pycom02g11880

DNA-directed RNA polymerase III subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr2
OG0012292
Physical Location & Seq
Reverse (-)
8451465 .. 8457464
6000 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1611 bp
ATGGACCCGAAGAATTTCGATGAAGATTGCGCTAGTAGATTGAAAATGACAAAGCAGACTTTGTCTACAACATGGAAGCCGCCTGACACAAGTGGCTATGCTGTTGGTGTTTGGATGGACAATAAGTTACACTTGAATCCTGTTCATGCAGTTGTGCAGCTTCGACCCTCATTGGCTCATTTGAACTCTGGTGGCTCTAAAAGGAAGAACAGTGTCAAGGGGGATGCAGAAGTTACAGTTAAGTTGGAAGACTCTGGACAAGAAAAATCTATTGGTCCATCAAAGATGCAGAACAAGCGGATGGAGTCTTCAACTGAGAAAAAAATTGAAGATGAAGAGAGTTGGGTTCCACTTCGGTATCATAGCTCAGAAAGTGACTTCTCGGCCAGATATTTACAGAAGATGGTGGGGCAAGAAAGTTCACCTATACAATTTACAATGAGCCCGCATGACTATGTTGACTCCTTGTGTCCTAGAACGTGCGAAGGTTCTTCAAGAAGGTCTCTGCTTTCCCTGCCTCTGGAAGAGCGTATCAAGAAGTTGATTGTTGAGGAACCTGTAGCACGCCGGTTCAGTGATCTTAAGAAGTACTTTGCTCCCGATCACACTGCGGAAGAACTTCTGGATGTTCTTCAGAAGCATGCTCAGTTGTTGCTGTCCTCTGGTCTTTGGGTTCCAAAAACCTTATTATTATATCCAAATAAAGATGATAAAGGCTTGGATACAAATCATATATCAACTAAAGATCATAAAGATCGGCAGACAGCTAGAAATTACATCCTGAATTTATTTCGGAAGAATCCTGTAATCAGAAATTCACAGCTAGACCTCCAAGAGGGCATTAGAACTCATGTGTATGAATCCCTTAGAATATTAGCTGTCTCAAGACCTTCCACTCAAGATTGGAAATTCAAAGAGCAACCAGATATGTCTTTCATGGAACACTACCCGGACATTGTTAAAACCCAAGAACAAAACTGGGAAAGGATTGAAGAAAAGTTGAGGATAGCCTTTAAATCTAATACTGACCGTTATATGAAGAGTGCTAGTATGACTACTACGCGTGGCAAACCACTGAATTCTGATAAAGGTACGACAAAAGCTGCAAGCGAAGTTCACACAGGGGGAAGAACCATGTCAGATGAAACTCGAGCAGCTCTACAAGAGGCTATAAAGGAGGTTTTTCAAGAACACAAGGTTTGCAATTTTCAACTGATACGTAGAGGATTAAGTGATCTGGCAGTCAGAACATCTACTCTTCCAAAGGTTGATCCTAGAAGTAAAAAAGTGACAGCTGCACAATATGGAGTTCAGGCTCCTCCACATGAGCTGCAGAAAGTAATAAGTGAAATTGCAATAGACATACATGGTTCGTATGTCTTGAAATCATCACCAGATCACCCAGAGCATGACAAATTGAGGAAGGTTGTAATGGATCTTCTATGCGCAAAAGGACCTAATGCTAAGCTTAAAAGGGGTGAGGTTTCTGAAGCAACTAAGATTTCTCTTGGAAAGGAATTCACTGCTAACGAATTCAGCAAGGTCATTAATGAGTTCTGCGTGTCCAGCGGTTCTTCGTGGGTCTTAAAAAAGGGTGATGGCGGAAACTGA

Protein Analysis

537

Amino Acids

60.66

Weight (kDa)

9.07

Isoelectric Point (pI)

47.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RPC5 PF04801 12 - 335 3.8e-64 RPC5 protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0012292)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G49530
fragaria_vesca FvH4_1g13700 FvH4_1g13700 FvH4_2g10200
malus_domestica MD02G1151400.v1.1 MD15G1266000.v1.1
prunus_persica Prupe.7G151600_v2.0.a1 Prupe.7G151600_v2.0.a1
pyrus_communis pycom02g11880
rosa_chinensis RchiOBHm_Chr2g0102021
rosa_laevigata RLG00000017127
rosa_multiflora Rmu_sc0000157.1_g000006
rosa_roxburghii Rroxscaffold_2G00140820
rosa_rugosa Rorug02G0104100.1
rosa_samantha Rh2AG152100 Rh2BG157500 Rh2CG157500 Rh2DG157600
rosa_wichuraiana Rw2G011880

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 1447
AccI GTMKAC 1 cut(s) 65
AccII CGCG 1 cut(s) 1063
AciI CCGC 6 cut(s) 80, 298, 446, 611, 1569, 1602
AclWI GGATC 2 cut(s) 1265, 1443
AcoI YGGCCR 1 cut(s) 384
AcsI RAATTY 7 cut(s) 13, 784, 814, 908, 1078, 1517, 1532
AcuI CTGAAG 2 cut(s) 617, 1509
AfaI GTAC 2 cut(s) 590, 1093
AfiI CCNNNNNNNGG 2 cut(s) 520, 835
AflII CTTAAG 1 cut(s) 581
AflIII ACRYGT 1 cut(s) 1061
AjuI GAANNNNNNNTTGG 2 cut(s) 255, 287
Alw26I GTCTC 2 cut(s) 507, 886
AlwI GGATC 2 cut(s) 1265, 1443
Ama87I CYCGRG 1 cut(s) 1149
AoxI GGCC 1 cut(s) 384
ApeKI GCWGC 5 cut(s) 157, 1103, 1154, 1295, 1330
ApoI RAATTY 7 cut(s) 13, 784, 814, 908, 1078, 1517, 1532
AseI ATTAAT 1 cut(s) 1548
Asp700I GAANNNNTTC 2 cut(s) 14, 618
AspLEI GCGC 2 cut(s) 32, 1448
AspS9I GGNCC 3 cut(s) 4, 275, 1454
AsuC2I CCSGG 1 cut(s) 950
AsuHPI GGTGA 5 cut(s) 414, 1383, 1391, 1490, 1607
AvaI CYCGRG 1 cut(s) 1149
AvaII GGWCC 3 cut(s) 4, 275, 1454
BaeI ACNNNNGTAYC 2 cut(s) 341, 374
BanII GRGCYC 1 cut(s) 446
BarI GAAGNNNNNNTAC 2 cut(s) 1422, 1454
BbsI GAAGAC 2 cut(s) 255, 300
BbvI GCAGC 5 cut(s) 169, 1090, 1166, 1282, 1317
BccI CCATC 5 cut(s) 109, 286, 295, 397, 1592
BcgI CGANNNNNNTGC 2 cut(s) 590, 624
BciVI GTATCC 1 cut(s) 715
BcnI CCSGG 1 cut(s) 950
BcoDI GTCTC 2 cut(s) 507, 886
BfaI CTAG 6 cut(s) 33, 474, 768, 824, 1047, 1275
BfmI CTRYAG 2 cut(s) 558, 1331
BfrI CTTAAG 1 cut(s) 581
BfuI GTATCC 1 cut(s) 715
BisI GCNGC 6 cut(s) 80, 158, 1104, 1155, 1296, 1331
BlpI GCTNAGC 1 cut(s) 1464
BlsI GCNGC 6 cut(s) 81, 159, 1105, 1156, 1297, 1332
BmcAI AGTACT 1 cut(s) 590
Bme1390I CCNGG 1 cut(s) 950
Bme18I GGWCC 3 cut(s) 4, 275, 1454
BmeT110I CYCGRG 1 cut(s) 1149
BmgT120I GGNCC 3 cut(s) 4, 275, 1454
BmiI GGNNCC 5 cut(s) 6, 348, 555, 675, 1317
BmrFI CCNGG 1 cut(s) 950
BmrI ACTGGG 1 cut(s) 988
BmsI GCATC 2 cut(s) 214, 276
BmuI ACTGGG 1 cut(s) 988
BpiI GAAGAC 2 cut(s) 255, 300
Bpu1102I GCTNAGC 1 cut(s) 1464
BpuEI CTTGAG 2 cut(s) 868, 882
BpuMI CCSGG 1 cut(s) 950
BsaAI YACGTR 1 cut(s) 1220
BsaBI GATNNNNATC 1 cut(s) 726
BsaI GGTCTC 1 cut(s) 507
Bsc4I CCNNNNNNNGG 2 cut(s) 520, 835
Bse118I RCCGGY 1 cut(s) 567
Bse1I ACTGG 1 cut(s) 983
Bse8I GATNNNNATC 1 cut(s) 726
BseGI GGATG 5 cut(s) 120, 229, 306, 631, 777
BseJI GATNNNNATC 1 cut(s) 726
BseLI CCNNNNNNNGG 2 cut(s) 520, 835
BseMII CTCAG 3 cut(s) 306, 381, 659
BseNI ACTGG 1 cut(s) 983
BseRI GAGGAG 1 cut(s) 1308
BseXI GCAGC 5 cut(s) 169, 1090, 1166, 1282, 1317
BsgI GTGCAG 2 cut(s) 176, 1281
Bsh1236I CGCG 1 cut(s) 1063
BshFI GGCC 1 cut(s) 386
BsiHKCI CYCGRG 1 cut(s) 1149
BsiSI CCGG 2 cut(s) 568, 950
BslI CCNNNNNNNGG 2 cut(s) 520, 835
BsmAI GTCTC 2 cut(s) 507, 886
BsnI GGCC 1 cut(s) 386
Bso31I GGTCTC 1 cut(s) 507
BsoBI CYCGRG 1 cut(s) 1149
Bsp1286I GDGCHC 1 cut(s) 446
Bsp143I GATC 8 cut(s) 577, 601, 745, 754, 1234, 1270, 1396, 1435
Bsp1720I GCTNAGC 1 cut(s) 1464
BspACI CCGC 6 cut(s) 80, 298, 446, 611, 1569, 1602
BspANI GGCC 1 cut(s) 386
BspCNI CTCAG 3 cut(s) 307, 380, 658
BspFNI CGCG 1 cut(s) 1063
BspLI GGNNCC 5 cut(s) 6, 348, 555, 675, 1317
BspMAI CTGCAG 1 cut(s) 1335
BspPI GGATC 2 cut(s) 1265, 1443
BspQI GCTCTTC 1 cut(s) 519
BspTI CTTAAG 1 cut(s) 581
BspTNI GGTCTC 1 cut(s) 507
BsrFI RCCGGY 1 cut(s) 567
BsrI ACTGG 1 cut(s) 983
BssAI RCCGGY 1 cut(s) 567
BssMI GATC 8 cut(s) 577, 601, 745, 754, 1234, 1270, 1396, 1435
Bst4CI ACNGT 3 cut(s) 212, 238, 1031
Bst6I CTCTTC 4 cut(s) 330, 519, 1034, 1263
BstAFI CTTAAG 1 cut(s) 581
BstBAI YACGTR 1 cut(s) 1220
BstC8I GCNNGC 4 cut(s) 446, 565, 642, 1108
BstDEI CTNAG 6 cut(s) 315, 367, 645, 866, 1464, 1497
BstENI CCTNNNNNAGG 1 cut(s) 833
BstF5I GGATG 5 cut(s) 120, 229, 306, 631, 777
BstFNI CGCG 1 cut(s) 1063
BstHHI GCGC 2 cut(s) 32, 1448
BstKTI GATC 8 cut(s) 580, 604, 748, 757, 1237, 1273, 1399, 1438
BstMAI GTCTC 2 cut(s) 507, 886
BstMBI GATC 8 cut(s) 577, 601, 745, 754, 1234, 1270, 1396, 1435
BstMWI GCNNNNNNNGC 3 cut(s) 295, 514, 1566
BstNSI RCATGY 1 cut(s) 644
BstSCI CCNGG 1 cut(s) 948
BstSFI CTRYAG 2 cut(s) 558, 1331
BstSNI TACGTA 1 cut(s) 1220
BstUI CGCG 1 cut(s) 1063
BstV1I GCAGC 5 cut(s) 169, 1090, 1166, 1282, 1317
BstV2I GAAGAC 2 cut(s) 255, 300
BstX2I RGATCY 1 cut(s) 1435
BstYI RGATCY 1 cut(s) 1435
BsuI GTATCC 1 cut(s) 715
BsuRI GGCC 1 cut(s) 386
BtsCI GGATG 5 cut(s) 120, 229, 306, 631, 777
BtsI GCAGTG 2 cut(s) 606, 1521
BtsIMutI CAGTG 5 cut(s) 217, 580, 606, 1073, 1521
Cac8I GCNNGC 4 cut(s) 446, 565, 642, 1108
CfoI GCGC 2 cut(s) 32, 1448
Cfr10I RCCGGY 1 cut(s) 567
Cfr13I GGNCC 3 cut(s) 4, 275, 1454
Csp6I GTAC 2 cut(s) 589, 1092
CviQI GTAC 2 cut(s) 589, 1092
DdeI CTNAG 6 cut(s) 315, 367, 645, 866, 1464, 1497
DpnI GATC 8 cut(s) 579, 603, 747, 756, 1236, 1272, 1398, 1437
DpnII GATC 8 cut(s) 577, 601, 745, 754, 1234, 1270, 1396, 1435
DraI TTTAAA 1 cut(s) 1015
EaeI YGGCCR 1 cut(s) 384
Eam1104I CTCTTC 4 cut(s) 330, 519, 1034, 1263
EarI CTCTTC 4 cut(s) 330, 519, 1034, 1263
Eco105I TACGTA 1 cut(s) 1220
Eco24I GRGCYC 1 cut(s) 446
Eco31I GGTCTC 1 cut(s) 507
Eco47I GGWCC 3 cut(s) 4, 275, 1454
Eco57I CTGAAG 2 cut(s) 617, 1509
Eco88I CYCGRG 1 cut(s) 1149
EcoNI CCTNNNNNAGG 1 cut(s) 833
EcoO109I RGGNCCY 1 cut(s) 1454
EcoRI GAATTC 3 cut(s) 1078, 1517, 1532
EcoT38I GRGCYC 1 cut(s) 446
FalI AAGNNNNNCTT 4 cut(s) 116, 148, 575, 607
FauI CCCGC 1 cut(s) 453
FblI GTMKAC 1 cut(s) 65
Fnu4HI GCNGC 6 cut(s) 80, 158, 1104, 1155, 1296, 1331
FokI GGATG 5 cut(s) 127, 236, 313, 638, 764
FriOI GRGCYC 1 cut(s) 446
Fsp4HI GCNGC 6 cut(s) 80, 158, 1104, 1155, 1296, 1331
FspBI CTAG 6 cut(s) 33, 474, 768, 824, 1047, 1275
FspI TGCGCA 1 cut(s) 1447
GlaI GCGC 2 cut(s) 31, 1447
GluI GCNGC 6 cut(s) 80, 158, 1104, 1155, 1296, 1331
HaeIII GGCC 1 cut(s) 386
HapII CCGG 2 cut(s) 568, 950
HhaI GCGC 2 cut(s) 32, 1448
Hin6I GCGC 2 cut(s) 30, 1446
HinP1I GCGC 2 cut(s) 30, 1446
HincII GTYRAC 1 cut(s) 460
HindII GTYRAC 1 cut(s) 460
HindIII AAGCTT 1 cut(s) 1466
HinfI GANTC 6 cut(s) 136, 251, 305, 461, 799, 860
HpaII CCGG 2 cut(s) 568, 950
HphI GGTGA 5 cut(s) 414, 1383, 1391, 1490, 1607
Hpy166II GTNNAC 4 cut(s) 66, 422, 460, 1117
Hpy188I TCNGA 8 cut(s) 370, 636, 795, 812, 1084, 1141, 1247, 1489
Hpy8I GTNNAC 4 cut(s) 66, 422, 460, 1117
HpyAV CCTTC 4 cut(s) 479, 492, 900, 1417
HpyCH4III ACNGT 3 cut(s) 212, 238, 1031
HpyCH4IV ACGT 2 cut(s) 479, 1219
HpyCH4V TGCA 9 cut(s) 149, 157, 227, 289, 1106, 1203, 1298, 1333, 1355
HpyF10VI GCNNNNNNNGC 3 cut(s) 295, 514, 1566
HpyF3I CTNAG 6 cut(s) 315, 367, 645, 866, 1464, 1497
HpySE526I ACGT 2 cut(s) 479, 1219
HspAI GCGC 2 cut(s) 30, 1446
Kzo9I GATC 8 cut(s) 577, 601, 745, 754, 1234, 1270, 1396, 1435
LguI GCTCTTC 1 cut(s) 519
LmnI GCTCC 2 cut(s) 601, 1321
Lsp1109I GCAGC 5 cut(s) 169, 1090, 1166, 1282, 1317
LweI GCATC 2 cut(s) 214, 276
MaeI CTAG 6 cut(s) 33, 474, 768, 824, 1047, 1275
MaeII ACGT 2 cut(s) 479, 1219
MaeIII GTNAC 4 cut(s) 126, 232, 374, 1288
MalI GATC 8 cut(s) 579, 603, 747, 756, 1236, 1272, 1398, 1437
MboI GATC 8 cut(s) 577, 601, 745, 754, 1234, 1270, 1396, 1435
MflI RGATCY 1 cut(s) 1435
MhlI GDGCHC 1 cut(s) 446
MluI ACGCGT 1 cut(s) 1061
MlyI GAGTC 3 cut(s) 245, 314, 455
MmeI TCCRAC 1 cut(s) 225
MroXI GAANNNNTTC 2 cut(s) 14, 618
MseI TTAA 8 cut(s) 240, 582, 960, 1014, 1229, 1470, 1548, 1586
MslI CAYNNNNRTG 2 cut(s) 453, 855
MspA1I CMGCKG 2 cut(s) 1295, 1569
MspCI CTTAAG 1 cut(s) 581
MspI CCGG 2 cut(s) 568, 950
MspR9I CCNGG 1 cut(s) 950
MvnI CGCG 1 cut(s) 1063
MwoI GCNNNNNNNGC 3 cut(s) 295, 514, 1566
NciI CCSGG 1 cut(s) 950
NdeII GATC 8 cut(s) 577, 601, 745, 754, 1234, 1270, 1396, 1435
NlaIV GGNNCC 5 cut(s) 6, 348, 555, 675, 1317
NmeAIII GCCGAG 1 cut(s) 362
NmuCI GTSAC 2 cut(s) 374, 1288
NsbI TGCGCA 1 cut(s) 1447
NspI RCATGY 1 cut(s) 644
PaeI GCATGC 1 cut(s) 644
PaeR7I CTCGAG 1 cut(s) 1149
PciSI GCTCTTC 1 cut(s) 519
PdmI GAANNNNTTC 2 cut(s) 14, 618
PfeI GAWTC 3 cut(s) 136, 799, 860
PflFI GACNNNGTC 1 cut(s) 61
PkrI GCNGC 6 cut(s) 81, 159, 1105, 1156, 1297, 1332
PleI GAGTC 3 cut(s) 245, 313, 455
PpsI GAGTC 3 cut(s) 245, 313, 455
Ppu21I YACGTR 1 cut(s) 1220
PpuMI RGGWCCY 1 cut(s) 1454
PshBI ATTAAT 1 cut(s) 1548
Psp5II RGGWCCY 1 cut(s) 1454
PspN4I GGNNCC 5 cut(s) 6, 348, 555, 675, 1317
PspPI GGNCC 3 cut(s) 4, 275, 1454
PspPPI RGGWCCY 1 cut(s) 1454
PspXI VCTCGAGB 1 cut(s) 1149
PstI CTGCAG 1 cut(s) 1335
PsuI RGATCY 1 cut(s) 1435
PsyI GACNNNGTC 1 cut(s) 61
PvuII CAGCTG 1 cut(s) 1295
RsaI GTAC 2 cut(s) 590, 1093
RsaNI GTAC 2 cut(s) 589, 1092
RseI CAYNNNNRTG 2 cut(s) 453, 855
SapI GCTCTTC 1 cut(s) 519
SaqAI TTAA 8 cut(s) 240, 582, 960, 1014, 1229, 1470, 1548, 1586
SatI GCNGC 6 cut(s) 80, 158, 1104, 1155, 1296, 1331
Sau3AI GATC 8 cut(s) 577, 601, 745, 754, 1234, 1270, 1396, 1435
Sau96I GGNCC 3 cut(s) 4, 275, 1454
ScaI AGTACT 1 cut(s) 590
SchI GAGTC 3 cut(s) 245, 314, 455
ScrFI CCNGG 1 cut(s) 950
SduI GDGCHC 1 cut(s) 446
SfaNI GCATC 2 cut(s) 214, 276
SfcI CTRYAG 2 cut(s) 558, 1331
Sfr274I CTCGAG 1 cut(s) 1149
SinI GGWCC 3 cut(s) 4, 275, 1454
SlaI CTCGAG 1 cut(s) 1149
SmiMI CAYNNNNRTG 2 cut(s) 453, 855
SmlI CTYRAG 4 cut(s) 581, 883, 897, 1149
SmoI CTYRAG 4 cut(s) 581, 883, 897, 1149
SnaBI TACGTA 1 cut(s) 1220
SphI GCATGC 1 cut(s) 644
SsiI CCGC 6 cut(s) 80, 298, 446, 611, 1569, 1602
SspI AATATT 1 cut(s) 873
SspMI CTAG 6 cut(s) 33, 474, 768, 824, 1047, 1275
StyD4I CCNGG 1 cut(s) 948
TaaI ACNGT 3 cut(s) 212, 238, 1031
TaiI ACGT 2 cut(s) 482, 1222
TaqI TCGA 3 cut(s) 18, 163, 1150
TatI WGTACW 1 cut(s) 588
TauI GCSGC 1 cut(s) 82
TfiI GAWTC 3 cut(s) 136, 799, 860
Tru1I TTAA 8 cut(s) 240, 582, 960, 1014, 1229, 1470, 1548, 1586
Tru9I TTAA 8 cut(s) 240, 582, 960, 1014, 1229, 1470, 1548, 1586
TscAI CASTG 5 cut(s) 217, 580, 613, 1080, 1528
TseFI GTSAC 2 cut(s) 374, 1288
TseI GCWGC 5 cut(s) 157, 1103, 1154, 1295, 1330
Tsp45I GTSAC 2 cut(s) 374, 1288
TspDTI ATGAA 7 cut(s) 36, 134, 348, 873, 925, 1052, 1158
TspRI CASTG 5 cut(s) 217, 580, 613, 1080, 1528
Tth111I GACNNNGTC 1 cut(s) 61
Vha464I CTTAAG 1 cut(s) 581
VpaK11BI GGWCC 3 cut(s) 4, 275, 1454
VspI ATTAAT 1 cut(s) 1548
XagI CCTNNNNNAGG 1 cut(s) 833
XapI RAATTY 7 cut(s) 13, 784, 814, 908, 1078, 1517, 1532
XceI RCATGY 1 cut(s) 644
XhoI CTCGAG 1 cut(s) 1149
XmiI GTMKAC 1 cut(s) 65
XmnI GAANNNNTTC 2 cut(s) 14, 618
XspI CTAG 6 cut(s) 33, 474, 768, 824, 1047, 1275
ZrmI AGTACT 1 cut(s) 590
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.