MD04G1057000.v1.1

poly(U)-specific endoribonuclease-B-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr04
OG0012207
Physical Location & Seq
Reverse (-)
6973948 .. 6976920
2973 bp
Loading structure...
UTR
Exon/CDS
Intron
MD04G1057000.v1.1.491

Sequence Viewer

Length: 1314 bp
ATGGAGGGTCTGATCAAGGGTCTGATCGACGTGGCAATCGGTCACGATGACAACAGGGACGAAGAACCCCGTCCACGGGACCGGGAGGAACAGTCCAGATCCACTTGGGCGCAGGTTGTGTCCGGGGAGGAGCAGGATGAGGGTGATCGTGATCGCCCAAATGGGTTAAACCAAAATCAATGGAATAGACAGGAACAGAGTCATTTGGGGAACGCAGGGGGATACAATGTGGATTCGGAACCTTCAAGGAGACCTCACAAGGCTGCACATGAAGGATATGAAACGAATAATGATGGTGGACAACATGGTTATAATCAAAACTACTCGCGCAGGAAGGACGAAGAGGAAAATCAGGATGGTTGGGAGACTGTCGGCAAGAAGCCTCCAAGGCAACAACCACACAAGATGGGCCAGTGGAATGGATATAAGCGGCCTGCCGCTGAGCAAGAATACTCCGATGAGGCTGAAGTAGGTGCTAACATAGAACCTTCTGGAAAAGAGCTTTCTGATCTGTCACAAGCTTGCAATAAACTCTGGGAACTTGATTTAAACCGTCTAGTGCCTGGAAAGGACTATGAAATTGACTGTGGTGGAGGGAAGAAGGTCCACCAACGAGAAGACTTGGCCGAAGGAAGCTTATTTACCTGGCTGAGTGAAGATATATTTCGGAGGCCTACCTTTTCTCGTTTCTGTTCTCTTTTAGATAACTACAACCCAAATGCGGGTTGCAAAGAAGTTATCACATCTGAGGAGAAGCAAGAGCAGGCTGCATTCATAGAAGAAATCAGCAGAACTGCCCCCATTAAATATCTTCACAAGTATCTCTCCCGTAAGGGCATTGTATCTGAGAGCTATCAGGAATTCAAAAGAACATTGTCCACTCTCTGGTTTGATCTTTACGGCCGTGGTGGTACATCTGCTTCCTCCTCGGCTTTTGAGCATGTTTTTGTCGGAGAAATTAAACAACGTGGTGAAGAAGAGGTTTCTGGCTTCCACAATTGGCTTCAGTTTTACCTTGAGGAAGCAAAAGGAAGGGTTGACTATCAAGGTTATATTTTTCCCCGTAGACGCGGACAAACTCCAGAGGCTGAAACCCAGTTGCTTACGATCCAGTTCGAGTGGAATGGCGTTTTGAAAGCGGTATCAAGCACATTAGTTGGAGTGAGCCCAGAATTTGAAATTGCATTGTACACCTTGTGTTTCTACATGGGTGGGGAGGACAACCGTATTGAGCTGGGTCCATACCAAGTCAACATCAAATGCTATAGCTTTGGAGAAAGAATTGGGTCTGTGTTTCCCATGGCAGAGTGTTGA
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
XendoU

Protein Analysis

438

Amino Acids

49.93

Weight (kDa)

5.02

Isoelectric Point (pI)

58.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
XendoU PF09412 170 - 433 8.6e-97 Endoribonuclease XendoU
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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Orthologous Genes (Group: OG0012207)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G17100
fragaria_vesca FvH4_5g20810 FvH4_5g20810
malus_domestica MD04G1057000.v1.1
prunus_persica Prupe.5G050800_v2.0.a1 Prupe.5G050800_v2.0.a1
pyrus_communis pycom04g05070
rosa_chinensis RchiOBHm_Chr7g0207741
rosa_laevigata RLG00000003291
rosa_multiflora Rmu_sc0005968.1_g000004 Rmu_sc0007645.1_g000005
rosa_roxburghii Rroxscaffold_3G00251190
rosa_rugosa Rorug07G0099300 Rorug07G0099400
rosa_samantha Rh7AG232500 Rh7BG227900 Rh7CG246200 Rh7DG238700
rosa_wichuraiana Rw7G019910

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 312
Acc36I ACCTGC 1 cut(s) 103
AccB7I CCANNNNNTGG 1 cut(s) 885
AccI GTMKAC 1 cut(s) 1066
AccII CGCG 2 cut(s) 328, 1071
AciI CCGC 5 cut(s) 430, 438, 722, 1071, 1139
AclWI GGATC 2 cut(s) 93, 1102
AcoI YGGCCR 2 cut(s) 624, 901
AcsI RAATTY 2 cut(s) 860, 1172
AcuI CTGAAG 2 cut(s) 486, 989
AdeI CACNNNGTG 1 cut(s) 1197
AfaI GTAC 2 cut(s) 913, 1190
AfiI CCNNNNNNNGG 5 cut(s) 75, 76, 721, 722, 885
AgsI TTSAA 4 cut(s) 246, 865, 1135, 1178
AjiI CACGTC 1 cut(s) 31
AjnI CCWGG 2 cut(s) 562, 644
AluBI AGCT 6 cut(s) 502, 521, 636, 852, 1234, 1269
AluI AGCT 6 cut(s) 502, 521, 636, 852, 1234, 1269
Alw26I GTCTC 2 cut(s) 244, 359
AlwI GGATC 2 cut(s) 93, 1102
AlwNI CAGNNNCTG 1 cut(s) 1088
AoxI GGCC 5 cut(s) 409, 431, 624, 671, 901
ApeKI GCWGC 2 cut(s) 263, 767
ApoI RAATTY 2 cut(s) 860, 1172
AspLEI GCGC 2 cut(s) 112, 330
AspS9I GGNCC 4 cut(s) 79, 409, 604, 1238
AsuC2I CCSGG 2 cut(s) 83, 124
AsuHPI GGTGA 2 cut(s) 155, 983
AvaII GGWCC 3 cut(s) 79, 604, 1238
BanII GRGCYC 1 cut(s) 1169
BarI GAAGNNNNNNTAC 4 cut(s) 625, 657, 904, 936
BbsI GAAGAC 1 cut(s) 624
BbvI GCAGC 2 cut(s) 250, 754
BccI CCATC 3 cut(s) 287, 350, 400
BceAI ACGGC 2 cut(s) 888, 916
BciT130I CCWGG 2 cut(s) 564, 646
BciVI GTATCC 1 cut(s) 215
BclI TGATCA 1 cut(s) 12
BcnI CCSGG 2 cut(s) 83, 124
BcoDI GTCTC 2 cut(s) 244, 359
BfaI CTAG 1 cut(s) 557
BfmI CTRYAG 1 cut(s) 1264
BfuAI ACCTGC 1 cut(s) 103
BfuI GTATCC 1 cut(s) 215
BglI GCCNNNNNGGC 1 cut(s) 388
BisI GCNGC 4 cut(s) 264, 431, 438, 768
BlpI GCTNAGC 1 cut(s) 441
BlsI GCNGC 4 cut(s) 265, 432, 439, 769
Bme1390I CCNGG 4 cut(s) 83, 124, 564, 646
Bme18I GGWCC 3 cut(s) 79, 604, 1238
BmgBI CACGTC 1 cut(s) 31
BmgT120I GGNCC 4 cut(s) 79, 409, 604, 1238
BmiI GGNNCC 3 cut(s) 80, 240, 1239
BmrFI CCNGG 4 cut(s) 83, 124, 564, 646
BmrI ACTGGG 1 cut(s) 1090
BmuI ACTGGG 1 cut(s) 1090
BpiI GAAGAC 1 cut(s) 624
BpmI CTGGAG 1 cut(s) 1065
Bpu1102I GCTNAGC 1 cut(s) 441
BpuEI CTTGAG 1 cut(s) 1037
BpuMI CCSGG 2 cut(s) 83, 124
BsaBI GATNNNNATC 1 cut(s) 150
BsaI GGTCTC 1 cut(s) 244
BsaJI CCNNGG 6 cut(s) 74, 123, 386, 904, 927, 1299
BsaXI ACNNNNNCTCC 2 cut(s) 77, 107
Bsc4I CCNNNNNNNGG 5 cut(s) 75, 76, 721, 722, 885
Bse1I ACTGG 3 cut(s) 412, 1096, 1111
Bse8I GATNNNNATC 1 cut(s) 150
BseBI CCWGG 2 cut(s) 564, 646
BseDI CCNNGG 6 cut(s) 74, 123, 386, 904, 927, 1299
BseGI GGATG 2 cut(s) 142, 361
BseJI GATNNNNATC 1 cut(s) 150
BseLI CCNNNNNNNGG 5 cut(s) 75, 76, 721, 722, 885
BseMII CTCAG 4 cut(s) 432, 641, 738, 837
BseNI ACTGG 3 cut(s) 412, 1096, 1111
BseRI GAGGAG 3 cut(s) 143, 764, 916
BseX3I CGGCCG 1 cut(s) 901
BseXI GCAGC 2 cut(s) 250, 754
BseYI CCCAGC 1 cut(s) 1234
BsgI GTGCAG 1 cut(s) 249
Bsh1236I CGCG 2 cut(s) 328, 1071
Bsh1285I CGRYCG 1 cut(s) 904
BshFI GGCC 5 cut(s) 411, 433, 626, 673, 903
BsiEI CGRYCG 1 cut(s) 904
BsiSI CCGG 2 cut(s) 82, 123
BslFI GGGAC 2 cut(s) 71, 92
BslI CCNNNNNNNGG 5 cut(s) 75, 76, 721, 722, 885
BsmAI GTCTC 2 cut(s) 244, 359
BsmFI GGGAC 2 cut(s) 71, 92
BsmI GAATGC 1 cut(s) 770
BsnI GGCC 5 cut(s) 411, 433, 626, 673, 903
Bso31I GGTCTC 1 cut(s) 244
Bsp1286I GDGCHC 1 cut(s) 1169
Bsp1407I TGTACA 1 cut(s) 1188
Bsp143I GATC 8 cut(s) 12, 24, 98, 145, 151, 508, 892, 1107
Bsp1720I GCTNAGC 1 cut(s) 441
Bsp19I CCATGG 1 cut(s) 1299
BspACI CCGC 5 cut(s) 430, 438, 722, 1071, 1139
BspANI GGCC 5 cut(s) 411, 433, 626, 673, 903
BspCNI CTCAG 4 cut(s) 433, 642, 739, 838
BspFNI CGCG 2 cut(s) 328, 1071
BspLI GGNNCC 3 cut(s) 80, 240, 1239
BspMI ACCTGC 1 cut(s) 103
BspPI GGATC 2 cut(s) 93, 1102
BspTNI GGTCTC 1 cut(s) 244
BsrGI TGTACA 1 cut(s) 1188
BsrI ACTGG 3 cut(s) 412, 1096, 1111
BssECI CCNNGG 6 cut(s) 74, 123, 386, 904, 927, 1299
BssMI GATC 8 cut(s) 12, 24, 98, 145, 151, 508, 892, 1107
BssT1I CCWWGG 2 cut(s) 386, 1299
Bst2UI CCWGG 2 cut(s) 564, 646
Bst4CI ACNGT 5 cut(s) 93, 370, 554, 587, 1226
Bst6I CTCTTC 2 cut(s) 336, 972
BstAUI TGTACA 1 cut(s) 1188
BstC8I GCNNGC 3 cut(s) 435, 523, 765
BstDEI CTNAG 4 cut(s) 441, 650, 747, 846
BstDSI CCRYGG 3 cut(s) 74, 904, 1299
BstF5I GGATG 2 cut(s) 142, 361
BstFNI CGCG 2 cut(s) 328, 1071
BstHHI GCGC 2 cut(s) 112, 330
BstKTI GATC 8 cut(s) 15, 27, 101, 148, 154, 511, 895, 1110
BstMAI GTCTC 2 cut(s) 244, 359
BstMBI GATC 8 cut(s) 12, 24, 98, 145, 151, 508, 892, 1107
BstMCI CGRYCG 1 cut(s) 904
BstMWI GCNNNNNNNGC 1 cut(s) 388
BstNI CCWGG 2 cut(s) 564, 646
BstNSI RCATGY 1 cut(s) 944
BstSCI CCNGG 4 cut(s) 81, 122, 562, 644
BstSFI CTRYAG 1 cut(s) 1264
BstUI CGCG 2 cut(s) 328, 1071
BstV1I GCAGC 2 cut(s) 250, 754
BstV2I GAAGAC 1 cut(s) 624
BstX2I RGATCY 1 cut(s) 98
BstXI CCANNNNNNTGG 1 cut(s) 419
BstYI RGATCY 1 cut(s) 98
BstZI CGGCCG 1 cut(s) 901
BsuI GTATCC 1 cut(s) 215
BsuRI GGCC 5 cut(s) 411, 433, 626, 673, 903
BtgI CCRYGG 3 cut(s) 74, 904, 1299
BtrI CACGTC 1 cut(s) 31
BtsCI GGATG 2 cut(s) 142, 361
BtsIMutI CAGTG 1 cut(s) 419
BveI ACCTGC 1 cut(s) 103
Cac8I GCNNGC 3 cut(s) 435, 523, 765
CaiI CAGNNNCTG 1 cut(s) 1088
CfoI GCGC 2 cut(s) 112, 330
Cfr13I GGNCC 4 cut(s) 79, 409, 604, 1238
CseI GACGC 1 cut(s) 1077
Csp6I GTAC 2 cut(s) 912, 1189
CviAII CATG 5 cut(s) 269, 305, 941, 1207, 1300
CviQI GTAC 2 cut(s) 912, 1189
DdeI CTNAG 4 cut(s) 441, 650, 747, 846
DpnI GATC 8 cut(s) 14, 26, 100, 147, 153, 510, 894, 1109
DpnII GATC 8 cut(s) 12, 24, 98, 145, 151, 508, 892, 1107
DraI TTTAAA 1 cut(s) 549
DraIII CACNNNGTG 1 cut(s) 1197
EaeI YGGCCR 2 cut(s) 624, 901
EagI CGGCCG 1 cut(s) 901
Eam1104I CTCTTC 2 cut(s) 336, 972
EarI CTCTTC 2 cut(s) 336, 972
EclXI CGGCCG 1 cut(s) 901
Eco130I CCWWGG 2 cut(s) 386, 1299
Eco147I AGGCCT 1 cut(s) 673
Eco24I GRGCYC 1 cut(s) 1169
Eco31I GGTCTC 1 cut(s) 244
Eco47I GGWCC 3 cut(s) 79, 604, 1238
Eco52I CGGCCG 1 cut(s) 901
Eco57I CTGAAG 2 cut(s) 486, 989
EcoRI GAATTC 1 cut(s) 860
EcoRII CCWGG 2 cut(s) 562, 644
EcoT14I CCWWGG 2 cut(s) 386, 1299
EcoT38I GRGCYC 1 cut(s) 1169
ErhI CCWWGG 2 cut(s) 386, 1299
FaeI CATG 5 cut(s) 272, 308, 944, 1210, 1303
FaqI GGGAC 2 cut(s) 71, 92
FatI CATG 5 cut(s) 268, 304, 940, 1206, 1299
FauI CCCGC 1 cut(s) 715
FbaI TGATCA 1 cut(s) 12
FblI GTMKAC 1 cut(s) 1066
Fnu4HI GCNGC 4 cut(s) 264, 431, 438, 768
FokI GGATG 2 cut(s) 149, 368
FriOI GRGCYC 1 cut(s) 1169
Fsp4HI GCNGC 4 cut(s) 264, 431, 438, 768
FspBI CTAG 1 cut(s) 557
GlaI GCGC 2 cut(s) 111, 329
GluI GCNGC 4 cut(s) 264, 431, 438, 768
GsaI CCCAGC 1 cut(s) 1238
GsuI CTGGAG 1 cut(s) 1065
HaeIII GGCC 5 cut(s) 411, 433, 626, 673, 903
HapII CCGG 2 cut(s) 82, 123
HgaI GACGC 1 cut(s) 1077
HhaI GCGC 2 cut(s) 112, 330
Hin1II CATG 5 cut(s) 272, 308, 944, 1210, 1303
Hin6I GCGC 2 cut(s) 110, 328
HinP1I GCGC 2 cut(s) 110, 328
HincII GTYRAC 2 cut(s) 1039, 1252
HindII GTYRAC 2 cut(s) 1039, 1252
HindIII AAGCTT 2 cut(s) 519, 634
HinfI GANTC 2 cut(s) 199, 233
HpaII CCGG 2 cut(s) 82, 123
HphI GGTGA 2 cut(s) 155, 983
Hpy166II GTNNAC 8 cut(s) 74, 299, 607, 879, 1039, 1067, 1191, 1252
Hpy188I TCNGA 9 cut(s) 12, 24, 238, 457, 508, 669, 748, 847, 953
Hpy188III TCNNGA 7 cut(s) 44, 96, 149, 353, 492, 857, 1082
Hpy8I GTNNAC 8 cut(s) 74, 299, 607, 879, 1039, 1067, 1191, 1252
Hpy99I CGWCG 1 cut(s) 32
HpyAV CCTTC 7 cut(s) 252, 266, 328, 498, 595, 623, 1026
HpyCH4III ACNGT 5 cut(s) 93, 370, 554, 587, 1226
HpyCH4IV ACGT 2 cut(s) 30, 967
HpyCH4V TGCA 5 cut(s) 266, 525, 729, 770, 1184
HpyF10VI GCNNNNNNNGC 1 cut(s) 388
HpyF3I CTNAG 4 cut(s) 441, 650, 747, 846
HpySE526I ACGT 2 cut(s) 30, 967
Hsp92II CATG 5 cut(s) 272, 308, 944, 1210, 1303
HspAI GCGC 2 cut(s) 110, 328
Ksp22I TGATCA 1 cut(s) 12
Kzo9I GATC 8 cut(s) 12, 24, 98, 145, 151, 508, 892, 1107
LmnI GCTCC 1 cut(s) 130
Lsp1109I GCAGC 2 cut(s) 250, 754
MaeI CTAG 1 cut(s) 557
MaeII ACGT 2 cut(s) 30, 967
MaeIII GTNAC 2 cut(s) 41, 513
MalI GATC 8 cut(s) 14, 26, 100, 147, 153, 510, 894, 1109
MboI GATC 8 cut(s) 12, 24, 98, 145, 151, 508, 892, 1107
MboII GAAGA 9 cut(s) 74, 353, 610, 629, 668, 791, 803, 986, 989
MfeI CAATTG 1 cut(s) 997
MflI RGATCY 1 cut(s) 98
MhlI GDGCHC 1 cut(s) 1169
MluCI AATT 7 cut(s) 579, 860, 957, 997, 1172, 1179, 1281
MlyI GAGTC 1 cut(s) 208
MmeI TCCRAC 2 cut(s) 931, 1138
MseI TTAA 4 cut(s) 167, 548, 804, 960
MspA1I CMGCKG 1 cut(s) 440
MspI CCGG 2 cut(s) 82, 123
MspR9I CCNGG 4 cut(s) 83, 124, 564, 646
MunI CAATTG 1 cut(s) 997
Mva1269I GAATGC 1 cut(s) 770
MvaI CCWGG 2 cut(s) 564, 646
MvnI CGCG 2 cut(s) 328, 1071
MwoI GCNNNNNNNGC 1 cut(s) 388
NciI CCSGG 2 cut(s) 83, 124
NcoI CCATGG 1 cut(s) 1299
NdeII GATC 8 cut(s) 12, 24, 98, 145, 151, 508, 892, 1107
NlaIII CATG 5 cut(s) 272, 308, 944, 1210, 1303
NlaIV GGNNCC 3 cut(s) 80, 240, 1239
NmeAIII GCCGAG 1 cut(s) 908
NmuCI GTSAC 2 cut(s) 41, 513
NspI RCATGY 1 cut(s) 944
PceI AGGCCT 1 cut(s) 673
PctI GAATGC 1 cut(s) 770
PfeI GAWTC 1 cut(s) 233
PflMI CCANNNNNTGG 1 cut(s) 885
PkrI GCNGC 4 cut(s) 265, 432, 439, 769
PleI GAGTC 1 cut(s) 207
PpsI GAGTC 1 cut(s) 207
PsiI TTATAA 1 cut(s) 312
Psp6I CCWGG 2 cut(s) 562, 644
PspFI CCCAGC 1 cut(s) 1234
PspGI CCWGG 2 cut(s) 562, 644
PspN4I GGNNCC 3 cut(s) 80, 240, 1239
PspPI GGNCC 4 cut(s) 79, 409, 604, 1238
PstNI CAGNNNCTG 1 cut(s) 1088
PsuI RGATCY 1 cut(s) 98
RsaI GTAC 2 cut(s) 913, 1190
RsaNI GTAC 2 cut(s) 912, 1189
SaqAI TTAA 4 cut(s) 167, 548, 804, 960
SatI GCNGC 4 cut(s) 264, 431, 438, 768
Sau3AI GATC 8 cut(s) 12, 24, 98, 145, 151, 508, 892, 1107
Sau96I GGNCC 4 cut(s) 79, 409, 604, 1238
SchI GAGTC 1 cut(s) 208
ScrFI CCNGG 4 cut(s) 83, 124, 564, 646
SduI GDGCHC 1 cut(s) 1169
SfcI CTRYAG 1 cut(s) 1264
SinI GGWCC 3 cut(s) 79, 604, 1238
SmlI CTYRAG 1 cut(s) 1016
SmoI CTYRAG 1 cut(s) 1016
Sse9I AATT 7 cut(s) 579, 860, 957, 997, 1172, 1179, 1281
SseBI AGGCCT 1 cut(s) 673
SsiI CCGC 5 cut(s) 430, 438, 722, 1071, 1139
SspMI CTAG 1 cut(s) 557
StuI AGGCCT 1 cut(s) 673
StyD4I CCNGG 4 cut(s) 81, 122, 562, 644
StyI CCWWGG 2 cut(s) 386, 1299
TaaI ACNGT 5 cut(s) 93, 370, 554, 587, 1226
TaiI ACGT 2 cut(s) 33, 970
TaqI TCGA 2 cut(s) 27, 1116
TaqII GACCGA 1 cut(s) 29
TasI AATT 7 cut(s) 579, 860, 957, 997, 1172, 1179, 1281
TatI WGTACW 1 cut(s) 1188
TauI GCSGC 2 cut(s) 433, 440
TfiI GAWTC 1 cut(s) 233
Tru1I TTAA 4 cut(s) 167, 548, 804, 960
Tru9I TTAA 4 cut(s) 167, 548, 804, 960
TscAI CASTG 1 cut(s) 419
TseFI GTSAC 2 cut(s) 41, 513
TseI GCWGC 2 cut(s) 263, 767
Tsp45I GTSAC 2 cut(s) 41, 513
TspDTI ATGAA 4 cut(s) 285, 294, 591, 763
TspRI CASTG 1 cut(s) 419
Van91I CCANNNNNTGG 1 cut(s) 885
VpaK11BI GGWCC 3 cut(s) 79, 604, 1238
XapI RAATTY 2 cut(s) 860, 1172
XceI RCATGY 1 cut(s) 944
XmiI GTMKAC 1 cut(s) 1066
XspI CTAG 1 cut(s) 557
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.