MD04G1195700.v1.1

3'-5' exonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr04
OG0003918
Physical Location & Seq
Reverse (-)
28426328 .. 28431352
5025 bp
Loading structure...
UTR
Exon/CDS
Intron
MD04G1195700.v1.1.491

Sequence Viewer

Length: 1728 bp
ATGGGCTTGGAGGAAAGAGTTGACATACATAACAAGCAAGGCAAAGTTAATCAGACATCAACTATTTGCAAGCATGCTTTTTCTGACCTGAAGCATATTACTCCGTTGGTATTCATATACCTCTTGAAAGAGTGCTATTTCCATGGCACATTTAAGGCAACTAAGAAGTTCCGAGTTCTTCAAGAACAGGTTCATCTAGTACTACGCAATGATCCCCAACCTGGACCAGCTACTTTTTTTATTCAGTGCCTCTATGTCTTGCCTATATTTGATTTATACTGTGAAGGGTTCAGTCATTTGATTATATCTGCTCTTCGCCGTTTCCTAAAATTGGAAACATGCTCGGGGGACGCTATGGAAGCAAAGGACCTCGCTGCCCAGTTGTTTCTCGATATTGTTGGGGGCTCTGTCAACCATGATGAGAGGATAGTTGAGAAGATACTTGAAGTTTATGATGTTCAGTTGGCAAACATTGATAAAGTAATGTGCCTAAATGCAAAGAATAATTGCAGATTTGACAATGCAAAAGAGTTTGTTGAGCAATATATATTTGGACTGATAGAGTCTCAATCATATATGGCTGCGGTTACTTTATTAGAGCACTTCTCTATCTGCCAGACTGGCCAATCGTTTCTCCATCGTATGATAGAAAGCAGACAGTTGAAAGCAGCAGATAAATGGGCAACATTCATGGGAAAGCCAATGTTATGTATTCTTGTCCAGGAGTACATTGGCAGGAACATGCTAAAAAATGCTTATGACATTATACAAAAAAACAATCTCCGACATGAATTTCCCGATGTTTACCACAAGTATAAAGAGAGCACTATAAAGAAACTAGCAGAAAAAGGTTGCTGGGAAGTTGCAGAAGCAAGGACAAACAGTAATAGACAGCTTCTTGAATATTTGGTTTACTTAGCAATGGAAGCTGGTTACTCAGAGAAGGTTGATGAGCTATGCGACCGATACTCGCTTGAAGGTTTCTTAAATGGAAAAGTACCTGAGGCAAGTCTTCTTGAAAATCGTTATTTGCATCTCAATGAGTTGGTAGTAGAAGGTGTTGTTTGGGTTGATGAAGTTGATGCCTTGCGCAATGCAACCTCTCACTTTGAGGGATGCAAAGTTGTGGGTCTTGATTGCGAATGGAAACCGAACTATGTAAAAGGCAGCAAACCAAGCAAGGTTTCCATCATGCAAATCGCATCTGAAAAAATGGTTTTCATCTTAGACTTGATCAAGTTATTCAATGACGTTCCTGACGTCCTGGATGATTGCGTAACTCGCATTCTGCAATCTCCTAGGATTTTGAAACTTGGCTATAATTTTCAATGTGATATGAAGCAGTTGGCTCATTCGTATGGAGAGTTAGAGTGTTTCAAACACTATGAGATGTTACTGGACGTCCAGAATGTTTTCAAAGAAGCTCGCGGTGGTCTCTCTGGGCTTGCAAAGAAAATACTGGGAGTTGGTTTGAACAAGACAAGAAGGAATAGCAATTGGGAGCAACGACCTTTGACACCCAATCAGCTGGAGTATGCAGCTATCGATGCAGCTGTTCTAGTTCACATATTCCGCCATGTTCGGAATCATTCCCAGACTGCCGAGGGGGAAAAACCCGAGTGGAAATCCTGCATCGTTTCCCACATGGATAATAAGAAGACCAAAAAGGGGAGTCGAAAGGAGTCATCAGAAGCTGAGACAAAGGAAGAGCAGCAGCAACTTACTTAG
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
DNA_pol_A_exo1

Protein Analysis

576

Amino Acids

66.06

Weight (kDa)

6.69

Isoelectric Point (pI)

35.0

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DNA_pol_A_exo1 PF01612 355 - 529 1.3e-22 3'-5' 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)
AatII GACGTC 2 cut(s) 1263, 1404
Acc16I TGCGCA 1 cut(s) 1091
AccII CGCG 1 cut(s) 1428
AciI CCGC 3 cut(s) 584, 1428, 1573
AclWI GGATC 1 cut(s) 206
AcoI YGGCCR 1 cut(s) 622
AcsI RAATTY 1 cut(s) 791
AcuI CTGAAG 1 cut(s) 110
AcyI GRCGYC 2 cut(s) 1260, 1401
AfaI GTAC 3 cut(s) 201, 728, 999
AfiI CCNNNNNNNGG 3 cut(s) 221, 331, 1668
AjnI CCWGG 3 cut(s) 220, 720, 1263
AjuI GAANNNNNNNTTGG 2 cut(s) 1168, 1200
AluBI AGCT 9 cut(s) 230, 895, 929, 955, 1424, 1528, 1541, 1553, 1694
AluI AGCT 9 cut(s) 230, 895, 929, 955, 1424, 1528, 1541, 1553, 1694
Alw21I GWGCWC 2 cut(s) 603, 827
Alw26I GTCTC 3 cut(s) 570, 1439, 1691
AlwI GGATC 1 cut(s) 206
AlwNI CAGNNNCTG 1 cut(s) 1694
Ama87I CYCGRG 2 cut(s) 343, 1616
AoxI GGCC 1 cut(s) 622
ApeKI GCWGC 8 cut(s) 374, 581, 668, 1167, 1538, 1550, 1711, 1714
ApoI RAATTY 1 cut(s) 791
Asp700I GAANNNNTTC 2 cut(s) 189, 1412
AspA2I CCTAGG 1 cut(s) 1298
AspLEI GCGC 1 cut(s) 1092
AspS9I GGNCC 2 cut(s) 224, 367
AvaI CYCGRG 2 cut(s) 343, 1616
AvaII GGWCC 2 cut(s) 224, 367
AvrII CCTAGG 1 cut(s) 1298
AxyI CCTNAGG 1 cut(s) 1002
BalI TGGCCA 1 cut(s) 624
BanII GRGCYC 1 cut(s) 407
BbsI GAAGAC 2 cut(s) 1004, 1664
Bbv12I GWGCWC 2 cut(s) 603, 827
BbvI GCAGC 7 cut(s) 361, 568, 680, 1179, 1550, 1562, 1723
BccI CCATC 2 cut(s) 645, 1196
BceAI ACGGC 1 cut(s) 303
BciT130I CCWGG 3 cut(s) 222, 722, 1265
BclI TGATCA 1 cut(s) 1233
BcoDI GTCTC 3 cut(s) 570, 1439, 1691
BfaI CTAG 4 cut(s) 197, 839, 1299, 1559
BglI GCCNNNNNGGC 1 cut(s) 621
BisI GCNGC 8 cut(s) 375, 582, 669, 1168, 1539, 1551, 1712, 1715
BlnI CCTAGG 1 cut(s) 1298
BlsI GCNGC 8 cut(s) 376, 583, 670, 1169, 1540, 1552, 1713, 1716
BmcAI AGTACT 1 cut(s) 201
Bme1390I CCNGG 3 cut(s) 222, 722, 1265
Bme18I GGWCC 2 cut(s) 224, 367
BmeT110I CYCGRG 2 cut(s) 343, 1616
BmgT120I GGNCC 2 cut(s) 224, 367
BmrFI CCNGG 3 cut(s) 222, 722, 1265
BmrI ACTGGG 2 cut(s) 373, 1469
BmsI GCATC 6 cut(s) 1042, 1072, 1106, 1211, 1537, 1641
BmuI ACTGGG 2 cut(s) 373, 1469
BpiI GAAGAC 2 cut(s) 1004, 1664
BplI GAGNNNNNCTC 2 cut(s) 590, 622
BpmI CTGGAG 1 cut(s) 1550
Bsa29I ATCGAT 1 cut(s) 1545
BsaHI GRCGYC 2 cut(s) 1260, 1401
BsaI GGTCTC 1 cut(s) 1439
BsaJI CCNNGG 3 cut(s) 142, 1298, 1602
Bsc4I CCNNNNNNNGG 3 cut(s) 221, 331, 1668
Bse1I ACTGG 4 cut(s) 379, 625, 1401, 1464
Bse21I CCTNAGG 1 cut(s) 1002
Bse3DI GCAATG 3 cut(s) 214, 927, 1099
BseBI CCWGG 3 cut(s) 222, 722, 1265
BseCI ATCGAT 1 cut(s) 1545
BseDI CCNNGG 3 cut(s) 142, 1298, 1602
BseGI GGATG 2 cut(s) 1121, 1273
BseLI CCNNNNNNNGG 3 cut(s) 221, 331, 1668
BseMI GCAATG 3 cut(s) 214, 927, 1099
BseMII CTCAG 3 cut(s) 951, 993, 1686
BseNI ACTGG 4 cut(s) 379, 625, 1401, 1464
BseXI GCAGC 7 cut(s) 361, 568, 680, 1179, 1550, 1562, 1723
BseYI CCCAGC 1 cut(s) 855
Bsh1236I CGCG 1 cut(s) 1428
Bsh1285I CGRYCG 1 cut(s) 964
BshFI GGCC 1 cut(s) 624
BshVI ATCGAT 1 cut(s) 1545
BsiEI CGRYCG 1 cut(s) 964
BsiHKAI GWGCWC 2 cut(s) 603, 827
BsiHKCI CYCGRG 2 cut(s) 343, 1616
BslFI GGGAC 1 cut(s) 362
BslI CCNNNNNNNGG 3 cut(s) 221, 331, 1668
BsmAI GTCTC 3 cut(s) 570, 1439, 1691
BsmFI GGGAC 1 cut(s) 362
BsmI GAATGC 1 cut(s) 1284
BsnI GGCC 1 cut(s) 624
Bso31I GGTCTC 1 cut(s) 1439
BsoBI CYCGRG 2 cut(s) 343, 1616
Bsp1286I GDGCHC 3 cut(s) 407, 603, 827
Bsp143I GATC 2 cut(s) 211, 1233
Bsp19I CCATGG 1 cut(s) 142
BspACI CCGC 3 cut(s) 584, 1428, 1573
BspANI GGCC 1 cut(s) 624
BspCNI CTCAG 3 cut(s) 950, 994, 1687
BspDI ATCGAT 1 cut(s) 1545
BspFNI CGCG 1 cut(s) 1428
BspPI GGATC 1 cut(s) 206
BspQI GCTCTTC 2 cut(s) 318, 1701
BspTNI GGTCTC 1 cut(s) 1439
BsrDI GCAATG 3 cut(s) 214, 927, 1099
BsrI ACTGG 4 cut(s) 379, 625, 1401, 1464
BssECI CCNNGG 3 cut(s) 142, 1298, 1602
BssMI GATC 2 cut(s) 211, 1233
BssNI GRCGYC 2 cut(s) 1260, 1401
BssT1I CCWWGG 2 cut(s) 142, 1298
Bst2UI CCWGG 3 cut(s) 222, 722, 1265
Bst4CI ACNGT 3 cut(s) 281, 660, 884
Bst6I CTCTTC 2 cut(s) 318, 1701
BstACI GRCGYC 2 cut(s) 1260, 1401
BstC8I GCNNGC 4 cut(s) 71, 75, 1426, 1446
BstDEI CTNAG 7 cut(s) 162, 916, 937, 1002, 1225, 1695, 1725
BstDSI CCRYGG 1 cut(s) 142
BstF5I GGATG 2 cut(s) 1121, 1273
BstFNI CGCG 1 cut(s) 1428
BstHHI GCGC 1 cut(s) 1092
BstKTI GATC 2 cut(s) 214, 1236
BstMAI GTCTC 3 cut(s) 570, 1439, 1691
BstMBI GATC 2 cut(s) 211, 1233
BstMCI CGRYCG 1 cut(s) 964
BstMWI GCNNNNNNNGC 6 cut(s) 359, 621, 926, 1176, 1281, 1547
BstNI CCWGG 3 cut(s) 222, 722, 1265
BstNSI RCATGY 3 cut(s) 77, 342, 745
BstSCI CCNGG 3 cut(s) 220, 720, 1263
BstUI CGCG 1 cut(s) 1428
BstV1I GCAGC 7 cut(s) 361, 568, 680, 1179, 1550, 1562, 1723
BstV2I GAAGAC 2 cut(s) 1004, 1664
BstXI CCANNNNNNTGG 1 cut(s) 1528
Bsu15I ATCGAT 1 cut(s) 1545
Bsu36I CCTNAGG 1 cut(s) 1002
BsuRI GGCC 1 cut(s) 624
BsuTUI ATCGAT 1 cut(s) 1545
BtgI CCRYGG 1 cut(s) 142
BtsCI GGATG 2 cut(s) 1121, 1273
BtsIMutI CAGTG 1 cut(s) 251
Cac8I GCNNGC 4 cut(s) 71, 75, 1426, 1446
CaiI CAGNNNCTG 1 cut(s) 1694
CfoI GCGC 1 cut(s) 1092
Cfr13I GGNCC 2 cut(s) 224, 367
ClaI ATCGAT 1 cut(s) 1545
CseI GACGC 1 cut(s) 359
Csp6I GTAC 3 cut(s) 200, 727, 998
CviQI GTAC 3 cut(s) 200, 727, 998
DdeI CTNAG 7 cut(s) 162, 916, 937, 1002, 1225, 1695, 1725
DpnI GATC 2 cut(s) 213, 1235
DpnII GATC 2 cut(s) 211, 1233
EaeI YGGCCR 1 cut(s) 622
Eam1104I CTCTTC 2 cut(s) 318, 1701
EarI CTCTTC 2 cut(s) 318, 1701
EciI GGCGGA 1 cut(s) 1562
Eco130I CCWWGG 2 cut(s) 142, 1298
Eco24I GRGCYC 1 cut(s) 407
Eco31I GGTCTC 1 cut(s) 1439
Eco47I GGWCC 2 cut(s) 224, 367
Eco57I CTGAAG 1 cut(s) 110
Eco81I CCTNAGG 1 cut(s) 1002
Eco88I CYCGRG 2 cut(s) 343, 1616
EcoO109I RGGNCCY 1 cut(s) 367
EcoRII CCWGG 3 cut(s) 220, 720, 1263
EcoT14I CCWWGG 2 cut(s) 142, 1298
EcoT38I GRGCYC 1 cut(s) 407
ErhI CCWWGG 2 cut(s) 142, 1298
FaqI GGGAC 1 cut(s) 362
FbaI TGATCA 1 cut(s) 1233
Fnu4HI GCNGC 8 cut(s) 375, 582, 669, 1168, 1539, 1551, 1712, 1715
FokI GGATG 2 cut(s) 1128, 1280
FriOI GRGCYC 1 cut(s) 407
Fsp4HI GCNGC 8 cut(s) 375, 582, 669, 1168, 1539, 1551, 1712, 1715
FspBI CTAG 4 cut(s) 197, 839, 1299, 1559
FspI TGCGCA 1 cut(s) 1091
GlaI GCGC 1 cut(s) 1091
GluI GCNGC 8 cut(s) 375, 582, 669, 1168, 1539, 1551, 1712, 1715
GsaI CCCAGC 1 cut(s) 859
GsuI CTGGAG 1 cut(s) 1550
HaeIII GGCC 1 cut(s) 624
HgaI GACGC 1 cut(s) 359
HhaI GCGC 1 cut(s) 1092
Hin1I GRCGYC 2 cut(s) 1260, 1401
Hin6I GCGC 1 cut(s) 1090
HinP1I GCGC 1 cut(s) 1090
HincII GTYRAC 2 cut(s) 22, 412
HindII GTYRAC 2 cut(s) 22, 412
HinfI GANTC 4 cut(s) 563, 1585, 1672, 1682
Hpy166II GTNNAC 5 cut(s) 22, 412, 805, 913, 1564
Hpy188I TCNGA 8 cut(s) 54, 85, 173, 785, 940, 1207, 1584, 1690
Hpy188III TCNNGA 9 cut(s) 124, 182, 389, 797, 899, 1016, 1133, 1256, 1405
Hpy8I GTNNAC 5 cut(s) 22, 412, 805, 913, 1564
HpyAV CCTTC 5 cut(s) 278, 937, 971, 1049, 1479
HpyCH4III ACNGT 3 cut(s) 281, 660, 884
HpyCH4IV ACGT 3 cut(s) 1251, 1260, 1401
HpyF10VI GCNNNNNNNGC 6 cut(s) 359, 621, 926, 1176, 1281, 1547
HpyF3I CTNAG 7 cut(s) 162, 916, 937, 1002, 1225, 1695, 1725
HpySE526I ACGT 3 cut(s) 1251, 1260, 1401
Hsp92I GRCGYC 2 cut(s) 1260, 1401
HspAI GCGC 1 cut(s) 1090
Ksp22I TGATCA 1 cut(s) 1233
Kzo9I GATC 2 cut(s) 211, 1233
LguI GCTCTTC 2 cut(s) 318, 1701
LmnI GCTCC 1 cut(s) 1501
Lsp1109I GCAGC 7 cut(s) 361, 568, 680, 1179, 1550, 1562, 1723
LweI GCATC 6 cut(s) 1042, 1072, 1106, 1211, 1537, 1641
MaeI CTAG 4 cut(s) 197, 839, 1299, 1559
MaeII ACGT 3 cut(s) 1251, 1260, 1401
MaeIII GTNAC 4 cut(s) 586, 932, 1276, 1392
MalI GATC 2 cut(s) 213, 1235
MboI GATC 2 cut(s) 211, 1233
MboII GAAGA 6 cut(s) 170, 305, 448, 1004, 1669, 1718
MfeI CAATTG 1 cut(s) 1495
MhlI GDGCHC 3 cut(s) 407, 603, 827
MlsI TGGCCA 1 cut(s) 624
MluCI AATT 5 cut(s) 329, 505, 791, 1321, 1495
MluNI TGGCCA 1 cut(s) 624
MlyI GAGTC 3 cut(s) 572, 1681, 1691
MmeI TCCRAC 1 cut(s) 808
MnlI CCTC 9 cut(s) 4, 131, 260, 380, 417, 997, 1105, 1111, 1597
Mox20I TGGCCA 1 cut(s) 624
MroXI GAANNNNTTC 2 cut(s) 189, 1412
MscI TGGCCA 1 cut(s) 624
MseI TTAA 3 cut(s) 48, 153, 986
MslI CAYNNNNRTG 2 cut(s) 1038, 1356
Msp20I TGGCCA 1 cut(s) 624
MspA1I CMGCKG 2 cut(s) 1528, 1553
MspR9I CCNGG 3 cut(s) 222, 722, 1265
MunI CAATTG 1 cut(s) 1495
Mva1269I GAATGC 1 cut(s) 1284
MvaI CCWGG 3 cut(s) 222, 722, 1265
MvnI CGCG 1 cut(s) 1428
MwoI GCNNNNNNNGC 6 cut(s) 359, 621, 926, 1176, 1281, 1547
NcoI CCATGG 1 cut(s) 142
NdeII GATC 2 cut(s) 211, 1233
NmeAIII GCCGAG 1 cut(s) 1627
NsbI TGCGCA 1 cut(s) 1091
NspI RCATGY 3 cut(s) 77, 342, 745
PaeI GCATGC 1 cut(s) 77
PciSI GCTCTTC 2 cut(s) 318, 1701
PcsI WCGNNNNNNNCGW 1 cut(s) 1257
PctI GAATGC 1 cut(s) 1284
PdmI GAANNNNTTC 2 cut(s) 189, 1412
PfeI GAWTC 1 cut(s) 1585
PfoI TCCNGGA 2 cut(s) 720, 1263
PkrI GCNGC 8 cut(s) 376, 583, 670, 1169, 1540, 1552, 1713, 1716
PleI GAGTC 3 cut(s) 571, 1680, 1690
PpsI GAGTC 3 cut(s) 571, 1680, 1690
PpuMI RGGWCCY 1 cut(s) 367
Psp5II RGGWCCY 1 cut(s) 367
Psp6I CCWGG 3 cut(s) 220, 720, 1263
PspFI CCCAGC 1 cut(s) 855
PspGI CCWGG 3 cut(s) 220, 720, 1263
PspPI GGNCC 2 cut(s) 224, 367
PspPPI RGGWCCY 1 cut(s) 367
PstNI CAGNNNCTG 1 cut(s) 1694
PvuII CAGCTG 2 cut(s) 1528, 1553
RsaI GTAC 3 cut(s) 201, 728, 999
RsaNI GTAC 3 cut(s) 200, 727, 998
RseI CAYNNNNRTG 2 cut(s) 1038, 1356
SapI GCTCTTC 2 cut(s) 318, 1701
SaqAI TTAA 3 cut(s) 48, 153, 986
SatI GCNGC 8 cut(s) 375, 582, 669, 1168, 1539, 1551, 1712, 1715
Sau3AI GATC 2 cut(s) 211, 1233
Sau96I GGNCC 2 cut(s) 224, 367
ScaI AGTACT 1 cut(s) 201
SchI GAGTC 3 cut(s) 572, 1681, 1691
ScrFI CCNGG 3 cut(s) 222, 722, 1265
SduI GDGCHC 3 cut(s) 407, 603, 827
SfaNI GCATC 6 cut(s) 1042, 1072, 1106, 1211, 1537, 1641
SinI GGWCC 2 cut(s) 224, 367
SmiMI CAYNNNNRTG 2 cut(s) 1038, 1356
SphI GCATGC 1 cut(s) 77
Sse9I AATT 5 cut(s) 329, 505, 791, 1321, 1495
SsiI CCGC 3 cut(s) 584, 1428, 1573
SspI AATATT 1 cut(s) 905
SspMI CTAG 4 cut(s) 197, 839, 1299, 1559
StyD4I CCNGG 3 cut(s) 220, 720, 1263
StyI CCWWGG 2 cut(s) 142, 1298
TaaI ACNGT 3 cut(s) 281, 660, 884
TaiI ACGT 3 cut(s) 1254, 1263, 1404
TaqI TCGA 3 cut(s) 390, 1545, 1675
TaqII GACCGA 1 cut(s) 978
TasI AATT 5 cut(s) 329, 505, 791, 1321, 1495
TatI WGTACW 2 cut(s) 199, 726
TfiI GAWTC 1 cut(s) 1585
Tru1I TTAA 3 cut(s) 48, 153, 986
Tru9I TTAA 3 cut(s) 48, 153, 986
TscAI CASTG 1 cut(s) 251
TseI GCWGC 8 cut(s) 374, 581, 668, 1167, 1538, 1550, 1711, 1714
TspDTI ATGAA 7 cut(s) 103, 182, 679, 804, 1089, 1210, 1352
TspGWI ACGGA 1 cut(s) 93
TspRI CASTG 1 cut(s) 251
VpaK11BI GGWCC 2 cut(s) 224, 367
XapI RAATTY 1 cut(s) 791
XceI RCATGY 3 cut(s) 77, 342, 745
XcmI CCANNNNNNNNNTGG 1 cut(s) 728
XmaJI CCTAGG 1 cut(s) 1298
XmnI GAANNNNTTC 2 cut(s) 189, 1412
XspI CTAG 4 cut(s) 197, 839, 1299, 1559
ZraI GACGTC 2 cut(s) 1261, 1402
ZrmI AGTACT 1 cut(s) 201
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.