pycom14g04280

protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr14
OG0014471
Physical Location & Seq
Reverse (-)
3708966 .. 3710349
1384 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1320 bp
ATGCTTCAGCCCAAAAATAAAACCCAGAGCAAAATGAAAGCTTACCTCTTCTCTCTCCTAAAACCCCGAACCCCCTCCTCCTCACCCACCAACCTCCTCCTCCACCGCCACCACCAACAGCGGGGCATAACCAAAGTCCGCCTCAAATGGGTCAAAAACCGAAGCATCGACCACGTCATCGAAACCGAGACCGACCTCAAAGCCGCCTGCCTCCTCAAGGACGCAATCAAGCGCTCTCCCACCGGCTTCCTCACCGCCAAGTCCTTCGCCGACTGGCAGAAGCTCCTCGGCCTCACCGTCCCCGTCCTCCGCTTCCTCCGCAGATACCCAACTCTTTTCCAAGAATTCCCACATGCCCGTTACGCCAATTTGCCATGTTTCAAATTAACAGAAACTGCATTGTTGTTGGATTCACAAGAACAAAGTATACACAAAACCCATGAGAGTGACACTGTGGAGAGGCTCTGTAGAGTGCTTATGATGACAAAGTCTAAGACTTTGCCTCTCCAGTCGTTGTATCCCTTGAAATGGGATCTGGGTTTGCCTGATGGTTTCGAAAAAATGTTGGTTCCGAAATACCCTGATTGTTTTCGGATTGTTAAGGCCTCGAATGGGGTCGGATGCTTGAAGGCCATACAATGGCCTAAAGAGTTTGCGGTTTCGGAATTGCAGAGAAGTAGAGAGGGTGGTGATTTAGGGGATGAGTATAGGCAGTTTAAAAGGGGGCAGACGGTGTTGGCATTTCCTATGAATTTTCCAAGGGGTTATGGTGGGCAGAAGAAGGTTAGGGCATGGATGGAGGAGTTCCAGAAGTTACCGTATATTTCACCATATGAGGATTCTAGGCATATTGATCCTGAGAGTGATCTTATGGAGAAAAGGGTAGTTGGAGTTTTGCATGAGTTCTTGAGCTTGACTCTTCATAAGAAGACTAAGAGGAACTACTTGAGAAGCTTGAGGGAGGAATTGAATCTTCCACATAAGTTTACGAGAATCTTCACAAGGTATCCGGGGATTTTCTACCTCTCGTTGAAGTGTAAAACAACCACTGTTTCACTCAGGGAAGGGTACCATAGAGGGAAGTTAGTGAACCCACATCCCCTCACAACTTTGAGAGAGAAGTTCTATTACGTCATGAGAACAGGGCTTCTTTATCGGGGTAAAGGTGTGAACATGCTATCCCCGGAAGAGATTTTACTTAACAGTATGGAGAGTGAAAGTGGGCTGGAAGAATCTGAAGAGGAAGAGGCTGGAACAGGTGATGAATGCTATGAAGATGAAGTATCGAATTCAGATTCAGAAGGGTCTGATGAAGATTGA
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
PORR

Protein Analysis

440

Amino Acids

50.85

Weight (kDa)

9.16

Isoelectric Point (pI)

56.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 51 - 382 2.2e-120 Plant organelle RNA recognition domain
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: OG0014471)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G58520 AT3G58520
fragaria_vesca FvH4_6g21580
malus_domestica MD14G1051500.v1.1
prunus_persica Prupe.7G084500_v2.0.a1
pyrus_communis pycom14g04280
rosa_chinensis RchiOBHm_Chr3g0478831
rosa_laevigata RLG00000023622
rosa_multiflora Rmu_sc0004831.1_g000011 Rmu_sc0005751.1_g000005 Rmu_sc0037242.1_g000002
rosa_roxburghii Rroxscaffold_6G00403040
rosa_rugosa Rorug03G0168500
rosa_samantha Rh3BG252100 Rh3CG249000 Rh3DG245200
rosa_wichuraiana Rw3G019800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 1068
AccB1I GGYRCC 1 cut(s) 1068
AccB7I CCANNNNNTGG 1 cut(s) 639
AccI GTMKAC 1 cut(s) 427
AciI CCGC 8 cut(s) 106, 121, 139, 204, 255, 310, 319, 656
AclWI GGATC 2 cut(s) 540, 848
AcsI RAATTY 3 cut(s) 344, 751, 1288
AcuI CTGAAG 1 cut(s) 1257
AfaI GTAC 1 cut(s) 1070
AfeI AGCGCT 1 cut(s) 233
AfiI CCNNNNNNNGG 6 cut(s) 121, 148, 217, 528, 612, 639
AgsI TTSAA 5 cut(s) 382, 526, 628, 970, 1033
AjiI CACGTC 1 cut(s) 175
AloI GAACNNNNNNTCC 2 cut(s) 1163, 1195
AluBI AGCT 4 cut(s) 41, 283, 912, 954
AluI AGCT 4 cut(s) 41, 283, 912, 954
Alw26I GTCTC 1 cut(s) 182
AlwI GGATC 2 cut(s) 540, 848
AlwNI CAGNNNCTG 1 cut(s) 395
Aor51HI AGCGCT 1 cut(s) 233
AoxI GGCC 4 cut(s) 289, 603, 630, 641
ApoI RAATTY 3 cut(s) 344, 751, 1288
Asp718I GGTACC 1 cut(s) 1068
AspLEI GCGC 1 cut(s) 234
AsuC2I CCSGG 2 cut(s) 1011, 1184
AsuHPI GGTGA 6 cut(s) 75, 244, 286, 701, 819, 1271
AsuII TTCGAA 1 cut(s) 555
BanI GGYRCC 1 cut(s) 1068
BarI GAAGNNNNNNTAC 4 cut(s) 1112, 1144, 1179, 1211
BbsI GAAGAC 1 cut(s) 935
BccI CCATC 2 cut(s) 542, 790
BciVI GTATCC 2 cut(s) 528, 1017
BcnI CCSGG 2 cut(s) 1011, 1184
BcoDI GTCTC 1 cut(s) 182
BfaI CTAG 1 cut(s) 843
BfmI CTRYAG 1 cut(s) 466
BfoI RGCGCY 1 cut(s) 235
BfuI GTATCC 2 cut(s) 528, 1017
BisI GCNGC 1 cut(s) 204
BlsI GCNGC 1 cut(s) 205
Bme1390I CCNGG 2 cut(s) 1011, 1184
BmgBI CACGTC 1 cut(s) 175
BmiI GGNNCC 2 cut(s) 570, 1070
BmrFI CCNGG 2 cut(s) 1011, 1184
BmsI GCATC 2 cut(s) 174, 611
BpiI GAAGAC 1 cut(s) 935
BplI GAGNNNNNCTC 2 cut(s) 901, 933
BpmI CTGGAG 1 cut(s) 491
Bpu14I TTCGAA 1 cut(s) 555
BpuEI CTTGAG 4 cut(s) 200, 928, 967, 976
BpuMI CCSGG 2 cut(s) 1011, 1184
BsaI GGTCTC 1 cut(s) 182
BsaJI CCNNGG 4 cut(s) 286, 758, 1010, 1182
Bsc4I CCNNNNNNNGG 6 cut(s) 121, 148, 217, 528, 612, 639
Bse118I RCCGGY 1 cut(s) 242
Bse1I ACTGG 2 cut(s) 278, 508
BseDI CCNNGG 4 cut(s) 286, 758, 1010, 1182
BseGI GGATG 4 cut(s) 626, 706, 801, 1096
BseLI CCNNNNNNNGG 6 cut(s) 121, 148, 217, 528, 612, 639
BseMII CTCAG 2 cut(s) 849, 1072
BseNI ACTGG 2 cut(s) 278, 508
BseRI GAGGAG 7 cut(s) 67, 70, 86, 89, 203, 275, 815
BshFI GGCC 4 cut(s) 291, 605, 632, 643
BshNI GGYRCC 1 cut(s) 1068
BsiSI CCGG 3 cut(s) 243, 1010, 1184
BslFI GGGAC 1 cut(s) 284
BslI CCNNNNNNNGG 6 cut(s) 121, 148, 217, 528, 612, 639
BsmAI GTCTC 1 cut(s) 182
BsmFI GGGAC 1 cut(s) 284
BsmI GAATGC 1 cut(s) 1271
BsnI GGCC 4 cut(s) 291, 605, 632, 643
Bso31I GGTCTC 1 cut(s) 182
Bsp119I TTCGAA 1 cut(s) 555
Bsp143I GATC 3 cut(s) 532, 853, 865
BspACI CCGC 8 cut(s) 106, 121, 139, 204, 255, 310, 319, 656
BspANI GGCC 4 cut(s) 291, 605, 632, 643
BspCNI CTCAG 2 cut(s) 850, 1071
BspHI TCATGA 1 cut(s) 1134
BspLI GGNNCC 2 cut(s) 570, 1070
BspPI GGATC 2 cut(s) 540, 848
BspT104I TTCGAA 1 cut(s) 555
BspT107I GGYRCC 1 cut(s) 1068
BspTNI GGTCTC 1 cut(s) 182
BsrFI RCCGGY 1 cut(s) 242
BsrI ACTGG 2 cut(s) 278, 508
BssAI RCCGGY 1 cut(s) 242
BssECI CCNNGG 4 cut(s) 286, 758, 1010, 1182
BssMI GATC 3 cut(s) 532, 853, 865
BssNAI GTATAC 1 cut(s) 428
BssT1I CCWWGG 1 cut(s) 758
Bst1107I GTATAC 1 cut(s) 428
Bst4CI ACNGT 6 cut(s) 298, 454, 733, 819, 1051, 1205
Bst6I CTCTTC 5 cut(s) 53, 924, 1182, 1233, 1239
BstBI TTCGAA 1 cut(s) 555
BstC8I GCNNGC 1 cut(s) 208
BstDEI CTNAG 4 cut(s) 492, 858, 933, 1058
BstENI CCTNNNNNAGG 1 cut(s) 215
BstF5I GGATG 4 cut(s) 626, 706, 801, 1096
BstH2I RGCGCY 1 cut(s) 235
BstHHI GCGC 1 cut(s) 234
BstKTI GATC 3 cut(s) 535, 856, 868
BstMAI GTCTC 1 cut(s) 182
BstMBI GATC 3 cut(s) 532, 853, 865
BstMWI GCNNNNNNNGC 2 cut(s) 318, 362
BstNSI RCATGY 2 cut(s) 356, 1177
BstSCI CCNGG 2 cut(s) 1009, 1182
BstSFI CTRYAG 1 cut(s) 466
BstV2I GAAGAC 1 cut(s) 935
BstX2I RGATCY 1 cut(s) 532
BstYI RGATCY 1 cut(s) 532
BstZ17I GTATAC 1 cut(s) 428
BsuI GTATCC 2 cut(s) 528, 1017
BsuRI GGCC 4 cut(s) 291, 605, 632, 643
BtrI CACGTC 1 cut(s) 175
BtsCI GGATG 4 cut(s) 626, 706, 801, 1096
BtsIMutI CAGTG 2 cut(s) 450, 1047
Cac8I GCNNGC 1 cut(s) 208
CaiI CAGNNNCTG 1 cut(s) 395
CciI TCATGA 1 cut(s) 1134
CfoI GCGC 1 cut(s) 234
Cfr10I RCCGGY 1 cut(s) 242
CseI GACGC 1 cut(s) 230
Csp6I GTAC 1 cut(s) 1069
CviAII CATG 7 cut(s) 353, 375, 440, 792, 899, 1135, 1174
CviQI GTAC 1 cut(s) 1069
DdeI CTNAG 4 cut(s) 492, 858, 933, 1058
DpnI GATC 3 cut(s) 534, 855, 867
DpnII GATC 3 cut(s) 532, 853, 865
DraI TTTAAA 1 cut(s) 718
Eam1104I CTCTTC 5 cut(s) 53, 924, 1182, 1233, 1239
EarI CTCTTC 5 cut(s) 53, 924, 1182, 1233, 1239
EciI GGCGGA 1 cut(s) 128
Eco130I CCWWGG 1 cut(s) 758
Eco147I AGGCCT 1 cut(s) 605
Eco31I GGTCTC 1 cut(s) 182
Eco47III AGCGCT 1 cut(s) 233
Eco57I CTGAAG 1 cut(s) 1257
EcoNI CCTNNNNNAGG 1 cut(s) 215
EcoRI GAATTC 2 cut(s) 344, 1288
EcoT14I CCWWGG 1 cut(s) 758
ErhI CCWWGG 1 cut(s) 758
FaeI CATG 7 cut(s) 356, 378, 443, 795, 902, 1138, 1177
FaqI GGGAC 1 cut(s) 284
FatI CATG 7 cut(s) 352, 374, 439, 791, 898, 1134, 1173
FauI CCCGC 1 cut(s) 114
FauNDI CATATG 1 cut(s) 832
FblI GTMKAC 1 cut(s) 427
Fnu4HI GCNGC 1 cut(s) 204
FokI GGATG 4 cut(s) 633, 713, 808, 1083
Fsp4HI GCNGC 1 cut(s) 204
FspBI CTAG 1 cut(s) 843
GlaI GCGC 1 cut(s) 233
GluI GCNGC 1 cut(s) 204
GsuI CTGGAG 1 cut(s) 491
HaeII RGCGCY 1 cut(s) 235
HaeIII GGCC 4 cut(s) 291, 605, 632, 643
HapII CCGG 3 cut(s) 243, 1010, 1184
HgaI GACGC 1 cut(s) 230
HhaI GCGC 1 cut(s) 234
Hin1II CATG 7 cut(s) 356, 378, 443, 795, 902, 1138, 1177
Hin6I GCGC 1 cut(s) 232
HinP1I GCGC 1 cut(s) 232
HindIII AAGCTT 2 cut(s) 39, 952
HinfI GANTC 7 cut(s) 410, 839, 916, 970, 993, 1232, 1295
HpaII CCGG 3 cut(s) 243, 1010, 1184
HphI GGTGA 6 cut(s) 75, 244, 286, 701, 819, 1271
Hpy166II GTNNAC 4 cut(s) 428, 987, 1090, 1171
Hpy188I TCNGA 8 cut(s) 573, 594, 620, 664, 1237, 1294, 1300, 1309
Hpy188III TCNNGA 4 cut(s) 808, 857, 907, 1135
Hpy8I GTNNAC 4 cut(s) 428, 987, 1090, 1171
HpyAV CCTTC 5 cut(s) 274, 622, 775, 1058, 1295
HpyCH4III ACNGT 6 cut(s) 298, 454, 733, 819, 1051, 1205
HpyCH4IV ACGT 2 cut(s) 174, 1131
HpyCH4V TGCA 3 cut(s) 398, 670, 898
HpyF10VI GCNNNNNNNGC 2 cut(s) 318, 362
HpyF3I CTNAG 4 cut(s) 492, 858, 933, 1058
HpySE526I ACGT 2 cut(s) 174, 1131
Hsp92II CATG 7 cut(s) 356, 378, 443, 795, 902, 1138, 1177
HspAI GCGC 1 cut(s) 232
KpnI GGTACC 1 cut(s) 1072
Kzo9I GATC 3 cut(s) 532, 853, 865
LmnI GCTCC 1 cut(s) 288
LweI GCATC 2 cut(s) 174, 611
MaeI CTAG 1 cut(s) 843
MaeII ACGT 2 cut(s) 174, 1131
MaeIII GTNAC 3 cut(s) 359, 446, 813
MalI GATC 3 cut(s) 534, 855, 867
MboI GATC 3 cut(s) 532, 853, 865
MflI RGATCY 1 cut(s) 532
MluCI AATT 7 cut(s) 344, 367, 383, 665, 751, 965, 1288
MlyI GAGTC 1 cut(s) 910
MmeI TCCRAC 3 cut(s) 387, 598, 868
MseI TTAA 4 cut(s) 386, 600, 717, 1200
MslI CAYNNNNRTG 1 cut(s) 444
MspA1I CMGCKG 1 cut(s) 121
MspI CCGG 3 cut(s) 243, 1010, 1184
MspR9I CCNGG 2 cut(s) 1011, 1184
Mva1269I GAATGC 1 cut(s) 1271
MwoI GCNNNNNNNGC 2 cut(s) 318, 362
NciI CCSGG 2 cut(s) 1011, 1184
NdeI CATATG 1 cut(s) 832
NdeII GATC 3 cut(s) 532, 853, 865
NlaIII CATG 7 cut(s) 356, 378, 443, 795, 902, 1138, 1177
NlaIV GGNNCC 2 cut(s) 570, 1070
NmeAIII GCCGAG 1 cut(s) 267
NmuCI GTSAC 1 cut(s) 446
NspI RCATGY 2 cut(s) 356, 1177
NspV TTCGAA 1 cut(s) 555
PagI TCATGA 1 cut(s) 1134
PceI AGGCCT 1 cut(s) 605
PcsI WCGNNNNNNNCGW 1 cut(s) 294
PctI GAATGC 1 cut(s) 1271
PfeI GAWTC 6 cut(s) 410, 839, 970, 993, 1232, 1295
PflFI GACNNNGTC 2 cut(s) 173, 487
PflMI CCANNNNNTGG 1 cut(s) 639
PkrI GCNGC 1 cut(s) 205
PleI GAGTC 1 cut(s) 910
PpsI GAGTC 1 cut(s) 910
PspN4I GGNNCC 2 cut(s) 570, 1070
PsrI GAACNNNNNNTAC 2 cut(s) 411, 443
PstNI CAGNNNCTG 1 cut(s) 395
PsuI RGATCY 1 cut(s) 532
PsyI GACNNNGTC 2 cut(s) 173, 487
RsaI GTAC 1 cut(s) 1070
RsaNI GTAC 1 cut(s) 1069
RseI CAYNNNNRTG 1 cut(s) 444
SaqAI TTAA 4 cut(s) 386, 600, 717, 1200
SatI GCNGC 1 cut(s) 204
Sau3AI GATC 3 cut(s) 532, 853, 865
SchI GAGTC 1 cut(s) 910
ScrFI CCNGG 2 cut(s) 1011, 1184
SfaNI GCATC 2 cut(s) 174, 611
SfcI CTRYAG 1 cut(s) 466
SfuI TTCGAA 1 cut(s) 555
SmiMI CAYNNNNRTG 1 cut(s) 444
SmlI CTYRAG 4 cut(s) 215, 907, 946, 955
SmoI CTYRAG 4 cut(s) 215, 907, 946, 955
Sse9I AATT 7 cut(s) 344, 367, 383, 665, 751, 965, 1288
SseBI AGGCCT 1 cut(s) 605
SsiI CCGC 8 cut(s) 106, 121, 139, 204, 255, 310, 319, 656
SspMI CTAG 1 cut(s) 843
StuI AGGCCT 1 cut(s) 605
StyD4I CCNGG 2 cut(s) 1009, 1182
StyI CCWWGG 1 cut(s) 758
TaaI ACNGT 6 cut(s) 298, 454, 733, 819, 1051, 1205
TaiI ACGT 2 cut(s) 177, 1134
TaqI TCGA 5 cut(s) 168, 180, 555, 608, 1286
TaqII GACCGA 1 cut(s) 206
TasI AATT 7 cut(s) 344, 367, 383, 665, 751, 965, 1288
TauI GCSGC 1 cut(s) 206
TfiI GAWTC 6 cut(s) 410, 839, 970, 993, 1232, 1295
Tru1I TTAA 4 cut(s) 386, 600, 717, 1200
Tru9I TTAA 4 cut(s) 386, 600, 717, 1200
TscAI CASTG 2 cut(s) 457, 1054
TseFI GTSAC 1 cut(s) 446
Tsp45I GTSAC 1 cut(s) 446
TspDTI ATGAA 6 cut(s) 50, 764, 911, 1278, 1287, 1293
TspRI CASTG 2 cut(s) 457, 1054
Tth111I GACNNNGTC 2 cut(s) 173, 487
Van91I CCANNNNNTGG 1 cut(s) 639
XagI CCTNNNNNAGG 1 cut(s) 215
XapI RAATTY 3 cut(s) 344, 751, 1288
XceI RCATGY 2 cut(s) 356, 1177
XmiI GTMKAC 1 cut(s) 427
XspI CTAG 1 cut(s) 843
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.