pycom01g01230

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr1
OG0020126
Physical Location & Seq
Forward (+)
1152603 .. 1155002
2400 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom01g01230.12

Sequence Viewer

Length: 1572 bp
ATGACAGTACTGTTTTCATTATCTTGCTTCTTATCTAATCTAAGCCAATCCAGCTTAGTCCTTGAAGCTAGTCTAGTCCGAGACAGTCCGATGCAACAAACTCGAGGGCGAATTTTCTCTAACCTAGAGAGTATGATGCATATCTATTGGCCAATGCATTTATGGAGACCAAGCGTTTTTTGGTTGATCAAATTACTTTCTATATGTAATTTTCAATTTTCTATGATTTTAATTTCGTTGATCATCTCCGGAGCACACCCATCCGGATCCTCTAGATCCTTCTTCTTTATAGTCCGAGTCGGCACCCTAGCTTCCCCGGAGTTGGCGTGGTGGCTTCCCCAGAGTTGGCATGGTGGCTTCCCCGACGCTAGTAACGACAACATCATAGTCGTCTGGAACGACGAACTCCGCTCATTTAGAAAACTGAAGAAGAACAAAATCAAAACTGAAGAGATGAAAGAAGAAGAAGGATCTAGAGGATCCGAATGGGTTAGATCCGAAGAGGATCCTATCCCTATAAAAACCACTTCTTCTAGGAAGTTTTACTCAATAATTTTAGCGCTTTTCTTTTGTGAGATTGTTCAACTTTGTTTTCTAGTTCTCTGTGTTTGTAGAGTGTGTACTAGATCGGGCTCTTTTGGGAATTTCAGGTCTCTCCCTGCATCAAGATACTATTGCATTTTTTTCAACTCTTATTCTTCAGTAGATTATGATACTGCATTATACCCACTTTATCTGTACACAGCTTCCCCTTTATGTATACGTGGAACCAGAACAGTTGGCATTGTTGTGCTTTTAAAAAAAAATTGTTTCTGCTGTGTGGTGAGAATAAACAATTGTAAAATAAAGTTGTTGATTAAAAAAAAAAAGGCAATATTTAAGTATTTGATAAACTTTTATATAAGTTGTAATATAATAATTGTCGAAGACAATAATGTAAGGGTAAAAATTGTAATTTTGAGCATTGATTATTATGCTTTAAAAAATGAAAAAAAAAAAAACACTTATTTTAATAGACCCTGTTTGACACACCCCGACCGAAATCAAGGCTTGCTAGCCATGCCTTGGCTAGCGCGTGGCGACGTGTGGGTAGTCAAGCATTTTCCTGATGTATTCCCTGATGATTTACCTGGATTGCCGCCAGACCACTTTAGGTGGTTTCGACTCGTTCAGCCGTACAGGTCACATCACCTGATTTTCATATTTATGCTGGGATATTTGACATGGAATATTTACGAATGTTGTTATTCTGAGCATGATTTCGATATATATATATATATATATATATATTCTATTTTCTGGGAAATATTACAGGTTTTACAGAGAGGAGTTTTAAGTAGAAGCGCCTTGGTAGGTCACGAGGACTTGACGGTCGTTCTAATAGAACAACACAAATGTAGGATCACCTTTGGGTGTTGTATAATTAGTATTCGTCCTACTGGACTACACTTAGCACGCCTTGATTTAGGTCGAGGTGTGTCACTGTTTCTGTTTTTCTATGCTTTTCTATGCTTTTTTACTTTCATTGACAACATTAATGTTCCAAGTTTTTTAATAAGCTGCTTTATTTGA
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
RVP_2 RVT_1 Retrotrans_gag rve zf-CCHC

Protein Analysis

524

Amino Acids

60.96

Weight (kDa)

8.98

Isoelectric Point (pI)

48.69

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0020126)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g23981 FvH4_4g10392
malus_domestica MD14G1073100.v1.1
pyrus_communis pycom01g01230
rosa_chinensis RchiOBHm_Chr7g0227361
rosa_roxburghii Rroxscaffold_6G00402460

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 1370
AccB1I GGYRCC 1 cut(s) 302
AccB7I CCANNNNNTGG 1 cut(s) 1065
AccBSI CCGCTC 1 cut(s) 411
AccI GTMKAC 1 cut(s) 760
AccII CGCG 1 cut(s) 1075
AccIII TCCGGA 2 cut(s) 248, 263
AciI CCGC 2 cut(s) 409, 1139
AcoI YGGCCR 1 cut(s) 149
AcsI RAATTY 2 cut(s) 111, 643
AcuI CTGAAG 3 cut(s) 446, 468, 684
AfaI GTAC 4 cut(s) 9, 622, 740, 1178
AfeI AGCGCT 1 cut(s) 561
AfiI CCNNNNNNNGG 3 cut(s) 322, 345, 1065
AflIII ACRYGT 1 cut(s) 1083
AgsI TTSAA 4 cut(s) 65, 215, 584, 688
AjiI CACGTC 1 cut(s) 1084
AjnI CCWGG 1 cut(s) 1129
AluBI AGCT 5 cut(s) 54, 68, 311, 746, 1560
AluI AGCT 5 cut(s) 54, 68, 311, 746, 1560
Alw21I GWGCWC 1 cut(s) 256
Alw26I GTCTC 3 cut(s) 75, 160, 657
Ama87I CYCGRG 1 cut(s) 102
Aor13HI TCCGGA 2 cut(s) 248, 263
Aor51HI AGCGCT 1 cut(s) 561
AoxI GGCC 1 cut(s) 149
ApeKI GCWGC 1 cut(s) 1560
ApoI RAATTY 2 cut(s) 111, 643
AseI ATTAAT 1 cut(s) 1536
AspLEI GCGC 3 cut(s) 562, 1075, 1346
AsuC2I CCSGG 1 cut(s) 317
AsuHPI GGTGA 3 cut(s) 835, 1181, 1396
AsuNHI GCTAGC 2 cut(s) 1054, 1069
AvaI CYCGRG 1 cut(s) 102
BalI TGGCCA 1 cut(s) 151
BamHI GGATCC 3 cut(s) 266, 479, 505
BanI GGYRCC 1 cut(s) 302
BanII GRGCYC 1 cut(s) 635
BauI CACGAG 1 cut(s) 1358
BbsI GAAGAC 1 cut(s) 933
Bbv12I GWGCWC 1 cut(s) 256
BbvI GCAGC 1 cut(s) 1547
BccI CCATC 1 cut(s) 268
BceAI ACGGC 1 cut(s) 1159
BcgI CGANNNNNNTGC 2 cut(s) 83, 117
BciT130I CCWGG 1 cut(s) 1131
BclI TGATCA 2 cut(s) 186, 240
BcnI CCSGG 1 cut(s) 317
BcoDI GTCTC 3 cut(s) 75, 160, 657
BfoI RGCGCY 2 cut(s) 563, 1347
BisI GCNGC 2 cut(s) 1139, 1561
BlsI GCNGC 2 cut(s) 1140, 1562
BmcAI AGTACT 1 cut(s) 9
Bme1390I CCNGG 2 cut(s) 317, 1131
BmeT110I CYCGRG 1 cut(s) 102
BmgBI CACGTC 1 cut(s) 1084
BmiI GGNNCC 5 cut(s) 268, 304, 481, 507, 769
BmrFI CCNGG 2 cut(s) 317, 1131
BmsI GCATC 3 cut(s) 81, 126, 671
BmtI GCTAGC 2 cut(s) 1058, 1073
BpiI GAAGAC 1 cut(s) 933
BpuMI CCSGG 1 cut(s) 317
BsaAI YACGTR 1 cut(s) 764
BsaBI GATNNNNATC 1 cut(s) 140
BsaI GGTCTC 2 cut(s) 160, 657
BsaJI CCNNGG 3 cut(s) 315, 1064, 1347
BsaWI WCCGGW 2 cut(s) 248, 263
BsaXI ACNNNNNCTCC 2 cut(s) 311, 341
Bsc4I CCNNNNNNNGG 3 cut(s) 322, 345, 1065
Bse1I ACTGG 1 cut(s) 1444
Bse8I GATNNNNATC 1 cut(s) 140
BseAI TCCGGA 2 cut(s) 248, 263
BseBI CCWGG 1 cut(s) 1131
BseDI CCNNGG 3 cut(s) 315, 1064, 1347
BseGI GGATG 1 cut(s) 260
BseJI GATNNNNATC 1 cut(s) 140
BseLI CCNNNNNNNGG 3 cut(s) 322, 345, 1065
BseMII CTCAG 1 cut(s) 1242
BseNI ACTGG 1 cut(s) 1444
BseRI GAGGAG 1 cut(s) 1341
BseXI GCAGC 1 cut(s) 1547
BseYI CCCAGC 1 cut(s) 1210
Bsh1236I CGCG 1 cut(s) 1075
Bsh1285I CGRYCG 2 cut(s) 1039, 1374
BshFI GGCC 1 cut(s) 151
BshNI GGYRCC 1 cut(s) 302
BsiEI CGRYCG 2 cut(s) 1039, 1374
BsiHKAI GWGCWC 1 cut(s) 256
BsiHKCI CYCGRG 1 cut(s) 102
BsiSI CCGG 3 cut(s) 249, 264, 317
BslI CCNNNNNNNGG 3 cut(s) 322, 345, 1065
BsmAI GTCTC 3 cut(s) 75, 160, 657
BsnI GGCC 1 cut(s) 151
Bso31I GGTCTC 2 cut(s) 160, 657
BsoBI CYCGRG 1 cut(s) 102
Bsp1286I GDGCHC 2 cut(s) 256, 635
Bsp13I TCCGGA 2 cut(s) 248, 263
Bsp1407I TGTACA 1 cut(s) 738
BspACI CCGC 2 cut(s) 409, 1139
BspANI GGCC 1 cut(s) 151
BspCNI CTCAG 1 cut(s) 1243
BspEI TCCGGA 2 cut(s) 248, 263
BspFNI CGCG 1 cut(s) 1075
BspLI GGNNCC 5 cut(s) 268, 304, 481, 507, 769
BspOI GCTAGC 2 cut(s) 1058, 1073
BspT107I GGYRCC 1 cut(s) 302
BspTNI GGTCTC 2 cut(s) 160, 657
BsrBI CCGCTC 1 cut(s) 411
BsrGI TGTACA 1 cut(s) 738
BsrI ACTGG 1 cut(s) 1444
BssECI CCNNGG 3 cut(s) 315, 1064, 1347
BssNAI GTATAC 1 cut(s) 761
BssSI CACGAG 1 cut(s) 1358
BssT1I CCWWGG 2 cut(s) 1064, 1347
Bst1107I GTATAC 1 cut(s) 761
Bst2BI CACGAG 1 cut(s) 1358
Bst2UI CCWGG 1 cut(s) 1131
Bst4CI ACNGT 6 cut(s) 7, 12, 86, 778, 1372, 1485
Bst6I CTCTTC 2 cut(s) 444, 495
BstAUI TGTACA 1 cut(s) 738
BstBAI YACGTR 1 cut(s) 764
BstC8I GCNNGC 4 cut(s) 1052, 1056, 1071, 1456
BstDEI CTNAG 4 cut(s) 41, 55, 1251, 1450
BstF5I GGATG 1 cut(s) 260
BstFNI CGCG 1 cut(s) 1075
BstH2I RGCGCY 2 cut(s) 563, 1347
BstHHI GCGC 3 cut(s) 562, 1075, 1346
BstMAI GTCTC 3 cut(s) 75, 160, 657
BstMCI CGRYCG 2 cut(s) 1039, 1374
BstMWI GCNNNNNNNGC 2 cut(s) 51, 1060
BstNI CCWGG 1 cut(s) 1131
BstSCI CCNGG 2 cut(s) 315, 1129
BstUI CGCG 1 cut(s) 1075
BstV1I GCAGC 1 cut(s) 1547
BstV2I GAAGAC 1 cut(s) 933
BstX2I RGATCY 6 cut(s) 266, 275, 470, 479, 494, 505
BstYI RGATCY 6 cut(s) 266, 275, 470, 479, 494, 505
BstZ17I GTATAC 1 cut(s) 761
BsuRI GGCC 1 cut(s) 151
BtrI CACGTC 1 cut(s) 1084
BtsCI GGATG 1 cut(s) 260
BtsIMutI CAGTG 1 cut(s) 1481
Cac8I GCNNGC 4 cut(s) 1052, 1056, 1071, 1456
CfoI GCGC 3 cut(s) 562, 1075, 1346
CseI GACGC 1 cut(s) 374
Csp6I GTAC 4 cut(s) 8, 621, 739, 1177
CviAII CATG 4 cut(s) 350, 1060, 1224, 1256
CviQI GTAC 4 cut(s) 8, 621, 739, 1177
DdeI CTNAG 4 cut(s) 41, 55, 1251, 1450
DraI TTTAAA 2 cut(s) 798, 981
DrdI GACNNNNNNGTC 1 cut(s) 1370
DseDI GACNNNNNNGTC 1 cut(s) 1370
EaeI YGGCCR 1 cut(s) 149
Eam1104I CTCTTC 2 cut(s) 444, 495
EarI CTCTTC 2 cut(s) 444, 495
Eco130I CCWWGG 2 cut(s) 1064, 1347
Eco24I GRGCYC 1 cut(s) 635
Eco31I GGTCTC 2 cut(s) 160, 657
Eco47III AGCGCT 1 cut(s) 561
Eco57I CTGAAG 3 cut(s) 446, 468, 684
Eco88I CYCGRG 1 cut(s) 102
EcoRII CCWGG 1 cut(s) 1129
EcoT14I CCWWGG 2 cut(s) 1064, 1347
EcoT22I ATGCAT 2 cut(s) 141, 159
EcoT38I GRGCYC 1 cut(s) 635
ErhI CCWWGG 2 cut(s) 1064, 1347
FaeI CATG 4 cut(s) 353, 1063, 1227, 1259
FatI CATG 4 cut(s) 349, 1059, 1223, 1255
FbaI TGATCA 2 cut(s) 186, 240
FblI GTMKAC 1 cut(s) 760
Fnu4HI GCNGC 2 cut(s) 1139, 1561
FokI GGATG 1 cut(s) 247
FriOI GRGCYC 1 cut(s) 635
Fsp4HI GCNGC 2 cut(s) 1139, 1561
GlaI GCGC 3 cut(s) 561, 1074, 1345
GluI GCNGC 2 cut(s) 1139, 1561
GsaI CCCAGC 1 cut(s) 1214
HaeII RGCGCY 2 cut(s) 563, 1347
HaeIII GGCC 1 cut(s) 151
HapII CCGG 3 cut(s) 249, 264, 317
HgaI GACGC 1 cut(s) 374
HhaI GCGC 3 cut(s) 562, 1075, 1346
Hin1II CATG 4 cut(s) 353, 1063, 1227, 1259
Hin6I GCGC 3 cut(s) 560, 1073, 1344
HinP1I GCGC 3 cut(s) 560, 1073, 1344
HinfI GANTC 2 cut(s) 297, 1164
HpaII CCGG 3 cut(s) 249, 264, 317
HphI GGTGA 3 cut(s) 835, 1181, 1396
Hpy166II GTNNAC 3 cut(s) 621, 741, 761
Hpy188I TCNGA 6 cut(s) 80, 90, 296, 484, 499, 1252
Hpy188III TCNNGA 8 cut(s) 249, 264, 273, 394, 474, 666, 1106, 1358
Hpy8I GTNNAC 3 cut(s) 621, 741, 761
Hpy99I CGWCG 3 cut(s) 368, 404, 1085
HpyAV CCTTC 2 cut(s) 289, 461
HpyCH4III ACNGT 6 cut(s) 7, 12, 86, 778, 1372, 1485
HpyCH4IV ACGT 2 cut(s) 763, 1083
HpyCH4V TGCA 6 cut(s) 94, 139, 157, 662, 678, 719
HpyF10VI GCNNNNNNNGC 2 cut(s) 51, 1060
HpyF3I CTNAG 4 cut(s) 41, 55, 1251, 1450
HpySE526I ACGT 2 cut(s) 763, 1083
Hsp92II CATG 4 cut(s) 353, 1063, 1227, 1259
HspAI GCGC 3 cut(s) 560, 1073, 1344
Kpn2I TCCGGA 2 cut(s) 248, 263
Ksp22I TGATCA 2 cut(s) 186, 240
LmnI GCTCC 1 cut(s) 251
Lsp1109I GCAGC 1 cut(s) 1547
LweI GCATC 3 cut(s) 81, 126, 671
MaeII ACGT 2 cut(s) 763, 1083
MaeIII GTNAC 4 cut(s) 371, 1182, 1355, 1479
MbiI CCGCTC 1 cut(s) 411
MfeI CAATTG 1 cut(s) 835
MflI RGATCY 6 cut(s) 266, 275, 470, 479, 494, 505
MhlI GDGCHC 2 cut(s) 256, 635
MlsI TGGCCA 1 cut(s) 151
MluNI TGGCCA 1 cut(s) 151
MlyI GAGTC 2 cut(s) 306, 1158
MnlI CCTC 7 cut(s) 98, 280, 470, 496, 1319, 1354, 1466
Mox20I TGGCCA 1 cut(s) 151
Mph1103I ATGCAT 2 cut(s) 141, 159
MroI TCCGGA 2 cut(s) 248, 263
MscI TGGCCA 1 cut(s) 151
MseI TTAA 9 cut(s) 230, 797, 858, 879, 980, 1011, 1334, 1536, 1553
MslI CAYNNNNRTG 2 cut(s) 788, 1205
Msp20I TGGCCA 1 cut(s) 151
MspI CCGG 3 cut(s) 249, 264, 317
MspR9I CCNGG 2 cut(s) 317, 1131
MunI CAATTG 1 cut(s) 835
MvaI CCWGG 1 cut(s) 1131
MvnI CGCG 1 cut(s) 1075
MwoI GCNNNNNNNGC 2 cut(s) 51, 1060
NciI CCSGG 1 cut(s) 317
NheI GCTAGC 2 cut(s) 1054, 1069
NlaIII CATG 4 cut(s) 353, 1063, 1227, 1259
NlaIV GGNNCC 5 cut(s) 268, 304, 481, 507, 769
NmuCI GTSAC 3 cut(s) 1182, 1355, 1479
NsiI ATGCAT 2 cut(s) 141, 159
PaeR7I CTCGAG 1 cut(s) 102
PcsI WCGNNNNNNNCGW 2 cut(s) 372, 396
PflMI CCANNNNNTGG 1 cut(s) 1065
PkrI GCNGC 2 cut(s) 1140, 1562
PleI GAGTC 2 cut(s) 305, 1158
PpsI GAGTC 2 cut(s) 305, 1158
Ppu21I YACGTR 1 cut(s) 764
PshBI ATTAAT 1 cut(s) 1536
Psp6I CCWGG 1 cut(s) 1129
PspFI CCCAGC 1 cut(s) 1210
PspGI CCWGG 1 cut(s) 1129
PspN4I GGNNCC 5 cut(s) 268, 304, 481, 507, 769
PspXI VCTCGAGB 1 cut(s) 102
PsuI RGATCY 6 cut(s) 266, 275, 470, 479, 494, 505
RsaI GTAC 4 cut(s) 9, 622, 740, 1178
RsaNI GTAC 4 cut(s) 8, 621, 739, 1177
RseI CAYNNNNRTG 2 cut(s) 788, 1205
SaqAI TTAA 9 cut(s) 230, 797, 858, 879, 980, 1011, 1334, 1536, 1553
SatI GCNGC 2 cut(s) 1139, 1561
ScaI AGTACT 1 cut(s) 9
SchI GAGTC 2 cut(s) 306, 1158
ScrFI CCNGG 2 cut(s) 317, 1131
SduI GDGCHC 2 cut(s) 256, 635
SfaNI GCATC 3 cut(s) 81, 126, 671
Sfr274I CTCGAG 1 cut(s) 102
SlaI CTCGAG 1 cut(s) 102
SmiMI CAYNNNNRTG 2 cut(s) 788, 1205
SmlI CTYRAG 1 cut(s) 102
SmoI CTYRAG 1 cut(s) 102
SsiI CCGC 2 cut(s) 409, 1139
SspI AATATT 3 cut(s) 876, 1231, 1308
StyD4I CCNGG 2 cut(s) 315, 1129
StyI CCWWGG 2 cut(s) 1064, 1347
TaaI ACNGT 6 cut(s) 7, 12, 86, 778, 1372, 1485
TaiI ACGT 2 cut(s) 766, 1086
TaqI TCGA 5 cut(s) 103, 924, 1162, 1263, 1471
TaqII GACCGA 1 cut(s) 1053
TatI WGTACW 3 cut(s) 7, 620, 738
TauI GCSGC 1 cut(s) 1141
Tru1I TTAA 9 cut(s) 230, 797, 858, 879, 980, 1011, 1334, 1536, 1553
Tru9I TTAA 9 cut(s) 230, 797, 858, 879, 980, 1011, 1334, 1536, 1553
TscAI CASTG 1 cut(s) 1488
TseFI GTSAC 3 cut(s) 1182, 1355, 1479
TseI GCWGC 1 cut(s) 1560
Tsp45I GTSAC 3 cut(s) 1182, 1355, 1479
TspDTI ATGAA 5 cut(s) 6, 470, 1002, 1189, 1513
TspRI CASTG 1 cut(s) 1488
Van91I CCANNNNNTGG 1 cut(s) 1065
VspI ATTAAT 1 cut(s) 1536
XapI RAATTY 2 cut(s) 111, 643
XbaI TCTAGA 2 cut(s) 272, 473
XcmI CCANNNNNNNNNTGG 3 cut(s) 159, 177, 347
XhoI CTCGAG 1 cut(s) 102
XmiI GTMKAC 1 cut(s) 760
ZrmI AGTACT 1 cut(s) 9
Zsp2I ATGCAT 2 cut(s) 141, 159
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.