MD06G1033700.v1.1

DNA-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr06
OG0013533
Physical Location & Seq
Reverse (-)
4121082 .. 4126545
5464 bp
Loading structure...
UTR
Exon/CDS
Intron
MD06G1033700.v1.1.491

Sequence Viewer

Length: 1131 bp
ATGGATTCGCGGGATGTTCCGCAGCAACAGCCGCCACAGCCGCCTCAGCAGCCGAACATGATGGTCGGCCTGCCTTCCTATCCCACGTCCATACCCACCGCCGGCATAAACCCTAATTCGGGCTCCATGATGGGCGGCCCTAACCCGGGACGGTTCCCTTTTAACGCGGTGGCCCAGCAGCAGCAGCAGCCCACGTCGAAACCTCAGATGGATTCTTTGAGCCCCAGCCCCTACGATGGAACGTTAAGGCCCTGCGGCAGCGGCGGAGGGTTCAACATCGATTCTTCTTCGGCTTCAGCTGCCAAGAAGAAGAGAGGGCGGCCCAGGAAGTACTCGCCTGACGGCAACATTGCCTTGGGATTGACGTCCACGCAGATTCCTTCTTCGGCTTCGGCCGCGGCTGGGACCCATGGAGAGTCTAGTGGCACGATGTCTTCGGATCCTCCAGCCAAGAAGAATCGGGGGAGGCCCCCAGGTTCGGGCAAGAAGCAGTTGGACGCATTGGGAGCTTGCGGAGTTGGATTCACACCTCATGTTATTATGGTGCAAGCTGGCGAGGATATAGCAGCAAAGGTTATGGCCTTTTCACAGCAGGGACCACGCACAGTTTGTATTCTCTCTGCAAATGGTGCCATCTGCAATGTTACCCTTCGCCAGCCAGCAATGTCTGGTGGTACTGTCACATATGAGGGTCGATATGAGATTATTTCTCTGTCAGGTTCCTACTTGTTTTCTGAAAATAATGGGAATCGCAGCAGAAGTGGTGGTTTGAGTGTATCCTTAGCAGGGTCTGATGGTCAAGTTTTGGGAGGTGGAGTTGCTGGCATGCTTATGGCAGCATCACCAGTACAGGTGATTGTGGGTAGTTTCATTGCTGACGGAAAAAAATCCAACTCCAACTTAGTAAAATCGGGAACTTCCTCTCCCCCAGCATCACAGATGCTGAACTTTGGTGCGCCAATGACAGCAGCGAGCCCGTCCTCTCAAGGAGGAGGGTCAAGCGAGTCATCTGACGAGAATGGAAGCAGTCCTCTCAACAACAGCAACAGGGGACCTGTGCTCTACAGTAATGCTAATCAACCCATTCATAATATGCAGATGTATCAGTTATGGGGTCAAGCTCAACAGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0044424 GO:0044444 GO:0044464
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DUF296

Protein Analysis

377

Amino Acids

38.46

Weight (kDa)

9.39

Isoelectric Point (pI)

58.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 176 - 291 2.5e-25 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: OG0013533)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G17950 AT5G46640
fragaria_vesca FvH4_5g22000
malus_domestica MD06G1033700.v1.1 MD16G1274800.v1.1
prunus_persica Prupe.5G037000_v2.0.a1
pyrus_communis pycom06g02780 pycom16g24490
rosa_chinensis RchiOBHm_Chr7g0209501
rosa_laevigata RLG00000003123
rosa_multiflora Rmu_sc0000243.1_g000005
rosa_roxburghii Rroxscaffold_3G00249310
rosa_rugosa Rorug07G0114000
rosa_samantha Rh7AG248000 Rh7BG242500 Rh7CG263500 Rh7DG254100
rosa_wichuraiana Rw7G020930

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 368
AccB1I GGYRCC 1 cut(s) 629
AccII CGCG 3 cut(s) 10, 167, 398
AclI AACGTT 1 cut(s) 242
AclWI GGATC 2 cut(s) 434, 447
AcoI YGGCCR 1 cut(s) 393
AcuI CTGAAG 1 cut(s) 279
AcyI GRCGYC 1 cut(s) 365
AfaI GTAC 3 cut(s) 332, 676, 849
AgsI TTSAA 1 cut(s) 274
AjiI CACGTC 2 cut(s) 87, 195
AjnI CCWGG 2 cut(s) 323, 472
AloI GAACNNNNNNTCC 2 cut(s) 907, 939
AluBI AGCT 4 cut(s) 299, 509, 551, 1121
AluI AGCT 4 cut(s) 299, 509, 551, 1121
Alw21I GWGCWC 1 cut(s) 1062
AlwI GGATC 2 cut(s) 434, 447
AlwNI CAGNNNCTG 2 cut(s) 791, 943
Ama87I CYCGRG 1 cut(s) 145
AoxI GGCC 8 cut(s) 67, 136, 171, 248, 320, 393, 467, 579
AspLEI GCGC 1 cut(s) 958
AspS9I GGNCC 8 cut(s) 137, 172, 249, 321, 405, 468, 596, 1052
AsuC2I CCSGG 2 cut(s) 146, 147
AsuHPI GGTGA 2 cut(s) 834, 865
AvaI CYCGRG 1 cut(s) 145
AvaII GGWCC 3 cut(s) 405, 596, 1052
BamHI GGATCC 1 cut(s) 439
BanI GGYRCC 1 cut(s) 629
BanII GRGCYC 3 cut(s) 125, 224, 977
BbsI GAAGAC 1 cut(s) 426
Bbv12I GWGCWC 1 cut(s) 1062
BbvCI CCTCAGC 1 cut(s) 45
BccI CCATC 6 cut(s) 55, 124, 202, 230, 641, 788
BceAI ACGGC 1 cut(s) 358
BciT130I CCWGG 2 cut(s) 325, 474
BciVI GTATCC 1 cut(s) 787
BcnI CCSGG 2 cut(s) 146, 147
BfaI CTAG 1 cut(s) 420
BfmI CTRYAG 1 cut(s) 1063
BfuI GTATCC 1 cut(s) 787
BmcAI AGTACT 1 cut(s) 332
Bme1390I CCNGG 4 cut(s) 146, 147, 325, 474
Bme18I GGWCC 3 cut(s) 405, 596, 1052
BmeT110I CYCGRG 1 cut(s) 145
BmgBI CACGTC 2 cut(s) 87, 195
BmgT120I GGNCC 8 cut(s) 137, 172, 249, 321, 405, 468, 596, 1052
BmrFI CCNGG 4 cut(s) 146, 147, 325, 474
BmsI GCATC 3 cut(s) 848, 930, 941
BpiI GAAGAC 1 cut(s) 426
BpmI CTGGAG 1 cut(s) 429
Bpu10I CCTNAGC 2 cut(s) 45, 781
BpuEI CTTGAG 1 cut(s) 969
BpuMI CCSGG 2 cut(s) 146, 147
Bsa29I ATCGAT 1 cut(s) 279
BsaHI GRCGYC 1 cut(s) 365
BsaJI CCNNGG 6 cut(s) 145, 323, 354, 396, 409, 472
BsaXI ACNNNNNCTCC 4 cut(s) 801, 831, 907, 937
Bse118I RCCGGY 1 cut(s) 101
Bse1I ACTGG 1 cut(s) 845
Bse3DI GCAATG 4 cut(s) 348, 646, 669, 870
BseBI CCWGG 2 cut(s) 325, 474
BseCI ATCGAT 1 cut(s) 279
BseDI CCNNGG 6 cut(s) 145, 323, 354, 396, 409, 472
BseGI GGATG 1 cut(s) 19
BseMI GCAATG 4 cut(s) 348, 646, 669, 870
BseMII CTCAG 2 cut(s) 59, 218
BseNI ACTGG 1 cut(s) 845
BseRI GAGGAG 1 cut(s) 1005
BseX3I CGGCCG 1 cut(s) 393
BseYI CCCAGC 4 cut(s) 174, 224, 401, 928
Bsh1236I CGCG 3 cut(s) 10, 167, 398
Bsh1285I CGRYCG 1 cut(s) 396
BshFI GGCC 8 cut(s) 69, 138, 173, 250, 322, 395, 469, 581
BshNI GGYRCC 1 cut(s) 629
BshVI ATCGAT 1 cut(s) 279
BsiEI CGRYCG 1 cut(s) 396
BsiHKAI GWGCWC 1 cut(s) 1062
BsiHKCI CYCGRG 1 cut(s) 145
BsiSI CCGG 2 cut(s) 102, 146
BslFI GGGAC 4 cut(s) 162, 418, 609, 1065
BsmFI GGGAC 4 cut(s) 162, 418, 609, 1065
BsnI GGCC 8 cut(s) 69, 138, 173, 250, 322, 395, 469, 581
BsoBI CYCGRG 1 cut(s) 145
Bsp1286I GDGCHC 4 cut(s) 125, 224, 977, 1062
Bsp143I GATC 1 cut(s) 439
Bsp19I CCATGG 1 cut(s) 409
BspANI GGCC 8 cut(s) 69, 138, 173, 250, 322, 395, 469, 581
BspCNI CTCAG 2 cut(s) 58, 217
BspDI ATCGAT 1 cut(s) 279
BspFNI CGCG 3 cut(s) 10, 167, 398
BspPI GGATC 2 cut(s) 434, 447
BspT107I GGYRCC 1 cut(s) 629
BsrDI GCAATG 4 cut(s) 348, 646, 669, 870
BsrFI RCCGGY 1 cut(s) 101
BsrI ACTGG 1 cut(s) 845
BssAI RCCGGY 1 cut(s) 101
BssECI CCNNGG 6 cut(s) 145, 323, 354, 396, 409, 472
BssMI GATC 1 cut(s) 439
BssNI GRCGYC 1 cut(s) 365
BssT1I CCWWGG 2 cut(s) 354, 409
Bst2UI CCWGG 2 cut(s) 325, 474
Bst4CI ACNGT 5 cut(s) 153, 607, 679, 1067, 1128
Bst6I CTCTTC 1 cut(s) 305
BstACI GRCGYC 1 cut(s) 365
BstAPI GCANNNNNTGC 1 cut(s) 629
BstDEI CTNAG 4 cut(s) 45, 204, 781, 901
BstDSI CCRYGG 2 cut(s) 396, 409
BstF5I GGATG 1 cut(s) 19
BstFNI CGCG 3 cut(s) 10, 167, 398
BstHHI GCGC 1 cut(s) 958
BstKTI GATC 1 cut(s) 442
BstMBI GATC 1 cut(s) 439
BstMCI CGRYCG 1 cut(s) 396
BstNI CCWGG 2 cut(s) 325, 474
BstNSI RCATGY 1 cut(s) 829
BstSCI CCNGG 4 cut(s) 144, 145, 323, 472
BstSFI CTRYAG 1 cut(s) 1063
BstUI CGCG 3 cut(s) 10, 167, 398
BstV2I GAAGAC 1 cut(s) 426
BstX2I RGATCY 1 cut(s) 439
BstYI RGATCY 1 cut(s) 439
BstZI CGGCCG 1 cut(s) 393
Bsu15I ATCGAT 1 cut(s) 279
BsuI GTATCC 1 cut(s) 787
BsuRI GGCC 8 cut(s) 69, 138, 173, 250, 322, 395, 469, 581
BsuTUI ATCGAT 1 cut(s) 279
BtgI CCRYGG 2 cut(s) 396, 409
BtrI CACGTC 2 cut(s) 87, 195
BtsCI GGATG 1 cut(s) 19
CaiI CAGNNNCTG 2 cut(s) 791, 943
CfoI GCGC 1 cut(s) 958
Cfr10I RCCGGY 1 cut(s) 101
Cfr13I GGNCC 8 cut(s) 137, 172, 249, 321, 405, 468, 596, 1052
Cfr42I CCGCGG 1 cut(s) 399
Cfr9I CCCGGG 1 cut(s) 145
ClaI ATCGAT 1 cut(s) 279
CseI GACGC 1 cut(s) 506
Csp6I GTAC 3 cut(s) 331, 675, 848
CviAII CATG 5 cut(s) 58, 127, 410, 533, 826
CviQI GTAC 3 cut(s) 331, 675, 848
DdeI CTNAG 4 cut(s) 45, 204, 781, 901
DpnI GATC 1 cut(s) 441
DpnII GATC 1 cut(s) 439
EaeI YGGCCR 1 cut(s) 393
EagI CGGCCG 1 cut(s) 393
Eam1104I CTCTTC 1 cut(s) 305
EarI CTCTTC 1 cut(s) 305
EciI GGCGGA 1 cut(s) 279
EclXI CGGCCG 1 cut(s) 393
Eco130I CCWWGG 2 cut(s) 354, 409
Eco24I GRGCYC 3 cut(s) 125, 224, 977
Eco47I GGWCC 3 cut(s) 405, 596, 1052
Eco52I CGGCCG 1 cut(s) 393
Eco57I CTGAAG 1 cut(s) 279
Eco88I CYCGRG 1 cut(s) 145
EcoO109I RGGNCCY 4 cut(s) 249, 405, 468, 1052
EcoRII CCWGG 2 cut(s) 323, 472
EcoT14I CCWWGG 2 cut(s) 354, 409
EcoT38I GRGCYC 3 cut(s) 125, 224, 977
ErhI CCWWGG 2 cut(s) 354, 409
FaeI CATG 5 cut(s) 61, 130, 413, 536, 829
FaqI GGGAC 4 cut(s) 162, 418, 609, 1065
FatI CATG 5 cut(s) 57, 126, 409, 532, 825
FauI CCCGC 1 cut(s) 3
FauNDI CATATG 1 cut(s) 685
FokI GGATG 1 cut(s) 26
FriOI GRGCYC 3 cut(s) 125, 224, 977
FspBI CTAG 1 cut(s) 420
GlaI GCGC 1 cut(s) 957
GsaI CCCAGC 4 cut(s) 178, 228, 405, 932
GsuI CTGGAG 1 cut(s) 429
HaeIII GGCC 8 cut(s) 69, 138, 173, 250, 322, 395, 469, 581
HapII CCGG 2 cut(s) 102, 146
HgaI GACGC 1 cut(s) 506
HhaI GCGC 1 cut(s) 958
Hin1I GRCGYC 1 cut(s) 365
Hin1II CATG 5 cut(s) 61, 130, 413, 536, 829
Hin6I GCGC 1 cut(s) 956
HinP1I GCGC 1 cut(s) 956
HinfI GANTC 9 cut(s) 5, 212, 281, 376, 416, 457, 522, 748, 1004
HpaII CCGG 2 cut(s) 102, 146
HphI GGTGA 2 cut(s) 834, 865
Hpy166II GTNNAC 1 cut(s) 369
Hpy188I TCNGA 5 cut(s) 207, 439, 736, 793, 1012
Hpy188III TCNNGA 1 cut(s) 912
Hpy8I GTNNAC 1 cut(s) 369
Hpy99I CGWCG 1 cut(s) 199
HpyAV CCTTC 3 cut(s) 84, 390, 659
HpyCH4III ACNGT 5 cut(s) 153, 607, 679, 1067, 1128
HpyCH4IV ACGT 4 cut(s) 86, 194, 242, 365
HpyCH4V TGCA 4 cut(s) 547, 623, 639, 1096
HpyF3I CTNAG 4 cut(s) 45, 204, 781, 901
HpySE526I ACGT 4 cut(s) 86, 194, 242, 365
Hsp92I GRCGYC 1 cut(s) 365
Hsp92II CATG 5 cut(s) 61, 130, 413, 536, 829
HspAI GCGC 1 cut(s) 956
KflI GGGWCCC 1 cut(s) 405
KroI GCCGGC 1 cut(s) 101
KroNI GCCGGC 1 cut(s) 103
KspI CCGCGG 1 cut(s) 399
Kzo9I GATC 1 cut(s) 439
LmnI GCTCC 2 cut(s) 128, 506
LweI GCATC 3 cut(s) 848, 930, 941
MaeI CTAG 1 cut(s) 420
MaeII ACGT 4 cut(s) 86, 194, 242, 365
MaeIII GTNAC 2 cut(s) 643, 679
MalI GATC 1 cut(s) 441
MboI GATC 1 cut(s) 439
MboII GAAGA 7 cut(s) 276, 279, 319, 322, 375, 426, 466
MflI RGATCY 1 cut(s) 439
MhlI GDGCHC 4 cut(s) 125, 224, 977, 1062
MluCI AATT 1 cut(s) 115
MlyI GAGTC 2 cut(s) 425, 1013
MmeI TCCRAC 4 cut(s) 474, 499, 915, 921
MroNI GCCGGC 1 cut(s) 101
MseI TTAA 2 cut(s) 162, 245
MslI CAYNNNNRTG 1 cut(s) 830
MspA1I CMGCKG 3 cut(s) 261, 299, 398
MspI CCGG 2 cut(s) 102, 146
MspR9I CCNGG 4 cut(s) 146, 147, 325, 474
MvaI CCWGG 2 cut(s) 325, 474
MvnI CGCG 3 cut(s) 10, 167, 398
NaeI GCCGGC 1 cut(s) 103
NciI CCSGG 2 cut(s) 146, 147
NcoI CCATGG 1 cut(s) 409
NdeI CATATG 1 cut(s) 685
NdeII GATC 1 cut(s) 439
NgoMIV GCCGGC 1 cut(s) 101
NlaIII CATG 5 cut(s) 61, 130, 413, 536, 829
NmuCI GTSAC 1 cut(s) 679
NspI RCATGY 1 cut(s) 829
PaeI GCATGC 1 cut(s) 829
PdiI GCCGGC 1 cut(s) 103
PfeI GAWTC 7 cut(s) 5, 212, 281, 376, 457, 522, 748
PleI GAGTC 2 cut(s) 424, 1012
PpsI GAGTC 2 cut(s) 424, 1012
PpuMI RGGWCCY 2 cut(s) 405, 1052
Psp1406I AACGTT 1 cut(s) 242
Psp5II RGGWCCY 2 cut(s) 405, 1052
Psp6I CCWGG 2 cut(s) 323, 472
PspFI CCCAGC 4 cut(s) 174, 224, 401, 928
PspGI CCWGG 2 cut(s) 323, 472
PspPI GGNCC 8 cut(s) 137, 172, 249, 321, 405, 468, 596, 1052
PspPPI RGGWCCY 2 cut(s) 405, 1052
PstNI CAGNNNCTG 2 cut(s) 791, 943
PsuI RGATCY 1 cut(s) 439
PvuII CAGCTG 1 cut(s) 299
RsaI GTAC 3 cut(s) 332, 676, 849
RsaNI GTAC 3 cut(s) 331, 675, 848
RseI CAYNNNNRTG 1 cut(s) 830
SacII CCGCGG 1 cut(s) 399
SaqAI TTAA 2 cut(s) 162, 245
Sau3AI GATC 1 cut(s) 439
Sau96I GGNCC 8 cut(s) 137, 172, 249, 321, 405, 468, 596, 1052
ScaI AGTACT 1 cut(s) 332
SchI GAGTC 2 cut(s) 425, 1013
ScrFI CCNGG 4 cut(s) 146, 147, 325, 474
SduI GDGCHC 4 cut(s) 125, 224, 977, 1062
SfaNI GCATC 3 cut(s) 848, 930, 941
SfcI CTRYAG 1 cut(s) 1063
Sfr303I CCGCGG 1 cut(s) 399
SgrBI CCGCGG 1 cut(s) 399
SinI GGWCC 3 cut(s) 405, 596, 1052
SmaI CCCGGG 1 cut(s) 147
SmiMI CAYNNNNRTG 1 cut(s) 830
SmlI CTYRAG 1 cut(s) 984
SmoI CTYRAG 1 cut(s) 984
SphI GCATGC 1 cut(s) 829
Sse9I AATT 1 cut(s) 115
SspMI CTAG 1 cut(s) 420
StyD4I CCNGG 4 cut(s) 144, 145, 323, 472
StyI CCWWGG 2 cut(s) 354, 409
TaaI ACNGT 5 cut(s) 153, 607, 679, 1067, 1128
TaiI ACGT 4 cut(s) 89, 197, 245, 368
TaqI TCGA 3 cut(s) 197, 279, 694
TasI AATT 1 cut(s) 115
TatI WGTACW 2 cut(s) 330, 847
TauI GCSGC 8 cut(s) 34, 43, 138, 258, 264, 322, 398, 401
TfiI GAWTC 7 cut(s) 5, 212, 281, 376, 457, 522, 748
Tru1I TTAA 2 cut(s) 162, 245
Tru9I TTAA 2 cut(s) 162, 245
TseFI GTSAC 1 cut(s) 679
Tsp45I GTSAC 1 cut(s) 679
TspDTI ATGAA 2 cut(s) 859, 1076
TspGWI ACGGA 1 cut(s) 894
TspMI CCCGGG 1 cut(s) 145
VpaK11BI GGWCC 3 cut(s) 405, 596, 1052
XceI RCATGY 1 cut(s) 829
XmaI CCCGGG 1 cut(s) 145
XspI CTAG 1 cut(s) 420
ZraI GACGTC 1 cut(s) 366
ZrmI AGTACT 1 cut(s) 332
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.