut(s) 825
MluCI AATT 5 cut(s) 19, 54, 417, 716, 856
MluNI TGGCCA 1 cut(s) 825
MmeI TCCRAC 1 cut(s) 493
Mox20I TGGCCA 1 cut(s) 825
MroNI GCCGGC 1 cut(s) 263
MscI TGGCCA 1 cut(s) 825
MslI CAYNNNNRTG 1 cut(s) 675
Msp20I TGGCCA 1 cut(s) 825
MspA1I CMGCKG 3 cut(s) 43, 78, 336
MspI CCGG 6 cut(s) 8, 220, 264, 447, 462, 492
MspR9I CCNGG 9 cut(s) 8, 180, 220, 221, 304, 384, 447, 462, 463
MunI CAATTG 1 cut(s) 716
Mva1269I GAATGC 1 cut(s) 865
MvaI CCWGG 3 cut(s) 180, 304, 384
NaeI GCCGGC 1 cut(s) 265
NciI CCSGG 6 cut(s) 8, 220, 221, 447, 462, 463
NcoI CCATGG 1 cut(s) 826
NdeII GATC 4 cut(s) 152, 182, 757, 810
NgoMIV GCCGGC 1 cut(s) 263
NlaIII CATG 4 cut(s) 122, 256, 830, 845
NlaIV GGNNCC 6 cut(s) 6, 154, 184, 381, 685, 712
NmuCI GTSAC 4 cut(s) 13, 214, 245, 531
PaqCI CACCTGC 1 cut(s) 496
PcsI WCGNNNNNNNCGW 1 cut(s) 105
PctI GAATGC 1 cut(s) 865
PdiI GCCGGC 1 cut(s) 265
PflMI CCANNNNNTGG 1 cut(s) 695
PfoI TCCNGGA 2 cut(s) 178, 382
PkrI GCNGC 9 cut(s) 42, 269, 312, 379, 544, 568, 600, 744, 747
Psp124BI GAGCTC 1 cut(s) 51
Psp6I CCWGG 3 cut(s) 178, 302, 382
PspGI CCWGG 3 cut(s) 178, 302, 382
PspN4I GGNNCC 6 cut(s) 6, 154, 184, 381, 685, 712
PspPI GGNCC 3 cut(s) 4, 449, 548
PstNI CAGNNNCTG 1 cut(s) 389
PsuI RGATCY 2 cut(s) 152, 182
RseI CAYNNNNRTG 1 cut(s) 675
SacI GAGCTC 1 cut(s) 51
SatI GCNGC 9 cut(s) 41, 268, 311, 378, 543, 567, 599, 743, 746
Sau3AI GATC 4 cut(s) 152, 182, 757, 810
Sau96I GGNCC 3 cut(s) 4, 449, 548
ScrFI CCNGG 9 cut(s) 8, 180, 220, 221, 304, 384, 447, 462, 463
SduI GDGCHC 3 cut(s) 51, 129, 715
SfaNI GCATC 1 cut(s) 742
SinI GGWCC 2 cut(s) 4, 449
SmaI CCCGGG 2 cut(s) 221, 463
SmiMI CAYNNNNRTG 1 cut(s) 675
SmlI CTYRAG 1 cut(s) 605
SmoI CTYRAG 1 cut(s) 605
SpeI ACTAGT 1 cut(s) 535
Sse9I AATT 5 cut(s) 19, 54, 417, 716, 856
SsiI CCGC 9 cut(s) 43, 78, 157, 267, 281, 310, 336, 377, 542
SspI AATATT 1 cut(s) 781
SspMI CTAG 1 cut(s) 536
SstI GAGCTC 1 cut(s) 51
StyD4I CCNGG 9 cut(s) 6, 178, 218, 219, 302, 382, 445, 460, 461
StyI CCWWGG 1 cut(s) 826
TaaI ACNGT 2 cut(s) 481, 788
TaiI ACGT 3 cut(s) 252, 279, 360
TaqI TCGA 2 cut(s) 51, 144
TaqII GACCGA 1 cut(s) 337
TasI AATT 5 cut(s) 19, 54, 417, 716, 856
TauI GCSGC 4 cut(s) 270, 313, 380, 545
TscAI CASTG 3 cut(s) 94, 558, 712
TseFI GTSAC 4 cut(s) 13, 214, 245, 531
TseI GCWGC 5 cut(s) 40, 566, 598, 742, 745
Tsp45I GTSAC 4 cut(s) 13, 214, 245, 531
TspDTI ATGAA 1 cut(s) 753
TspGWI ACGGA 1 cut(s) 230
TspMI CCCGGG 2 cut(s) 219, 461
TspRI CASTG 3 cut(s) 94, 558, 712
Van91I CCANNNNNTGG 1 cut(s) 695
VpaK11BI GGWCC 2 cut(s) 4, 449
XapI RAATTY 2 cut(s) 54, 417
XcmI CCANNNNNNNNNTGG 2 cut(s) 722, 833
XmaI CCCGGG 2 cut(s) 219, 461
XmiI GTMKAC 1 cut(s) 467
XspI CTAG 1 cut(s) 536
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.