pycom02g19880

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
Chr2
OG0016914
Physical Location & Seq
Reverse (-)
17967253 .. 17968140
888 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom02g19880.1

Sequence Viewer

Length: 888 bp
ATGGCTGGCTTAGACTTGGGTTCAGCATCTCGGTTTGTTCATCAGCAGCTCCAACTCCCTGATCTCCACCTCCAAAGACCGCCGGACTCCGAAGATGACCACACCACCCCCAACCGCAACAATCTTTTCTCCTCTGACCACCACCAAAATGATGTTGATAATGACAATCCTCATCAAGGGTTTGACCTGGTGACCCCAAATCCTGGTTCGGGTGATTCAGGGGGCCGACGGTCCAGAGGTCGGCCCCCAGGGTCTAGAAACAAGCTCAAACCCCCAGTGATCATAACTCGTGAGAGCGCAAACACCCTAAGAGCACATATTTTGGAGGTCAGCAGTGGCTGTGATGTGTTTGATTCCGTCGGCACTTATGCGAGGAAAAGGCAGCGAGGGATTTGTGTTTTGAGTGGGAGTGGTATGGTGACCAACGTGAGCTTGCGTCAACCATCAGCGGCTGGCGCAGTTCTCACACTGCACGGCAGATTTGAGATTCTGTCATTAACAGGTTCATTTCTGCCGCCGCCTGCACCTCCTGGGGCCACCAGCCTCACAATATTTTTAGCTGGTGGTCAAGGCCAGGTTGTGGGTGGAAATGTTGTGGGATCACTAATAGCATCTGGACCTGTTATTGTCATAGCCTCATCGTTTACCAACGTGGCTTATGAGAGATTGCCCTTGGAGGAAGAGGAGCAGCTACAGATGCAGCAGCCTGTGCCACAGTCCTCAGGTGGCGGAGGCGGTGGTGATGGCAGCGGTGGCGTAGGAGTAAGCAACCCCTTTCCAGATCCGTCTTCGGGGCTTCCCTTCTTTAACCTGCCGCTGAATAACATGCCTCATCAGCTGCAGGTCGATAATTGGGGAGGAAACTCTGCTGGGCGGCCGCCTTATTGA
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

296

Amino Acids

30.94

Weight (kDa)

5.96

Isoelectric Point (pI)

58.14

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 104 - 217 1.4e-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: OG0016914)

Species Orthologous Gene IDs
fragaria_vesca FvH4_7g08070
malus_domestica MD02G1236500.v1.1 MD07G1083600.v1.1
prunus_persica Prupe.2G108200_v2.0.a1
pyrus_communis pycom02g19880
rosa_chinensis RchiOBHm_Chr1g0341251
rosa_laevigata RLG00000029075
rosa_multiflora Rmu_sc0004092.1_g000044
rosa_rugosa Rorug01G0158500.1
rosa_samantha Rh1AG172800 Rh1BG140900 Rh1CG160900 Rh1DG173100
rosa_wichuraiana Rw1G014420

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 2 cut(s) 819, 832
AccB7I CCANNNNNTGG 2 cut(s) 203, 580
AclWI GGATC 2 cut(s) 607, 776
AcoI YGGCCR 1 cut(s) 875
AfiI CCNNNNNNNGG 6 cut(s) 176, 203, 209, 240, 580, 791
AjnI CCWGG 5 cut(s) 186, 202, 247, 529, 573
AjuI GAANNNNNNNTTGG 2 cut(s) 190, 222
AluBI AGCT 6 cut(s) 49, 265, 432, 560, 691, 838
AluI AGCT 6 cut(s) 49, 265, 432, 560, 691, 838
Alw21I GWGCWC 1 cut(s) 316
AlwI GGATC 2 cut(s) 607, 776
AlwNI CAGNNNCTG 2 cut(s) 339, 452
AoxI GGCC 5 cut(s) 223, 242, 534, 571, 875
ApeKI GCWGC 7 cut(s) 46, 382, 688, 700, 703, 747, 838
AspLEI GCGC 2 cut(s) 299, 458
AspS9I GGNCC 5 cut(s) 223, 231, 243, 534, 617
AsuHPI GGTGA 4 cut(s) 202, 224, 430, 752
AvaII GGWCC 2 cut(s) 231, 617
AxyI CCTNAGG 1 cut(s) 721
BauI CACGAG 1 cut(s) 288
BbsI GAAGAC 1 cut(s) 780
Bbv12I GWGCWC 1 cut(s) 316
BbvI GCAGC 7 cut(s) 58, 394, 700, 712, 715, 759, 825
BccI CCATC 2 cut(s) 451, 737
BceAI ACGGC 1 cut(s) 490
BciT130I CCWGG 5 cut(s) 188, 204, 249, 531, 575
BclI TGATCA 1 cut(s) 279
BfaI CTAG 1 cut(s) 255
BfmI CTRYAG 2 cut(s) 692, 839
BfuAI ACCTGC 2 cut(s) 819, 832
Bme1390I CCNGG 5 cut(s) 188, 204, 249, 531, 575
Bme18I GGWCC 2 cut(s) 231, 617
BmgT120I GGNCC 5 cut(s) 223, 231, 243, 534, 617
BmiI GGNNCC 3 cut(s) 224, 245, 535
BmrFI CCNGG 5 cut(s) 188, 204, 249, 531, 575
BmrI ACTGGG 1 cut(s) 269
BmsI GCATC 3 cut(s) 35, 620, 687
BmuI ACTGGG 1 cut(s) 269
BpiI GAAGAC 1 cut(s) 780
BsaJI CCNNGG 4 cut(s) 247, 248, 530, 672
Bsc4I CCNNNNNNNGG 6 cut(s) 176, 203, 209, 240, 580, 791
Bse1I ACTGG 1 cut(s) 275
Bse21I CCTNAGG 1 cut(s) 721
BseBI CCWGG 5 cut(s) 188, 204, 249, 531, 575
BseDI CCNNGG 4 cut(s) 247, 248, 530, 672
BseLI CCNNNNNNNGG 6 cut(s) 176, 203, 209, 240, 580, 791
BseMII CTCAG 1 cut(s) 735
BseNI ACTGG 1 cut(s) 275
BseRI GAGGAG 2 cut(s) 121, 698
BseX3I CGGCCG 1 cut(s) 875
BseXI GCAGC 7 cut(s) 58, 394, 700, 712, 715, 759, 825
BseYI CCCAGC 1 cut(s) 869
BsgI GTGCAG 2 cut(s) 455, 507
Bsh1285I CGRYCG 1 cut(s) 878
BshFI GGCC 5 cut(s) 225, 244, 536, 573, 877
BsiEI CGRYCG 1 cut(s) 878
BsiHKAI GWGCWC 1 cut(s) 316
BsiSI CCGG 1 cut(s) 83
BslI CCNNNNNNNGG 6 cut(s) 176, 203, 209, 240, 580, 791
BsnI GGCC 5 cut(s) 225, 244, 536, 573, 877
Bsp1286I GDGCHC 1 cut(s) 316
Bsp143I GATC 4 cut(s) 61, 279, 599, 781
BspANI GGCC 5 cut(s) 225, 244, 536, 573, 877
BspCNI CTCAG 1 cut(s) 734
BspLI GGNNCC 3 cut(s) 224, 245, 535
BspMAI CTGCAG 1 cut(s) 843
BspMI ACCTGC 2 cut(s) 819, 832
BspPI GGATC 2 cut(s) 607, 776
BsrI ACTGG 1 cut(s) 275
BssECI CCNNGG 4 cut(s) 247, 248, 530, 672
BssMI GATC 4 cut(s) 61, 279, 599, 781
BssSI CACGAG 1 cut(s) 288
BssT1I CCWWGG 1 cut(s) 672
Bst2BI CACGAG 1 cut(s) 288
Bst2UI CCWGG 5 cut(s) 188, 204, 249, 531, 575
Bst4CI ACNGT 2 cut(s) 231, 717
Bst6I CTCTTC 1 cut(s) 675
BstAPI GCANNNNNTGC 1 cut(s) 709
BstC8I GCNNGC 4 cut(s) 7, 434, 454, 522
BstDEI CTNAG 3 cut(s) 10, 308, 721
BstEII GGTNACC 2 cut(s) 190, 418
BstENI CCTNNNNNAGG 1 cut(s) 174
BstHHI GCGC 2 cut(s) 299, 458
BstKTI GATC 4 cut(s) 64, 282, 602, 784
BstMBI GATC 4 cut(s) 61, 279, 599, 781
BstMCI CGRYCG 1 cut(s) 878
BstMWI GCNNNNNNNGC 5 cut(s) 455, 697, 709, 753, 835
BstNI CCWGG 5 cut(s) 188, 204, 249, 531, 575
BstNSI RCATGY 1 cut(s) 829
BstPI GGTNACC 2 cut(s) 190, 418
BstSCI CCNGG 5 cut(s) 186, 202, 247, 529, 573
BstSFI CTRYAG 2 cut(s) 692, 839
BstV1I GCAGC 7 cut(s) 58, 394, 700, 712, 715, 759, 825
BstV2I GAAGAC 1 cut(s) 780
BstX2I RGATCY 1 cut(s) 781
BstYI RGATCY 1 cut(s) 781
BstZI CGGCCG 1 cut(s) 875
Bsu36I CCTNAGG 1 cut(s) 721
BsuRI GGCC 5 cut(s) 225, 244, 536, 573, 877
BtsI GCAGTG 2 cut(s) 340, 467
BtsIMutI CAGTG 3 cut(s) 282, 340, 467
BveI ACCTGC 2 cut(s) 819, 832
Cac8I GCNNGC 4 cut(s) 7, 434, 454, 522
CaiI CAGNNNCTG 2 cut(s) 339, 452
CciNI GCGGCCGC 1 cut(s) 875
CfoI GCGC 2 cut(s) 299, 458
Cfr13I GGNCC 5 cut(s) 223, 231, 243, 534, 617
CseI GACGC 1 cut(s) 425
CsiI ACCWGGT 1 cut(s) 186
CviAII CATG 1 cut(s) 826
DdeI CTNAG 3 cut(s) 10, 308, 721
DpnI GATC 4 cut(s) 63, 281, 601, 783
DpnII GATC 4 cut(s) 61, 279, 599, 781
EaeI YGGCCR 1 cut(s) 875
EagI CGGCCG 1 cut(s) 875
Eam1104I CTCTTC 1 cut(s) 675
EarI CTCTTC 1 cut(s) 675
EciI GGCGGA 1 cut(s) 744
EclXI CGGCCG 1 cut(s) 875
Eco130I CCWWGG 1 cut(s) 672
Eco47I GGWCC 2 cut(s) 231, 617
Eco52I CGGCCG 1 cut(s) 875
Eco81I CCTNAGG 1 cut(s) 721
Eco91I GGTNACC 2 cut(s) 190, 418
EcoNI CCTNNNNNAGG 1 cut(s) 174
EcoO65I GGTNACC 2 cut(s) 190, 418
EcoRII CCWGG 5 cut(s) 186, 202, 247, 529, 573
EcoT14I CCWWGG 1 cut(s) 672
ErhI CCWWGG 1 cut(s) 672
FaeI CATG 1 cut(s) 829
FaiI YATR 7 cut(s) 284, 318, 369, 416, 632, 660, 827
FatI CATG 1 cut(s) 825
FbaI TGATCA 1 cut(s) 279
FspBI CTAG 1 cut(s) 255
GlaI GCGC 2 cut(s) 298, 457
GsaI CCCAGC 1 cut(s) 873
HaeIII GGCC 5 cut(s) 225, 244, 536, 573, 877
HapII CCGG 1 cut(s) 83
HgaI GACGC 1 cut(s) 425
HhaI GCGC 2 cut(s) 299, 458
Hin1II CATG 1 cut(s) 829
Hin6I GCGC 2 cut(s) 297, 456
HinP1I GCGC 2 cut(s) 297, 456
HincII GTYRAC 1 cut(s) 440
HindII GTYRAC 1 cut(s) 440
HinfI GANTC 4 cut(s) 86, 215, 353, 487
HpaII CCGG 1 cut(s) 83
HphI GGTGA 4 cut(s) 202, 224, 430, 752
Hpy166II GTNNAC 2 cut(s) 440, 645
Hpy188I TCNGA 2 cut(s) 91, 136
Hpy188III TCNNGA 5 cut(s) 234, 255, 290, 615, 779
Hpy8I GTNNAC 2 cut(s) 440, 645
Hpy99I CGWCG 2 cut(s) 231, 362
HpyAV CCTTC 1 cut(s) 811
HpyCH4III ACNGT 2 cut(s) 231, 717
HpyCH4IV ACGT 2 cut(s) 426, 651
HpyCH4V TGCA 4 cut(s) 472, 524, 700, 841
HpyF10VI GCNNNNNNNGC 5 cut(s) 455, 697, 709, 753, 835
HpyF3I CTNAG 3 cut(s) 10, 308, 721
HpySE526I ACGT 2 cut(s) 426, 651
Hsp92II CATG 1 cut(s) 829
HspAI GCGC 2 cut(s) 297, 456
Ksp22I TGATCA 1 cut(s) 279
Kzo9I GATC 4 cut(s) 61, 279, 599, 781
LmnI GCTCC 2 cut(s) 54, 685
Lsp1109I GCAGC 7 cut(s) 58, 394, 700, 712, 715, 759, 825
LweI GCATC 3 cut(s) 35, 620, 687
MabI ACCWGGT 1 cut(s) 186
MaeI CTAG 1 cut(s) 255
MaeII ACGT 2 cut(s) 426, 651
MaeIII GTNAC 2 cut(s) 190, 418
MalI GATC 4 cut(s) 63, 281, 601, 783
MboI GATC 4 cut(s) 61, 279, 599, 781
MboII GAAGA 3 cut(s) 104, 692, 780
MflI RGATCY 1 cut(s) 781
MhlI GDGCHC 1 cut(s) 316
MluCI AATT 1 cut(s) 850
MlyI GAGTC 1 cut(s) 80
MmeI TCCRAC 1 cut(s) 76
MseI TTAA 2 cut(s) 497, 807
MslI CAYNNNNRTG 1 cut(s) 147
MspA1I CMGCKG 4 cut(s) 449, 750, 817, 838
MspI CCGG 1 cut(s) 83
MspR9I CCNGG 5 cut(s) 188, 204, 249, 531, 575
MvaI CCWGG 5 cut(s) 188, 204, 249, 531, 575
MwoI GCNNNNNNNGC 5 cut(s) 455, 697, 709, 753, 835
NdeII GATC 4 cut(s) 61, 279, 599, 781
NlaIII CATG 1 cut(s) 829
NlaIV GGNNCC 3 cut(s) 224, 245, 535
NmuCI GTSAC 2 cut(s) 190, 418
NotI GCGGCCGC 1 cut(s) 875
NspI RCATGY 1 cut(s) 829
PasI CCCWGGG 1 cut(s) 248
PfeI GAWTC 3 cut(s) 215, 353, 487
PflMI CCANNNNNTGG 2 cut(s) 203, 580
PleI GAGTC 1 cut(s) 80
PpsI GAGTC 1 cut(s) 80
Psp6I CCWGG 5 cut(s) 186, 202, 247, 529, 573
PspEI GGTNACC 2 cut(s) 190, 418
PspFI CCCAGC 1 cut(s) 869
PspGI CCWGG 5 cut(s) 186, 202, 247, 529, 573
PspN4I GGNNCC 3 cut(s) 224, 245, 535
PspPI GGNCC 5 cut(s) 223, 231, 243, 534, 617
PstI CTGCAG 1 cut(s) 843
PstNI CAGNNNCTG 2 cut(s) 339, 452
PsuI RGATCY 1 cut(s) 781
PvuII CAGCTG 1 cut(s) 838
RseI CAYNNNNRTG 1 cut(s) 147
SaqAI TTAA 2 cut(s) 497, 807
Sau3AI GATC 4 cut(s) 61, 279, 599, 781
Sau96I GGNCC 5 cut(s) 223, 231, 243, 534, 617
SchI GAGTC 1 cut(s) 80
ScrFI CCNGG 5 cut(s) 188, 204, 249, 531, 575
SduI GDGCHC 1 cut(s) 316
SexAI ACCWGGT 1 cut(s) 186
SfaNI GCATC 3 cut(s) 35, 620, 687
SfcI CTRYAG 2 cut(s) 692, 839
SinI GGWCC 2 cut(s) 231, 617
SmiMI CAYNNNNRTG 1 cut(s) 147
Sse9I AATT 1 cut(s) 850
SspI AATATT 1 cut(s) 552
SspMI CTAG 1 cut(s) 255
StyD4I CCNGG 5 cut(s) 186, 202, 247, 529, 573
StyI CCWWGG 1 cut(s) 672
TaaI ACNGT 2 cut(s) 231, 717
TaiI ACGT 2 cut(s) 429, 654
TaqI TCGA 1 cut(s) 846
TasI AATT 1 cut(s) 850
TauI GCSGC 6 cut(s) 452, 517, 520, 817, 877, 880
TfiI GAWTC 3 cut(s) 215, 353, 487
Tru1I TTAA 2 cut(s) 497, 807
Tru9I TTAA 2 cut(s) 497, 807
TscAI CASTG 3 cut(s) 282, 340, 474
TseFI GTSAC 2 cut(s) 190, 418
TseI GCWGC 7 cut(s) 46, 382, 688, 700, 703, 747, 838
Tsp45I GTSAC 2 cut(s) 190, 418
TspDTI ATGAA 2 cut(s) 29, 495
TspGWI ACGGA 2 cut(s) 346, 774
TspRI CASTG 3 cut(s) 282, 340, 474
Van91I CCANNNNNTGG 2 cut(s) 203, 580
VpaK11BI GGWCC 2 cut(s) 231, 617
XagI CCTNNNNNAGG 1 cut(s) 174
XbaI TCTAGA 1 cut(s) 254
XceI RCATGY 1 cut(s) 829
XcmI CCANNNNNNNNNTGG 1 cut(s) 581
XspI CTAG 1 cut(s) 255
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.