MD13G1159900.v1.1

DNA polymerase III

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr13
OG0003855
Physical Location & Seq
Forward (+)
12585504 .. 12587280
1777 bp
Loading structure...
UTR
Exon/CDS
Intron
MD13G1159900.v1.1.491

Sequence Viewer

Length: 807 bp
ATGTTCTGTTCTAACTTGCAAGTACCTAAGTTTGGAGTTCAATCACCATCTCTTCGATTGGCATCTTTACGAAGAACACTAACAACAACAACCGCTTTAAGCAAATCACCTTCGAAATCCTTCAGAAGCATACAATACTCCGATGCTCAAGCAACGATTTTGAATTTCGGTATTTTGAAGGATCTTGTGAAAATATTTGTTCTAGACCTTGAAACCACCGGACTTTGCAGAAGGATAGGACATGTAACTGAAATCGCAGTCCGCGATCTTCAAGGCGGCAAGAACAGTTGCTTTCAAACCCTGGTGAACCCTCAACAAAATGTTCCAAATTCTAGCATCCACGGTATACCAACCAACATGGTGACACATTCAGATGTCCCGAGGATGGTGGAGTTGATTCCGATTCTTCTCGAATACATCAGAAGCAGGCAAGGACCTGGAGTGCAAGTTTTATTTGCAGCTCACAATGCACGGCGTTTCGACGTGCCCTTCTTAATCAAGGAATTCAGCTCCTGCTCGTTTGAAATTCCTCCTGACTGGCTGTTTCTGGACACCCTCGCACTGTCGCATGAGTTGAGGAAATTATACGGGCCAAAGGTTCCTCCAAAGATCTCTCTTGAGGGACTTAGTGAGTTCTACAAGATCACTAGAGAAGGTCCAAAACACAGGGCCATGGCAGATGTGAACTTGCTGACATCTATACTTCCAAACATGACTTCTGACCTCAACCTCGGCGTTGCGGACCTTTTGCAGAGGAGTTTCAAGGCTTCTGTCTGCAGTATTACCATGAAGAAGAAGAAAAAATGA
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
RNase_T

Protein Analysis

269

Amino Acids

29.93

Weight (kDa)

9.73

Isoelectric Point (pI)

46.75

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNase_T PF00929 67 - 232 1.7e-12 Exonuclease
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 346
AccII CGCG 1 cut(s) 264
AciI CCGC 4 cut(s) 93, 262, 276, 740
AclWI GGATC 1 cut(s) 189
AcsI RAATTY 4 cut(s) 163, 328, 503, 525
AcuI CTGAAG 1 cut(s) 106
AfaI GTAC 1 cut(s) 24
AfiI CCNNNNNNNGG 2 cut(s) 32, 385
AflIII ACRYGT 1 cut(s) 241
AgsI TTSAA 8 cut(s) 41, 163, 178, 212, 272, 296, 524, 763
AjiI CACGTC 1 cut(s) 484
AjnI CCWGG 2 cut(s) 300, 436
AjuI GAANNNNNNNTTGG 2 cut(s) 700, 732
AluBI AGCT 2 cut(s) 461, 510
AluI AGCT 2 cut(s) 461, 510
AlwI GGATC 1 cut(s) 189
AlwNI CAGNNNCTG 1 cut(s) 513
Ama87I CYCGRG 1 cut(s) 379
AoxI GGCC 2 cut(s) 590, 669
ApeKI GCWGC 1 cut(s) 458
ApoI RAATTY 4 cut(s) 163, 328, 503, 525
Asp700I GAANNNNTTC 1 cut(s) 119
AspS9I GGNCC 5 cut(s) 434, 590, 656, 669, 742
AsuHPI GGTGA 4 cut(s) 36, 99, 316, 373
AsuII TTCGAA 1 cut(s) 113
AvaI CYCGRG 1 cut(s) 379
AvaII GGWCC 3 cut(s) 434, 656, 742
BaeGI GKGCMC 1 cut(s) 489
BbvI GCAGC 1 cut(s) 470
BccI CCATC 2 cut(s) 55, 379
BceAI ACGGC 1 cut(s) 488
BciT130I CCWGG 2 cut(s) 302, 438
BfaI CTAG 3 cut(s) 203, 333, 648
BfmI CTRYAG 1 cut(s) 775
BglII AGATCT 1 cut(s) 609
BisI GCNGC 2 cut(s) 277, 459
BlsI GCNGC 2 cut(s) 278, 460
Bme1390I CCNGG 2 cut(s) 302, 438
Bme18I GGWCC 3 cut(s) 434, 656, 742
BmeT110I CYCGRG 1 cut(s) 379
BmgBI CACGTC 1 cut(s) 484
BmgT120I GGNCC 5 cut(s) 434, 590, 656, 669, 742
BmiI GGNNCC 1 cut(s) 600
BmrFI CCNGG 2 cut(s) 302, 438
BmsI GCATC 3 cut(s) 71, 133, 345
BpmI CTGGAG 1 cut(s) 459
Bpu14I TTCGAA 1 cut(s) 113
BpuEI CTTGAG 2 cut(s) 132, 638
BsaBI GATNNNNATC 1 cut(s) 61
BsaJI CCNNGG 5 cut(s) 300, 340, 380, 672, 730
BsaWI WCCGGW 1 cut(s) 218
BsaXI ACNNNNNCTCC 2 cut(s) 432, 462
Bsc4I CCNNNNNNNGG 2 cut(s) 32, 385
Bse1I ACTGG 1 cut(s) 542
Bse8I GATNNNNATC 1 cut(s) 61
BseBI CCWGG 2 cut(s) 302, 438
BseDI CCNNGG 5 cut(s) 300, 340, 380, 672, 730
BseGI GGATG 2 cut(s) 336, 390
BseJI GATNNNNATC 1 cut(s) 61
BseLI CCNNNNNNNGG 2 cut(s) 32, 385
BseNI ACTGG 1 cut(s) 542
BseRI GAGGAG 1 cut(s) 769
BseSI GKGCMC 1 cut(s) 489
BseXI GCAGC 1 cut(s) 470
Bsh1236I CGCG 1 cut(s) 264
BshFI GGCC 2 cut(s) 592, 671
BsiHKCI CYCGRG 1 cut(s) 379
BsiSI CCGG 1 cut(s) 219
BslFI GGGAC 2 cut(s) 362, 636
BslI CCNNNNNNNGG 2 cut(s) 32, 385
BsmFI GGGAC 2 cut(s) 362, 636
BsnI GGCC 2 cut(s) 592, 671
BsoBI CYCGRG 1 cut(s) 379
Bsp119I TTCGAA 1 cut(s) 113
Bsp1286I GDGCHC 1 cut(s) 489
Bsp143I GATC 4 cut(s) 181, 265, 609, 642
Bsp19I CCATGG 1 cut(s) 672
BspACI CCGC 4 cut(s) 93, 262, 276, 740
BspANI GGCC 2 cut(s) 592, 671
BspFNI CGCG 1 cut(s) 264
BspLI GGNNCC 1 cut(s) 600
BspMAI CTGCAG 1 cut(s) 779
BspPI GGATC 1 cut(s) 189
BspT104I TTCGAA 1 cut(s) 113
BsrI ACTGG 1 cut(s) 542
BssECI CCNNGG 5 cut(s) 300, 340, 380, 672, 730
BssMI GATC 4 cut(s) 181, 265, 609, 642
BssNAI GTATAC 1 cut(s) 347
BssT1I CCWWGG 1 cut(s) 672
Bst1107I GTATAC 1 cut(s) 347
Bst2UI CCWGG 2 cut(s) 302, 438
Bst4CI ACNGT 3 cut(s) 287, 344, 564
Bst6I CTCTTC 1 cut(s) 57
BstBI TTCGAA 1 cut(s) 113
BstC8I GCNNGC 1 cut(s) 428
BstDEI CTNAG 2 cut(s) 27, 626
BstDSI CCRYGG 2 cut(s) 340, 672
BstF5I GGATG 2 cut(s) 336, 390
BstFNI CGCG 1 cut(s) 264
BstKTI GATC 4 cut(s) 184, 268, 612, 645
BstMBI GATC 4 cut(s) 181, 265, 609, 642
BstMWI GCNNNNNNNGC 1 cut(s) 467
BstNI CCWGG 2 cut(s) 302, 438
BstNSI RCATGY 1 cut(s) 245
BstSCI CCNGG 2 cut(s) 300, 436
BstSFI CTRYAG 1 cut(s) 775
BstSLI GKGCMC 1 cut(s) 489
BstUI CGCG 1 cut(s) 264
BstV1I GCAGC 1 cut(s) 470
BstX2I RGATCY 2 cut(s) 181, 609
BstYI RGATCY 2 cut(s) 181, 609
BstZ17I GTATAC 1 cut(s) 347
BsuRI GGCC 2 cut(s) 592, 671
BtgI CCRYGG 2 cut(s) 340, 672
BtrI CACGTC 1 cut(s) 484
BtsCI GGATG 2 cut(s) 336, 390
BtsIMutI CAGTG 1 cut(s) 560
Cac8I GCNNGC 1 cut(s) 428
CaiI CAGNNNCTG 1 cut(s) 513
Cfr13I GGNCC 5 cut(s) 434, 590, 656, 669, 742
Csp6I GTAC 1 cut(s) 23
CviAII CATG 6 cut(s) 242, 358, 569, 673, 712, 787
CviJI RGCY 6 cut(s) 461, 510, 541, 592, 671, 767
CviKI_1 RGCY 6 cut(s) 461, 510, 541, 592, 671, 767
CviQI GTAC 1 cut(s) 23
DdeI CTNAG 2 cut(s) 27, 626
DpnI GATC 4 cut(s) 183, 267, 611, 644
DpnII GATC 4 cut(s) 181, 265, 609, 642
Eam1104I CTCTTC 1 cut(s) 57
EarI CTCTTC 1 cut(s) 57
Eco130I CCWWGG 1 cut(s) 672
Eco47I GGWCC 3 cut(s) 434, 656, 742
Eco57I CTGAAG 1 cut(s) 106
Eco88I CYCGRG 1 cut(s) 379
EcoO109I RGGNCCY 1 cut(s) 434
EcoRI GAATTC 1 cut(s) 503
EcoRII CCWGG 2 cut(s) 300, 436
EcoT14I CCWWGG 1 cut(s) 672
ErhI CCWWGG 1 cut(s) 672
FaeI CATG 6 cut(s) 245, 361, 572, 676, 715, 790
FaqI GGGAC 2 cut(s) 362, 636
FatI CATG 6 cut(s) 241, 357, 568, 672, 711, 786
FblI GTMKAC 1 cut(s) 346
Fnu4HI GCNGC 2 cut(s) 277, 459
FokI GGATG 2 cut(s) 323, 397
Fsp4HI GCNGC 2 cut(s) 277, 459
FspBI CTAG 3 cut(s) 203, 333, 648
GluI GCNGC 2 cut(s) 277, 459
GsuI CTGGAG 1 cut(s) 459
HaeIII GGCC 2 cut(s) 592, 671
HapII CCGG 1 cut(s) 219
Hin1II CATG 6 cut(s) 245, 361, 572, 676, 715, 790
HinfI GANTC 2 cut(s) 397, 403
HpaII CCGG 1 cut(s) 219
HphI GGTGA 4 cut(s) 36, 99, 316, 373
Hpy166II GTNNAC 3 cut(s) 307, 347, 685
Hpy188I TCNGA 6 cut(s) 125, 142, 373, 402, 422, 721
Hpy188III TCNNGA 6 cut(s) 203, 379, 410, 533, 548, 617
Hpy8I GTNNAC 3 cut(s) 307, 347, 685
Hpy99I CGWCG 1 cut(s) 485
HpyAV CCTTC 6 cut(s) 120, 130, 172, 225, 499, 647
HpyCH4III ACNGT 3 cut(s) 287, 344, 564
HpyCH4IV ACGT 1 cut(s) 483
HpyCH4V TGCA 7 cut(s) 19, 228, 445, 458, 470, 751, 777
HpyF10VI GCNNNNNNNGC 1 cut(s) 467
HpyF3I CTNAG 2 cut(s) 27, 626
HpySE526I ACGT 1 cut(s) 483
Hsp92II CATG 6 cut(s) 245, 361, 572, 676, 715, 790
Kzo9I GATC 4 cut(s) 181, 265, 609, 642
LmnI GCTCC 1 cut(s) 515
Lsp1109I GCAGC 1 cut(s) 470
LweI GCATC 3 cut(s) 71, 133, 345
MaeI CTAG 3 cut(s) 203, 333, 648
MaeII ACGT 1 cut(s) 483
MaeIII GTNAC 2 cut(s) 244, 361
MalI GATC 4 cut(s) 183, 267, 611, 644
MboI GATC 4 cut(s) 181, 265, 609, 642
MboII GAAGA 6 cut(s) 44, 84, 260, 398, 802, 805
MflI RGATCY 2 cut(s) 181, 609
MhlI GDGCHC 1 cut(s) 489
MluCI AATT 5 cut(s) 163, 328, 503, 525, 581
MroXI GAANNNNTTC 1 cut(s) 119
MseI TTAA 2 cut(s) 98, 494
MslI CAYNNNNRTG 1 cut(s) 372
MspI CCGG 1 cut(s) 219
MspR9I CCNGG 2 cut(s) 302, 438
MvaI CCWGG 2 cut(s) 302, 438
MvnI CGCG 1 cut(s) 264
MwoI GCNNNNNNNGC 1 cut(s) 467
NcoI CCATGG 1 cut(s) 672
NdeII GATC 4 cut(s) 181, 265, 609, 642
NlaIII CATG 6 cut(s) 245, 361, 572, 676, 715, 790
NlaIV GGNNCC 1 cut(s) 600
NmeAIII GCCGAG 1 cut(s) 711
NmuCI GTSAC 1 cut(s) 361
NspI RCATGY 1 cut(s) 245
NspV TTCGAA 1 cut(s) 113
PciI ACATGT 1 cut(s) 241
PcsI WCGNNNNNNNCGW 1 cut(s) 261
PdmI GAANNNNTTC 1 cut(s) 119
PfeI GAWTC 2 cut(s) 397, 403
PkrI GCNGC 2 cut(s) 278, 460
PpuMI RGGWCCY 1 cut(s) 434
PscI ACATGT 1 cut(s) 241
Psp5II RGGWCCY 1 cut(s) 434
Psp6I CCWGG 2 cut(s) 300, 436
PspGI CCWGG 2 cut(s) 300, 436
PspN4I GGNNCC 1 cut(s) 600
PspPI GGNCC 5 cut(s) 434, 590, 656, 669, 742
PspPPI RGGWCCY 1 cut(s) 434
PstI CTGCAG 1 cut(s) 779
PstNI CAGNNNCTG 1 cut(s) 513
PsuI RGATCY 2 cut(s) 181, 609
RsaI GTAC 1 cut(s) 24
RsaNI GTAC 1 cut(s) 23
RseI CAYNNNNRTG 1 cut(s) 372
SaqAI TTAA 2 cut(s) 98, 494
SatI GCNGC 2 cut(s) 277, 459
Sau3AI GATC 4 cut(s) 181, 265, 609, 642
Sau96I GGNCC 5 cut(s) 434, 590, 656, 669, 742
ScrFI CCNGG 2 cut(s) 302, 438
SduI GDGCHC 1 cut(s) 489
SfaNI GCATC 3 cut(s) 71, 133, 345
SfcI CTRYAG 1 cut(s) 775
SfuI TTCGAA 1 cut(s) 113
SinI GGWCC 3 cut(s) 434, 656, 742
SmiMI CAYNNNNRTG 1 cut(s) 372
SmlI CTYRAG 2 cut(s) 147, 617
SmoI CTYRAG 2 cut(s) 147, 617
Sse9I AATT 5 cut(s) 163, 328, 503, 525, 581
SsiI CCGC 4 cut(s) 93, 262, 276, 740
SspI AATATT 1 cut(s) 195
SspMI CTAG 3 cut(s) 203, 333, 648
StyD4I CCNGG 2 cut(s) 300, 436
StyI CCWWGG 1 cut(s) 672
TaaI ACNGT 3 cut(s) 287, 344, 564
TaiI ACGT 1 cut(s) 486
TaqI TCGA 4 cut(s) 55, 113, 411, 480
TasI AATT 5 cut(s) 163, 328, 503, 525, 581
TauI GCSGC 1 cut(s) 279
TfiI GAWTC 2 cut(s) 397, 403
Tru1I TTAA 2 cut(s) 98, 494
Tru9I TTAA 2 cut(s) 98, 494
TscAI CASTG 1 cut(s) 567
TseFI GTSAC 1 cut(s) 361
TseI GCWGC 1 cut(s) 458
Tsp45I GTSAC 1 cut(s) 361
TspDTI ATGAA 1 cut(s) 803
TspRI CASTG 1 cut(s) 567
VpaK11BI GGWCC 3 cut(s) 434, 656, 742
XapI RAATTY 4 cut(s) 163, 328, 503, 525
XbaI TCTAGA 1 cut(s) 202
XceI RCATGY 1 cut(s) 245
XmiI GTMKAC 1 cut(s) 346
XmnI GAANNNNTTC 1 cut(s) 119
XspI CTAG 3 cut(s) 203, 333, 648
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.