pycom09g07090

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
Chr9
OG0014578
Physical Location & Seq
Forward (+)
5267432 .. 5268166
735 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom09g07090.1

Sequence Viewer

Length: 735 bp
ATGGCAGGAGGTGCGGATCTGGCGGCTCCTTCCGTTGTGTTGAAAACTGTAATTGATCGGAGACAAGATGCCGATAAAAGCAAGAGTCACCACAGGCCTGGGATTGATGCAATGCTTATGGCACCCAAGTTGCCCAAGGAAGTGGCACCGGTTCCTGAGGGGGAGACTCTTCGCCGGCCACGTGGGAGGCCAGCAGGTTCGAAGAACAAGCCGAAGCCGCCCATCATAGTCACCCGTGACAGCGCTAATGCGCTTCGTGCTCATGCAATGGAGGTAAGTTCTGGCTGTGATCTGAGTGAGAGTTTAACCAACTTTGCAAGGAGGAAGCAGAGAGGCATTTGCATACTGAGTGGAAGCGGCTGTGTGACCAATGTCACGCTGCGACAACCAGCTTCATCTGGCGCTATTGTGACCCTCCATGGCCGGTTTGAAATCCTCTCATTGCTTGGGTCAATCCTGCCCCCGCCAGCCCCTCCAGGGATCACAGGGCTAACCATATATCTTGCAGGGGCTCAGGGGCAGGTTATAGGAGGGGGTGTGGTCGGTGCGCTCATTGCTTCGGGCCCTGTGGTGATCATGGCTGCCTCGTTCATGAACGTCACTTTTGATCGCCTGCCACTGGATGAAGAGGAAGTTGCGGCGGCTTTGCAAAATCAGCAGCACCAAAACGGCCGCCACCACCACCTGGACATCTCGGATTTATATGGACTTCCTCAGAACCTGATCGATCACTAA
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

245

Amino Acids

25.72

Weight (kDa)

9.12

Isoelectric Point (pI)

46.49

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 2 cut(s) 185, 511
AccB1I GGYRCC 2 cut(s) 121, 145
AccB7I CCANNNNNTGG 1 cut(s) 685
AciI CCGC 8 cut(s) 14, 23, 218, 357, 464, 638, 641, 673
AclWI GGATC 2 cut(s) 24, 488
AcoI YGGCCR 3 cut(s) 176, 421, 670
AcvI CACGTG 1 cut(s) 182
AfeI AGCGCT 1 cut(s) 244
AfiI CCNNNNNNNGG 3 cut(s) 477, 619, 685
AgeI ACCGGT 1 cut(s) 148
AgsI TTSAA 2 cut(s) 43, 431
AjnI CCWGG 3 cut(s) 97, 475, 684
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 2 cut(s) 24, 488
AlwNI CAGNNNCTG 1 cut(s) 721
Aor51HI AGCGCT 1 cut(s) 244
AoxI GGCC 6 cut(s) 95, 176, 188, 421, 562, 670
ApaI GGGCCC 1 cut(s) 566
ApeKI GCWGC 3 cut(s) 379, 581, 658
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
AxyI CCTNAGG 1 cut(s) 156
BaeGI GKGCMC 1 cut(s) 566
BanI GGYRCC 2 cut(s) 121, 145
BanII GRGCYC 2 cut(s) 514, 566
BbrPI CACGTG 1 cut(s) 182
Bbv12I GWGCWC 1 cut(s) 262
BbvI GCAGC 3 cut(s) 366, 568, 670
BccI CCATC 1 cut(s) 230
BceAI ACGGC 1 cut(s) 685
BciT130I CCWGG 3 cut(s) 99, 477, 686
BclI TGATCA 1 cut(s) 573
BcoDI GTCTC 2 cut(s) 55, 158
BfoI RGCGCY 2 cut(s) 246, 405
BfuAI ACCTGC 2 cut(s) 185, 511
BisI GCNGC 9 cut(s) 24, 218, 358, 380, 582, 639, 642, 659, 673
BlsI GCNGC 9 cut(s) 25, 219, 359, 381, 583, 640, 643, 660, 674
Bme1390I CCNGG 3 cut(s) 99, 477, 686
BmgT120I GGNCC 2 cut(s) 562, 563
BmiI GGNNCC 5 cut(s) 27, 123, 147, 153, 564
BmrFI CCNGG 3 cut(s) 99, 477, 686
BmsI GCATC 2 cut(s) 58, 97
BoxI GACNNNNGTC 1 cut(s) 371
BpmI CTGGAG 1 cut(s) 459
Bpu10I CCTNAGC 1 cut(s) 513
Bpu14I TTCGAA 1 cut(s) 200
Bsa29I ATCGAT 1 cut(s) 726
BsaAI YACGTR 1 cut(s) 182
BsaJI CCNNGG 4 cut(s) 98, 135, 418, 476
BsaWI WCCGGW 1 cut(s) 148
BsaXI ACNNNNNCTCC 2 cut(s) 522, 552
Bsc4I CCNNNNNNNGG 3 cut(s) 477, 619, 685
Bse118I RCCGGY 3 cut(s) 148, 174, 423
Bse1I ACTGG 1 cut(s) 624
Bse21I CCTNAGG 1 cut(s) 156
Bse3DI GCAATG 4 cut(s) 117, 273, 440, 552
BseBI CCWGG 3 cut(s) 99, 477, 686
BseCI ATCGAT 1 cut(s) 726
BseDI CCNNGG 4 cut(s) 98, 135, 418, 476
BseGI GGATG 1 cut(s) 628
BseLI CCNNNNNNNGG 3 cut(s) 477, 619, 685
BseMI GCAATG 4 cut(s) 117, 273, 440, 552
BseMII CTCAG 5 cut(s) 147, 284, 338, 527, 728
BseNI ACTGG 1 cut(s) 624
BseSI GKGCMC 1 cut(s) 566
BseX3I CGGCCG 1 cut(s) 670
BseXI GCAGC 3 cut(s) 366, 568, 670
Bsh1285I CGRYCG 1 cut(s) 673
BshFI GGCC 6 cut(s) 97, 178, 190, 423, 564, 672
BshNI GGYRCC 2 cut(s) 121, 145
BshTI ACCGGT 1 cut(s) 148
BshVI ATCGAT 1 cut(s) 726
BsiEI CGRYCG 1 cut(s) 673
BsiHKAI GWGCWC 1 cut(s) 262
BsiSI CCGG 3 cut(s) 149, 175, 424
BslI CCNNNNNNNGG 3 cut(s) 477, 619, 685
BsmAI GTCTC 2 cut(s) 55, 158
BsnI GGCC 6 cut(s) 97, 178, 190, 423, 564, 672
Bsp119I TTCGAA 1 cut(s) 200
Bsp120I GGGCCC 1 cut(s) 562
Bsp1286I GDGCHC 3 cut(s) 262, 514, 566
Bsp143I GATC 8 cut(s) 16, 55, 289, 480, 573, 607, 723, 727
Bsp19I CCATGG 1 cut(s) 418
BspACI CCGC 8 cut(s) 14, 23, 218, 357, 464, 638, 641, 673
BspANI GGCC 6 cut(s) 97, 178, 190, 423, 564, 672
BspCNI CTCAG 5 cut(s) 148, 285, 339, 526, 727
BspDI ATCGAT 1 cut(s) 726
BspHI TCATGA 1 cut(s) 591
BspLI GGNNCC 5 cut(s) 27, 123, 147, 153, 564
BspMI ACCTGC 2 cut(s) 185, 511
BspPI GGATC 2 cut(s) 24, 488
BspT104I TTCGAA 1 cut(s) 200
BspT107I GGYRCC 2 cut(s) 121, 145
BsrDI GCAATG 4 cut(s) 117, 273, 440, 552
BsrFI RCCGGY 3 cut(s) 148, 174, 423
BsrI ACTGG 1 cut(s) 624
BssAI RCCGGY 3 cut(s) 148, 174, 423
BssECI CCNNGG 4 cut(s) 98, 135, 418, 476
BssMI GATC 8 cut(s) 16, 55, 289, 480, 573, 607, 723, 727
BssT1I CCWWGG 2 cut(s) 135, 418
Bst2UI CCWGG 3 cut(s) 99, 477, 686
Bst4CI ACNGT 1 cut(s) 49
Bst6I CTCTTC 2 cut(s) 174, 621
BstAPI GCANNNNNTGC 1 cut(s) 11
BstBAI YACGTR 1 cut(s) 182
BstBI TTCGAA 1 cut(s) 200
BstC8I GCNNGC 4 cut(s) 176, 192, 468, 614
BstDEI CTNAG 5 cut(s) 156, 293, 347, 513, 714
BstDSI CCRYGG 1 cut(s) 418
BstF5I GGATG 1 cut(s) 628
BstH2I RGCGCY 2 cut(s) 246, 405
BstHHI GCGC 4 cut(s) 245, 253, 404, 550
BstKTI GATC 8 cut(s) 19, 58, 292, 483, 576, 610, 726, 730
BstMAI GTCTC 2 cut(s) 55, 158
BstMBI GATC 8 cut(s) 16, 55, 289, 480, 573, 607, 723, 727
BstMCI CGRYCG 1 cut(s) 673
BstMWI GCNNNNNNNGC 6 cut(s) 11, 20, 217, 257, 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) 566
BstV1I GCAGC 3 cut(s) 366, 568, 670
BstX2I RGATCY 1 cut(s) 16
BstXI CCANNNNNNTGG 2 cut(s) 98, 142
BstYI RGATCY 1 cut(s) 16
BstZI CGGCCG 1 cut(s) 670
Bsu15I ATCGAT 1 cut(s) 726
Bsu36I CCTNAGG 1 cut(s) 156
BsuRI GGCC 6 cut(s) 97, 178, 190, 423, 564, 672
BsuTUI ATCGAT 1 cut(s) 726
BtgI CCRYGG 1 cut(s) 418
BtsCI GGATG 1 cut(s) 628
BtsIMutI CAGTG 1 cut(s) 617
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
ClaI ATCGAT 1 cut(s) 726
CspAI ACCGGT 1 cut(s) 148
CviAII CATG 4 cut(s) 263, 419, 577, 592
DdeI CTNAG 5 cut(s) 156, 293, 347, 513, 714
DpnI GATC 8 cut(s) 18, 57, 291, 482, 575, 609, 725, 729
DpnII GATC 8 cut(s) 16, 55, 289, 480, 573, 607, 723, 727
EaeI YGGCCR 3 cut(s) 176, 421, 670
EagI CGGCCG 1 cut(s) 670
Eam1104I CTCTTC 2 cut(s) 174, 621
EarI CTCTTC 2 cut(s) 174, 621
EclXI CGGCCG 1 cut(s) 670
Eco130I CCWWGG 2 cut(s) 135, 418
Eco147I AGGCCT 1 cut(s) 97
Eco24I GRGCYC 2 cut(s) 514, 566
Eco47III AGCGCT 1 cut(s) 244
Eco52I CGGCCG 1 cut(s) 670
Eco72I CACGTG 1 cut(s) 182
Eco81I CCTNAGG 1 cut(s) 156
EcoO109I RGGNCCY 1 cut(s) 563
EcoRII CCWGG 3 cut(s) 97, 475, 684
EcoT14I CCWWGG 2 cut(s) 135, 418
EcoT38I GRGCYC 2 cut(s) 514, 566
ErhI CCWWGG 2 cut(s) 135, 418
FaeI CATG 4 cut(s) 266, 422, 580, 595
FatI CATG 4 cut(s) 262, 418, 576, 591
FauI CCCGC 1 cut(s) 471
FbaI TGATCA 1 cut(s) 573
Fnu4HI GCNGC 9 cut(s) 24, 218, 358, 380, 582, 639, 642, 659, 673
FokI GGATG 1 cut(s) 635
FriOI GRGCYC 2 cut(s) 514, 566
Fsp4HI GCNGC 9 cut(s) 24, 218, 358, 380, 582, 639, 642, 659, 673
GlaI GCGC 4 cut(s) 244, 252, 403, 549
GluI GCNGC 9 cut(s) 24, 218, 358, 380, 582, 639, 642, 659, 673
GsuI CTGGAG 1 cut(s) 459
HaeII RGCGCY 2 cut(s) 246, 405
HaeIII GGCC 6 cut(s) 97, 178, 190, 423, 564, 672
HapII CCGG 3 cut(s) 149, 175, 424
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 2 cut(s) 85, 166
HpaII CCGG 3 cut(s) 149, 175, 424
HphI GGTGA 3 cut(s) 80, 223, 583
Hpy188I TCNGA 4 cut(s) 60, 294, 697, 717
Hpy188III TCNNGA 2 cut(s) 155, 592
HpyAV CCTTC 1 cut(s) 39
HpyCH4III ACNGT 1 cut(s) 49
HpyCH4IV ACGT 2 cut(s) 181, 597
HpyCH4V TGCA 6 cut(s) 110, 266, 317, 342, 506, 649
HpyF10VI GCNNNNNNNGC 6 cut(s) 11, 20, 217, 257, 554, 655
HpyF3I CTNAG 5 cut(s) 156, 293, 347, 513, 714
HpySE526I ACGT 2 cut(s) 181, 597
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 1 cut(s) 573
Kzo9I GATC 8 cut(s) 16, 55, 289, 480, 573, 607, 723, 727
LmnI GCTCC 1 cut(s) 31
Lsp1109I GCAGC 3 cut(s) 366, 568, 670
LweI GCATC 2 cut(s) 58, 97
MaeII ACGT 2 cut(s) 181, 597
MaeIII GTNAC 7 cut(s) 86, 229, 236, 364, 373, 409, 598
MalI GATC 8 cut(s) 18, 57, 291, 482, 575, 609, 725, 729
MboI GATC 8 cut(s) 16, 55, 289, 480, 573, 607, 723, 727
MboII GAAGA 3 cut(s) 161, 214, 638
MflI RGATCY 1 cut(s) 16
MhlI GDGCHC 3 cut(s) 262, 514, 566
MluCI AATT 1 cut(s) 51
MlyI GAGTC 2 cut(s) 94, 160
MroNI GCCGGC 1 cut(s) 174
MseI TTAA 1 cut(s) 305
MspI CCGG 3 cut(s) 149, 175, 424
MspR9I CCNGG 3 cut(s) 99, 477, 686
MvaI CCWGG 3 cut(s) 99, 477, 686
MwoI GCNNNNNNNGC 6 cut(s) 11, 20, 217, 257, 554, 655
NaeI GCCGGC 1 cut(s) 176
NcoI CCATGG 1 cut(s) 418
NdeII GATC 8 cut(s) 16, 55, 289, 480, 573, 607, 723, 727
NgoMIV GCCGGC 1 cut(s) 174
NlaIII CATG 4 cut(s) 266, 422, 580, 595
NlaIV GGNNCC 5 cut(s) 27, 123, 147, 153, 564
NmuCI GTSAC 7 cut(s) 86, 229, 236, 364, 373, 409, 598
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 9 cut(s) 25, 219, 359, 381, 583, 640, 643, 660, 674
PleI GAGTC 2 cut(s) 93, 160
PmaCI CACGTG 1 cut(s) 182
PmlI CACGTG 1 cut(s) 182
PpsI GAGTC 2 cut(s) 93, 160
Ppu21I YACGTR 1 cut(s) 182
PshAI GACNNNNGTC 1 cut(s) 371
Psp6I CCWGG 3 cut(s) 97, 475, 684
PspCI CACGTG 1 cut(s) 182
PspGI CCWGG 3 cut(s) 97, 475, 684
PspN4I GGNNCC 5 cut(s) 27, 123, 147, 153, 564
PspOMI GGGCCC 1 cut(s) 562
PspPI GGNCC 2 cut(s) 562, 563
PstNI CAGNNNCTG 1 cut(s) 721
PsuI RGATCY 1 cut(s) 16
SaqAI TTAA 1 cut(s) 305
SatI GCNGC 9 cut(s) 24, 218, 358, 380, 582, 639, 642, 659, 673
Sau3AI GATC 8 cut(s) 16, 55, 289, 480, 573, 607, 723, 727
Sau96I GGNCC 2 cut(s) 562, 563
SchI GAGTC 2 cut(s) 94, 160
ScrFI CCNGG 3 cut(s) 99, 477, 686
SduI GDGCHC 3 cut(s) 262, 514, 566
SetI ASST 9 cut(s) 13, 184, 199, 276, 394, 525, 600, 687, 723
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) 14, 23, 218, 357, 464, 638, 641, 673
StuI AGGCCT 1 cut(s) 97
StyD4I CCNGG 3 cut(s) 97, 475, 684
StyI CCWWGG 2 cut(s) 135, 418
TaaI ACNGT 1 cut(s) 49
TaiI ACGT 2 cut(s) 184, 600
TaqI TCGA 2 cut(s) 200, 726
TasI AATT 1 cut(s) 51
TauI GCSGC 6 cut(s) 26, 220, 360, 641, 644, 675
Tru1I TTAA 1 cut(s) 305
Tru9I TTAA 1 cut(s) 305
TscAI CASTG 1 cut(s) 624
TseFI GTSAC 7 cut(s) 86, 229, 236, 364, 373, 409, 598
TseI GCWGC 3 cut(s) 379, 581, 658
Tsp45I GTSAC 7 cut(s) 86, 229, 236, 364, 373, 409, 598
TspDTI ATGAA 4 cut(s) 384, 580, 608, 639
TspGWI ACGGA 1 cut(s) 22
TspRI CASTG 1 cut(s) 624
Van91I CCANNNNNTGG 1 cut(s) 685
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.