pycom06g00310

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
pyrus_communis
Chr6
OG0014937
Physical Location & Seq
Reverse (-)
293024 .. 294070
1047 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1047 bp
ATGGCAGGGTACAACATAAATGAGTCAACCTCAGTCTCTACCGCCTCATCAGCCCCAACTTCAACTGCTTCTCCCTATGTCCACCCGCTTTTCAGGCCCCAACTCCACCTCCAACTCCAACAACTCCATCACCATCCTATTATTCCTCTACAACAACAACAACAACATCATCATCATCAACAAGAAGAACAAGATGATGATGATGACCAGGACGACGACCAAGACCACAATATTACCAAGATCGAATCTTCCGATACCGCCGCAACCAGTTCTGGTGGCGGTGGAGGCGGAGGTGGAACTGGTGGTTCCACCCGCCGTCCCAGAGGCCGTCCTGCAGGCTCCAAGAACAAACCCAAGCCTCCCATCATCGTCACACGCGACAGCCCCAACGCCCTCCGCTCCCACGTCCTTGAGGTCTCCGATGGGGCCGACATCATGGACAGCGTCTCCATCTACGCCAGGCGCAGGGGCAGAGGCGTCTGCGTGCTCAGCGGCAGCGGCACTGTCACCAACGTCACCCTGCGTCAGCCAGCTGCTCCTCCGGGAAGCGTGGTGACTCTTCACGGACGCTTCGAGTTACTATCGCTCTCCGGTACGGTGCTTCCGCCTCCGGCTCCTCCCGGTGCTGGCGGACTCTCCATATTCTTGTCCGGGGGGCAGGGGCAAGTGGTGGGAGGAAACGTGGTGGGACCGCTGATGGCCTCCGGGCCTGTGGTTTTGATGGCTGCGTCTTTTGCAAATGCGGTGTTTGAGAGATTGCCATTGGGTGATCCGGAAGAGGGAACTACTACTCCTACTGGTGGTGGTGGCGGAGGCAGCTTGCAAATCCATCAACCCACGGGGTCCCAATCTTCTGGGGTGTCTGGCGGTCTTGGTGATGGTACTGCGGGAAGTAGCGGCGGAGGTGGAGGTGGAGGTGGAGGTGGAGGTGCTGGGCTTTTTAATTTGGGAGGAAATATGGCGGCCAACTATCCCTTCCCGGGGAGTGACTTCTTCGGATGGGGTGGTGGAAGTGGAAGTGGAAGTACTCCGCGGCCTCCGTTTTAG
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

349

Amino Acids

34.82

Weight (kDa)

5.97

Isoelectric Point (pI)

62.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 133 - 246 9e-22 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: OG0014937)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G20900 AT1G76500
fragaria_vesca FvH4_5g26230
malus_domestica MD06G1003000.v1.1
prunus_persica Prupe.5G004600_v2.0.a1
pyrus_communis pycom06g00310
rosa_chinensis RchiOBHm_Chr7g0216901
rosa_laevigata RLG00000002528
rosa_multiflora Rmu_sc0000854.1_g000020
rosa_roxburghii Rroxscaffold_3G00242760
rosa_rugosa Rorug07G0164300
rosa_samantha Rh7AG304600 Rh7BG296100 Rh7CG323000 Rh7DG304600
rosa_wichuraiana Rw7G025860

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 399
AccII CGCG 2 cut(s) 378, 1033
AccIII TCCGGA 1 cut(s) 772
AclWI GGATC 1 cut(s) 764
AcoI YGGCCR 1 cut(s) 963
AcyI GRCGYC 1 cut(s) 477
AfaI GTAC 4 cut(s) 11, 595, 883, 1027
AfiI CCNNNNNNNGG 6 cut(s) 465, 626, 779, 800, 980, 981
AgsI TTSAA 1 cut(s) 63
AjiI CACGTC 1 cut(s) 406
AjnI CCWGG 2 cut(s) 207, 458
AjuI GAANNNNNNNTTGG 2 cut(s) 959, 991
AloI GAACNNNNNNTCC 2 cut(s) 775, 807
AluBI AGCT 2 cut(s) 533, 819
AluI AGCT 2 cut(s) 533, 819
Alw21I GWGCWC 1 cut(s) 489
Alw26I GTCTC 3 cut(s) 40, 421, 451
AlwI GGATC 1 cut(s) 764
Ama87I CYCGRG 1 cut(s) 979
Aor13HI TCCGGA 1 cut(s) 772
AoxI GGCC 7 cut(s) 95, 325, 426, 699, 707, 963, 1034
ApeKI GCWGC 4 cut(s) 495, 533, 725, 816
AspLEI GCGC 1 cut(s) 465
AspS9I GGNCC 5 cut(s) 96, 426, 689, 707, 843
AsuC2I CCSGG 6 cut(s) 543, 621, 652, 706, 980, 981
AsuHPI GGTGA 6 cut(s) 122, 499, 508, 565, 779, 887
AvaI CYCGRG 1 cut(s) 979
AvaII GGWCC 2 cut(s) 689, 843
BarI GAAGNNNNNNTAC 2 cut(s) 1009, 1041
Bbv12I GWGCWC 1 cut(s) 489
BbvI GCAGC 4 cut(s) 507, 520, 712, 828
BceAI ACGGC 2 cut(s) 300, 312
BciT130I CCWGG 2 cut(s) 209, 460
BcnI CCSGG 6 cut(s) 543, 621, 652, 706, 980, 981
BcoDI GTCTC 3 cut(s) 40, 421, 451
BfmI CTRYAG 1 cut(s) 333
BlpI GCTNAGC 1 cut(s) 488
BmcAI AGTACT 1 cut(s) 1027
Bme1390I CCNGG 8 cut(s) 209, 460, 543, 621, 652, 706, 980, 981
Bme18I GGWCC 2 cut(s) 689, 843
BmeT110I CYCGRG 1 cut(s) 979
BmgBI CACGTC 1 cut(s) 406
BmgT120I GGNCC 5 cut(s) 96, 426, 689, 707, 843
BmiI GGNNCC 8 cut(s) 98, 307, 340, 427, 615, 690, 844, 845
BmrFI CCNGG 8 cut(s) 209, 460, 543, 621, 652, 706, 980, 981
BplI GAGNNNNNCTC 2 cut(s) 14, 46
Bpu1102I GCTNAGC 1 cut(s) 488
BpuEI CTTGAG 1 cut(s) 431
BpuMI CCSGG 6 cut(s) 543, 621, 652, 706, 980, 981
BsaHI GRCGYC 1 cut(s) 477
BsaI GGTCTC 1 cut(s) 421
BsaJI CCNNGG 5 cut(s) 651, 837, 979, 980, 1031
BsaWI WCCGGW 2 cut(s) 590, 772
Bsc4I CCNNNNNNNGG 6 cut(s) 465, 626, 779, 800, 980, 981
Bse1I ACTGG 3 cut(s) 267, 304, 802
BseAI TCCGGA 1 cut(s) 772
BseBI CCWGG 2 cut(s) 209, 460
BseDI CCNNGG 5 cut(s) 651, 837, 979, 980, 1031
BseGI GGATG 2 cut(s) 133, 1004
BseLI CCNNNNNNNGG 6 cut(s) 465, 626, 779, 800, 980, 981
BseMII CTCAG 2 cut(s) 45, 502
BseNI ACTGG 3 cut(s) 267, 304, 802
BseRI GAGGAG 2 cut(s) 528, 606
BseXI GCAGC 4 cut(s) 507, 520, 712, 828
BseYI CCCAGC 1 cut(s) 932
Bsh1236I CGCG 2 cut(s) 378, 1033
BshFI GGCC 7 cut(s) 97, 327, 428, 701, 709, 965, 1036
BsiHKAI GWGCWC 1 cut(s) 489
BsiHKCI CYCGRG 1 cut(s) 979
BsiSI CCGG 8 cut(s) 542, 591, 611, 621, 651, 705, 773, 980
BslFI GGGAC 3 cut(s) 303, 702, 829
BslI CCNNNNNNNGG 6 cut(s) 465, 626, 779, 800, 980, 981
BsmAI GTCTC 3 cut(s) 40, 421, 451
BsmBI CGTCTC 1 cut(s) 451
BsmFI GGGAC 3 cut(s) 303, 702, 829
BsnI GGCC 7 cut(s) 97, 327, 428, 701, 709, 965, 1036
Bso31I GGTCTC 1 cut(s) 421
BsoBI CYCGRG 1 cut(s) 979
Bsp1286I GDGCHC 1 cut(s) 489
Bsp13I TCCGGA 1 cut(s) 772
Bsp143I GATC 2 cut(s) 240, 769
Bsp1720I GCTNAGC 1 cut(s) 488
BspANI GGCC 7 cut(s) 97, 327, 428, 701, 709, 965, 1036
BspCNI CTCAG 2 cut(s) 44, 501
BspEI TCCGGA 1 cut(s) 772
BspFNI CGCG 2 cut(s) 378, 1033
BspLI GGNNCC 8 cut(s) 98, 307, 340, 427, 615, 690, 844, 845
BspMAI CTGCAG 1 cut(s) 337
BspPI GGATC 1 cut(s) 764
BspTNI GGTCTC 1 cut(s) 421
BsrBI CCGCTC 1 cut(s) 399
BsrI ACTGG 3 cut(s) 267, 304, 802
BssECI CCNNGG 5 cut(s) 651, 837, 979, 980, 1031
BssMI GATC 2 cut(s) 240, 769
BssNI GRCGYC 1 cut(s) 477
Bst2UI CCWGG 2 cut(s) 209, 460
Bst4CI ACNGT 2 cut(s) 505, 598
Bst6I CTCTTC 2 cut(s) 564, 771
BstACI GRCGYC 1 cut(s) 477
BstC8I GCNNGC 5 cut(s) 337, 485, 531, 628, 821
BstDEI CTNAG 2 cut(s) 31, 488
BstDSI CCRYGG 2 cut(s) 837, 1031
BstF5I GGATG 2 cut(s) 133, 1004
BstFNI CGCG 2 cut(s) 378, 1033
BstHHI GCGC 1 cut(s) 465
BstKTI GATC 2 cut(s) 243, 772
BstMAI GTCTC 3 cut(s) 40, 421, 451
BstMBI GATC 2 cut(s) 240, 769
BstMWI GCNNNNNNNGC 7 cut(s) 50, 94, 285, 489, 498, 734, 816
BstNI CCWGG 2 cut(s) 209, 460
BstSCI CCNGG 8 cut(s) 207, 458, 541, 619, 650, 704, 978, 979
BstSFI CTRYAG 1 cut(s) 333
BstUI CGCG 2 cut(s) 378, 1033
BstV1I GCAGC 4 cut(s) 507, 520, 712, 828
BstXI CCANNNNNNTGG 1 cut(s) 854
BsuRI GGCC 7 cut(s) 97, 327, 428, 701, 709, 965, 1036
BtgI CCRYGG 2 cut(s) 837, 1031
BtrI CACGTC 1 cut(s) 406
BtsCI GGATG 2 cut(s) 133, 1004
BtsIMutI CAGTG 1 cut(s) 501
Cac8I GCNNGC 5 cut(s) 337, 485, 531, 628, 821
CfoI GCGC 1 cut(s) 465
Cfr13I GGNCC 5 cut(s) 96, 426, 689, 707, 843
Cfr42I CCGCGG 1 cut(s) 1034
Cfr9I CCCGGG 1 cut(s) 979
CseI GACGC 5 cut(s) 433, 466, 512, 576, 717
Csp6I GTAC 4 cut(s) 10, 594, 882, 1026
CviAII CATG 1 cut(s) 436
CviQI GTAC 4 cut(s) 10, 594, 882, 1026
DdeI CTNAG 2 cut(s) 31, 488
DpnI GATC 2 cut(s) 242, 771
DpnII GATC 2 cut(s) 240, 769
EaeI YGGCCR 1 cut(s) 963
Eam1104I CTCTTC 2 cut(s) 564, 771
EarI CTCTTC 2 cut(s) 564, 771
EciI GGCGGA 5 cut(s) 303, 594, 645, 825, 915
Eco31I GGTCTC 1 cut(s) 421
Eco47I GGWCC 2 cut(s) 689, 843
Eco88I CYCGRG 1 cut(s) 979
EcoO109I RGGNCCY 2 cut(s) 96, 843
EcoRII CCWGG 2 cut(s) 207, 458
Esp3I CGTCTC 1 cut(s) 451
FaeI CATG 1 cut(s) 439
FaiI YATR 5 cut(s) 17, 78, 437, 641, 959
FaqI GGGAC 3 cut(s) 303, 702, 829
FatI CATG 1 cut(s) 435
FauI CCCGC 3 cut(s) 93, 320, 880
FokI GGATG 2 cut(s) 120, 1011
GlaI GCGC 1 cut(s) 464
GsaI CCCAGC 1 cut(s) 936
HaeIII GGCC 7 cut(s) 97, 327, 428, 701, 709, 965, 1036
HapII CCGG 8 cut(s) 542, 591, 611, 621, 651, 705, 773, 980
HgaI GACGC 5 cut(s) 433, 466, 512, 576, 717
HhaI GCGC 1 cut(s) 465
Hin1I GRCGYC 1 cut(s) 477
Hin1II CATG 1 cut(s) 439
Hin6I GCGC 1 cut(s) 463
HinP1I GCGC 1 cut(s) 463
HincII GTYRAC 1 cut(s) 27
HindII GTYRAC 1 cut(s) 27
HinfI GANTC 4 cut(s) 23, 245, 556, 633
HpaII CCGG 8 cut(s) 542, 591, 611, 621, 651, 705, 773, 980
HphI GGTGA 6 cut(s) 122, 499, 508, 565, 779, 887
Hpy166II GTNNAC 2 cut(s) 27, 82
Hpy188I TCNGA 3 cut(s) 253, 421, 998
Hpy188III TCNNGA 1 cut(s) 773
Hpy8I GTNNAC 2 cut(s) 27, 82
Hpy99I CGWCG 1 cut(s) 218
HpyAV CCTTC 1 cut(s) 985
HpyCH4III ACNGT 2 cut(s) 505, 598
HpyCH4IV ACGT 3 cut(s) 405, 513, 681
HpyCH4V TGCA 3 cut(s) 335, 737, 823
HpyF10VI GCNNNNNNNGC 7 cut(s) 50, 94, 285, 489, 498, 734, 816
HpyF3I CTNAG 2 cut(s) 31, 488
HpySE526I ACGT 3 cut(s) 405, 513, 681
Hsp92I GRCGYC 1 cut(s) 477
Hsp92II CATG 1 cut(s) 439
HspAI GCGC 1 cut(s) 463
KflI GGGWCCC 1 cut(s) 843
Kpn2I TCCGGA 1 cut(s) 772
KspI CCGCGG 1 cut(s) 1034
Kzo9I GATC 2 cut(s) 240, 769
LmnI GCTCC 4 cut(s) 344, 404, 541, 619
Lsp1109I GCAGC 4 cut(s) 507, 520, 712, 828
MaeII ACGT 3 cut(s) 405, 513, 681
MaeIII GTNAC 6 cut(s) 370, 505, 514, 553, 576, 986
MalI GATC 2 cut(s) 242, 771
MbiI CCGCTC 1 cut(s) 399
MboI GATC 2 cut(s) 240, 769
MboII GAAGA 6 cut(s) 197, 240, 551, 788, 843, 985
MhlI GDGCHC 1 cut(s) 489
MluCI AATT 1 cut(s) 943
MlyI GAGTC 3 cut(s) 32, 550, 627
MmeI TCCRAC 2 cut(s) 136, 142
MroI TCCGGA 1 cut(s) 772
MseI TTAA 1 cut(s) 942
MspA1I CMGCKG 5 cut(s) 492, 498, 533, 694, 1033
MspI CCGG 8 cut(s) 542, 591, 611, 621, 651, 705, 773, 980
MspR9I CCNGG 8 cut(s) 209, 460, 543, 621, 652, 706, 980, 981
MvaI CCWGG 2 cut(s) 209, 460
MvnI CGCG 2 cut(s) 378, 1033
MwoI GCNNNNNNNGC 7 cut(s) 50, 94, 285, 489, 498, 734, 816
NciI CCSGG 6 cut(s) 543, 621, 652, 706, 980, 981
NdeII GATC 2 cut(s) 240, 769
NlaIII CATG 1 cut(s) 439
NlaIV GGNNCC 8 cut(s) 98, 307, 340, 427, 615, 690, 844, 845
NmuCI GTSAC 5 cut(s) 370, 505, 514, 553, 986
PcsI WCGNNNNNNNCGW 3 cut(s) 249, 375, 570
PfeI GAWTC 1 cut(s) 245
PflFI GACNNNGTC 1 cut(s) 443
PfoI TCCNGGA 1 cut(s) 541
PleI GAGTC 3 cut(s) 31, 550, 627
PpsI GAGTC 3 cut(s) 31, 550, 627
PpuMI RGGWCCY 1 cut(s) 843
Psp5II RGGWCCY 1 cut(s) 843
Psp6I CCWGG 2 cut(s) 207, 458
PspFI CCCAGC 1 cut(s) 932
PspGI CCWGG 2 cut(s) 207, 458
PspN4I GGNNCC 8 cut(s) 98, 307, 340, 427, 615, 690, 844, 845
PspPI GGNCC 5 cut(s) 96, 426, 689, 707, 843
PspPPI RGGWCCY 1 cut(s) 843
PstI CTGCAG 1 cut(s) 337
PsyI GACNNNGTC 1 cut(s) 443
PvuII CAGCTG 1 cut(s) 533
RsaI GTAC 4 cut(s) 11, 595, 883, 1027
RsaNI GTAC 4 cut(s) 10, 594, 882, 1026
SacII CCGCGG 1 cut(s) 1034
SaqAI TTAA 1 cut(s) 942
Sau3AI GATC 2 cut(s) 240, 769
Sau96I GGNCC 5 cut(s) 96, 426, 689, 707, 843
SbfI CCTGCAGG 1 cut(s) 337
ScaI AGTACT 1 cut(s) 1027
SchI GAGTC 3 cut(s) 32, 550, 627
ScrFI CCNGG 8 cut(s) 209, 460, 543, 621, 652, 706, 980, 981
SdaI CCTGCAGG 1 cut(s) 337
SduI GDGCHC 1 cut(s) 489
SfcI CTRYAG 1 cut(s) 333
Sfr303I CCGCGG 1 cut(s) 1034
SgrBI CCGCGG 1 cut(s) 1034
SinI GGWCC 2 cut(s) 689, 843
SmaI CCCGGG 1 cut(s) 981
SmlI CTYRAG 1 cut(s) 410
SmoI CTYRAG 1 cut(s) 410
Sse8387I CCTGCAGG 1 cut(s) 337
Sse9I AATT 1 cut(s) 943
SspI AATATT 1 cut(s) 232
StyD4I CCNGG 8 cut(s) 207, 458, 541, 619, 650, 704, 978, 979
TaaI ACNGT 2 cut(s) 505, 598
TaiI ACGT 3 cut(s) 408, 516, 684
TaqI TCGA 2 cut(s) 243, 573
TasI AATT 1 cut(s) 943
TatI WGTACW 1 cut(s) 1025
TauI GCSGC 6 cut(s) 263, 495, 501, 900, 965, 1036
TfiI GAWTC 1 cut(s) 245
Tru1I TTAA 1 cut(s) 942
Tru9I TTAA 1 cut(s) 942
TscAI CASTG 1 cut(s) 508
TseFI GTSAC 5 cut(s) 370, 505, 514, 553, 986
TseI GCWGC 4 cut(s) 495, 533, 725, 816
Tsp45I GTSAC 5 cut(s) 370, 505, 514, 553, 986
TspGWI ACGGA 2 cut(s) 579, 1029
TspMI CCCGGG 1 cut(s) 979
TspRI CASTG 1 cut(s) 508
Tth111I GACNNNGTC 1 cut(s) 443
VpaK11BI GGWCC 2 cut(s) 689, 843
XmaI CCCGGG 1 cut(s) 979
ZrmI AGTACT 1 cut(s) 1027
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.