MD09G1187900.v1.1

DNA-directed RNA polymerase I subunit

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr09
Physical Location & Seq
Forward (+)
16411746 .. 16415703
3958 bp
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UTR
Exon/CDS
Intron
MD09G1187900.v1.1.491

Sequence Viewer

Length: 1317 bp
ATGGAATCCGACGCAGAAGACACCAAGTCTCAATTGACCCAAAACCAAGACCCATCGACACCAAAGCACAAACACAAGAAGAGGAAGACGAAGAAAACCGCCGTCCCAACCATTCCAACATTCCAAGCCGCCGTCCAAGTTTTCCCGGAACACCCAGAAAAAACTCCACCTATAGTGGCCCATTTCTCATCTGGGTTCGACCCCACCAAGAACCCAGACCCTAATTCGACCAAAATCGGACTCTTTCGGAACGCCAACCGAGCCAAACGAGTGGAGCTTGTGGTGCACCCGGATGGGACCAGTGTCGATTTTGTTGGAACTAGCTATACTGGTGCGGCCACCAGTGACCAGTACTGCAATTATGCACTTGGTGTTCTAGATAAGGCCACCCAGACTTTGAAGATTACGCCCATTGTTTCTAACAAGATATTTAGATTAGAACCTAAAGTTAGAGGGTATAACTACTCTGATAAGGAACCTGCAAGTTCAGCAATGGGAGAACTTACTGCACAAGAGAAGGCAGAGAAGCAGATGCAGCTACATAATCTATATGGAACAAAGAAGTCTATTAGGGAGAGTAAGAAAATGCAGTCCTTGAAGCAAGCAGACGGTCCTGATTCTCTAAAGGATTTGGATGCCAAAATGAAACAGATTGTGGTAAACAAGGAGGCTCTTGAAAGCGCTGAAGCCCAAAGCTCTCGCCATATCCCACCATTCAATGAATCTGCCACCACTCCACAGGAGGCTTATCCTCTAGACAAGATCATCATCACAGGAGAGTGGGATGATGTCCAAGATATTTATAATAAACTGCAAGGCGGAAATGATGTTAAATGGGATGCTTACCCAAATTTTGTGCTCAATAGAATCCAGAAATTGAAGGATATTCGGGTTGAGGAGGAGAAGTTTAAGCTTGCTTGCATATGCACATACATTACACATCTTATAAAGTTCAAAGATCAGTATACCATGGATGGTGTTTCCTCTGCGAAGGGCCACAGAATCCCAAGCAATCTACGCAATAAGTTCCTCAACATGTTTGATCCGGCAGCAGGTTCAAGAAGGCAAACACTATCAAGAGAGAAAACGAATCTCCTCATTAGTTATGTCTTGGTGCTCACTCTTCATGTGGACGAGTTCCAGACAGAGTTGACAGATATAGCGAAGGATCTGAGAATGGGTGAAGCAAATGTGAAGGACCATTACGAGAACTTGGGTTGCAAGTTAACTAAACAAAGGGGAAAACCAGTCGCGACCCTTCCTGTCCCTCTAAAATTTCCACAAGAGCAGCGGAGGCGGAAGAAGGGCAAGAGATGA

Protein Analysis

439

Amino Acids

49.48

Weight (kDa)

9.39

Isoelectric Point (pI)

39.5

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_I_A49 PF06870 74 - 427 1.1e-55 A49-like RNA polymerase I associated factor
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 804, 947
Acc36I ACCTGC 2 cut(s) 487, 1043
AccI GTMKAC 1 cut(s) 965
AccII CGCG 1 cut(s) 1253
AciI CCGC 6 cut(s) 99, 129, 335, 819, 1291, 1297
AclWI GGATC 2 cut(s) 1037, 1176
AcoI YGGCCR 1 cut(s) 336
AcsI RAATTY 2 cut(s) 850, 1274
AcuI CTGAAG 1 cut(s) 705
AdeI CACNNNGTG 1 cut(s) 371
AfaI GTAC 1 cut(s) 353
AfeI AGCGCT 1 cut(s) 682
AfiI CCNNNNNNNGG 1 cut(s) 1052
AflIII ACRYGT 1 cut(s) 1035
AgsI TTSAA 7 cut(s) 400, 598, 677, 718, 880, 955, 1059
AhdI GACNNNNNGTC 1 cut(s) 25
AluBI AGCT 5 cut(s) 277, 324, 538, 696, 913
AluI AGCT 5 cut(s) 277, 324, 538, 696, 913
Alw21I GWGCWC 3 cut(s) 288, 861, 1119
Alw26I GTCTC 1 cut(s) 33
Alw44I GTGCAC 1 cut(s) 284
AlwI GGATC 2 cut(s) 1037, 1176
Aor51HI AGCGCT 1 cut(s) 682
AoxI GGCC 4 cut(s) 177, 336, 384, 994
ApaLI GTGCAC 1 cut(s) 284
ApeKI GCWGC 3 cut(s) 535, 1049, 1288
ApoI RAATTY 2 cut(s) 850, 1274
AspLEI GCGC 1 cut(s) 683
AspS9I GGNCC 5 cut(s) 178, 297, 611, 994, 1198
AsuC2I CCSGG 2 cut(s) 146, 290
AsuHPI GGTGA 1 cut(s) 1193
AvaII GGWCC 3 cut(s) 297, 611, 1198
BaeGI GKGCMC 1 cut(s) 288
BarI GAAGNNNNNNTAC 2 cut(s) 1187, 1219
BbsI GAAGAC 2 cut(s) 24, 92
Bbv12I GWGCWC 3 cut(s) 288, 861, 1119
BbvI GCAGC 3 cut(s) 547, 1061, 1300
BccI CCATC 3 cut(s) 61, 287, 968
BceAI ACGGC 2 cut(s) 86, 116
BcnI CCSGG 2 cut(s) 146, 290
BcoDI GTCTC 1 cut(s) 33
BfaI CTAG 3 cut(s) 321, 377, 755
BfmI CTRYAG 1 cut(s) 171
BfoI RGCGCY 1 cut(s) 684
BfuAI ACCTGC 2 cut(s) 487, 1043
BisI GCNGC 5 cut(s) 129, 336, 536, 1050, 1289
BlsI GCNGC 5 cut(s) 130, 337, 537, 1051, 1290
BmcAI AGTACT 1 cut(s) 353
Bme1390I CCNGG 2 cut(s) 146, 290
Bme18I GGWCC 3 cut(s) 297, 611, 1198
BmeRI GACNNNNNGTC 1 cut(s) 25
BmgT120I GGNCC 5 cut(s) 178, 297, 611, 994, 1198
BmiI GGNNCC 2 cut(s) 298, 477
BmrFI CCNGG 2 cut(s) 146, 290
BmsI GCATC 3 cut(s) 522, 625, 829
BoxI GACNNNNGTC 1 cut(s) 302
BpiI GAAGAC 2 cut(s) 24, 92
BpuMI CCSGG 2 cut(s) 146, 290
BsaBI GATNNNNATC 1 cut(s) 767
BsaJI CCNNGG 1 cut(s) 969
BsaXI ACNNNNNCTCC 2 cut(s) 890, 920
Bsc4I CCNNNNNNNGG 1 cut(s) 1052
Bse1I ACTGG 5 cut(s) 300, 334, 342, 349, 1247
Bse3DI GCAATG 1 cut(s) 498
Bse8I GATNNNNATC 1 cut(s) 767
BseDI CCNNGG 1 cut(s) 969
BseGI GGATG 5 cut(s) 298, 640, 790, 844, 979
BseJI GATNNNNATC 1 cut(s) 767
BseLI CCNNNNNNNGG 1 cut(s) 1052
BseMI GCAATG 1 cut(s) 498
BseMII CTCAG 1 cut(s) 1163
BseNI ACTGG 5 cut(s) 300, 334, 342, 349, 1247
BseRI GAGGAG 3 cut(s) 911, 914, 1085
BseSI GKGCMC 1 cut(s) 288
BseXI GCAGC 3 cut(s) 547, 1061, 1300
BsgI GTGCAG 1 cut(s) 492
Bsh1236I CGCG 1 cut(s) 1253
BshFI GGCC 4 cut(s) 179, 338, 386, 996
BsiHKAI GWGCWC 3 cut(s) 288, 861, 1119
BsiSI CCGG 3 cut(s) 146, 290, 1046
BslFI GGGAC 3 cut(s) 89, 310, 1250
BslI CCNNNNNNNGG 1 cut(s) 1052
BsmAI GTCTC 1 cut(s) 33
BsmFI GGGAC 3 cut(s) 89, 310, 1250
BsnI GGCC 4 cut(s) 179, 338, 386, 996
Bsp1286I GDGCHC 3 cut(s) 288, 861, 1119
Bsp143I GATC 4 cut(s) 762, 958, 1042, 1168
Bsp19I CCATGG 1 cut(s) 969
Bsp68I TCGCGA 1 cut(s) 1253
BspACI CCGC 6 cut(s) 99, 129, 335, 819, 1291, 1297
BspANI GGCC 4 cut(s) 179, 338, 386, 996
BspCNI CTCAG 1 cut(s) 1164
BspFNI CGCG 1 cut(s) 1253
BspLI GGNNCC 2 cut(s) 298, 477
BspMI ACCTGC 2 cut(s) 487, 1043
BspPI GGATC 2 cut(s) 1037, 1176
BsrDI GCAATG 1 cut(s) 498
BsrI ACTGG 5 cut(s) 300, 334, 342, 349, 1247
BssECI CCNNGG 1 cut(s) 969
BssMI GATC 4 cut(s) 762, 958, 1042, 1168
BssNAI GTATAC 1 cut(s) 966
BssT1I CCWWGG 1 cut(s) 969
Bst1107I GTATAC 1 cut(s) 966
Bst4CI ACNGT 1 cut(s) 611
Bst6I CTCTTC 2 cut(s) 74, 1128
BstC8I GCNNGC 3 cut(s) 603, 915, 919
BstDEI CTNAG 1 cut(s) 1172
BstDSI CCRYGG 1 cut(s) 969
BstF5I GGATG 5 cut(s) 298, 640, 790, 844, 979
BstFNI CGCG 1 cut(s) 1253
BstH2I RGCGCY 1 cut(s) 684
BstHHI GCGC 1 cut(s) 683
BstKTI GATC 4 cut(s) 765, 961, 1045, 1171
BstMAI GTCTC 1 cut(s) 33
BstMBI GATC 4 cut(s) 762, 958, 1042, 1168
BstMWI GCNNNNNNNGC 6 cut(s) 260, 283, 488, 535, 1017, 1294
BstNSI RCATGY 1 cut(s) 1039
BstPAI GACNNNNGTC 1 cut(s) 302
BstSCI CCNGG 2 cut(s) 144, 288
BstSFI CTRYAG 1 cut(s) 171
BstSLI GKGCMC 1 cut(s) 288
BstUI CGCG 1 cut(s) 1253
BstV1I GCAGC 3 cut(s) 547, 1061, 1300
BstV2I GAAGAC 2 cut(s) 24, 92
BstX2I RGATCY 1 cut(s) 1168
BstXI CCANNNNNNTGG 1 cut(s) 271
BstYI RGATCY 1 cut(s) 1168
BstZ17I GTATAC 1 cut(s) 966
BsuRI GGCC 4 cut(s) 179, 338, 386, 996
BtgI CCRYGG 1 cut(s) 969
BtsCI GGATG 5 cut(s) 298, 640, 790, 844, 979
BtsIMutI CAGTG 2 cut(s) 307, 349
BtuMI TCGCGA 1 cut(s) 1253
BveI ACCTGC 2 cut(s) 487, 1043
Cac8I GCNNGC 3 cut(s) 603, 915, 919
CfoI GCGC 1 cut(s) 683
Cfr13I GGNCC 5 cut(s) 178, 297, 611, 994, 1198
CseI GACGC 1 cut(s) 20
Csp6I GTAC 1 cut(s) 352
CviAII CATG 3 cut(s) 970, 1036, 1127
CviQI GTAC 1 cut(s) 352
DdeI CTNAG 1 cut(s) 1172
DpnI GATC 4 cut(s) 764, 960, 1044, 1170
DpnII GATC 4 cut(s) 762, 958, 1042, 1168
DraIII CACNNNGTG 1 cut(s) 371
DriI GACNNNNNGTC 1 cut(s) 25
EaeI YGGCCR 1 cut(s) 336
Eam1104I CTCTTC 2 cut(s) 74, 1128
Eam1105I GACNNNNNGTC 1 cut(s) 25
EarI CTCTTC 2 cut(s) 74, 1128
EciI GGCGGA 2 cut(s) 834, 1312
Eco130I CCWWGG 1 cut(s) 969
Eco47I GGWCC 3 cut(s) 297, 611, 1198
Eco47III AGCGCT 1 cut(s) 682
Eco57I CTGAAG 1 cut(s) 705
EcoT14I CCWWGG 1 cut(s) 969
ErhI CCWWGG 1 cut(s) 969
FaeI CATG 3 cut(s) 973, 1039, 1130
FaqI GGGAC 3 cut(s) 89, 310, 1250
FatI CATG 3 cut(s) 969, 1035, 1126
FauNDI CATATG 1 cut(s) 923
FblI GTMKAC 1 cut(s) 965
Fnu4HI GCNGC 5 cut(s) 129, 336, 536, 1050, 1289
FokI GGATG 5 cut(s) 305, 647, 797, 851, 986
Fsp4HI GCNGC 5 cut(s) 129, 336, 536, 1050, 1289
FspBI CTAG 3 cut(s) 321, 377, 755
GlaI GCGC 1 cut(s) 682
GluI GCNGC 5 cut(s) 129, 336, 536, 1050, 1289
HaeII RGCGCY 1 cut(s) 684
HaeIII GGCC 4 cut(s) 179, 338, 386, 996
HapII CCGG 3 cut(s) 146, 290, 1046
HgaI GACGC 1 cut(s) 20
HhaI GCGC 1 cut(s) 683
Hin1II CATG 3 cut(s) 973, 1039, 1130
Hin6I GCGC 1 cut(s) 681
HinP1I GCGC 1 cut(s) 681
HincII GTYRAC 2 cut(s) 1152, 1227
HindII GTYRAC 2 cut(s) 1152, 1227
HindIII AAGCTT 1 cut(s) 911
HinfI GANTC 7 cut(s) 5, 240, 617, 722, 867, 1002, 1090
HpaI GTTAAC 1 cut(s) 1227
HpaII CCGG 3 cut(s) 146, 290, 1046
HphI GGTGA 1 cut(s) 1193
Hpy166II GTNNAC 6 cut(s) 286, 661, 966, 1132, 1152, 1227
Hpy188I TCNGA 5 cut(s) 10, 239, 249, 469, 1173
Hpy188III TCNNGA 9 cut(s) 377, 614, 674, 755, 871, 1059, 1077, 1141, 1252
Hpy8I GTNNAC 6 cut(s) 286, 661, 966, 1132, 1152, 1227
Hpy99I CGWCG 1 cut(s) 14
HpyAV CCTTC 8 cut(s) 511, 874, 985, 1056, 1159, 1189, 1268, 1297
HpyCH4III ACNGT 1 cut(s) 611
HpyF10VI GCNNNNNNNGC 6 cut(s) 260, 283, 488, 535, 1017, 1294
HpyF3I CTNAG 1 cut(s) 1172
Hsp92II CATG 3 cut(s) 973, 1039, 1130
HspAI GCGC 1 cut(s) 681
KspAI GTTAAC 1 cut(s) 1227
Kzo9I GATC 4 cut(s) 762, 958, 1042, 1168
LmnI GCTCC 1 cut(s) 274
Lsp1109I GCAGC 3 cut(s) 547, 1061, 1300
LweI GCATC 3 cut(s) 522, 625, 829
MaeI CTAG 3 cut(s) 321, 377, 755
MaeIII GTNAC 1 cut(s) 344
MalI GATC 4 cut(s) 764, 960, 1044, 1170
MboI GATC 4 cut(s) 762, 958, 1042, 1168
MboII GAAGA 7 cut(s) 29, 91, 97, 103, 412, 1115, 1312
MfeI CAATTG 1 cut(s) 32
MflI RGATCY 1 cut(s) 1168
MhlI GDGCHC 3 cut(s) 288, 861, 1119
MluCI AATT 6 cut(s) 32, 223, 358, 850, 875, 1274
MlyI GAGTC 1 cut(s) 234
MmeI TCCRAC 3 cut(s) 33, 140, 295
MseI TTAA 3 cut(s) 831, 909, 1226
MslI CAYNNNNRTG 1 cut(s) 291
MspA1I CMGCKG 1 cut(s) 1291
MspI CCGG 3 cut(s) 146, 290, 1046
MspR9I CCNGG 2 cut(s) 146, 290
MunI CAATTG 1 cut(s) 32
MvnI CGCG 1 cut(s) 1253
MwoI GCNNNNNNNGC 6 cut(s) 260, 283, 488, 535, 1017, 1294
NciI CCSGG 2 cut(s) 146, 290
NcoI CCATGG 1 cut(s) 969
NdeI CATATG 1 cut(s) 923
NdeII GATC 4 cut(s) 762, 958, 1042, 1168
NlaIII CATG 3 cut(s) 973, 1039, 1130
NlaIV GGNNCC 2 cut(s) 298, 477
NmuCI GTSAC 1 cut(s) 344
NruI TCGCGA 1 cut(s) 1253
NspI RCATGY 1 cut(s) 1039
PciI ACATGT 1 cut(s) 1035
PfeI GAWTC 6 cut(s) 5, 617, 722, 867, 1002, 1090
PfoI TCCNGGA 1 cut(s) 144
PkrI GCNGC 5 cut(s) 130, 337, 537, 1051, 1290
PleI GAGTC 1 cut(s) 234
PpsI GAGTC 1 cut(s) 234
PscI ACATGT 1 cut(s) 1035
PshAI GACNNNNGTC 1 cut(s) 302
PsiI TTATAA 2 cut(s) 804, 947
PspN4I GGNNCC 2 cut(s) 298, 477
PspPI GGNCC 5 cut(s) 178, 297, 611, 994, 1198
PsrI GAACNNNNNNTAC 2 cut(s) 310, 342
PsuI RGATCY 1 cut(s) 1168
RruI TCGCGA 1 cut(s) 1253
RsaI GTAC 1 cut(s) 353
RsaNI GTAC 1 cut(s) 352
RseI CAYNNNNRTG 1 cut(s) 291
SaqAI TTAA 3 cut(s) 831, 909, 1226
SatI GCNGC 5 cut(s) 129, 336, 536, 1050, 1289
Sau3AI GATC 4 cut(s) 762, 958, 1042, 1168
Sau96I GGNCC 5 cut(s) 178, 297, 611, 994, 1198
ScaI AGTACT 1 cut(s) 353
SchI GAGTC 1 cut(s) 234
ScrFI CCNGG 2 cut(s) 146, 290
SduI GDGCHC 3 cut(s) 288, 861, 1119
SetI ASST 9 cut(s) 172, 279, 326, 445, 481, 540, 698, 915, 1057
SfaNI GCATC 3 cut(s) 522, 625, 829
SfcI CTRYAG 1 cut(s) 171
SinI GGWCC 3 cut(s) 297, 611, 1198
SmiMI CAYNNNNRTG 1 cut(s) 291
Sse9I AATT 6 cut(s) 32, 223, 358, 850, 875, 1274
SsiI CCGC 6 cut(s) 99, 129, 335, 819, 1291, 1297
SspMI CTAG 3 cut(s) 321, 377, 755
StyD4I CCNGG 2 cut(s) 144, 288
StyI CCWWGG 1 cut(s) 969
TaaI ACNGT 1 cut(s) 611
TaqI TCGA 4 cut(s) 56, 198, 227, 306
TasI AATT 6 cut(s) 32, 223, 358, 850, 875, 1274
TatI WGTACW 1 cut(s) 351
TauI GCSGC 2 cut(s) 131, 338
TfiI GAWTC 6 cut(s) 5, 617, 722, 867, 1002, 1090
Tru1I TTAA 3 cut(s) 831, 909, 1226
Tru9I TTAA 3 cut(s) 831, 909, 1226
TscAI CASTG 2 cut(s) 307, 349
TseFI GTSAC 1 cut(s) 344
TseI GCWGC 3 cut(s) 535, 1049, 1288
Tsp45I GTSAC 1 cut(s) 344
TspDTI ATGAA 3 cut(s) 659, 735, 1115
TspRI CASTG 2 cut(s) 307, 349
VneI GTGCAC 1 cut(s) 284
VpaK11BI GGWCC 3 cut(s) 297, 611, 1198
XapI RAATTY 2 cut(s) 850, 1274
XbaI TCTAGA 2 cut(s) 376, 754
XceI RCATGY 1 cut(s) 1039
XcmI CCANNNNNNNNNTGG 1 cut(s) 188
XmiI GTMKAC 1 cut(s) 965
XspI CTAG 3 cut(s) 321, 377, 755
ZrmI AGTACT 1 cut(s) 353
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.