MD06G1045500.v1.1

Decapping nuclease DXO homolog

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr06
OG0008690
Physical Location & Seq
Forward (+)
6153885 .. 6164392
10508 bp
Loading structure...
UTR
Exon/CDS
Intron
MD06G1045500.v1.1.491

Sequence Viewer

Length: 1599 bp
ATGGATTTTTCAGAACACCACAAAAATATCTTCGGGCCAGACTACGACGACGACGACGACGGTAATAAACAAGATGGGGCCCGTTCATCCTCACCGTCCTCCTCCTCATCGTCGTCTTCGTCCTCATCTTCATCCTCATCGGCTTCTTCTTCATCCAACGAAGGAGGCGAGTCCAGCAGCGGGAATAGCCCGAGCGCAAGCAGTGGCGGCGGCGCTGGCGGTGGGGAAGAAGAGGTAGAGAATGGCGAAGAGGCTGATTATTCAAATGCCGCCACCGACGACAATGAGTATAGCAATATGGGTTATTTTGGGGAGGACGACAAGGATTTGTTTGGCTCTGACAATGAAGATTACTGTAAAACCCCTGCTACTAGTCCTTTCCCTATTCCTGGCTTGCAGCTTTGCCCAATATTGCCTGTCATACGCAATACGAATAATCAGGGTAGAGGGAATTCAGGGCGTGGTCGTTGGCCATCTGGACGTCCAAATGATAGAGGTGCAGGCATCCTTGGTCGAGGTGGACCTTTTCAGCAGAGGCAAAATTTTGGATATGATGGCTCAAATGGTTATCGCGATGAACGTTTTGTCTCGGAACTAAGACTACTTTCAAAGAGTGGAGAAACACTGTCAAGAAAGGCCGTTGCATTTCAGGAACCCTGTGAGCTTGCTTGCTATAGTCGGGTAGAAGGTGGAGATGTCAGCTTTGACGAGACCAGTTTGAGGCTTTTCAAGCGTCTTATTACTGAAGAAATTGGAAGAGATCTGAATGAAGGTTATGATACTTTTATTGCGAAGAAAGATTTGGGCTCTCAAGGTTTTGGTGACCTTCTCGGCTGCATAAGAGACAAGAATATTCCACTTCAAAACATTCATTTTGTGACTTATCGCAACAATCTTAATAAGATATTGGCCACTTTTTATAATAAAAGGGATCCTTGGGAGATGGGAGTGCATAAAAGGAATGGGGTTGTCTATCTTGATGTGCATAAACTACCTGAAAGGCCACAGACTGAGTTGGATCGAAGAAGGTGTTACTGGGGGTATTGTTTTGAGAGTCTTGCCACTGAAGATCCAGGAAGAGGCGATGGAGGGATACATCATGTTGATGCCAATGTTGAATACTGTTCTGTGATCAAAACAAAATTAGGGGCTCATCGCATTCTTATGGGTGCTGAAATGGATTGCTGTGACTCAACTGATGATGGAAGGAGGTTTTATGTGGAATTAAAGACAAGCCGTGAGTTGGACAACCATAAAATAGAGTATGAATTTGAGAAAGAGAAGCTCCTCAAGTTTTGGATTCAATCATTCTTAGCAGGTGTTCCCTATATTGTCATTGGGTTTAGGAATGATGCAGGTCAACTTGTTCGCACAGAGAGACTAAGAACCAAAGATATAACGCAAAGAGTGAAAATGAAGAACTACTGGCAGGGAGGAGTTTGCTTGGCATTTGCTGATGAGGTATTATGCTGGCTCTATGGGACCGTAAAAGATAATGAAGATTACATATTGCAGTTTACTCATCCTTACCAACGTTTGGAGCTTTTACAAGCCCAATCTTGCCCAGAAGAAATTACTAACCACGTTCAGCAATTGTAG
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
RAI1

Protein Analysis

533

Amino Acids

59.47

Weight (kDa)

5.05

Isoelectric Point (pI)

57.39

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RAI1 PF08652 217 - 519 5.6e-85 RAI1 like PD-(D/E)XK nuclease
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)
AanI TTATAA 1 cut(s) 921
AarI CACCTGC 1 cut(s) 1307
AatII GACGTC 1 cut(s) 484
Acc36I ACCTGC 2 cut(s) 1307, 1346
AccB7I CCANNNNNTGG 1 cut(s) 1537
AccII CGCG 1 cut(s) 573
AciI CCGC 5 cut(s) 180, 207, 210, 219, 270
AclI AACGTT 2 cut(s) 580, 1534
AclWI GGATC 4 cut(s) 926, 939, 1026, 1064
AcoI YGGCCR 2 cut(s) 470, 909
AcsI RAATTY 3 cut(s) 451, 541, 1268
AcuI CTGAAG 2 cut(s) 765, 1086
AcyI GRCGYC 1 cut(s) 481
AfiI CCNNNNNNNGG 6 cut(s) 180, 389, 720, 1079, 1243, 1537
AgsI TTSAA 6 cut(s) 264, 609, 730, 863, 1118, 1304
AhlI ACTAGT 1 cut(s) 371
AjnI CCWGG 2 cut(s) 388, 1072
AjuI GAANNNNNNNTTGG 2 cut(s) 785, 817
AluBI AGCT 5 cut(s) 400, 664, 702, 1285, 1543
AluI AGCT 5 cut(s) 400, 664, 702, 1285, 1543
Alw26I GTCTC 4 cut(s) 592, 704, 837, 1372
AlwI GGATC 4 cut(s) 926, 939, 1026, 1064
Ama87I CYCGRG 1 cut(s) 190
AoxI GGCC 6 cut(s) 35, 78, 470, 636, 909, 1001
ApaI GGGCCC 1 cut(s) 82
ApeKI GCWGC 3 cut(s) 177, 397, 834
ApoI RAATTY 3 cut(s) 451, 541, 1268
AspLEI GCGC 2 cut(s) 197, 215
AspS9I GGNCC 5 cut(s) 35, 78, 79, 521, 1482
AsuHPI GGTGA 2 cut(s) 84, 833
AvaI CYCGRG 1 cut(s) 190
AvaII GGWCC 2 cut(s) 521, 1482
BaeGI GKGCMC 1 cut(s) 82
BalI TGGCCA 2 cut(s) 472, 911
BamHI GGATCC 1 cut(s) 931
BanII GRGCYC 3 cut(s) 82, 809, 1153
BbsI GAAGAC 1 cut(s) 108
BbvI GCAGC 3 cut(s) 189, 409, 821
BccI CCATC 6 cut(s) 68, 481, 548, 937, 1079, 1196
BceAI ACGGC 2 cut(s) 623, 1221
BciT130I CCWGG 2 cut(s) 390, 1074
BciVI GTATCC 1 cut(s) 1086
BclI TGATCA 1 cut(s) 1131
BcoDI GTCTC 4 cut(s) 592, 704, 837, 1372
BcuI ACTAGT 1 cut(s) 371
BfaI CTAG 1 cut(s) 372
BfmI CTRYAG 1 cut(s) 673
BfoI RGCGCY 1 cut(s) 216
BfuAI ACCTGC 2 cut(s) 1307, 1346
BfuI GTATCC 1 cut(s) 1086
BglII AGATCT 1 cut(s) 760
BisI GCNGC 6 cut(s) 178, 208, 211, 270, 398, 835
BlsI GCNGC 6 cut(s) 179, 209, 212, 271, 399, 836
Bme1390I CCNGG 2 cut(s) 390, 1074
Bme18I GGWCC 2 cut(s) 521, 1482
BmeT110I CYCGRG 1 cut(s) 190
BmgT120I GGNCC 5 cut(s) 35, 78, 79, 521, 1482
BmiI GGNNCC 5 cut(s) 79, 80, 654, 933, 1483
BmrFI CCNGG 2 cut(s) 390, 1074
BmrI ACTGGG 1 cut(s) 1045
BmsI GCATC 3 cut(s) 513, 1096, 1342
BmuI ACTGGG 1 cut(s) 1045
BpiI GAAGAC 1 cut(s) 108
BpuEI CTTGAG 2 cut(s) 795, 1274
BsaHI GRCGYC 1 cut(s) 481
BsaI GGTCTC 1 cut(s) 704
BsaJI CCNNGG 2 cut(s) 508, 935
Bsc4I CCNNNNNNNGG 6 cut(s) 180, 389, 720, 1079, 1243, 1537
Bse1I ACTGG 3 cut(s) 714, 1040, 1430
BseBI CCWGG 2 cut(s) 390, 1074
BseDI CCNNGG 2 cut(s) 508, 935
BseGI GGATG 5 cut(s) 86, 131, 152, 504, 1522
BseLI CCNNNNNNNGG 6 cut(s) 180, 389, 720, 1079, 1243, 1537
BseMII CTCAG 1 cut(s) 1002
BseNI ACTGG 3 cut(s) 714, 1040, 1430
BseRI GAGGAG 4 cut(s) 91, 94, 1277, 1449
BseSI GKGCMC 1 cut(s) 82
BseXI GCAGC 3 cut(s) 189, 409, 821
BsgI GTGCAG 1 cut(s) 519
Bsh1236I CGCG 1 cut(s) 573
BshFI GGCC 6 cut(s) 37, 80, 472, 638, 911, 1003
BsiHKCI CYCGRG 1 cut(s) 190
BslFI GGGAC 1 cut(s) 1495
BslI CCNNNNNNNGG 6 cut(s) 180, 389, 720, 1079, 1243, 1537
BsmAI GTCTC 4 cut(s) 592, 704, 837, 1372
BsmFI GGGAC 1 cut(s) 1495
BsmI GAATGC 1 cut(s) 1158
BsnI GGCC 6 cut(s) 37, 80, 472, 638, 911, 1003
Bso31I GGTCTC 1 cut(s) 704
BsoBI CYCGRG 1 cut(s) 190
Bsp120I GGGCCC 1 cut(s) 78
Bsp1286I GDGCHC 3 cut(s) 82, 809, 1153
Bsp143I GATC 5 cut(s) 760, 931, 1018, 1069, 1131
Bsp68I TCGCGA 1 cut(s) 573
BspACI CCGC 5 cut(s) 180, 207, 210, 219, 270
BspANI GGCC 6 cut(s) 37, 80, 472, 638, 911, 1003
BspCNI CTCAG 1 cut(s) 1003
BspFNI CGCG 1 cut(s) 573
BspLI GGNNCC 5 cut(s) 79, 80, 654, 933, 1483
BspMI ACCTGC 2 cut(s) 1307, 1346
BspPI GGATC 4 cut(s) 926, 939, 1026, 1064
BspTNI GGTCTC 1 cut(s) 704
BsrI ACTGG 3 cut(s) 714, 1040, 1430
BssECI CCNNGG 2 cut(s) 508, 935
BssMI GATC 5 cut(s) 760, 931, 1018, 1069, 1131
BssNI GRCGYC 1 cut(s) 481
BssT1I CCWWGG 2 cut(s) 508, 935
Bst2UI CCWGG 2 cut(s) 390, 1074
Bst4CI ACNGT 6 cut(s) 62, 96, 356, 627, 1124, 1486
Bst6I CTCTTC 4 cut(s) 225, 243, 751, 1072
BstACI GRCGYC 1 cut(s) 481
BstC8I GCNNGC 7 cut(s) 199, 217, 395, 502, 666, 670, 1472
BstDEI CTNAG 4 cut(s) 596, 1011, 1312, 1382
BstEII GGTNACC 1 cut(s) 821
BstF5I GGATG 5 cut(s) 86, 131, 152, 504, 1522
BstFNI CGCG 1 cut(s) 573
BstH2I RGCGCY 1 cut(s) 216
BstHHI GCGC 2 cut(s) 197, 215
BstKTI GATC 5 cut(s) 763, 934, 1021, 1072, 1134
BstMAI GTCTC 4 cut(s) 592, 704, 837, 1372
BstMBI GATC 5 cut(s) 760, 931, 1018, 1069, 1131
BstMWI GCNNNNNNNGC 5 cut(s) 174, 186, 207, 216, 730
BstNI CCWGG 2 cut(s) 390, 1074
BstPI GGTNACC 1 cut(s) 821
BstSCI CCNGG 2 cut(s) 388, 1072
BstSFI CTRYAG 1 cut(s) 673
BstSLI GKGCMC 1 cut(s) 82
BstUI CGCG 1 cut(s) 573
BstV1I GCAGC 3 cut(s) 189, 409, 821
BstV2I GAAGAC 1 cut(s) 108
BstX2I RGATCY 3 cut(s) 760, 931, 1069
BstYI RGATCY 3 cut(s) 760, 931, 1069
BsuI GTATCC 1 cut(s) 1086
BsuRI GGCC 6 cut(s) 37, 80, 472, 638, 911, 1003
BtgZI GCGATG 3 cut(s) 588, 1098, 1139
BtsCI GGATG 5 cut(s) 86, 131, 152, 504, 1522
BtsI GCAGTG 1 cut(s) 208
BtsIMutI CAGTG 3 cut(s) 208, 623, 1062
BtuMI TCGCGA 1 cut(s) 573
BveI ACCTGC 2 cut(s) 1307, 1346
Cac8I GCNNGC 7 cut(s) 199, 217, 395, 502, 666, 670, 1472
CfoI GCGC 2 cut(s) 197, 215
Cfr13I GGNCC 5 cut(s) 35, 78, 79, 521, 1482
CseI GACGC 1 cut(s) 722
CviAII CATG 1 cut(s) 1100
DdeI CTNAG 4 cut(s) 596, 1011, 1312, 1382
DpnI GATC 5 cut(s) 762, 933, 1020, 1071, 1133
DpnII GATC 5 cut(s) 760, 931, 1018, 1069, 1131
EaeI YGGCCR 2 cut(s) 470, 909
Eam1104I CTCTTC 4 cut(s) 225, 243, 751, 1072
EarI CTCTTC 4 cut(s) 225, 243, 751, 1072
Eco130I CCWWGG 2 cut(s) 508, 935
Eco24I GRGCYC 3 cut(s) 82, 809, 1153
Eco31I GGTCTC 1 cut(s) 704
Eco47I GGWCC 2 cut(s) 521, 1482
Eco57I CTGAAG 2 cut(s) 765, 1086
Eco88I CYCGRG 1 cut(s) 190
Eco91I GGTNACC 1 cut(s) 821
EcoO109I RGGNCCY 1 cut(s) 78
EcoO65I GGTNACC 1 cut(s) 821
EcoRI GAATTC 1 cut(s) 451
EcoRII CCWGG 2 cut(s) 388, 1072
EcoT14I CCWWGG 2 cut(s) 508, 935
EcoT38I GRGCYC 3 cut(s) 82, 809, 1153
ErhI CCWWGG 2 cut(s) 508, 935
FaeI CATG 1 cut(s) 1103
FalI AAGNNNNNCTT 2 cut(s) 919, 951
FaqI GGGAC 1 cut(s) 1495
FatI CATG 1 cut(s) 1099
FauI CCCGC 1 cut(s) 173
FbaI TGATCA 1 cut(s) 1131
Fnu4HI GCNGC 6 cut(s) 178, 208, 211, 270, 398, 835
FokI GGATG 5 cut(s) 73, 118, 139, 491, 1509
FriOI GRGCYC 3 cut(s) 82, 809, 1153
Fsp4HI GCNGC 6 cut(s) 178, 208, 211, 270, 398, 835
FspBI CTAG 1 cut(s) 372
GlaI GCGC 2 cut(s) 196, 214
GluI GCNGC 6 cut(s) 178, 208, 211, 270, 398, 835
HaeII RGCGCY 1 cut(s) 216
HaeIII GGCC 6 cut(s) 37, 80, 472, 638, 911, 1003
HgaI GACGC 1 cut(s) 722
HhaI GCGC 2 cut(s) 197, 215
Hin1I GRCGYC 1 cut(s) 481
Hin1II CATG 1 cut(s) 1103
Hin6I GCGC 2 cut(s) 195, 213
HinP1I GCGC 2 cut(s) 195, 213
HincII GTYRAC 1 cut(s) 1361
HindII GTYRAC 1 cut(s) 1361
HinfI GANTC 4 cut(s) 170, 1054, 1190, 1300
HphI GGTGA 2 cut(s) 84, 833
Hpy166II GTNNAC 3 cut(s) 521, 1361, 1518
Hpy188I TCNGA 4 cut(s) 13, 340, 592, 765
Hpy188III TCNNGA 5 cut(s) 477, 572, 630, 650, 977
Hpy8I GTNNAC 3 cut(s) 521, 1361, 1518
Hpy99I CGWCG 7 cut(s) 50, 53, 56, 59, 62, 115, 281
HpyAV CCTTC 6 cut(s) 155, 680, 764, 836, 1020, 1200
HpyCH4III ACNGT 6 cut(s) 62, 96, 356, 627, 1124, 1486
HpyCH4IV ACGT 4 cut(s) 481, 580, 1534, 1584
HpyCH4V TGCA 8 cut(s) 397, 500, 644, 837, 952, 985, 1355, 1513
HpyF10VI GCNNNNNNNGC 5 cut(s) 174, 186, 207, 216, 730
HpyF3I CTNAG 4 cut(s) 596, 1011, 1312, 1382
HpySE526I ACGT 4 cut(s) 481, 580, 1534, 1584
Hsp92I GRCGYC 1 cut(s) 481
Hsp92II CATG 1 cut(s) 1103
HspAI GCGC 2 cut(s) 195, 213
Ksp22I TGATCA 1 cut(s) 1131
Kzo9I GATC 5 cut(s) 760, 931, 1018, 1069, 1131
LmnI GCTCC 2 cut(s) 1290, 1540
Lsp1109I GCAGC 3 cut(s) 189, 409, 821
LweI GCATC 3 cut(s) 513, 1096, 1342
MaeI CTAG 1 cut(s) 372
MaeII ACGT 4 cut(s) 481, 580, 1534, 1584
MaeIII GTNAC 4 cut(s) 821, 877, 1031, 1187
MalI GATC 5 cut(s) 762, 933, 1020, 1071, 1133
MboI GATC 5 cut(s) 760, 931, 1018, 1069, 1131
MfeI CAATTG 1 cut(s) 1592
MflI RGATCY 3 cut(s) 760, 931, 1069
MhlI GDGCHC 3 cut(s) 82, 809, 1153
MlsI TGGCCA 2 cut(s) 472, 911
MluCI AATT 8 cut(s) 451, 541, 750, 1142, 1223, 1268, 1572, 1592
MluNI TGGCCA 2 cut(s) 472, 911
MlyI GAGTC 3 cut(s) 179, 1063, 1184
MmeI TCCRAC 3 cut(s) 180, 996, 1224
Mox20I TGGCCA 2 cut(s) 472, 911
MscI TGGCCA 2 cut(s) 472, 911
MseI TTAA 2 cut(s) 897, 1226
MslI CAYNNNNRTG 2 cut(s) 1104, 1163
Msp20I TGGCCA 2 cut(s) 472, 911
MspA1I CMGCKG 1 cut(s) 180
MspR9I CCNGG 2 cut(s) 390, 1074
MunI CAATTG 1 cut(s) 1592
Mva1269I GAATGC 1 cut(s) 1158
MvaI CCWGG 2 cut(s) 390, 1074
MvnI CGCG 1 cut(s) 573
MwoI GCNNNNNNNGC 5 cut(s) 174, 186, 207, 216, 730
NdeII GATC 5 cut(s) 760, 931, 1018, 1069, 1131
NlaIII CATG 1 cut(s) 1103
NlaIV GGNNCC 5 cut(s) 79, 80, 654, 933, 1483
NmeAIII GCCGAG 1 cut(s) 810
NmuCI GTSAC 3 cut(s) 821, 877, 1187
NruI TCGCGA 1 cut(s) 573
PaqCI CACCTGC 1 cut(s) 1307
PcsI WCGNNNNNNNCGW 5 cut(s) 51, 54, 116, 165, 577
PctI GAATGC 1 cut(s) 1158
PfeI GAWTC 1 cut(s) 1300
PflMI CCANNNNNTGG 1 cut(s) 1537
PfoI TCCNGGA 1 cut(s) 1072
PkrI GCNGC 6 cut(s) 179, 209, 212, 271, 399, 836
PleI GAGTC 3 cut(s) 178, 1062, 1184
PpsI GAGTC 3 cut(s) 178, 1062, 1184
PsiI TTATAA 1 cut(s) 921
Psp1406I AACGTT 2 cut(s) 580, 1534
Psp6I CCWGG 2 cut(s) 388, 1072
PspEI GGTNACC 1 cut(s) 821
PspGI CCWGG 2 cut(s) 388, 1072
PspN4I GGNNCC 5 cut(s) 79, 80, 654, 933, 1483
PspOMI GGGCCC 1 cut(s) 78
PspPI GGNCC 5 cut(s) 35, 78, 79, 521, 1482
PsrI GAACNNNNNNTAC 2 cut(s) 585, 617
PsuI RGATCY 3 cut(s) 760, 931, 1069
RruI TCGCGA 1 cut(s) 573
RseI CAYNNNNRTG 2 cut(s) 1104, 1163
SaqAI TTAA 2 cut(s) 897, 1226
SatI GCNGC 6 cut(s) 178, 208, 211, 270, 398, 835
Sau3AI GATC 5 cut(s) 760, 931, 1018, 1069, 1131
Sau96I GGNCC 5 cut(s) 35, 78, 79, 521, 1482
SchI GAGTC 3 cut(s) 179, 1063, 1184
ScrFI CCNGG 2 cut(s) 390, 1074
SduI GDGCHC 3 cut(s) 82, 809, 1153
SfaNI GCATC 3 cut(s) 513, 1096, 1342
SfcI CTRYAG 1 cut(s) 673
SinI GGWCC 2 cut(s) 521, 1482
SmiMI CAYNNNNRTG 2 cut(s) 1104, 1163
SmlI CTYRAG 2 cut(s) 810, 1289
SmoI CTYRAG 2 cut(s) 810, 1289
SpeI ACTAGT 1 cut(s) 371
Sse9I AATT 8 cut(s) 451, 541, 750, 1142, 1223, 1268, 1572, 1592
SsiI CCGC 5 cut(s) 180, 207, 210, 219, 270
SspI AATATT 2 cut(s) 411, 853
SspMI CTAG 1 cut(s) 372
StyD4I CCNGG 2 cut(s) 388, 1072
StyI CCWWGG 2 cut(s) 508, 935
TaaI ACNGT 6 cut(s) 62, 96, 356, 627, 1124, 1486
TaiI ACGT 4 cut(s) 484, 583, 1537, 1587
TaqI TCGA 2 cut(s) 514, 1021
TasI AATT 8 cut(s) 451, 541, 750, 1142, 1223, 1268, 1572, 1592
TauI GCSGC 3 cut(s) 210, 213, 272
TfiI GAWTC 1 cut(s) 1300
Tru1I TTAA 2 cut(s) 897, 1226
Tru9I TTAA 2 cut(s) 897, 1226
TscAI CASTG 3 cut(s) 208, 630, 1069
TseFI GTSAC 3 cut(s) 821, 877, 1187
TseI GCWGC 3 cut(s) 177, 397, 834
Tsp45I GTSAC 3 cut(s) 821, 877, 1187
TspRI CASTG 3 cut(s) 208, 630, 1069
Van91I CCANNNNNTGG 1 cut(s) 1537
VpaK11BI GGWCC 2 cut(s) 521, 1482
XapI RAATTY 3 cut(s) 451, 541, 1268
XspI CTAG 1 cut(s) 372
ZraI GACGTC 1 cut(s) 482
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.