Prupe.2G239000_v2.0.a1

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
prunus_persica
Pp02
OG0012533
Physical Location & Seq
Reverse (-)
25943216 .. 25946736
3521 bp
Loading structure...
UTR
Exon/CDS
Intron
Prupe.2G239000.1

Sequence Viewer

Length: 978 bp
ATGGCGAATCGATGGTGGGCTGGAAATGTAGCCATGGGAGGAGGGCATGTGGACTCAATCTCCTCAACTCCTCCATCTCTTCACCTCAGAAACACAGAAGAACAGCTCGACGACCACAACACCACCAACACTCCCACTAACAGCAGCACCAGCAACCCAGCAACCACCCCTAACAAGCAAAACGACGAACACCACGAAGACGGTCGGGACAACAACGATCTCGAAGCTGATAATCAGGACCCCAACACTGGCAGCGGTAGCCACGACAGCCTCGAGCCGGGAAGCAGCAACCGGAGACCGCGTGGCAGACCTCCCGGGTCGAAAAACAAGCCCAAACCGCCAATAATCATCACCAAAGAGAGCCCCAACGCGCTCCGGAGCCACGTCCTGGAAATCAGCAGCGGCAGCGACATTGTGGATAGCATTGCCACCTTTGCCCAAAGGCGGCATAGAGGGGTTTCGGTTCTGAGCGGAAGCGGCATTGTCGCCAATGTAACTCTACGACATCCTGCAGCACCAAGTGGAGTGATCACACTGCACGGGAGGTTCGAGATTTTGTCGTTGTCGGGTGCCTTCCTGCCCTCTCCCTCCCCGCCCGGGGCGACGGGGCTGACAGTGTACTTGGCCGGTGGACAGGGGCAGGTGGTGGGCGGGACTGTGATGGGGGCATTGGTGGCTTCAGGCCCTGTGATGGTCGTTGCGGCGACATTTACAAACGCAACTTACGAGAGATTGCCGCTTGAGGATGAGCAAGCTGGAGAAGGAGGGATGCAGGTGCAGCAACAACAGCAGCAGCAGCAACAATCTGGTGTGAATTCGGCAGGGACTGGAGGGAATTCAGGTTCTCAAGGTTTGGTGGAACATACTAGTTCAATGGCCATTTATAATTTGCCTCCAAATTTGCTTCCAAATGGTCAGATGCCTCCTGATGTGTTTTGGGGTCCTCCTCCTCCCAGACCCCCTCCTCCATCGTATTGA
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

326

Amino Acids

34.01

Weight (kDa)

5.73

Isoelectric Point (pI)

54.33

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0012533)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G55560
fragaria_vesca FvH4_7g22970
malus_domestica MD01G1138500.v1.1 MD07G1202700.v1.1
prunus_persica Prupe.2G239000_v2.0.a1
pyrus_communis pycom01g15920 pycom07g18970
rosa_chinensis RchiOBHm_Chr1g0368171
rosa_laevigata RLG00000027233
rosa_multiflora Rmu_sc0006814.1_g000001 Rmu_sc0020763.1_g000001 Rmu_sc0035888.1_g000001
rosa_roxburghii Rroxscaffold_4G00288830
rosa_rugosa Rorug01G0339100
rosa_samantha Rh1AG346600 Rh1BG309200 Rh1CG324700 Rh1DG341100
rosa_wichuraiana Rw1G030810

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 885
AarI CACCTGC 2 cut(s) 631, 763
Acc36I ACCTGC 2 cut(s) 631, 763
AccB1I GGYRCC 1 cut(s) 569
AccB7I CCANNNNNTGG 1 cut(s) 388
AccBSI CCGCTC 1 cut(s) 471
AccII CGCG 2 cut(s) 301, 371
AccIII TCCGGA 1 cut(s) 375
AcoI YGGCCR 2 cut(s) 624, 876
AcsI RAATTY 3 cut(s) 814, 835, 898
AcuI CTGAAG 1 cut(s) 663
AdeI CACNNNGTG 1 cut(s) 521
AfaI GTAC 1 cut(s) 620
AfiI CCNNNNNNNGG 7 cut(s) 248, 277, 388, 444, 597, 598, 691
AgsI TTSAA 1 cut(s) 873
AhlI ACTAGT 1 cut(s) 866
AjiI CACGTC 1 cut(s) 385
AjnI CCWGG 1 cut(s) 387
AloI GAACNNNNNNTCC 2 cut(s) 826, 858
AluBI AGCT 3 cut(s) 106, 227, 755
AluI AGCT 3 cut(s) 106, 227, 755
Alw26I GTCTC 1 cut(s) 289
AlwNI CAGNNNCTG 2 cut(s) 686, 827
Ama87I CYCGRG 3 cut(s) 272, 314, 596
Aor13HI TCCGGA 1 cut(s) 375
AoxI GGCC 3 cut(s) 624, 682, 876
ApoI RAATTY 3 cut(s) 814, 835, 898
AspLEI GCGC 1 cut(s) 373
AspS9I GGNCC 3 cut(s) 238, 683, 941
AsuC2I CCSGG 5 cut(s) 279, 315, 316, 597, 598
AsuHPI GGTGA 2 cut(s) 74, 343
AvaI CYCGRG 3 cut(s) 272, 314, 596
AvaII GGWCC 2 cut(s) 238, 941
BalI TGGCCA 1 cut(s) 878
BanI GGYRCC 1 cut(s) 569
BanII GRGCYC 1 cut(s) 365
BbsI GAAGAC 1 cut(s) 204
BccI CCATC 5 cut(s) 6, 82, 655, 685, 976
BciT130I CCWGG 1 cut(s) 389
BclI TGATCA 1 cut(s) 528
BcnI CCSGG 5 cut(s) 279, 315, 316, 597, 598
BcoDI GTCTC 1 cut(s) 289
BcuI ACTAGT 1 cut(s) 866
BfaI CTAG 1 cut(s) 867
BfmI CTRYAG 1 cut(s) 510
BfuAI ACCTGC 2 cut(s) 631, 763
Bme1390I CCNGG 6 cut(s) 279, 315, 316, 389, 597, 598
Bme18I GGWCC 2 cut(s) 238, 941
BmeT110I CYCGRG 3 cut(s) 272, 314, 596
BmgBI CACGTC 1 cut(s) 385
BmgT120I GGNCC 3 cut(s) 238, 683, 941
BmiI GGNNCC 4 cut(s) 240, 380, 571, 942
BmrFI CCNGG 6 cut(s) 279, 315, 316, 389, 597, 598
BmsI GCATC 2 cut(s) 759, 909
BpiI GAAGAC 1 cut(s) 204
BpmI CTGGAG 2 cut(s) 777, 849
BpuEI CTTGAG 2 cut(s) 761, 831
BpuMI CCSGG 5 cut(s) 279, 315, 316, 597, 598
Bsa29I ATCGAT 1 cut(s) 10
BsaI GGTCTC 1 cut(s) 289
BsaJI CCNNGG 4 cut(s) 33, 314, 596, 597
BsaWI WCCGGW 2 cut(s) 291, 375
BsaXI ACNNNNNCTCC 8 cut(s) 33, 44, 63, 74, 115, 145, 286, 316
Bsc4I CCNNNNNNNGG 7 cut(s) 248, 277, 388, 444, 597, 598, 691
Bse118I RCCGGY 1 cut(s) 626
Bse1I ACTGG 2 cut(s) 253, 832
Bse3DI GCAATG 1 cut(s) 423
BseAI TCCGGA 1 cut(s) 375
BseBI CCWGG 1 cut(s) 389
BseCI ATCGAT 1 cut(s) 10
BseDI CCNNGG 4 cut(s) 33, 314, 596, 597
BseGI GGATG 3 cut(s) 505, 751, 774
BseLI CCNNNNNNNGG 7 cut(s) 248, 277, 388, 444, 597, 598, 691
BseMI GCAATG 1 cut(s) 423
BseMII CTCAG 2 cut(s) 100, 458
BseNI ACTGG 2 cut(s) 253, 832
BseRI GAGGAG 6 cut(s) 52, 54, 60, 936, 939, 954
BseYI CCCAGC 1 cut(s) 157
BsgI GTGCAG 2 cut(s) 521, 797
Bsh1236I CGCG 2 cut(s) 301, 371
Bsh1285I CGRYCG 1 cut(s) 205
BshFI GGCC 3 cut(s) 626, 684, 878
BshNI GGYRCC 1 cut(s) 569
BshVI ATCGAT 1 cut(s) 10
BsiEI CGRYCG 1 cut(s) 205
BsiHKCI CYCGRG 3 cut(s) 272, 314, 596
BsiSI CCGG 6 cut(s) 278, 292, 315, 376, 597, 627
BslFI GGGAC 3 cut(s) 221, 667, 838
BslI CCNNNNNNNGG 7 cut(s) 248, 277, 388, 444, 597, 598, 691
BsmAI GTCTC 1 cut(s) 289
BsmFI GGGAC 3 cut(s) 221, 667, 838
BsnI GGCC 3 cut(s) 626, 684, 878
Bso31I GGTCTC 1 cut(s) 289
BsoBI CYCGRG 3 cut(s) 272, 314, 596
Bsp1286I GDGCHC 1 cut(s) 365
Bsp13I TCCGGA 1 cut(s) 375
Bsp143I GATC 2 cut(s) 217, 528
Bsp19I CCATGG 1 cut(s) 33
BspANI GGCC 3 cut(s) 626, 684, 878
BspCNI CTCAG 2 cut(s) 99, 459
BspDI ATCGAT 1 cut(s) 10
BspEI TCCGGA 1 cut(s) 375
BspFNI CGCG 2 cut(s) 301, 371
BspLI GGNNCC 4 cut(s) 240, 380, 571, 942
BspMAI CTGCAG 1 cut(s) 514
BspMI ACCTGC 2 cut(s) 631, 763
BspT107I GGYRCC 1 cut(s) 569
BspTNI GGTCTC 1 cut(s) 289
BsrBI CCGCTC 1 cut(s) 471
BsrDI GCAATG 1 cut(s) 423
BsrFI RCCGGY 1 cut(s) 626
BsrI ACTGG 2 cut(s) 253, 832
BssAI RCCGGY 1 cut(s) 626
BssECI CCNNGG 4 cut(s) 33, 314, 596, 597
BssMI GATC 2 cut(s) 217, 528
BssT1I CCWWGG 1 cut(s) 33
Bst2UI CCWGG 1 cut(s) 389
Bst4CI ACNGT 3 cut(s) 203, 616, 658
Bst6I CTCTTC 1 cut(s) 84
BstC8I GCNNGC 1 cut(s) 753
BstDEI CTNAG 2 cut(s) 86, 467
BstDSI CCRYGG 1 cut(s) 33
BstF5I GGATG 3 cut(s) 505, 751, 774
BstFNI CGCG 2 cut(s) 301, 371
BstHHI GCGC 1 cut(s) 373
BstKTI GATC 2 cut(s) 220, 531
BstMAI GTCTC 1 cut(s) 289
BstMBI GATC 2 cut(s) 217, 528
BstMCI CGRYCG 1 cut(s) 205
BstNI CCWGG 1 cut(s) 389
BstNSI RCATGY 1 cut(s) 50
BstSCI CCNGG 6 cut(s) 277, 313, 314, 387, 595, 596
BstSFI CTRYAG 1 cut(s) 510
BstUI CGCG 2 cut(s) 301, 371
BstV2I GAAGAC 1 cut(s) 204
Bsu15I ATCGAT 1 cut(s) 10
BsuRI GGCC 3 cut(s) 626, 684, 878
BsuTUI ATCGAT 1 cut(s) 10
BtgI CCRYGG 1 cut(s) 33
BtrI CACGTC 1 cut(s) 385
BtsCI GGATG 3 cut(s) 505, 751, 774
BtsI GCAGTG 1 cut(s) 533
BtsIMutI CAGTG 3 cut(s) 246, 533, 621
BveI ACCTGC 2 cut(s) 631, 763
Cac8I GCNNGC 1 cut(s) 753
CaiI CAGNNNCTG 2 cut(s) 686, 827
CfoI GCGC 1 cut(s) 373
Cfr10I RCCGGY 1 cut(s) 626
Cfr13I GGNCC 3 cut(s) 238, 683, 941
Cfr9I CCCGGG 2 cut(s) 314, 596
ClaI ATCGAT 1 cut(s) 10
Csp6I GTAC 1 cut(s) 619
CviAII CATG 2 cut(s) 34, 47
CviQI GTAC 1 cut(s) 619
DdeI CTNAG 2 cut(s) 86, 467
DpnI GATC 2 cut(s) 219, 530
DpnII GATC 2 cut(s) 217, 528
DraIII CACNNNGTG 1 cut(s) 521
EaeI YGGCCR 2 cut(s) 624, 876
Eam1104I CTCTTC 1 cut(s) 84
EarI CTCTTC 1 cut(s) 84
Eco130I CCWWGG 1 cut(s) 33
Eco24I GRGCYC 1 cut(s) 365
Eco31I GGTCTC 1 cut(s) 289
Eco47I GGWCC 2 cut(s) 238, 941
Eco57I CTGAAG 1 cut(s) 663
Eco88I CYCGRG 3 cut(s) 272, 314, 596
EcoO109I RGGNCCY 3 cut(s) 238, 683, 941
EcoRI GAATTC 2 cut(s) 814, 835
EcoRII CCWGG 1 cut(s) 387
EcoT14I CCWWGG 1 cut(s) 33
EcoT38I GRGCYC 1 cut(s) 365
ErhI CCWWGG 1 cut(s) 33
FaeI CATG 2 cut(s) 37, 50
FaiI YATR 5 cut(s) 35, 48, 450, 864, 885
FaqI GGGAC 3 cut(s) 221, 667, 838
FatI CATG 2 cut(s) 33, 46
FauI CCCGC 2 cut(s) 600, 644
FbaI TGATCA 1 cut(s) 528
FokI GGATG 3 cut(s) 492, 758, 781
FriOI GRGCYC 1 cut(s) 365
FspBI CTAG 1 cut(s) 867
GlaI GCGC 1 cut(s) 372
GsaI CCCAGC 1 cut(s) 161
GsuI CTGGAG 2 cut(s) 777, 849
HaeIII GGCC 3 cut(s) 626, 684, 878
HapII CCGG 6 cut(s) 278, 292, 315, 376, 597, 627
HhaI GCGC 1 cut(s) 373
Hin1II CATG 2 cut(s) 37, 50
Hin6I GCGC 1 cut(s) 371
HinP1I GCGC 1 cut(s) 371
HinfI GANTC 2 cut(s) 7, 53
HpaII CCGG 6 cut(s) 278, 292, 315, 376, 597, 627
HphI GGTGA 2 cut(s) 74, 343
Hpy166II GTNNAC 3 cut(s) 52, 619, 632
Hpy188I TCNGA 3 cut(s) 89, 468, 918
Hpy188III TCNNGA 6 cut(s) 206, 221, 236, 376, 550, 926
Hpy8I GTNNAC 3 cut(s) 52, 619, 632
Hpy99I CGWCG 3 cut(s) 113, 188, 607
HpyAV CCTTC 2 cut(s) 583, 755
HpyCH4III ACNGT 3 cut(s) 203, 616, 658
HpyCH4IV ACGT 1 cut(s) 384
HpyCH4V TGCA 4 cut(s) 512, 538, 772, 778
HpyF3I CTNAG 2 cut(s) 86, 467
HpySE526I ACGT 1 cut(s) 384
Hsp92II CATG 2 cut(s) 37, 50
HspAI GCGC 1 cut(s) 371
Kpn2I TCCGGA 1 cut(s) 375
Ksp22I TGATCA 1 cut(s) 528
Kzo9I GATC 2 cut(s) 217, 528
LmnI GCTCC 2 cut(s) 378, 378
LweI GCATC 2 cut(s) 759, 909
MaeI CTAG 1 cut(s) 867
MaeII ACGT 1 cut(s) 384
MaeIII GTNAC 1 cut(s) 493
MalI GATC 2 cut(s) 219, 530
MbiI CCGCTC 1 cut(s) 471
MboI GATC 2 cut(s) 217, 528
MboII GAAGA 3 cut(s) 71, 110, 209
MhlI GDGCHC 1 cut(s) 365
MlsI TGGCCA 1 cut(s) 878
MluCI AATT 4 cut(s) 814, 835, 886, 898
MluNI TGGCCA 1 cut(s) 878
MlyI GAGTC 1 cut(s) 47
Mox20I TGGCCA 1 cut(s) 878
MroI TCCGGA 1 cut(s) 375
MscI TGGCCA 1 cut(s) 878
Msp20I TGGCCA 1 cut(s) 878
MspA1I CMGCKG 2 cut(s) 255, 402
MspI CCGG 6 cut(s) 278, 292, 315, 376, 597, 627
MspR9I CCNGG 6 cut(s) 279, 315, 316, 389, 597, 598
MvaI CCWGG 1 cut(s) 389
MvnI CGCG 2 cut(s) 301, 371
NciI CCSGG 5 cut(s) 279, 315, 316, 597, 598
NcoI CCATGG 1 cut(s) 33
NdeII GATC 2 cut(s) 217, 528
NlaIII CATG 2 cut(s) 37, 50
NlaIV GGNNCC 4 cut(s) 240, 380, 571, 942
NspI RCATGY 1 cut(s) 50
PaeR7I CTCGAG 1 cut(s) 272
PaqCI CACCTGC 2 cut(s) 631, 763
PcsI WCGNNNNNNNCGW 4 cut(s) 192, 270, 546, 723
PfeI GAWTC 1 cut(s) 7
PflMI CCANNNNNTGG 1 cut(s) 388
PfoI TCCNGGA 1 cut(s) 387
PleI GAGTC 1 cut(s) 47
PpsI GAGTC 1 cut(s) 47
PpuMI RGGWCCY 2 cut(s) 238, 941
PsiI TTATAA 1 cut(s) 885
Psp5II RGGWCCY 2 cut(s) 238, 941
Psp6I CCWGG 1 cut(s) 387
PspFI CCCAGC 1 cut(s) 157
PspGI CCWGG 1 cut(s) 387
PspN4I GGNNCC 4 cut(s) 240, 380, 571, 942
PspPI GGNCC 3 cut(s) 238, 683, 941
PspPPI RGGWCCY 2 cut(s) 238, 941
PspXI VCTCGAGB 1 cut(s) 272
PstI CTGCAG 1 cut(s) 514
PstNI CAGNNNCTG 2 cut(s) 686, 827
RsaI GTAC 1 cut(s) 620
RsaNI GTAC 1 cut(s) 619
Sau3AI GATC 2 cut(s) 217, 528
Sau96I GGNCC 3 cut(s) 238, 683, 941
SchI GAGTC 1 cut(s) 47
ScrFI CCNGG 6 cut(s) 279, 315, 316, 389, 597, 598
SduI GDGCHC 1 cut(s) 365
SfaNI GCATC 2 cut(s) 759, 909
SfcI CTRYAG 1 cut(s) 510
Sfr274I CTCGAG 1 cut(s) 272
SinI GGWCC 2 cut(s) 238, 941
SlaI CTCGAG 1 cut(s) 272
SmaI CCCGGG 2 cut(s) 316, 598
SmlI CTYRAG 3 cut(s) 272, 740, 846
SmoI CTYRAG 3 cut(s) 272, 740, 846
SpeI ACTAGT 1 cut(s) 866
Sse9I AATT 4 cut(s) 814, 835, 886, 898
SspMI CTAG 1 cut(s) 867
StyD4I CCNGG 6 cut(s) 277, 313, 314, 387, 595, 596
StyI CCWWGG 1 cut(s) 33
TaaI ACNGT 3 cut(s) 203, 616, 658
TaiI ACGT 1 cut(s) 387
TaqI TCGA 6 cut(s) 10, 108, 222, 273, 320, 549
TasI AATT 4 cut(s) 814, 835, 886, 898
TatI WGTACW 1 cut(s) 618
TauI GCSGC 5 cut(s) 405, 448, 480, 704, 739
TfiI GAWTC 1 cut(s) 7
TscAI CASTG 3 cut(s) 253, 540, 621
TspMI CCCGGG 2 cut(s) 314, 596
TspRI CASTG 3 cut(s) 253, 540, 621
Van91I CCANNNNNTGG 1 cut(s) 388
VpaK11BI GGWCC 2 cut(s) 238, 941
XapI RAATTY 3 cut(s) 814, 835, 898
XceI RCATGY 1 cut(s) 50
XhoI CTCGAG 1 cut(s) 272
XmaI CCCGGG 2 cut(s) 314, 596
XspI CTAG 1 cut(s) 867
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.