MD15G1438000.v1.1

Regulator of nonsense transcripts

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr15
OG0017384
Physical Location & Seq
Reverse (-)
53771768 .. 53780766
8999 bp
Loading structure...
UTR
Exon/CDS
Intron
MD15G1438000.v1.1.491

Sequence Viewer

Length: 1452 bp
ATGATGAAGGGCCAGTTGGATCGTACCAAGGTGGTGCTGCGACACTTGCCGCCTTCGATTTCGCAAGCTGCGCTTGTGGAACAAATCGACGTTTTCTTTGCTGGCCGCTACAGTTGGGTTGCTTTTCGTCCGGGCAAGAGGAGCCAAAAGAATCAGTCATATTCTAGAGCCTACATTGATTTGAAGAGGCCAGAGGATGTATTCGAGTTTGCTGAATTCTTTGATGGTCATCTGTTTGTTAATGAGAAGGGCGGTCAATTTAAAGTTATTGTTGAGTATGCTCCATCACAACGTGTTCCAGAACATTGGTCTAAGAAGGATGGTCGTGAAGGAACCATATTCAGTGATCCCGAGTATCTGGAGTTTCTTGAATTTATTGCAAAGCCTGCTGAGAATCTTCCAAGTGCAGAGTTACAATTGGAGAGAAGAGAAGCAGAACGATCTGGTGCTGGAAAGGATGCTCCTATAGTTACACCATTAATGGACTTTGTTCGTCAAAAAAGGGCTGCCAAGGCTGGATCTCGGAGGTTACTGTCTAATGGTAAAGCAAGCAGAAGAGCTGGTGTATCATCTTCTCGAAGTCCTACTTTACCTATGACCAAACGAGGTTCTGAGAGGAAAAAGAATTCTGCCTCAATGTATGTTGTGAGGGATGCTAGAAAGAACACCGGTGACAAAAACAAGTCAACACATATATTGGTACCCAAGCGCGAGGATCAGCAACCTTCCGAGAAGTCTGCCACTTTGGCATCTGCAGTTGGAACTGAATTGTCGGAAGAGAGTGGAGTTTCTGGTGTGGATGCTGGGAAAAAGAAAGTCTTGCTTGTGAAAGGGAAAGAGAAGGAGATATCTCATGTGCCGCCAAACATGTCTCAGCAGCAGAGTTCATATTCTAAAAACATGGGTGGTTCAATTGCACTGAAACAGAACCCGCGTTGTCATGATAATGGAAGGATTATAAAAGGCATACTTCTAAACAAGGAGGCACGTCAAAGTCAGTCTTCTGGGATTCACTCGGGGCAGCAAATCCAGAGTTCGAGTTCAGATAGGGACAAACGATTTCCTCGATCGCAACATGTGCAATTGATTTTAAAGGATATAAATGGGACTCCAGATCATAAGATAGTTGGGAATGACTTGCATGATATTTATAGTGAGAAGCAGGAGAAACGGACAAAAAATAAGGACAGACCTGATCGTGGTGTATGGACGCCTCTTAATCGTTTAGATGGATCATCTGCAAGCGATGAGTCTTTCTCATCTGCTTTTCAACCGGATCACTCACTTTTAGATTCTTCAGAAGGCTCTCATAAACATCATGGTCGCCGTGGAGCAAAACATGGTAAGGAACTTGATGGCTCACCAGTTGCAGGTGAAGGAAAACATTCGAAGAAAGGCTATGGCTCCCACGAGAAACAAGTGTGGATTCAGAAGTCGAGTTCTGGTTCCTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03013 ko03015 map03013 map03015
Pfam Domains
Protein Families
Smg4_UPF3

Protein Analysis

484

Amino Acids

53.7

Weight (kDa)

9.81

Isoelectric Point (pI)

54.68

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Smg4_UPF3 PF03467 8 - 169 5.4e-52 Smg-4/UPF3 family
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) 959
AarI CACCTGC 1 cut(s) 1361
Acc36I ACCTGC 1 cut(s) 1361
Acc65I GGTACC 1 cut(s) 700
AccB1I GGYRCC 1 cut(s) 700
AccII CGCG 2 cut(s) 711, 934
AciI CCGC 5 cut(s) 50, 106, 252, 860, 932
AclWI GGATC 6 cut(s) 27, 341, 526, 723, 1240, 1284
AcoI YGGCCR 1 cut(s) 103
AcsI RAATTY 3 cut(s) 215, 371, 625
AcuI CTGAAG 1 cut(s) 1281
AcyI GRCGYC 1 cut(s) 1211
AdeI CACNNNGTG 1 cut(s) 293
AfaI GTAC 2 cut(s) 25, 702
AfiI CCNNNNNNNGG 2 cut(s) 1199, 1370
AflIII ACRYGT 3 cut(s) 292, 867, 1075
AgeI ACCGGT 1 cut(s) 668
AgsI TTSAA 4 cut(s) 184, 371, 912, 1271
AjiI CACGTC 1 cut(s) 989
AjuI GAANNNNNNNTTGG 1 cut(s) 31
AluBI AGCT 2 cut(s) 68, 560
AluI AGCT 2 cut(s) 68, 560
Alw26I GTCTC 1 cut(s) 876
AlwI GGATC 6 cut(s) 27, 341, 526, 723, 1240, 1284
Ama87I CYCGRG 2 cut(s) 350, 1015
AoxI GGCC 3 cut(s) 10, 103, 188
ApeKI GCWGC 5 cut(s) 37, 68, 506, 877, 1021
ApoI RAATTY 3 cut(s) 215, 371, 625
ArsI GACNNNNNNTTYG 2 cut(s) 80, 112
AseI ATTAAT 1 cut(s) 479
AsiGI ACCGGT 1 cut(s) 668
Asp700I GAANNNNTTC 1 cut(s) 1384
Asp718I GGTACC 1 cut(s) 700
AspLEI GCGC 2 cut(s) 73, 711
AspS9I GGNCC 1 cut(s) 10
AsuC2I CCSGG 1 cut(s) 132
AsuHPI GGTGA 3 cut(s) 683, 1353, 1385
AsuII TTCGAA 1 cut(s) 1388
AvaI CYCGRG 2 cut(s) 350, 1015
BanI GGYRCC 1 cut(s) 700
BauI CACGAG 1 cut(s) 1409
BbsI GAAGAC 1 cut(s) 993
BbvI GCAGC 5 cut(s) 24, 55, 493, 889, 1033
BccI CCATC 5 cut(s) 218, 292, 314, 1223, 1349
BceAI ACGGC 1 cut(s) 1311
BcgI CGANNNNNNTGC 2 cut(s) 719, 753
BcnI CCSGG 1 cut(s) 132
BcoDI GTCTC 1 cut(s) 876
BfaI CTAG 3 cut(s) 165, 657, 1450
BfmI CTRYAG 3 cut(s) 109, 465, 753
BfuAI ACCTGC 1 cut(s) 1361
BglI GCCNNNNNGGC 1 cut(s) 746
BisI GCNGC 8 cut(s) 38, 50, 69, 106, 507, 860, 878, 1022
BlsI GCNGC 8 cut(s) 39, 51, 70, 107, 508, 861, 879, 1023
Bme1390I CCNGG 1 cut(s) 132
BmeT110I CYCGRG 2 cut(s) 350, 1015
BmgBI CACGTC 1 cut(s) 989
BmgT120I GGNCC 1 cut(s) 10
BmiI GGNNCC 5 cut(s) 143, 334, 702, 1405, 1447
BmrFI CCNGG 1 cut(s) 132
BmsI GCATC 4 cut(s) 448, 643, 758, 790
BpiI GAAGAC 1 cut(s) 993
BplI GAGNNNNNCTC 2 cut(s) 1241, 1273
BpmI CTGGAG 2 cut(s) 380, 1095
Bpu14I TTCGAA 1 cut(s) 1388
BpuMI CCSGG 1 cut(s) 132
BsaBI GATNNNNATC 1 cut(s) 228
BsaHI GRCGYC 1 cut(s) 1211
BsaJI CCNNGG 3 cut(s) 27, 510, 1327
BsaWI WCCGGW 2 cut(s) 668, 1273
Bsc4I CCNNNNNNNGG 2 cut(s) 1199, 1370
Bse118I RCCGGY 1 cut(s) 668
Bse1I ACTGG 2 cut(s) 13, 1364
Bse8I GATNNNNATC 1 cut(s) 228
BseDI CCNNGG 3 cut(s) 27, 510, 1327
BseGI GGATG 5 cut(s) 202, 325, 463, 658, 805
BseJI GATNNNNATC 1 cut(s) 228
BseLI CCNNNNNNNGG 2 cut(s) 1199, 1370
BseMII CTCAG 3 cut(s) 381, 603, 887
BseNI ACTGG 2 cut(s) 13, 1364
BseRI GAGGAG 1 cut(s) 154
BseXI GCAGC 5 cut(s) 24, 55, 493, 889, 1033
BseYI CCCAGC 1 cut(s) 803
BsgI GTGCAG 1 cut(s) 426
Bsh1236I CGCG 2 cut(s) 711, 934
Bsh1285I CGRYCG 1 cut(s) 1070
BshFI GGCC 3 cut(s) 12, 105, 190
BshNI GGYRCC 1 cut(s) 700
BshTI ACCGGT 1 cut(s) 668
BsiEI CGRYCG 1 cut(s) 1070
BsiHKCI CYCGRG 2 cut(s) 350, 1015
BsiSI CCGG 3 cut(s) 131, 669, 1274
BslFI GGGAC 2 cut(s) 1064, 1120
BslI CCNNNNNNNGG 2 cut(s) 1199, 1370
BsmAI GTCTC 1 cut(s) 876
BsmFI GGGAC 2 cut(s) 1064, 1120
BsnI GGCC 3 cut(s) 12, 105, 190
BsoBI CYCGRG 2 cut(s) 350, 1015
Bsp119I TTCGAA 1 cut(s) 1388
BspACI CCGC 5 cut(s) 50, 106, 252, 860, 932
BspANI GGCC 3 cut(s) 12, 105, 190
BspCNI CTCAG 3 cut(s) 382, 604, 886
BspFNI CGCG 2 cut(s) 711, 934
BspHI TCATGA 1 cut(s) 940
BspLI GGNNCC 5 cut(s) 143, 334, 702, 1405, 1447
BspMAI CTGCAG 1 cut(s) 757
BspMI ACCTGC 1 cut(s) 1361
BspPI GGATC 6 cut(s) 27, 341, 526, 723, 1240, 1284
BspQI GCTCTTC 1 cut(s) 550
BspT104I TTCGAA 1 cut(s) 1388
BspT107I GGYRCC 1 cut(s) 700
BsrFI RCCGGY 1 cut(s) 668
BsrI ACTGG 2 cut(s) 13, 1364
BssAI RCCGGY 1 cut(s) 668
BssECI CCNNGG 3 cut(s) 27, 510, 1327
BssNI GRCGYC 1 cut(s) 1211
BssSI CACGAG 1 cut(s) 1409
BssT1I CCWWGG 2 cut(s) 27, 510
Bst2BI CACGAG 1 cut(s) 1409
Bst4CI ACNGT 2 cut(s) 113, 534
Bst6I CTCTTC 4 cut(s) 179, 421, 550, 771
BstACI GRCGYC 1 cut(s) 1211
BstAPI GCANNNNNTGC 2 cut(s) 386, 1078
BstBI TTCGAA 1 cut(s) 1388
BstC8I GCNNGC 5 cut(s) 66, 103, 387, 550, 1243
BstDEI CTNAG 4 cut(s) 312, 390, 612, 873
BstDSI CCRYGG 1 cut(s) 1327
BstF5I GGATG 5 cut(s) 202, 325, 463, 658, 805
BstFNI CGCG 2 cut(s) 711, 934
BstHHI GCGC 2 cut(s) 73, 711
BstMAI GTCTC 1 cut(s) 876
BstMCI CGRYCG 1 cut(s) 1070
BstMWI GCNNNNNNNGC 7 cut(s) 46, 70, 141, 386, 512, 746, 1078
BstNSI RCATGY 2 cut(s) 871, 1079
BstSCI CCNGG 1 cut(s) 130
BstSFI CTRYAG 3 cut(s) 109, 465, 753
BstUI CGCG 2 cut(s) 711, 934
BstV1I GCAGC 5 cut(s) 24, 55, 493, 889, 1033
BstV2I GAAGAC 1 cut(s) 993
BstX2I RGATCY 1 cut(s) 518
BstXI CCANNNNNNTGG 1 cut(s) 306
BstYI RGATCY 1 cut(s) 518
BsuRI GGCC 3 cut(s) 12, 105, 190
BtgI CCRYGG 1 cut(s) 1327
BtgZI GCGATG 1 cut(s) 1260
BtrI CACGTC 1 cut(s) 989
BtsCI GGATG 5 cut(s) 202, 325, 463, 658, 805
BtsIMutI CAGTG 2 cut(s) 349, 917
BveI ACCTGC 1 cut(s) 1361
Cac8I GCNNGC 5 cut(s) 66, 103, 387, 550, 1243
CciI TCATGA 1 cut(s) 940
CfoI GCGC 2 cut(s) 73, 711
Cfr10I RCCGGY 1 cut(s) 668
Cfr13I GGNCC 1 cut(s) 10
CseI GACGC 1 cut(s) 1219
Csp6I GTAC 2 cut(s) 24, 701
CspAI ACCGGT 1 cut(s) 668
CviAII CATG 8 cut(s) 854, 868, 901, 941, 1076, 1142, 1319, 1340
CviQI GTAC 2 cut(s) 24, 701
DdeI CTNAG 4 cut(s) 312, 390, 612, 873
DraI TTTAAA 2 cut(s) 262, 1092
DraIII CACNNNGTG 1 cut(s) 293
EaeI YGGCCR 1 cut(s) 103
Eam1104I CTCTTC 4 cut(s) 179, 421, 550, 771
EarI CTCTTC 4 cut(s) 179, 421, 550, 771
Eco130I CCWWGG 2 cut(s) 27, 510
Eco32I GATATC 1 cut(s) 849
Eco57I CTGAAG 1 cut(s) 1281
Eco88I CYCGRG 2 cut(s) 350, 1015
EcoRI GAATTC 2 cut(s) 215, 625
EcoRV GATATC 1 cut(s) 849
EcoT14I CCWWGG 2 cut(s) 27, 510
ErhI CCWWGG 2 cut(s) 27, 510
FaeI CATG 8 cut(s) 857, 871, 904, 944, 1079, 1145, 1322, 1343
FaqI GGGAC 2 cut(s) 1064, 1120
FatI CATG 8 cut(s) 853, 867, 900, 940, 1075, 1141, 1318, 1339
FauI CCCGC 1 cut(s) 939
Fnu4HI GCNGC 8 cut(s) 38, 50, 69, 106, 507, 860, 878, 1022
FokI GGATG 5 cut(s) 209, 332, 470, 665, 812
Fsp4HI GCNGC 8 cut(s) 38, 50, 69, 106, 507, 860, 878, 1022
FspBI CTAG 3 cut(s) 165, 657, 1450
GlaI GCGC 2 cut(s) 72, 710
GluI GCNGC 8 cut(s) 38, 50, 69, 106, 507, 860, 878, 1022
GsaI CCCAGC 1 cut(s) 807
GsuI CTGGAG 2 cut(s) 380, 1095
HaeIII GGCC 3 cut(s) 12, 105, 190
HapII CCGG 3 cut(s) 131, 669, 1274
HgaI GACGC 1 cut(s) 1219
HhaI GCGC 2 cut(s) 73, 711
Hin1I GRCGYC 1 cut(s) 1211
Hin1II CATG 8 cut(s) 857, 871, 904, 944, 1079, 1145, 1322, 1343
Hin6I GCGC 2 cut(s) 71, 709
HinP1I GCGC 2 cut(s) 71, 709
HincII GTYRAC 1 cut(s) 687
HindII GTYRAC 1 cut(s) 687
HinfI GANTC 7 cut(s) 151, 394, 1009, 1108, 1250, 1292, 1426
HpaII CCGG 3 cut(s) 131, 669, 1274
HphI GGTGA 3 cut(s) 683, 1353, 1385
Hpy166II GTNNAC 1 cut(s) 687
Hpy188I TCNGA 7 cut(s) 525, 613, 730, 775, 1045, 1300, 1431
Hpy8I GTNNAC 1 cut(s) 687
Hpy99I CGWCG 1 cut(s) 92
HpyAV CCTTC 9 cut(s) 63, 241, 310, 323, 735, 835, 945, 1295, 1370
HpyCH4III ACNGT 2 cut(s) 113, 534
HpyCH4IV ACGT 3 cut(s) 90, 292, 988
HpyCH4V TGCA 8 cut(s) 380, 407, 755, 917, 1081, 1141, 1241, 1370
HpyF10VI GCNNNNNNNGC 7 cut(s) 46, 70, 141, 386, 512, 746, 1078
HpyF3I CTNAG 4 cut(s) 312, 390, 612, 873
HpySE526I ACGT 3 cut(s) 90, 292, 988
Hsp92I GRCGYC 1 cut(s) 1211
Hsp92II CATG 8 cut(s) 857, 871, 904, 944, 1079, 1145, 1322, 1343
HspAI GCGC 2 cut(s) 71, 709
KpnI GGTACC 1 cut(s) 704
LguI GCTCTTC 1 cut(s) 550
LmnI GCTCC 5 cut(s) 141, 286, 466, 1331, 1409
Lsp1109I GCAGC 5 cut(s) 24, 55, 493, 889, 1033
LweI GCATC 4 cut(s) 448, 643, 758, 790
MaeI CTAG 3 cut(s) 165, 657, 1450
MaeII ACGT 3 cut(s) 90, 292, 988
MaeIII GTNAC 4 cut(s) 411, 469, 528, 671
MboII GAAGA 9 cut(s) 196, 389, 438, 564, 567, 788, 993, 1287, 1402
MfeI CAATTG 3 cut(s) 416, 912, 1082
MflI RGATCY 1 cut(s) 518
MluCI AATT 8 cut(s) 215, 257, 371, 416, 625, 767, 912, 1082
MlyI GAGTC 2 cut(s) 1102, 1259
MmeI TCCRAC 2 cut(s) 739, 753
MroXI GAANNNNTTC 1 cut(s) 1384
MseI TTAA 5 cut(s) 240, 261, 479, 1091, 1218
MslI CAYNNNNRTG 1 cut(s) 945
MspI CCGG 3 cut(s) 131, 669, 1274
MspR9I CCNGG 1 cut(s) 132
MunI CAATTG 3 cut(s) 416, 912, 1082
MvnI CGCG 2 cut(s) 711, 934
MwoI GCNNNNNNNGC 7 cut(s) 46, 70, 141, 386, 512, 746, 1078
NciI CCSGG 1 cut(s) 132
NlaIII CATG 8 cut(s) 857, 871, 904, 944, 1079, 1145, 1322, 1343
NlaIV GGNNCC 5 cut(s) 143, 334, 702, 1405, 1447
NmuCI GTSAC 1 cut(s) 671
NspI RCATGY 2 cut(s) 871, 1079
NspV TTCGAA 1 cut(s) 1388
PagI TCATGA 1 cut(s) 940
PaqCI CACCTGC 1 cut(s) 1361
PciI ACATGT 2 cut(s) 867, 1075
PciSI GCTCTTC 1 cut(s) 550
PcsI WCGNNNNNNNCGW 1 cut(s) 1063
PdmI GAANNNNTTC 1 cut(s) 1384
PfeI GAWTC 5 cut(s) 151, 394, 1009, 1292, 1426
PinAI ACCGGT 1 cut(s) 668
PkrI GCNGC 8 cut(s) 39, 51, 70, 107, 508, 861, 879, 1023
Ple19I CGATCG 1 cut(s) 1070
PleI GAGTC 2 cut(s) 1102, 1258
PpsI GAGTC 2 cut(s) 1102, 1258
PscI ACATGT 2 cut(s) 867, 1075
PshBI ATTAAT 1 cut(s) 479
PsiI TTATAA 1 cut(s) 959
PspFI CCCAGC 1 cut(s) 803
PspN4I GGNNCC 5 cut(s) 143, 334, 702, 1405, 1447
PspPI GGNCC 1 cut(s) 10
PstI CTGCAG 1 cut(s) 757
PsuI RGATCY 1 cut(s) 518
PvuI CGATCG 1 cut(s) 1070
RsaI GTAC 2 cut(s) 25, 702
RsaNI GTAC 2 cut(s) 24, 701
RseI CAYNNNNRTG 1 cut(s) 945
SapI GCTCTTC 1 cut(s) 550
SaqAI TTAA 5 cut(s) 240, 261, 479, 1091, 1218
SatI GCNGC 8 cut(s) 38, 50, 69, 106, 507, 860, 878, 1022
Sau96I GGNCC 1 cut(s) 10
SchI GAGTC 2 cut(s) 1102, 1259
ScrFI CCNGG 1 cut(s) 132
SfaNI GCATC 4 cut(s) 448, 643, 758, 790
SfcI CTRYAG 3 cut(s) 109, 465, 753
SfuI TTCGAA 1 cut(s) 1388
SgrAI CRCCGGYG 1 cut(s) 668
SmiMI CAYNNNNRTG 1 cut(s) 945
Sse9I AATT 8 cut(s) 215, 257, 371, 416, 625, 767, 912, 1082
SsiI CCGC 5 cut(s) 50, 106, 252, 860, 932
SspMI CTAG 3 cut(s) 165, 657, 1450
StyD4I CCNGG 1 cut(s) 130
StyI CCWWGG 2 cut(s) 27, 510
TaaI ACNGT 2 cut(s) 113, 534
TaiI ACGT 3 cut(s) 93, 295, 991
TaqI TCGA 8 cut(s) 56, 87, 204, 577, 1037, 1066, 1388, 1436
TasI AATT 8 cut(s) 215, 257, 371, 416, 625, 767, 912, 1082
TauI GCSGC 3 cut(s) 52, 108, 862
TfiI GAWTC 5 cut(s) 151, 394, 1009, 1292, 1426
Tru1I TTAA 5 cut(s) 240, 261, 479, 1091, 1218
Tru9I TTAA 5 cut(s) 240, 261, 479, 1091, 1218
TscAI CASTG 2 cut(s) 349, 924
TseFI GTSAC 1 cut(s) 671
TseI GCWGC 5 cut(s) 37, 68, 506, 877, 1021
Tsp45I GTSAC 1 cut(s) 671
TspDTI ATGAA 2 cut(s) 20, 876
TspGWI ACGGA 1 cut(s) 1186
TspRI CASTG 2 cut(s) 349, 924
VspI ATTAAT 1 cut(s) 479
XapI RAATTY 3 cut(s) 215, 371, 625
XbaI TCTAGA 1 cut(s) 164
XceI RCATGY 2 cut(s) 871, 1079
XmnI GAANNNNTTC 1 cut(s) 1384
XspI CTAG 3 cut(s) 165, 657, 1450
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.