MD02G1236500.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
Chr02
OG0016914
Physical Location & Seq
Forward (+)
28341774 .. 28342664
891 bp
Loading structure...
UTR
Exon/CDS
Intron
MD02G1236500.v1.1.491

Sequence Viewer

Length: 891 bp
ATGGCTGGCTTAGACTTGGGTTCAGCATCTCGGTTTGTTCATCAGCAGCTCCAACTCCCTGATCTCCACCTCCAAAGACCGCCGGACTCCGAAGATGACCACACCACCCCCAACCGCAACAATCTTTTCTCCTCTGACCACCACCAAAATGATGTTGATAATGACAATCCTCATCATCAAGGGTTTGACCTGGTGACCCCAAATCCTGGTTCGGGTGATTCCGGCGGCCGACGCTCCAGAGGTCGGCCCCCAGGGTCTAGAAACAAGCCCAAACCCCCAGTGATCATAACTCGTGAGAGCGCAAACACCCTAAGAGCACATATTTTGGAGGTCAGCAGTGGCTGTGATGTGTTTGATTCCGTAGGCACTTATGCGAGGAAAAGGCAGCGAGGGATTTGTGTTTTGAGTGGGAGTGGTATGGTGACCAACGTGAGCTTGCGTCAACCGTCTGCGGCTGGCGCGGTTCTCACACTGCACGGCAGATTTGAGATTCTGTCATTAACAGGTTCATTTCTGCCGCCGCCTGCACCTCCTGGGGCCACCAGCCTCACAATATTTTTAGCTGGTGGTCAAGGCCAGGTTGTGGGTGGAAATGTTGTGGGAGCACTAATAGCATCTGGACCTGTTATTGTCATAGCCTCATCGTTTACCAACGTGGCTTATGAGAGATTGCCCTTGGAGGAAGAGGAGCAGCTGCAGATGCAGCAGACTGTGCCACAGTCCTCAGGTGGCGGAGGCGGTGGTGATGGCAGCGGTGGCGGAGGAGTAAGCAACCCCTTTCCAGATCCGTCTTCGGGGCTTCCCTTCTTTAACCTGCCACTCAATAACATGCCTCATCAGCTGCAGGTTGATAGTTGGGGAGGAAACTCTGCTGTGCGGCCGCCTTATTGA
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

297

Amino Acids

31.02

Weight (kDa)

6.03

Isoelectric Point (pI)

58.83

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 105 - 218 1e-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) 822, 835
AccB7I CCANNNNNTGG 2 cut(s) 206, 583
AccII CGCG 1 cut(s) 461
AclWI GGATC 1 cut(s) 779
AcoI YGGCCR 2 cut(s) 226, 878
AfiI CCNNNNNNNGG 5 cut(s) 206, 212, 243, 583, 794
AjnI CCWGG 5 cut(s) 189, 205, 250, 532, 576
AjuI GAANNNNNNNTTGG 2 cut(s) 193, 225
AluBI AGCT 5 cut(s) 49, 435, 563, 694, 841
AluI AGCT 5 cut(s) 49, 435, 563, 694, 841
Alw21I GWGCWC 2 cut(s) 319, 607
AlwI GGATC 1 cut(s) 779
AlwNI CAGNNNCTG 1 cut(s) 342
AoxI GGCC 5 cut(s) 226, 245, 537, 574, 878
ApeKI GCWGC 7 cut(s) 46, 385, 691, 694, 703, 750, 841
AspLEI GCGC 2 cut(s) 302, 461
AspS9I GGNCC 3 cut(s) 246, 537, 620
AsuHPI GGTGA 4 cut(s) 205, 227, 433, 755
AvaII GGWCC 1 cut(s) 620
AxyI CCTNAGG 1 cut(s) 724
BauI CACGAG 1 cut(s) 291
BbsI GAAGAC 1 cut(s) 783
Bbv12I GWGCWC 2 cut(s) 319, 607
BbvI GCAGC 7 cut(s) 58, 397, 681, 703, 715, 762, 828
BccI CCATC 1 cut(s) 740
BceAI ACGGC 1 cut(s) 493
BciT130I CCWGG 5 cut(s) 191, 207, 252, 534, 578
BclI TGATCA 1 cut(s) 282
BfaI CTAG 1 cut(s) 258
BfmI CTRYAG 2 cut(s) 695, 842
BfuAI ACCTGC 2 cut(s) 822, 835
Bme1390I CCNGG 5 cut(s) 191, 207, 252, 534, 578
Bme18I GGWCC 1 cut(s) 620
BmgT120I GGNCC 3 cut(s) 246, 537, 620
BmiI GGNNCC 2 cut(s) 248, 538
BmrFI CCNGG 5 cut(s) 191, 207, 252, 534, 578
BmrI ACTGGG 1 cut(s) 272
BmsI GCATC 3 cut(s) 35, 623, 690
BmuI ACTGGG 1 cut(s) 272
BpiI GAAGAC 1 cut(s) 783
BpmI CTGGAG 1 cut(s) 220
BsaJI CCNNGG 4 cut(s) 250, 251, 533, 675
Bsc4I CCNNNNNNNGG 5 cut(s) 206, 212, 243, 583, 794
Bse1I ACTGG 1 cut(s) 278
Bse21I CCTNAGG 1 cut(s) 724
BseBI CCWGG 5 cut(s) 191, 207, 252, 534, 578
BseDI CCNNGG 4 cut(s) 250, 251, 533, 675
BseLI CCNNNNNNNGG 5 cut(s) 206, 212, 243, 583, 794
BseMII CTCAG 1 cut(s) 738
BseNI ACTGG 1 cut(s) 278
BseRI GAGGAG 3 cut(s) 121, 701, 777
BseX3I CGGCCG 2 cut(s) 226, 878
BseXI GCAGC 7 cut(s) 58, 397, 681, 703, 715, 762, 828
BsgI GTGCAG 2 cut(s) 458, 510
Bsh1236I CGCG 1 cut(s) 461
Bsh1285I CGRYCG 2 cut(s) 229, 881
BshFI GGCC 5 cut(s) 228, 247, 539, 576, 880
BsiEI CGRYCG 2 cut(s) 229, 881
BsiHKAI GWGCWC 2 cut(s) 319, 607
BsiSI CCGG 2 cut(s) 83, 222
BslI CCNNNNNNNGG 5 cut(s) 206, 212, 243, 583, 794
BsnI GGCC 5 cut(s) 228, 247, 539, 576, 880
Bsp1286I GDGCHC 2 cut(s) 319, 607
Bsp143I GATC 3 cut(s) 61, 282, 784
BspANI GGCC 5 cut(s) 228, 247, 539, 576, 880
BspCNI CTCAG 1 cut(s) 737
BspFNI CGCG 1 cut(s) 461
BspLI GGNNCC 2 cut(s) 248, 538
BspMAI CTGCAG 2 cut(s) 699, 846
BspMI ACCTGC 2 cut(s) 822, 835
BspPI GGATC 1 cut(s) 779
BsrI ACTGG 1 cut(s) 278
BssECI CCNNGG 4 cut(s) 250, 251, 533, 675
BssMI GATC 3 cut(s) 61, 282, 784
BssSI CACGAG 1 cut(s) 291
BssT1I CCWWGG 1 cut(s) 675
Bst2BI CACGAG 1 cut(s) 291
Bst2UI CCWGG 5 cut(s) 191, 207, 252, 534, 578
Bst4CI ACNGT 3 cut(s) 447, 712, 720
Bst6I CTCTTC 1 cut(s) 678
BstAPI GCANNNNNTGC 1 cut(s) 712
BstC8I GCNNGC 4 cut(s) 7, 437, 457, 525
BstDEI CTNAG 3 cut(s) 10, 311, 724
BstEII GGTNACC 2 cut(s) 193, 421
BstFNI CGCG 1 cut(s) 461
BstHHI GCGC 2 cut(s) 302, 461
BstKTI GATC 3 cut(s) 64, 285, 787
BstMBI GATC 3 cut(s) 61, 282, 784
BstMCI CGRYCG 2 cut(s) 229, 881
BstMWI GCNNNNNNNGC 8 cut(s) 231, 458, 611, 700, 703, 712, 756, 838
BstNI CCWGG 5 cut(s) 191, 207, 252, 534, 578
BstNSI RCATGY 1 cut(s) 832
BstPI GGTNACC 2 cut(s) 193, 421
BstSCI CCNGG 5 cut(s) 189, 205, 250, 532, 576
BstSFI CTRYAG 2 cut(s) 695, 842
BstUI CGCG 1 cut(s) 461
BstV1I GCAGC 7 cut(s) 58, 397, 681, 703, 715, 762, 828
BstV2I GAAGAC 1 cut(s) 783
BstX2I RGATCY 1 cut(s) 784
BstYI RGATCY 1 cut(s) 784
BstZI CGGCCG 2 cut(s) 226, 878
Bsu36I CCTNAGG 1 cut(s) 724
BsuRI GGCC 5 cut(s) 228, 247, 539, 576, 880
BtsI GCAGTG 2 cut(s) 343, 470
BtsIMutI CAGTG 3 cut(s) 285, 343, 470
BveI ACCTGC 2 cut(s) 822, 835
Cac8I GCNNGC 4 cut(s) 7, 437, 457, 525
CaiI CAGNNNCTG 1 cut(s) 342
CciNI GCGGCCGC 1 cut(s) 878
CfoI GCGC 2 cut(s) 302, 461
Cfr13I GGNCC 3 cut(s) 246, 537, 620
CseI GACGC 2 cut(s) 240, 428
CsiI ACCWGGT 1 cut(s) 189
CviAII CATG 1 cut(s) 829
DdeI CTNAG 3 cut(s) 10, 311, 724
DpnI GATC 3 cut(s) 63, 284, 786
DpnII GATC 3 cut(s) 61, 282, 784
EaeI YGGCCR 2 cut(s) 226, 878
EagI CGGCCG 2 cut(s) 226, 878
Eam1104I CTCTTC 1 cut(s) 678
EarI CTCTTC 1 cut(s) 678
EciI GGCGGA 2 cut(s) 747, 774
EclXI CGGCCG 2 cut(s) 226, 878
Eco130I CCWWGG 1 cut(s) 675
Eco47I GGWCC 1 cut(s) 620
Eco52I CGGCCG 2 cut(s) 226, 878
Eco81I CCTNAGG 1 cut(s) 724
Eco91I GGTNACC 2 cut(s) 193, 421
EcoO65I GGTNACC 2 cut(s) 193, 421
EcoRII CCWGG 5 cut(s) 189, 205, 250, 532, 576
EcoT14I CCWWGG 1 cut(s) 675
ErhI CCWWGG 1 cut(s) 675
FaeI CATG 1 cut(s) 832
FaiI YATR 7 cut(s) 287, 321, 372, 419, 635, 663, 830
FatI CATG 1 cut(s) 828
FbaI TGATCA 1 cut(s) 282
FspBI CTAG 1 cut(s) 258
GlaI GCGC 2 cut(s) 301, 460
GsuI CTGGAG 1 cut(s) 220
HaeIII GGCC 5 cut(s) 228, 247, 539, 576, 880
HapII CCGG 2 cut(s) 83, 222
HgaI GACGC 2 cut(s) 240, 428
HhaI GCGC 2 cut(s) 302, 461
Hin1II CATG 1 cut(s) 832
Hin6I GCGC 2 cut(s) 300, 459
HinP1I GCGC 2 cut(s) 300, 459
HincII GTYRAC 1 cut(s) 443
HindII GTYRAC 1 cut(s) 443
HinfI GANTC 4 cut(s) 86, 218, 356, 490
HpaII CCGG 2 cut(s) 83, 222
HphI GGTGA 4 cut(s) 205, 227, 433, 755
Hpy166II GTNNAC 2 cut(s) 443, 648
Hpy188I TCNGA 2 cut(s) 91, 136
Hpy188III TCNNGA 5 cut(s) 237, 258, 293, 618, 782
Hpy8I GTNNAC 2 cut(s) 443, 648
Hpy99I CGWCG 1 cut(s) 234
HpyAV CCTTC 1 cut(s) 814
HpyCH4III ACNGT 3 cut(s) 447, 712, 720
HpyCH4IV ACGT 2 cut(s) 429, 654
HpyCH4V TGCA 5 cut(s) 475, 527, 697, 703, 844
HpyF10VI GCNNNNNNNGC 8 cut(s) 231, 458, 611, 700, 703, 712, 756, 838
HpyF3I CTNAG 3 cut(s) 10, 311, 724
HpySE526I ACGT 2 cut(s) 429, 654
Hsp92II CATG 1 cut(s) 832
HspAI GCGC 2 cut(s) 300, 459
Ksp22I TGATCA 1 cut(s) 282
Kzo9I GATC 3 cut(s) 61, 282, 784
LmnI GCTCC 4 cut(s) 54, 239, 602, 688
Lsp1109I GCAGC 7 cut(s) 58, 397, 681, 703, 715, 762, 828
LweI GCATC 3 cut(s) 35, 623, 690
MabI ACCWGGT 1 cut(s) 189
MaeI CTAG 1 cut(s) 258
MaeII ACGT 2 cut(s) 429, 654
MaeIII GTNAC 2 cut(s) 193, 421
MalI GATC 3 cut(s) 63, 284, 786
MboI GATC 3 cut(s) 61, 282, 784
MboII GAAGA 3 cut(s) 104, 695, 783
MflI RGATCY 1 cut(s) 784
MhlI GDGCHC 2 cut(s) 319, 607
MlyI GAGTC 1 cut(s) 80
MmeI TCCRAC 1 cut(s) 76
MseI TTAA 2 cut(s) 500, 810
MslI CAYNNNNRTG 1 cut(s) 147
MspA1I CMGCKG 3 cut(s) 694, 753, 841
MspI CCGG 2 cut(s) 83, 222
MspR9I CCNGG 5 cut(s) 191, 207, 252, 534, 578
MvaI CCWGG 5 cut(s) 191, 207, 252, 534, 578
MvnI CGCG 1 cut(s) 461
MwoI GCNNNNNNNGC 8 cut(s) 231, 458, 611, 700, 703, 712, 756, 838
NdeII GATC 3 cut(s) 61, 282, 784
NlaIII CATG 1 cut(s) 832
NlaIV GGNNCC 2 cut(s) 248, 538
NmuCI GTSAC 2 cut(s) 193, 421
NotI GCGGCCGC 1 cut(s) 878
NspI RCATGY 1 cut(s) 832
PasI CCCWGGG 1 cut(s) 251
PfeI GAWTC 3 cut(s) 218, 356, 490
PflMI CCANNNNNTGG 2 cut(s) 206, 583
PleI GAGTC 1 cut(s) 80
PpsI GAGTC 1 cut(s) 80
Psp6I CCWGG 5 cut(s) 189, 205, 250, 532, 576
PspEI GGTNACC 2 cut(s) 193, 421
PspGI CCWGG 5 cut(s) 189, 205, 250, 532, 576
PspN4I GGNNCC 2 cut(s) 248, 538
PspPI GGNCC 3 cut(s) 246, 537, 620
PstI CTGCAG 2 cut(s) 699, 846
PstNI CAGNNNCTG 1 cut(s) 342
PsuI RGATCY 1 cut(s) 784
PvuII CAGCTG 2 cut(s) 694, 841
RseI CAYNNNNRTG 1 cut(s) 147
SaqAI TTAA 2 cut(s) 500, 810
Sau3AI GATC 3 cut(s) 61, 282, 784
Sau96I GGNCC 3 cut(s) 246, 537, 620
SchI GAGTC 1 cut(s) 80
ScrFI CCNGG 5 cut(s) 191, 207, 252, 534, 578
SduI GDGCHC 2 cut(s) 319, 607
SexAI ACCWGGT 1 cut(s) 189
SfaNI GCATC 3 cut(s) 35, 623, 690
SfcI CTRYAG 2 cut(s) 695, 842
SinI GGWCC 1 cut(s) 620
SmiMI CAYNNNNRTG 1 cut(s) 147
SspI AATATT 1 cut(s) 555
SspMI CTAG 1 cut(s) 258
StyD4I CCNGG 5 cut(s) 189, 205, 250, 532, 576
StyI CCWWGG 1 cut(s) 675
TaaI ACNGT 3 cut(s) 447, 712, 720
TaiI ACGT 2 cut(s) 432, 657
TauI GCSGC 6 cut(s) 228, 455, 520, 523, 880, 883
TfiI GAWTC 3 cut(s) 218, 356, 490
Tru1I TTAA 2 cut(s) 500, 810
Tru9I TTAA 2 cut(s) 500, 810
TscAI CASTG 3 cut(s) 285, 343, 477
TseFI GTSAC 2 cut(s) 193, 421
TseI GCWGC 7 cut(s) 46, 385, 691, 694, 703, 750, 841
Tsp45I GTSAC 2 cut(s) 193, 421
TspDTI ATGAA 2 cut(s) 29, 498
TspGWI ACGGA 2 cut(s) 349, 777
TspRI CASTG 3 cut(s) 285, 343, 477
Van91I CCANNNNNTGG 2 cut(s) 206, 583
VpaK11BI GGWCC 1 cut(s) 620
XbaI TCTAGA 1 cut(s) 257
XceI RCATGY 1 cut(s) 832
XcmI CCANNNNNNNNNTGG 1 cut(s) 584
XspI CTAG 1 cut(s) 258
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.