pycom12g19340

RNA polymerase II-associated protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr12
OG0005138
Physical Location & Seq
Forward (+)
21212028 .. 21215549
3522 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom12g19340.1

Sequence Viewer

Length: 1239 bp
ATGGCTAGACCTCCGAACAAGCACGGCCGCGACCAAGCTCTGGATTTCCAGGGGTTTTTGAGTGACTTGCAGGACTGGGAGCTTTCTCTCAAGGACAAGGACAAGAAAATGAGACCACAAGTTTCACAGCAGGAAAAGCTGAAGACTAGAGATTCCGGGACCAGTTCCGAGAATTATGACTACTCAAGGAATTTTGATGCCATCAAAAGAATATCAAGTAGTTTGAGATCCGAAGATAGTCTTCCCGATGCTGCTTCAGAAAAAGAATTGGGTAATGAGTATTTTAAGCAGAAGAAGTTTAAGGAAGCTATCGACTGCTATTCAAGAAGCATCGCTTTGTCCCCATCTGCAGTAGCGTATGCAAATAGGGGAATGGCATATATCAAAATCAAAAGATTTCAGGAAGCTGAGGATGACTGTACAGAGGCCTTGAATTTGGATGATCGATCTATAAAAGCATACTCACGACGTGCAACAGCTAGAAAAGAACTTGGAAAGCTTAAAGAATCATTCGAGGATGCTGAGTTTGCCCTGAGGTTGGAGCCTCACAACCAAGAAATCAAGAGACAGTACACGGAAGCCAAATCTTTGTATGACAAATCAAATCTTCAGAAGGCATCTGGAGCACTGAAAAATTCTGTACAAGAAATGCAGAAAAGGGGAAAGTCGGATACCAAAGTAAATGGAAAAGGCATCCAGCCTGTCTCAAGCAAAGCTCAAATAACAGAAATAACTGCAGTTCAAGATCATACTAAGGGAGATAATACAAATAAGAAGCAAGAGGTGAAGGCATCGGTACAAGAGCTTGCTTCTCGAGCTGCTTCCAAAGCAAAGGTTGTAGCTGCAGAGAAAAACATCACCCCACCAACTACTGCATATCAATTTGAGGTTTCTTGGCGAGATCTCTCTGGAGATAGTGCTCTGCAGGCTAGTCTGTTGAAGTCTATATCTCCTAGTGCATTGCCACAGATATTCAAAAATGCTTTGACTGTTCCCATACTAATTGACATTATCAAATGCGTGGCGACCTTTTTTGTTGAAGAAATGGAACTGGCCGTCAATTATTTGGAGAACTTGACCAAGGTTCCAAGATTTGACACACTCATCATTTTTCTGTCATCCTCAAACAAGGCCGATCTTGATAAGATATGGGATGAAGTGTTCTACAATGAGGCAACTCCAGTCGAGTACGCGGAGAAGCTTGGCAACCTGCGTGCAAAGTACTGCCTCAAGCGATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0032991 GO:0044424 GO:0044444 GO:0044464 GO:0097255
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RPAP3_C TPR_1 TPR_8

Protein Analysis

413

Amino Acids

46.52

Weight (kDa)

8.89

Isoelectric Point (pI)

47.98

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TPR_BSK1_C PF25575 78 - 146 1.5e-07 Serine/threonine-protein kinase BSK1-like, TPR repeats
TPR_1 PF00515 88 - 116 5e-08 Tetratricopeptide repeat
TPR_11 PF13414 91 - 128 1.6e-06 TPR repeat
TPR_1 PF00515 117 - 147 4.2e-07 Tetratricopeptide repeat
RPAP3_C PF13877 288 - 377 3.9e-26 Potential Monad-binding region of RPAP3
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)
Acc36I ACCTGC 1 cut(s) 1218
AccB7I CCANNNNNTGG 1 cut(s) 40
AccII CGCG 2 cut(s) 30, 1193
AciI CCGC 2 cut(s) 28, 1193
AclWI GGATC 1 cut(s) 222
AcoI YGGCCR 2 cut(s) 25, 1053
AcsI RAATTY 3 cut(s) 190, 433, 634
AcuI CTGAAG 3 cut(s) 161, 240, 593
AdeI CACNNNGTG 1 cut(s) 470
AfaI GTAC 6 cut(s) 421, 572, 642, 798, 1190, 1223
AfiI CCNNNNNNNGG 2 cut(s) 40, 538
AgsI TTSAA 6 cut(s) 324, 433, 743, 940, 976, 1040
AjiI CACGTC 1 cut(s) 470
AjnI CCWGG 1 cut(s) 48
AloI GAACNNNNNNTCC 2 cut(s) 1145, 1177
Alw21I GWGCWC 2 cut(s) 628, 922
Alw26I GTCTC 3 cut(s) 106, 559, 709
AlwI GGATC 1 cut(s) 222
Ama87I CYCGRG 1 cut(s) 813
AoxI GGCC 4 cut(s) 25, 426, 1053, 1131
ApeKI GCWGC 3 cut(s) 251, 818, 842
ApoI RAATTY 3 cut(s) 190, 433, 634
AspS9I GGNCC 1 cut(s) 159
AsuC2I CCSGG 1 cut(s) 157
AsuHPI GGTGA 2 cut(s) 796, 850
AvaI CYCGRG 1 cut(s) 813
AvaII GGWCC 1 cut(s) 159
AxyI CCTNAGG 1 cut(s) 533
BaeI ACNNNNGTAYC 2 cut(s) 663, 696
BbsI GAAGAC 2 cut(s) 149, 233
Bbv12I GWGCWC 2 cut(s) 628, 922
BbvCI CCTCAGC 1 cut(s) 408
BbvI GCAGC 3 cut(s) 238, 805, 829
BccI CCATC 2 cut(s) 209, 352
BceAI ACGGC 2 cut(s) 40, 1040
BciT130I CCWGG 1 cut(s) 50
BciVI GTATCC 1 cut(s) 664
BcnI CCSGG 1 cut(s) 157
BcoDI GTCTC 3 cut(s) 106, 559, 709
BfaI CTAG 5 cut(s) 6, 147, 480, 930, 954
BfmI CTRYAG 4 cut(s) 348, 735, 843, 923
BfuAI ACCTGC 1 cut(s) 1218
BfuI GTATCC 1 cut(s) 664
BglII AGATCT 1 cut(s) 901
BisI GCNGC 4 cut(s) 28, 252, 819, 843
BlsI GCNGC 4 cut(s) 29, 253, 820, 844
BmcAI AGTACT 1 cut(s) 1223
Bme1390I CCNGG 2 cut(s) 50, 157
Bme18I GGWCC 1 cut(s) 159
BmeT110I CYCGRG 1 cut(s) 813
BmgBI CACGTC 1 cut(s) 470
BmgT120I GGNCC 1 cut(s) 159
BmiI GGNNCC 3 cut(s) 160, 543, 1086
BmrFI CCNGG 2 cut(s) 50, 157
BmrI ACTGGG 1 cut(s) 85
BmsI GCATC 7 cut(s) 187, 238, 339, 508, 626, 702, 800
BmuI ACTGGG 1 cut(s) 85
BpiI GAAGAC 2 cut(s) 149, 233
BpmI CTGGAG 3 cut(s) 642, 930, 1164
Bpu10I CCTNAGC 1 cut(s) 408
BpuEI CTTGAG 4 cut(s) 74, 169, 691, 1214
BpuMI CCSGG 1 cut(s) 157
Bsa29I ATCGAT 1 cut(s) 445
BsaI GGTCTC 1 cut(s) 106
BsaJI CCNNGG 2 cut(s) 49, 1080
Bsc4I CCNNNNNNNGG 2 cut(s) 40, 538
Bse1I ACTGG 4 cut(s) 80, 162, 1056, 1181
Bse21I CCTNAGG 1 cut(s) 533
Bse3DI GCAATG 1 cut(s) 959
BseBI CCWGG 1 cut(s) 50
BseCI ATCGAT 1 cut(s) 445
BseDI CCNNGG 2 cut(s) 49, 1080
BseGI GGATG 6 cut(s) 418, 445, 523, 693, 1118, 1159
BseLI CCNNNNNNNGG 2 cut(s) 40, 538
BseMI GCAATG 1 cut(s) 959
BseMII CTCAG 3 cut(s) 399, 513, 524
BseNI ACTGG 4 cut(s) 80, 162, 1056, 1181
BseX3I CGGCCG 1 cut(s) 25
BseXI GCAGC 3 cut(s) 238, 805, 829
Bsh1236I CGCG 2 cut(s) 30, 1193
Bsh1285I CGRYCG 1 cut(s) 28
BshFI GGCC 4 cut(s) 27, 428, 1055, 1133
BshVI ATCGAT 1 cut(s) 445
BsiEI CGRYCG 1 cut(s) 28
BsiHKAI GWGCWC 2 cut(s) 628, 922
BsiHKCI CYCGRG 1 cut(s) 813
BsiSI CCGG 1 cut(s) 156
BslFI GGGAC 2 cut(s) 172, 325
BslI CCNNNNNNNGG 2 cut(s) 40, 538
BsmAI GTCTC 3 cut(s) 106, 559, 709
BsmFI GGGAC 2 cut(s) 172, 325
BsnI GGCC 4 cut(s) 27, 428, 1055, 1133
Bso31I GGTCTC 1 cut(s) 106
BsoBI CYCGRG 1 cut(s) 813
Bsp1286I GDGCHC 2 cut(s) 628, 922
Bsp1407I TGTACA 2 cut(s) 419, 640
Bsp143I GATC 6 cut(s) 227, 442, 446, 745, 901, 1135
BspACI CCGC 2 cut(s) 28, 1193
BspANI GGCC 4 cut(s) 27, 428, 1055, 1133
BspCNI CTCAG 3 cut(s) 400, 514, 525
BspDI ATCGAT 1 cut(s) 445
BspFNI CGCG 2 cut(s) 30, 1193
BspLI GGNNCC 3 cut(s) 160, 543, 1086
BspMAI CTGCAG 4 cut(s) 352, 739, 847, 927
BspMI ACCTGC 1 cut(s) 1218
BspPI GGATC 1 cut(s) 222
BspTNI GGTCTC 1 cut(s) 106
BsrDI GCAATG 1 cut(s) 959
BsrGI TGTACA 2 cut(s) 419, 640
BsrI ACTGG 4 cut(s) 80, 162, 1056, 1181
BssECI CCNNGG 2 cut(s) 49, 1080
BssMI GATC 6 cut(s) 227, 442, 446, 745, 901, 1135
BssT1I CCWWGG 1 cut(s) 1080
Bst2UI CCWGG 1 cut(s) 50
Bst4CI ACNGT 3 cut(s) 419, 570, 991
BstAUI TGTACA 2 cut(s) 419, 640
BstC8I GCNNGC 3 cut(s) 807, 927, 1215
BstDEI CTNAG 4 cut(s) 408, 522, 533, 753
BstF5I GGATG 6 cut(s) 418, 445, 523, 693, 1118, 1159
BstFNI CGCG 2 cut(s) 30, 1193
BstKTI GATC 6 cut(s) 230, 445, 449, 748, 904, 1138
BstMAI GTCTC 3 cut(s) 106, 559, 709
BstMBI GATC 6 cut(s) 227, 442, 446, 745, 901, 1135
BstMCI CGRYCG 1 cut(s) 28
BstMWI GCNNNNNNNGC 6 cut(s) 136, 527, 623, 815, 827, 926
BstNI CCWGG 1 cut(s) 50
BstSCI CCNGG 2 cut(s) 48, 155
BstSFI CTRYAG 4 cut(s) 348, 735, 843, 923
BstUI CGCG 2 cut(s) 30, 1193
BstV1I GCAGC 3 cut(s) 238, 805, 829
BstV2I GAAGAC 2 cut(s) 149, 233
BstX2I RGATCY 2 cut(s) 227, 901
BstYI RGATCY 2 cut(s) 227, 901
BstZI CGGCCG 1 cut(s) 25
Bsu15I ATCGAT 1 cut(s) 445
Bsu36I CCTNAGG 1 cut(s) 533
BsuI GTATCC 1 cut(s) 664
BsuRI GGCC 4 cut(s) 27, 428, 1055, 1133
BsuTUI ATCGAT 1 cut(s) 445
BtgZI GCGATG 1 cut(s) 316
BtrI CACGTC 1 cut(s) 470
BtsCI GGATG 6 cut(s) 418, 445, 523, 693, 1118, 1159
BtsIMutI CAGTG 1 cut(s) 626
BveI ACCTGC 1 cut(s) 1218
Cac8I GCNNGC 3 cut(s) 807, 927, 1215
Cfr13I GGNCC 1 cut(s) 159
ClaI ATCGAT 1 cut(s) 445
Csp6I GTAC 6 cut(s) 420, 571, 641, 797, 1189, 1222
CviQI GTAC 6 cut(s) 420, 571, 641, 797, 1189, 1222
DdeI CTNAG 4 cut(s) 408, 522, 533, 753
DpnI GATC 6 cut(s) 229, 444, 448, 747, 903, 1137
DpnII GATC 6 cut(s) 227, 442, 446, 745, 901, 1135
DraIII CACNNNGTG 1 cut(s) 470
EaeI YGGCCR 2 cut(s) 25, 1053
EagI CGGCCG 1 cut(s) 25
EclXI CGGCCG 1 cut(s) 25
Eco130I CCWWGG 1 cut(s) 1080
Eco147I AGGCCT 1 cut(s) 428
Eco31I GGTCTC 1 cut(s) 106
Eco47I GGWCC 1 cut(s) 159
Eco52I CGGCCG 1 cut(s) 25
Eco57I CTGAAG 3 cut(s) 161, 240, 593
Eco81I CCTNAGG 1 cut(s) 533
Eco88I CYCGRG 1 cut(s) 813
EcoRII CCWGG 1 cut(s) 48
EcoT14I CCWWGG 1 cut(s) 1080
ErhI CCWWGG 1 cut(s) 1080
FalI AAGNNNNNCTT 4 cut(s) 225, 257, 319, 351
FaqI GGGAC 2 cut(s) 172, 325
Fnu4HI GCNGC 4 cut(s) 28, 252, 819, 843
FokI GGATG 6 cut(s) 425, 452, 530, 680, 1105, 1166
Fsp4HI GCNGC 4 cut(s) 28, 252, 819, 843
FspBI CTAG 5 cut(s) 6, 147, 480, 930, 954
GluI GCNGC 4 cut(s) 28, 252, 819, 843
GsuI CTGGAG 3 cut(s) 642, 930, 1164
HaeIII GGCC 4 cut(s) 27, 428, 1055, 1133
HapII CCGG 1 cut(s) 156
HindIII AAGCTT 2 cut(s) 497, 1199
HinfI GANTC 2 cut(s) 152, 506
HpaII CCGG 1 cut(s) 156
HphI GGTGA 2 cut(s) 796, 850
Hpy166II GTNNAC 1 cut(s) 573
Hpy188I TCNGA 6 cut(s) 15, 169, 232, 259, 612, 670
Hpy8I GTNNAC 1 cut(s) 573
Hpy99I CGWCG 1 cut(s) 471
HpyAV CCTTC 2 cut(s) 607, 781
HpyCH4III ACNGT 3 cut(s) 419, 570, 991
HpyCH4IV ACGT 1 cut(s) 469
HpyF10VI GCNNNNNNNGC 6 cut(s) 136, 527, 623, 815, 827, 926
HpyF3I CTNAG 4 cut(s) 408, 522, 533, 753
HpySE526I ACGT 1 cut(s) 469
Kzo9I GATC 6 cut(s) 227, 442, 446, 745, 901, 1135
LmnI GCTCC 3 cut(s) 79, 541, 623
Lsp1109I GCAGC 3 cut(s) 238, 805, 829
LweI GCATC 7 cut(s) 187, 238, 339, 508, 626, 702, 800
MaeI CTAG 5 cut(s) 6, 147, 480, 930, 954
MaeII ACGT 1 cut(s) 469
MaeIII GTNAC 1 cut(s) 62
MalI GATC 6 cut(s) 229, 444, 448, 747, 903, 1137
MboI GATC 6 cut(s) 227, 442, 446, 745, 901, 1135
MboII GAAGA 6 cut(s) 154, 233, 245, 304, 599, 1052
MflI RGATCY 2 cut(s) 227, 901
MhlI GDGCHC 2 cut(s) 628, 922
MluCI AATT 8 cut(s) 172, 190, 266, 433, 634, 881, 1002, 1060
MmeI TCCRAC 2 cut(s) 519, 648
MseI TTAA 3 cut(s) 285, 300, 501
MspI CCGG 1 cut(s) 156
MspR9I CCNGG 2 cut(s) 50, 157
MvaI CCWGG 1 cut(s) 50
MvnI CGCG 2 cut(s) 30, 1193
MwoI GCNNNNNNNGC 6 cut(s) 136, 527, 623, 815, 827, 926
NciI CCSGG 1 cut(s) 157
NdeII GATC 6 cut(s) 227, 442, 446, 745, 901, 1135
NlaIV GGNNCC 3 cut(s) 160, 543, 1086
NmuCI GTSAC 1 cut(s) 62
PaeR7I CTCGAG 1 cut(s) 813
PceI AGGCCT 1 cut(s) 428
PfeI GAWTC 2 cut(s) 152, 506
PflMI CCANNNNNTGG 1 cut(s) 40
PfoI TCCNGGA 1 cut(s) 155
PkrI GCNGC 4 cut(s) 29, 253, 820, 844
Psp6I CCWGG 1 cut(s) 48
PspGI CCWGG 1 cut(s) 48
PspN4I GGNNCC 3 cut(s) 160, 543, 1086
PspPI GGNCC 1 cut(s) 159
PstI CTGCAG 4 cut(s) 352, 739, 847, 927
PsuI RGATCY 2 cut(s) 227, 901
RsaI GTAC 6 cut(s) 421, 572, 642, 798, 1190, 1223
RsaNI GTAC 6 cut(s) 420, 571, 641, 797, 1189, 1222
SaqAI TTAA 3 cut(s) 285, 300, 501
SatI GCNGC 4 cut(s) 28, 252, 819, 843
Sau3AI GATC 6 cut(s) 227, 442, 446, 745, 901, 1135
Sau96I GGNCC 1 cut(s) 159
ScaI AGTACT 1 cut(s) 1223
ScrFI CCNGG 2 cut(s) 50, 157
SduI GDGCHC 2 cut(s) 628, 922
SfaNI GCATC 7 cut(s) 187, 238, 339, 508, 626, 702, 800
SfcI CTRYAG 4 cut(s) 348, 735, 843, 923
Sfr274I CTCGAG 1 cut(s) 813
SinI GGWCC 1 cut(s) 159
SlaI CTCGAG 1 cut(s) 813
SmlI CTYRAG 5 cut(s) 89, 184, 706, 813, 1229
SmoI CTYRAG 5 cut(s) 89, 184, 706, 813, 1229
Sse9I AATT 8 cut(s) 172, 190, 266, 433, 634, 881, 1002, 1060
SseBI AGGCCT 1 cut(s) 428
SsiI CCGC 2 cut(s) 28, 1193
SspMI CTAG 5 cut(s) 6, 147, 480, 930, 954
StuI AGGCCT 1 cut(s) 428
StyD4I CCNGG 2 cut(s) 48, 155
StyI CCWWGG 1 cut(s) 1080
TaaI ACNGT 3 cut(s) 419, 570, 991
TaiI ACGT 1 cut(s) 472
TaqI TCGA 5 cut(s) 312, 445, 513, 814, 1185
TasI AATT 8 cut(s) 172, 190, 266, 433, 634, 881, 1002, 1060
TatI WGTACW 4 cut(s) 419, 570, 640, 1221
TauI GCSGC 1 cut(s) 30
TfiI GAWTC 2 cut(s) 152, 506
Tru1I TTAA 3 cut(s) 285, 300, 501
Tru9I TTAA 3 cut(s) 285, 300, 501
TscAI CASTG 1 cut(s) 633
TseFI GTSAC 1 cut(s) 62
TseI GCWGC 3 cut(s) 251, 818, 842
Tsp45I GTSAC 1 cut(s) 62
TspDTI ATGAA 1 cut(s) 1170
TspGWI ACGGA 1 cut(s) 590
TspRI CASTG 1 cut(s) 633
Van91I CCANNNNNTGG 1 cut(s) 40
VpaK11BI GGWCC 1 cut(s) 159
XapI RAATTY 3 cut(s) 190, 433, 634
XhoI CTCGAG 1 cut(s) 813
XspI CTAG 5 cut(s) 6, 147, 480, 930, 954
ZrmI AGTACT 1 cut(s) 1223
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.