MD07G1083600.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
Chr07
OG0016914
Physical Location & Seq
Reverse (-)
8510744 .. 8511634
891 bp
Loading structure...
UTR
Exon/CDS
Intron
MD07G1083600.v1.1.491

Sequence Viewer

Length: 891 bp
ATGGCTGGCTTAGACTTGGGTTCAGCATCTCGGTTTGTTCATCAGCAGCTCCAACTCCCTGATCTCCACCTCCAAAGACCACCGGACTCCGAAGATGACCACACCACCCCCAACCGCAACAATCTTTTCTCCTCTGACCACCACCAAAATGATGTTGATGATGACAATCCTCATCATCAAGGACTTGACCTGGTGACCCCAAATTCTGGTTCCGGTGACTCTGGGGGCCGACGCTCCAGAGGTCGGCCCCCAGGGTCTAGAAACAAGCCCAAGCCCCCGGTGATCATAACTCGTGAGAGCGCAAACACCCTAAGAGCACATATTTTGGAAGTCACCAGCGGTTGTGATGTGTTTGATTCCGTTGGCACCTACGCGAGGAAAAGGCAGCGAGGGATTTGTGTTTTGAGTGGGAGTGGAATGGTGACCAACGTGAGCTTGCGCCAGCCGACTGCGGCTGGTGCAGTTGTCACGCTGCACGGCAGATTTGAGATTCTATCATTAACAGGCTCATTTCTACCACCACCTGCGCCGCCTGGAGCCACCAGCCTCACAATATTTTTGGCTGGTGGACAAGGCCAGGTTGTGGGCGGAAATGTTGTGGGAGCACTAATAGCATCTGGACCTGTTATTGTCATAGCCTCATCCTTTACCAACGTGGCTTATGAAAGATTGCCCTTGGAGGAAGAGGAGCAGCTGCAGATGCAGCAGCCTTTGCCACAGTCTTCAGGTGGCGGTGGCGGTGGTGAAGGCAGCGGTGGCGGAGGAGCAAGCAACCCCTTTCCAGATCCATCTTCGGGGCTTCCCTTCTTTAATCTGCCACTCAATAACATGACTCATCAGCTGCAGGTTGATAGTTGGGGAGGAAACTCTGCTGGGCGGCCGCCTTATTGA
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

30.95

Weight (kDa)

5.89

Isoelectric Point (pI)

55.17

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 105 - 218 7.2e-23 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)
AarI CACCTGC 1 cut(s) 532
Acc36I ACCTGC 2 cut(s) 532, 835
AccB1I GGYRCC 1 cut(s) 365
AccB7I CCANNNNNTGG 2 cut(s) 206, 583
AccII CGCG 1 cut(s) 374
AclWI GGATC 1 cut(s) 779
AcoI YGGCCR 1 cut(s) 878
AcsI RAATTY 1 cut(s) 202
AcuI CTGAAG 1 cut(s) 708
AfiI CCNNNNNNNGG 5 cut(s) 206, 243, 375, 583, 794
AjnI CCWGG 4 cut(s) 189, 250, 532, 576
AjuI GAANNNNNNNTTGG 2 cut(s) 193, 225
AluBI AGCT 4 cut(s) 49, 435, 694, 841
AluI AGCT 4 cut(s) 49, 435, 694, 841
Alw21I GWGCWC 2 cut(s) 319, 607
AlwI GGATC 1 cut(s) 779
AoxI GGCC 4 cut(s) 226, 245, 574, 878
ApeKI GCWGC 9 cut(s) 46, 385, 472, 691, 694, 703, 706, 750, 841
ApoI RAATTY 1 cut(s) 202
AspLEI GCGC 3 cut(s) 302, 441, 529
AspS9I GGNCC 3 cut(s) 226, 246, 620
AsuC2I CCSGG 1 cut(s) 278
AsuHPI GGTGA 6 cut(s) 205, 227, 292, 325, 433, 755
AvaII GGWCC 1 cut(s) 620
BanI GGYRCC 1 cut(s) 365
BauI CACGAG 1 cut(s) 291
BbsI GAAGAC 1 cut(s) 714
Bbv12I GWGCWC 2 cut(s) 319, 607
BbvI GCAGC 9 cut(s) 58, 397, 459, 681, 703, 715, 718, 762, 828
BccI CCATC 1 cut(s) 796
BceAI ACGGC 1 cut(s) 493
BciT130I CCWGG 4 cut(s) 191, 252, 534, 578
BclI TGATCA 1 cut(s) 282
BcnI CCSGG 1 cut(s) 278
BfaI CTAG 1 cut(s) 258
BfmI CTRYAG 2 cut(s) 695, 842
BfuAI ACCTGC 2 cut(s) 532, 835
Bme1390I CCNGG 5 cut(s) 191, 252, 278, 534, 578
Bme18I GGWCC 1 cut(s) 620
BmgT120I GGNCC 3 cut(s) 226, 246, 620
BmiI GGNNCC 5 cut(s) 211, 227, 248, 367, 538
BmrFI CCNGG 5 cut(s) 191, 252, 278, 534, 578
BmsI GCATC 3 cut(s) 35, 623, 690
BpiI GAAGAC 1 cut(s) 714
BpmI CTGGAG 2 cut(s) 220, 555
BpuMI CCSGG 1 cut(s) 278
BsaBI GATNNNNATC 1 cut(s) 165
BsaJI CCNNGG 4 cut(s) 250, 251, 276, 675
BsaWI WCCGGW 2 cut(s) 82, 212
Bsc4I CCNNNNNNNGG 5 cut(s) 206, 243, 375, 583, 794
Bse8I GATNNNNATC 1 cut(s) 165
BseBI CCWGG 4 cut(s) 191, 252, 534, 578
BseDI CCNNGG 4 cut(s) 250, 251, 276, 675
BseGI GGATG 1 cut(s) 641
BseJI GATNNNNATC 1 cut(s) 165
BseLI CCNNNNNNNGG 5 cut(s) 206, 243, 375, 583, 794
BseRI GAGGAG 3 cut(s) 121, 701, 777
BseX3I CGGCCG 1 cut(s) 878
BseXI GCAGC 9 cut(s) 58, 397, 459, 681, 703, 715, 718, 762, 828
BseYI CCCAGC 1 cut(s) 872
BsgI GTGCAG 2 cut(s) 458, 480
Bsh1236I CGCG 1 cut(s) 374
Bsh1285I CGRYCG 1 cut(s) 881
BshFI GGCC 4 cut(s) 228, 247, 576, 880
BshNI GGYRCC 1 cut(s) 365
BsiEI CGRYCG 1 cut(s) 881
BsiHKAI GWGCWC 2 cut(s) 319, 607
BsiSI CCGG 3 cut(s) 83, 213, 278
BslI CCNNNNNNNGG 5 cut(s) 206, 243, 375, 583, 794
BsnI GGCC 4 cut(s) 228, 247, 576, 880
Bsp1286I GDGCHC 2 cut(s) 319, 607
Bsp143I GATC 3 cut(s) 61, 282, 784
BspANI GGCC 4 cut(s) 228, 247, 576, 880
BspFNI CGCG 1 cut(s) 374
BspLI GGNNCC 5 cut(s) 211, 227, 248, 367, 538
BspMAI CTGCAG 2 cut(s) 699, 846
BspMI ACCTGC 2 cut(s) 532, 835
BspPI GGATC 1 cut(s) 779
BspT107I GGYRCC 1 cut(s) 365
BssECI CCNNGG 4 cut(s) 250, 251, 276, 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 4 cut(s) 191, 252, 534, 578
Bst4CI ACNGT 1 cut(s) 720
Bst6I CTCTTC 1 cut(s) 678
BstAPI GCANNNNNTGC 1 cut(s) 712
BstC8I GCNNGC 4 cut(s) 7, 437, 443, 769
BstDEI CTNAG 2 cut(s) 10, 311
BstEII GGTNACC 2 cut(s) 193, 421
BstENI CCTNNNNNAGG 1 cut(s) 373
BstF5I GGATG 1 cut(s) 641
BstFNI CGCG 1 cut(s) 374
BstHHI GCGC 3 cut(s) 302, 441, 529
BstKTI GATC 3 cut(s) 64, 285, 787
BstMBI GATC 3 cut(s) 61, 282, 784
BstMCI CGRYCG 1 cut(s) 881
BstMWI GCNNNNNNNGC 6 cut(s) 458, 611, 700, 703, 712, 756
BstNI CCWGG 4 cut(s) 191, 252, 534, 578
BstPI GGTNACC 2 cut(s) 193, 421
BstSCI CCNGG 5 cut(s) 189, 250, 276, 532, 576
BstSFI CTRYAG 2 cut(s) 695, 842
BstUI CGCG 1 cut(s) 374
BstV1I GCAGC 9 cut(s) 58, 397, 459, 681, 703, 715, 718, 762, 828
BstV2I GAAGAC 1 cut(s) 714
BstX2I RGATCY 1 cut(s) 784
BstYI RGATCY 1 cut(s) 784
BstZI CGGCCG 1 cut(s) 878
BsuRI GGCC 4 cut(s) 228, 247, 576, 880
BtsCI GGATG 1 cut(s) 641
BveI ACCTGC 2 cut(s) 532, 835
Cac8I GCNNGC 4 cut(s) 7, 437, 443, 769
CciNI GCGGCCGC 1 cut(s) 878
CfoI GCGC 3 cut(s) 302, 441, 529
Cfr13I GGNCC 3 cut(s) 226, 246, 620
CseI GACGC 1 cut(s) 240
CsiI ACCWGGT 1 cut(s) 189
CviAII CATG 1 cut(s) 829
DdeI CTNAG 2 cut(s) 10, 311
DpnI GATC 3 cut(s) 63, 284, 786
DpnII GATC 3 cut(s) 61, 282, 784
EaeI YGGCCR 1 cut(s) 878
EagI CGGCCG 1 cut(s) 878
Eam1104I CTCTTC 1 cut(s) 678
EarI CTCTTC 1 cut(s) 678
EciI GGCGGA 2 cut(s) 603, 774
EclXI CGGCCG 1 cut(s) 878
Eco130I CCWWGG 1 cut(s) 675
Eco47I GGWCC 1 cut(s) 620
Eco52I CGGCCG 1 cut(s) 878
Eco57I CTGAAG 1 cut(s) 708
Eco91I GGTNACC 2 cut(s) 193, 421
EcoNI CCTNNNNNAGG 1 cut(s) 373
EcoO65I GGTNACC 2 cut(s) 193, 421
EcoRII CCWGG 4 cut(s) 189, 250, 532, 576
EcoT14I CCWWGG 1 cut(s) 675
ErhI CCWWGG 1 cut(s) 675
FaeI CATG 1 cut(s) 832
FaiI YATR 5 cut(s) 287, 321, 635, 663, 830
FatI CATG 1 cut(s) 828
FbaI TGATCA 1 cut(s) 282
FokI GGATG 1 cut(s) 628
FspBI CTAG 1 cut(s) 258
GlaI GCGC 3 cut(s) 301, 440, 528
GsaI CCCAGC 1 cut(s) 876
GsuI CTGGAG 2 cut(s) 220, 555
HaeIII GGCC 4 cut(s) 228, 247, 576, 880
HapII CCGG 3 cut(s) 83, 213, 278
HgaI GACGC 1 cut(s) 240
HhaI GCGC 3 cut(s) 302, 441, 529
Hin1II CATG 1 cut(s) 832
Hin6I GCGC 3 cut(s) 300, 439, 527
HinP1I GCGC 3 cut(s) 300, 439, 527
HinfI GANTC 5 cut(s) 86, 218, 356, 490, 832
HpaII CCGG 3 cut(s) 83, 213, 278
HphI GGTGA 6 cut(s) 205, 227, 292, 325, 433, 755
Hpy166II GTNNAC 1 cut(s) 569
Hpy188I TCNGA 2 cut(s) 91, 136
Hpy188III TCNNGA 5 cut(s) 237, 258, 293, 618, 782
Hpy8I GTNNAC 1 cut(s) 569
Hpy99I CGWCG 1 cut(s) 234
HpyAV CCTTC 2 cut(s) 740, 814
HpyCH4III ACNGT 1 cut(s) 720
HpyCH4IV ACGT 2 cut(s) 429, 654
HpyCH4V TGCA 5 cut(s) 461, 475, 697, 703, 844
HpyF10VI GCNNNNNNNGC 6 cut(s) 458, 611, 700, 703, 712, 756
HpyF3I CTNAG 2 cut(s) 10, 311
HpySE526I ACGT 2 cut(s) 429, 654
Hsp92II CATG 1 cut(s) 832
HspAI GCGC 3 cut(s) 300, 439, 527
Ksp22I TGATCA 1 cut(s) 282
Kzo9I GATC 3 cut(s) 61, 282, 784
LmnI GCTCC 6 cut(s) 54, 239, 536, 602, 688, 764
Lsp1109I GCAGC 9 cut(s) 58, 397, 459, 681, 703, 715, 718, 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 5 cut(s) 193, 215, 331, 421, 466
MalI GATC 3 cut(s) 63, 284, 786
MboI GATC 3 cut(s) 61, 282, 784
MboII GAAGA 4 cut(s) 104, 695, 714, 783
MflI RGATCY 1 cut(s) 784
MhlI GDGCHC 2 cut(s) 319, 607
MluCI AATT 1 cut(s) 202
MlyI GAGTC 3 cut(s) 80, 212, 826
MmeI TCCRAC 1 cut(s) 76
MseI TTAA 2 cut(s) 500, 810
MslI CAYNNNNRTG 1 cut(s) 147
MspA1I CMGCKG 4 cut(s) 339, 694, 753, 841
MspI CCGG 3 cut(s) 83, 213, 278
MspR9I CCNGG 5 cut(s) 191, 252, 278, 534, 578
MvaI CCWGG 4 cut(s) 191, 252, 534, 578
MvnI CGCG 1 cut(s) 374
MwoI GCNNNNNNNGC 6 cut(s) 458, 611, 700, 703, 712, 756
NciI CCSGG 1 cut(s) 278
NdeII GATC 3 cut(s) 61, 282, 784
NlaIII CATG 1 cut(s) 832
NlaIV GGNNCC 5 cut(s) 211, 227, 248, 367, 538
NmuCI GTSAC 5 cut(s) 193, 215, 331, 421, 466
NotI GCGGCCGC 1 cut(s) 878
PaqCI CACCTGC 1 cut(s) 532
PasI CCCWGGG 1 cut(s) 251
PfeI GAWTC 2 cut(s) 356, 490
PflMI CCANNNNNTGG 2 cut(s) 206, 583
PleI GAGTC 3 cut(s) 80, 212, 826
PpsI GAGTC 3 cut(s) 80, 212, 826
Psp6I CCWGG 4 cut(s) 189, 250, 532, 576
PspEI GGTNACC 2 cut(s) 193, 421
PspFI CCCAGC 1 cut(s) 872
PspGI CCWGG 4 cut(s) 189, 250, 532, 576
PspN4I GGNNCC 5 cut(s) 211, 227, 248, 367, 538
PspPI GGNCC 3 cut(s) 226, 246, 620
PstI CTGCAG 2 cut(s) 699, 846
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) 226, 246, 620
SchI GAGTC 3 cut(s) 80, 212, 826
ScrFI CCNGG 5 cut(s) 191, 252, 278, 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
Sse9I AATT 1 cut(s) 202
SspI AATATT 1 cut(s) 555
SspMI CTAG 1 cut(s) 258
StyD4I CCNGG 5 cut(s) 189, 250, 276, 532, 576
StyI CCWWGG 1 cut(s) 675
TaaI ACNGT 1 cut(s) 720
TaiI ACGT 2 cut(s) 432, 657
TasI AATT 1 cut(s) 202
TauI GCSGC 4 cut(s) 455, 532, 880, 883
TfiI GAWTC 2 cut(s) 356, 490
Tru1I TTAA 2 cut(s) 500, 810
Tru9I TTAA 2 cut(s) 500, 810
TseFI GTSAC 5 cut(s) 193, 215, 331, 421, 466
TseI GCWGC 9 cut(s) 46, 385, 472, 691, 694, 703, 706, 750, 841
Tsp45I GTSAC 5 cut(s) 193, 215, 331, 421, 466
TspDTI ATGAA 2 cut(s) 29, 678
TspGWI ACGGA 1 cut(s) 349
Van91I CCANNNNNTGG 2 cut(s) 206, 583
VpaK11BI GGWCC 1 cut(s) 620
XagI CCTNNNNNAGG 1 cut(s) 373
XapI RAATTY 1 cut(s) 202
XbaI TCTAGA 1 cut(s) 257
XspI CTAG 1 cut(s) 258
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.