MD08G1243800.v1.1

Regulator of nonsense transcripts

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr08
OG0017384
Physical Location & Seq
Reverse (-)
30907325 .. 30915677
8353 bp
Loading structure...
UTR
Exon/CDS
Intron
MD08G1243800.v1.1.491

Sequence Viewer

Length: 1464 bp
ATGATGAAGGGCCAGTTGGATCGAACCAAGGTGGTGCTTCGACACTTGCCGCCTTCGATTTCGCAAGCTGCGCTTGTGGAGCAAATCGACGTTTTCTTTGCTGGCCGCTACAACTGGGTTGCTTTTCGTCCTGGCAAGAGGAAGAGGAGCCAAAAGAATCAGTCATATTCAAGAGCCTACATTGATTTGAAGAGGCCAGAGGATGTATTCGACTTTGCTGAATTCTTTGACGGTCATCTGTTTGTTAATGAAAAGGGCAGTCAATTTAAAGTTATTGTTGAGTATGCTCCTTCACAACGTGTTCCAAAACATTGGTCTAAGAAGGATGGTCGTGAAGGAACCATATTCAAAGATCCCGAGTATTTGGAGTTTCTTGAATTCATTGCAAAGCCTGCTGAGAATCTTCCAAGTGCAGAGACACAATTGGAGAGAAGAGAAGCAGAACGATCTGGTGCTGGAAAGGACGTTCCTATAGTTACACCATTAATGGACTTTGTTCGTCAAAAAAGGGCTGCCAAGGCTGGATCTCGGAGGTTACTGCCTAATGGTAAAACAAGTAGAAGAGCTGGTGCATCATCTGCTCGAAGTCCTACTTTACCTATGACCAAACAGGGTTCTGAGAGGAAAAAGAATTCTGCCTCAATGTATGTTGTGAGGGATGTTAGAAAGAACACGAGTGCCAAAGACAAGTCAACATATACATTGGTACCCAAGCGCGATGATCAGCAACCTTCCGAGAAGTCTTCCATTTTGGCATCTCCAGTTGGAACTCAATTGTTTGAAGAGGAGAGTGGAGTTTCAGGTGCTGATGCTGGGAAAAAGAAAGTCTTGCTTGTGAAAAGGAAAGAGAAGGAGATATCTCATGTGCCGGCGAACATGTCACAGCAGCATAGTACATATTCTAAAAACATGGGTGGTTCAGTTGCACTTAAACAGAACCTGCGTCATCATGATAATGGAAGGATTATAAAAAGCATACTTCTAAACAAGGATGCATGTCAAAGTCAGTCTTCTGGGACTCACTCCGAGCAGCAAATCCAGAGTTCAAGTTCAGATAGGGACAAAAGACTTCCTCGGTCGCAACATGTGCAATTGATTTTAAAGGATACAAATGGAGCTCCAGATCATAAGATAGTTGGGAATGACTTGCATGGTAGTTATAGTGAGAAGCAGGGGAAACGGACGAGGAATAAGGACAGACCTGATCGTGGTGTATGGACTCCTCTTAATCGTTTAGATGGATCATCTGCAAGCAATGAGTCTTTGTCGTCTGCTTTTCAACCTGATCATTCACTCCTAGATTCTTCAGAAGGCTCCCATAAACATCATGGTCGCCGTGGAGCAACACATGGTGTTAAGGATCTTGATGGCTCTCCAGTTGCCGGTGAAGGAAAACATTCGAAGAGAGGCTATGGCTCCCATGAGAAACAAGTGTGGGTTCAGAAGTCAAGTTCTGGTTCCTGA
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

488

Amino Acids

54.27

Weight (kDa)

9.95

Isoelectric Point (pI)

53.44

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Smg4_UPF3 PF03467 8 - 171 4.2e-53 Smg-4/UPF3 family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 968
Acc36I ACCTGC 1 cut(s) 948
Acc65I GGTACC 1 cut(s) 706
AccB1I GGYRCC 1 cut(s) 706
AccII CGCG 1 cut(s) 717
AciI CCGC 2 cut(s) 50, 106
AclWI GGATC 5 cut(s) 27, 347, 532, 1249, 1368
AcoI YGGCCR 1 cut(s) 103
AcsI RAATTY 3 cut(s) 221, 377, 631
AcuI CTGAAG 1 cut(s) 1290
AdeI CACNNNGTG 2 cut(s) 299, 1352
AfaI GTAC 2 cut(s) 708, 895
AfiI CCNNNNNNNGG 2 cut(s) 1208, 1382
AflIII ACRYGT 3 cut(s) 298, 876, 1084
AgsI TTSAA 7 cut(s) 171, 190, 349, 377, 782, 1047, 1280
AjnI CCWGG 1 cut(s) 130
AjuI GAANNNNNNNTTGG 1 cut(s) 31
AloI GAACNNNNNNTCC 2 cut(s) 450, 482
AluBI AGCT 3 cut(s) 68, 566, 1118
AluI AGCT 3 cut(s) 68, 566, 1118
Alw21I GWGCWC 1 cut(s) 1120
Alw26I GTCTC 1 cut(s) 410
AlwI GGATC 5 cut(s) 27, 347, 532, 1249, 1368
AlwNI CAGNNNCTG 2 cut(s) 806, 940
Ama87I CYCGRG 1 cut(s) 356
AoxI GGCC 3 cut(s) 10, 103, 194
ApeKI GCWGC 4 cut(s) 68, 512, 886, 1030
ApoI RAATTY 3 cut(s) 221, 377, 631
ArsI GACNNNNNNTTYG 4 cut(s) 80, 112, 299, 331
AseI ATTAAT 1 cut(s) 485
Asp700I GAANNNNTTC 1 cut(s) 1396
Asp718I GGTACC 1 cut(s) 706
AspLEI GCGC 2 cut(s) 73, 717
AspS9I GGNCC 1 cut(s) 10
AsuHPI GGTGA 1 cut(s) 1397
AsuII TTCGAA 1 cut(s) 1400
AvaI CYCGRG 1 cut(s) 356
BaeI ACNNNNGTAYC 2 cut(s) 690, 723
BanI GGYRCC 1 cut(s) 706
BanII GRGCYC 1 cut(s) 1120
BauI CACGAG 1 cut(s) 673
BbsI GAAGAC 2 cut(s) 735, 1002
Bbv12I GWGCWC 1 cut(s) 1120
BbvI GCAGC 4 cut(s) 55, 499, 898, 1042
BccI CCATC 3 cut(s) 320, 1232, 1361
BceAI ACGGC 1 cut(s) 1320
BciT130I CCWGG 1 cut(s) 132
BciVI GTATCC 1 cut(s) 1099
BclI TGATCA 2 cut(s) 721, 1285
BcoDI GTCTC 1 cut(s) 410
BfaI CTAG 1 cut(s) 1298
BfmI CTRYAG 1 cut(s) 471
BfuAI ACCTGC 1 cut(s) 948
BfuI GTATCC 1 cut(s) 1099
BisI GCNGC 6 cut(s) 50, 69, 106, 513, 887, 1031
BlsI GCNGC 6 cut(s) 51, 70, 107, 514, 888, 1032
Bme1390I CCNGG 1 cut(s) 132
BmeT110I CYCGRG 1 cut(s) 356
BmgT120I GGNCC 1 cut(s) 10
BmiI GGNNCC 6 cut(s) 149, 340, 708, 1315, 1417, 1459
BmrFI CCNGG 1 cut(s) 132
BmrI ACTGGG 1 cut(s) 124
BmsI GCATC 4 cut(s) 581, 764, 799, 982
BmuI ACTGGG 1 cut(s) 124
BpiI GAAGAC 2 cut(s) 735, 1002
BpmI CTGGAG 3 cut(s) 744, 1104, 1359
Bpu14I TTCGAA 1 cut(s) 1400
BsaJI CCNNGG 4 cut(s) 27, 516, 1073, 1336
Bsc4I CCNNNNNNNGG 2 cut(s) 1208, 1382
Bse118I RCCGGY 2 cut(s) 868, 1382
Bse1I ACTGG 4 cut(s) 13, 119, 761, 1376
Bse3DI GCAATG 2 cut(s) 381, 1261
BseBI CCWGG 1 cut(s) 132
BseDI CCNNGG 4 cut(s) 27, 516, 1073, 1336
BseGI GGATG 4 cut(s) 208, 331, 664, 997
BseLI CCNNNNNNNGG 2 cut(s) 1208, 1382
BseMI GCAATG 2 cut(s) 381, 1261
BseMII CTCAG 2 cut(s) 387, 609
BseNI ACTGG 4 cut(s) 13, 119, 761, 1376
BseRI GAGGAG 3 cut(s) 160, 800, 1212
BseXI GCAGC 4 cut(s) 55, 499, 898, 1042
BseYI CCCAGC 1 cut(s) 812
BsgI GTGCAG 1 cut(s) 432
Bsh1236I CGCG 1 cut(s) 717
Bsh1285I CGRYCG 1 cut(s) 1079
BshFI GGCC 3 cut(s) 12, 105, 196
BshNI GGYRCC 1 cut(s) 706
BsiEI CGRYCG 1 cut(s) 1079
BsiHKAI GWGCWC 1 cut(s) 1120
BsiHKCI CYCGRG 1 cut(s) 356
BsiSI CCGG 2 cut(s) 869, 1383
BslFI GGGAC 2 cut(s) 1030, 1073
BslI CCNNNNNNNGG 2 cut(s) 1208, 1382
BsmAI GTCTC 1 cut(s) 410
BsmFI GGGAC 2 cut(s) 1030, 1073
BsnI GGCC 3 cut(s) 12, 105, 196
BsoBI CYCGRG 1 cut(s) 356
Bsp119I TTCGAA 1 cut(s) 1400
Bsp1286I GDGCHC 1 cut(s) 1120
BspACI CCGC 2 cut(s) 50, 106
BspANI GGCC 3 cut(s) 12, 105, 196
BspCNI CTCAG 2 cut(s) 388, 610
BspFNI CGCG 1 cut(s) 717
BspHI TCATGA 1 cut(s) 949
BspLI GGNNCC 6 cut(s) 149, 340, 708, 1315, 1417, 1459
BspMI ACCTGC 1 cut(s) 948
BspPI GGATC 5 cut(s) 27, 347, 532, 1249, 1368
BspQI GCTCTTC 1 cut(s) 556
BspT104I TTCGAA 1 cut(s) 1400
BspT107I GGYRCC 1 cut(s) 706
BsrDI GCAATG 2 cut(s) 381, 1261
BsrFI RCCGGY 2 cut(s) 868, 1382
BsrI ACTGG 4 cut(s) 13, 119, 761, 1376
BssAI RCCGGY 2 cut(s) 868, 1382
BssECI CCNNGG 4 cut(s) 27, 516, 1073, 1336
BssSI CACGAG 1 cut(s) 673
BssT1I CCWWGG 2 cut(s) 27, 516
Bst2BI CACGAG 1 cut(s) 673
Bst2UI CCWGG 1 cut(s) 132
Bst4CI ACNGT 1 cut(s) 233
Bst6I CTCTTC 6 cut(s) 137, 185, 427, 556, 777, 1397
BstAPI GCANNNNNTGC 3 cut(s) 392, 578, 1087
BstBI TTCGAA 1 cut(s) 1400
BstC8I GCNNGC 5 cut(s) 66, 103, 393, 870, 1252
BstDEI CTNAG 3 cut(s) 318, 396, 618
BstDSI CCRYGG 1 cut(s) 1336
BstF5I GGATG 4 cut(s) 208, 331, 664, 997
BstFNI CGCG 1 cut(s) 717
BstHHI GCGC 2 cut(s) 73, 717
BstMAI GTCTC 1 cut(s) 410
BstMCI CGRYCG 1 cut(s) 1079
BstMWI GCNNNNNNNGC 6 cut(s) 70, 79, 392, 518, 578, 1087
BstNI CCWGG 1 cut(s) 132
BstNSI RCATGY 3 cut(s) 880, 999, 1088
BstSCI CCNGG 1 cut(s) 130
BstSFI CTRYAG 1 cut(s) 471
BstUI CGCG 1 cut(s) 717
BstV1I GCAGC 4 cut(s) 55, 499, 898, 1042
BstV2I GAAGAC 2 cut(s) 735, 1002
BstX2I RGATCY 3 cut(s) 352, 524, 1360
BstXI CCANNNNNNTGG 1 cut(s) 312
BstYI RGATCY 3 cut(s) 352, 524, 1360
BsuI GTATCC 1 cut(s) 1099
BsuRI GGCC 3 cut(s) 12, 105, 196
BtgI CCRYGG 1 cut(s) 1336
BtgZI GCGATG 1 cut(s) 732
BtsCI GGATG 4 cut(s) 208, 331, 664, 997
BveI ACCTGC 1 cut(s) 948
Cac8I GCNNGC 5 cut(s) 66, 103, 393, 870, 1252
CaiI CAGNNNCTG 2 cut(s) 806, 940
CciI TCATGA 1 cut(s) 949
CfoI GCGC 2 cut(s) 73, 717
Cfr10I RCCGGY 2 cut(s) 868, 1382
Cfr13I GGNCC 1 cut(s) 10
CseI GACGC 1 cut(s) 932
Csp6I GTAC 2 cut(s) 707, 894
CviQI GTAC 2 cut(s) 707, 894
DdeI CTNAG 3 cut(s) 318, 396, 618
DraI TTTAAA 2 cut(s) 268, 1101
DraIII CACNNNGTG 2 cut(s) 299, 1352
EaeI YGGCCR 1 cut(s) 103
Eam1104I CTCTTC 6 cut(s) 137, 185, 427, 556, 777, 1397
EarI CTCTTC 6 cut(s) 137, 185, 427, 556, 777, 1397
Ecl136II GAGCTC 1 cut(s) 1118
Eco130I CCWWGG 2 cut(s) 27, 516
Eco24I GRGCYC 1 cut(s) 1120
Eco32I GATATC 1 cut(s) 858
Eco53kI GAGCTC 1 cut(s) 1118
Eco57I CTGAAG 1 cut(s) 1290
Eco88I CYCGRG 1 cut(s) 356
EcoICRI GAGCTC 1 cut(s) 1118
EcoRI GAATTC 3 cut(s) 221, 377, 631
EcoRII CCWGG 1 cut(s) 130
EcoRV GATATC 1 cut(s) 858
EcoT14I CCWWGG 2 cut(s) 27, 516
EcoT22I ATGCAT 1 cut(s) 997
EcoT38I GRGCYC 1 cut(s) 1120
ErhI CCWWGG 2 cut(s) 27, 516
FaqI GGGAC 2 cut(s) 1030, 1073
FbaI TGATCA 2 cut(s) 721, 1285
Fnu4HI GCNGC 6 cut(s) 50, 69, 106, 513, 887, 1031
FokI GGATG 4 cut(s) 215, 338, 671, 1004
FriOI GRGCYC 1 cut(s) 1120
Fsp4HI GCNGC 6 cut(s) 50, 69, 106, 513, 887, 1031
FspBI CTAG 1 cut(s) 1298
GlaI GCGC 2 cut(s) 72, 716
GluI GCNGC 6 cut(s) 50, 69, 106, 513, 887, 1031
GsaI CCCAGC 1 cut(s) 816
GsuI CTGGAG 3 cut(s) 744, 1104, 1359
HaeIII GGCC 3 cut(s) 12, 105, 196
HapII CCGG 2 cut(s) 869, 1383
HgaI GACGC 1 cut(s) 932
HhaI GCGC 2 cut(s) 73, 717
Hin6I GCGC 2 cut(s) 71, 715
HinP1I GCGC 2 cut(s) 71, 715
HincII GTYRAC 1 cut(s) 693
HindII GTYRAC 1 cut(s) 693
HinfI GANTC 6 cut(s) 157, 400, 1018, 1219, 1259, 1301
HpaII CCGG 2 cut(s) 869, 1383
HphI GGTGA 1 cut(s) 1397
Hpy166II GTNNAC 1 cut(s) 693
Hpy188I TCNGA 7 cut(s) 531, 619, 736, 1027, 1054, 1309, 1443
Hpy188III TCNNGA 9 cut(s) 171, 332, 356, 374, 950, 1039, 1121, 1364, 1461
Hpy8I GTNNAC 1 cut(s) 693
Hpy99I CGWCG 1 cut(s) 92
HpyAV CCTTC 9 cut(s) 63, 300, 316, 329, 741, 844, 954, 1304, 1382
HpyCH4III ACNGT 1 cut(s) 233
HpyCH4IV ACGT 3 cut(s) 90, 298, 465
HpyCH4V TGCA 8 cut(s) 386, 413, 572, 926, 995, 1090, 1150, 1250
HpyF10VI GCNNNNNNNGC 6 cut(s) 70, 79, 392, 518, 578, 1087
HpyF3I CTNAG 3 cut(s) 318, 396, 618
HpySE526I ACGT 3 cut(s) 90, 298, 465
HspAI GCGC 2 cut(s) 71, 715
KpnI GGTACC 1 cut(s) 710
KroI GCCGGC 1 cut(s) 868
KroNI GCCGGC 1 cut(s) 870
Ksp22I TGATCA 2 cut(s) 721, 1285
LguI GCTCTTC 1 cut(s) 556
LmnI GCTCC 8 cut(s) 79, 147, 292, 1115, 1123, 1319, 1340, 1421
Lsp1109I GCAGC 4 cut(s) 55, 499, 898, 1042
LweI GCATC 4 cut(s) 581, 764, 799, 982
MaeI CTAG 1 cut(s) 1298
MaeII ACGT 3 cut(s) 90, 298, 465
MaeIII GTNAC 3 cut(s) 475, 534, 879
MfeI CAATTG 3 cut(s) 422, 773, 1091
MflI RGATCY 3 cut(s) 352, 524, 1360
MhlI GDGCHC 1 cut(s) 1120
MluCI AATT 7 cut(s) 221, 263, 377, 422, 631, 773, 1091
MlyI GAGTC 3 cut(s) 1012, 1213, 1268
MmeI TCCRAC 1 cut(s) 745
Mph1103I ATGCAT 1 cut(s) 997
MroNI GCCGGC 1 cut(s) 868
MroXI GAANNNNTTC 1 cut(s) 1396
MseI TTAA 7 cut(s) 246, 267, 485, 930, 1100, 1227, 1356
MslI CAYNNNNRTG 1 cut(s) 954
MspI CCGG 2 cut(s) 869, 1383
MspR9I CCNGG 1 cut(s) 132
MunI CAATTG 3 cut(s) 422, 773, 1091
MvaI CCWGG 1 cut(s) 132
MvnI CGCG 1 cut(s) 717
MwoI GCNNNNNNNGC 6 cut(s) 70, 79, 392, 518, 578, 1087
NaeI GCCGGC 1 cut(s) 870
NgoMIV GCCGGC 1 cut(s) 868
NlaIV GGNNCC 6 cut(s) 149, 340, 708, 1315, 1417, 1459
NmuCI GTSAC 1 cut(s) 879
NsiI ATGCAT 1 cut(s) 997
NspI RCATGY 3 cut(s) 880, 999, 1088
NspV TTCGAA 1 cut(s) 1400
PagI TCATGA 1 cut(s) 949
PciI ACATGT 2 cut(s) 876, 1084
PciSI GCTCTTC 1 cut(s) 556
PdiI GCCGGC 1 cut(s) 870
PdmI GAANNNNTTC 1 cut(s) 1396
PfeI GAWTC 3 cut(s) 157, 400, 1301
PkrI GCNGC 6 cut(s) 51, 70, 107, 514, 888, 1032
PleI GAGTC 3 cut(s) 1012, 1213, 1267
PpsI GAGTC 3 cut(s) 1012, 1213, 1267
PscI ACATGT 2 cut(s) 876, 1084
PshBI ATTAAT 1 cut(s) 485
PsiI TTATAA 1 cut(s) 968
Psp124BI GAGCTC 1 cut(s) 1120
Psp6I CCWGG 1 cut(s) 130
PspFI CCCAGC 1 cut(s) 812
PspGI CCWGG 1 cut(s) 130
PspN4I GGNNCC 6 cut(s) 149, 340, 708, 1315, 1417, 1459
PspPI GGNCC 1 cut(s) 10
PstNI CAGNNNCTG 2 cut(s) 806, 940
PsuI RGATCY 3 cut(s) 352, 524, 1360
RsaI GTAC 2 cut(s) 708, 895
RsaNI GTAC 2 cut(s) 707, 894
RseI CAYNNNNRTG 1 cut(s) 954
SacI GAGCTC 1 cut(s) 1120
SapI GCTCTTC 1 cut(s) 556
SaqAI TTAA 7 cut(s) 246, 267, 485, 930, 1100, 1227, 1356
SatI GCNGC 6 cut(s) 50, 69, 106, 513, 887, 1031
Sau96I GGNCC 1 cut(s) 10
SchI GAGTC 3 cut(s) 1012, 1213, 1268
ScrFI CCNGG 1 cut(s) 132
SduI GDGCHC 1 cut(s) 1120
SfaNI GCATC 4 cut(s) 581, 764, 799, 982
SfcI CTRYAG 1 cut(s) 471
SfuI TTCGAA 1 cut(s) 1400
SmiMI CAYNNNNRTG 1 cut(s) 954
Sse9I AATT 7 cut(s) 221, 263, 377, 422, 631, 773, 1091
SsiI CCGC 2 cut(s) 50, 106
SspMI CTAG 1 cut(s) 1298
SstI GAGCTC 1 cut(s) 1120
StyD4I CCNGG 1 cut(s) 130
StyI CCWWGG 2 cut(s) 27, 516
TaaI ACNGT 1 cut(s) 233
TaiI ACGT 3 cut(s) 93, 301, 468
TaqI TCGA 7 cut(s) 22, 40, 56, 87, 210, 583, 1400
TaqII GACCGA 1 cut(s) 1065
TasI AATT 7 cut(s) 221, 263, 377, 422, 631, 773, 1091
TatI WGTACW 1 cut(s) 893
TauI GCSGC 2 cut(s) 52, 108
TfiI GAWTC 3 cut(s) 157, 400, 1301
Tru1I TTAA 7 cut(s) 246, 267, 485, 930, 1100, 1227, 1356
Tru9I TTAA 7 cut(s) 246, 267, 485, 930, 1100, 1227, 1356
TseFI GTSAC 1 cut(s) 879
TseI GCWGC 4 cut(s) 68, 512, 886, 1030
Tsp45I GTSAC 1 cut(s) 879
TspDTI ATGAA 3 cut(s) 20, 264, 370
TspGWI ACGGA 1 cut(s) 1195
VspI ATTAAT 1 cut(s) 485
XapI RAATTY 3 cut(s) 221, 377, 631
XceI RCATGY 3 cut(s) 880, 999, 1088
XcmI CCANNNNNNNNNTGG 1 cut(s) 1325
XmnI GAANNNNTTC 1 cut(s) 1396
XspI CTAG 1 cut(s) 1298
Zsp2I ATGCAT 1 cut(s) 997
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.