pycom03g21410

Protein ROOT PRIMORDIUM DEFECTIVE 1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr3
OG0014611
Physical Location & Seq
Reverse (-)
21702201 .. 21702861
661 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 612 bp
ATGAAAATCCAAGCCCAAGGTAATTCATATGGACCAGCTTCCAAGCCCAAATCTATAAAACAGTCAGTTCAAGCCCAATTCAACTTTGTTGCTTTGCAAGCCCAATTTGAAATTTGCTTCTCTCTCCTCTTACTCTTACTGTGTCCAGTGACTGAGTCAGCTCGGTCTCCGATTCCGGCTATGCTCTCCAAAACCCGACCAATCTCCCTCTATATGCGCACCCGCAAGCCCGCTCTCACACCCAGCACGCACCTAGCAATCCACCTCCAATCCCAATCAATCTCGAGCCTCAAAGTCGTCTGGCGCAAGGACCAGAAGCTCGACCGGGCAATCGAAAACGACAAGCCGTACAAGCTCTGCGCCCGCGTCGTCAAGGAGGTGCACAACGAACCGGGTCGGGTGATCCCGCTCCGGTACCTCGAAAAACGGCGCGAAAGGCTGCGGCTCAACATCAAAGTCAAGACCTTTCTTAGCAGAAGCCCAGGTTTGTTCGATGTTTACTATGATAGAATTAAACCCAAATCGGAACCGGTTCAGTTTCTTCGATTTAGCGATAGATTAAGGATGTTTCTGCAGGAGGAAGAGAGGATTTTTAAGGAAATGAGCCGTTGA
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

204

Amino Acids

23.7

Weight (kDa)

10.28

Isoelectric Point (pI)

61.65

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 103 - 202 2.3e-17 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: OG0014611)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G63090
fragaria_vesca FvH4_2g23842
malus_domestica MD03G1268200.v1.1 MD11G1289000.v1.1
prunus_persica Prupe.8G243800_v2.0.a1
pyrus_communis pycom03g21410 pycom11g25640
rosa_chinensis RchiOBHm_Chr6g0291451
rosa_laevigata RLG00000012113
rosa_multiflora Rmu_sc0003296.1_g000003
rosa_roxburghii Rroxscaffold_7G00176040
rosa_rugosa Rorug06G0219500
rosa_samantha Rh6AG331800 Rh6BG338700 Rh6CG344900 Rh6DG332000
rosa_wichuraiana Rw6G028800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 218
Acc65I GGTACC 1 cut(s) 414
AccB1I GGYRCC 1 cut(s) 414
AccBSI CCGCTC 2 cut(s) 233, 409
AccII CGCG 2 cut(s) 366, 432
AciI CCGC 5 cut(s) 223, 231, 364, 407, 442
AclWI GGATC 1 cut(s) 397
AcsI RAATTY 1 cut(s) 111
AfaI GTAC 2 cut(s) 350, 416
AgeI ACCGGT 1 cut(s) 529
AgsI TTSAA 3 cut(s) 71, 82, 110
AjnI CCWGG 1 cut(s) 481
AluBI AGCT 4 cut(s) 38, 161, 319, 355
AluI AGCT 4 cut(s) 38, 161, 319, 355
Alw21I GWGCWC 1 cut(s) 384
Alw26I GTCTC 1 cut(s) 171
Alw44I GTGCAC 1 cut(s) 380
AlwI GGATC 1 cut(s) 397
AlwNI CAGNNNCTG 1 cut(s) 152
Ama87I CYCGRG 1 cut(s) 283
ApaLI GTGCAC 1 cut(s) 380
ApeKI GCWGC 1 cut(s) 439
ApoI RAATTY 1 cut(s) 111
AsiGI ACCGGT 1 cut(s) 529
Asp700I GAANNNNTTC 1 cut(s) 531
Asp718I GGTACC 1 cut(s) 414
AspLEI GCGC 4 cut(s) 219, 306, 362, 432
AspS9I GGNCC 2 cut(s) 32, 310
AsuC2I CCSGG 2 cut(s) 326, 393
AsuHPI GGTGA 1 cut(s) 412
AvaI CYCGRG 1 cut(s) 283
AvaII GGWCC 2 cut(s) 32, 310
BaeGI GKGCMC 1 cut(s) 384
BanI GGYRCC 1 cut(s) 414
Bbv12I GWGCWC 1 cut(s) 384
BbvI GCAGC 1 cut(s) 426
BceAI ACGGC 3 cut(s) 331, 443, 591
BciT130I CCWGG 1 cut(s) 483
BcnI CCSGG 2 cut(s) 326, 393
BcoDI GTCTC 1 cut(s) 171
BfaI CTAG 1 cut(s) 254
BfmI CTRYAG 1 cut(s) 572
BisI GCNGC 2 cut(s) 440, 443
BlsI GCNGC 2 cut(s) 441, 444
Bme1390I CCNGG 3 cut(s) 326, 393, 483
Bme18I GGWCC 2 cut(s) 32, 310
BmeT110I CYCGRG 1 cut(s) 283
BmgT120I GGNCC 2 cut(s) 32, 310
BmiI GGNNCC 2 cut(s) 416, 528
BmrFI CCNGG 3 cut(s) 326, 393, 483
BpuMI CCSGG 2 cut(s) 326, 393
BsaI GGTCTC 1 cut(s) 171
BsaJI CCNNGG 2 cut(s) 16, 481
BsaWI WCCGGW 2 cut(s) 411, 529
Bse118I RCCGGY 1 cut(s) 529
Bse1I ACTGG 1 cut(s) 146
BseBI CCWGG 1 cut(s) 483
BseDI CCNNGG 2 cut(s) 16, 481
BseGI GGATG 1 cut(s) 570
BseMII CTCAG 1 cut(s) 144
BseNI ACTGG 1 cut(s) 146
BseRI GAGGAG 1 cut(s) 116
BseSI GKGCMC 1 cut(s) 384
BseXI GCAGC 1 cut(s) 426
BseYI CCCAGC 1 cut(s) 242
Bsh1236I CGCG 2 cut(s) 366, 432
Bsh1285I CGRYCG 1 cut(s) 325
BshNI GGYRCC 1 cut(s) 414
BshTI ACCGGT 1 cut(s) 529
BsiEI CGRYCG 1 cut(s) 325
BsiHKAI GWGCWC 1 cut(s) 384
BsiHKCI CYCGRG 1 cut(s) 283
BsiSI CCGG 5 cut(s) 176, 325, 392, 412, 530
BsmAI GTCTC 1 cut(s) 171
Bso31I GGTCTC 1 cut(s) 171
BsoBI CYCGRG 1 cut(s) 283
Bsp1286I GDGCHC 1 cut(s) 384
Bsp143I GATC 1 cut(s) 402
BspACI CCGC 5 cut(s) 223, 231, 364, 407, 442
BspCNI CTCAG 1 cut(s) 145
BspFNI CGCG 2 cut(s) 366, 432
BspLI GGNNCC 2 cut(s) 416, 528
BspMAI CTGCAG 1 cut(s) 576
BspPI GGATC 1 cut(s) 397
BspT107I GGYRCC 1 cut(s) 414
BspTNI GGTCTC 1 cut(s) 171
BsrBI CCGCTC 2 cut(s) 233, 409
BsrFI RCCGGY 1 cut(s) 529
BsrI ACTGG 1 cut(s) 146
BssAI RCCGGY 1 cut(s) 529
BssECI CCNNGG 2 cut(s) 16, 481
BssMI GATC 1 cut(s) 402
BssT1I CCWWGG 1 cut(s) 16
Bst2UI CCWGG 1 cut(s) 483
Bst4CI ACNGT 2 cut(s) 63, 141
Bst6I CTCTTC 1 cut(s) 576
BstC8I GCNNGC 5 cut(s) 99, 227, 231, 248, 364
BstDEI CTNAG 2 cut(s) 153, 470
BstF5I GGATG 1 cut(s) 570
BstFNI CGCG 2 cut(s) 366, 432
BstHHI GCGC 4 cut(s) 219, 306, 362, 432
BstKTI GATC 1 cut(s) 405
BstMAI GTCTC 1 cut(s) 171
BstMBI GATC 1 cut(s) 402
BstMCI CGRYCG 1 cut(s) 325
BstMWI GCNNNNNNNGC 3 cut(s) 98, 352, 436
BstNI CCWGG 1 cut(s) 483
BstSCI CCNGG 3 cut(s) 324, 391, 481
BstSFI CTRYAG 1 cut(s) 572
BstSLI GKGCMC 1 cut(s) 384
BstUI CGCG 2 cut(s) 366, 432
BstV1I GCAGC 1 cut(s) 426
BtsCI GGATG 1 cut(s) 570
BtsIMutI CAGTG 1 cut(s) 153
Cac8I GCNNGC 5 cut(s) 99, 227, 231, 248, 364
CaiI CAGNNNCTG 1 cut(s) 152
CfoI GCGC 4 cut(s) 219, 306, 362, 432
Cfr10I RCCGGY 1 cut(s) 529
Cfr13I GGNCC 2 cut(s) 32, 310
CseI GACGC 1 cut(s) 355
Csp6I GTAC 2 cut(s) 349, 415
CspAI ACCGGT 1 cut(s) 529
CviQI GTAC 2 cut(s) 349, 415
DdeI CTNAG 2 cut(s) 153, 470
DpnI GATC 1 cut(s) 404
DpnII GATC 1 cut(s) 402
Eam1104I CTCTTC 1 cut(s) 576
EarI CTCTTC 1 cut(s) 576
Eco130I CCWWGG 1 cut(s) 16
Eco31I GGTCTC 1 cut(s) 171
Eco47I GGWCC 2 cut(s) 32, 310
Eco88I CYCGRG 1 cut(s) 283
EcoRII CCWGG 1 cut(s) 481
EcoT14I CCWWGG 1 cut(s) 16
ErhI CCWWGG 1 cut(s) 16
FaiI YATR 7 cut(s) 28, 30, 56, 182, 213, 215, 504
FauI CCCGC 4 cut(s) 230, 238, 371, 414
FauNDI CATATG 1 cut(s) 28
Fnu4HI GCNGC 2 cut(s) 440, 443
FokI GGATG 1 cut(s) 577
Fsp4HI GCNGC 2 cut(s) 440, 443
FspAI RTGCGCAY 1 cut(s) 218
FspBI CTAG 1 cut(s) 254
FspI TGCGCA 1 cut(s) 218
GlaI GCGC 4 cut(s) 218, 305, 361, 431
GluI GCNGC 2 cut(s) 440, 443
GsaI CCCAGC 1 cut(s) 246
HapII CCGG 5 cut(s) 176, 325, 392, 412, 530
HgaI GACGC 1 cut(s) 355
HhaI GCGC 4 cut(s) 219, 306, 362, 432
Hin6I GCGC 4 cut(s) 217, 304, 360, 430
HinP1I GCGC 4 cut(s) 217, 304, 360, 430
HinfI GANTC 2 cut(s) 155, 172
HpaII CCGG 5 cut(s) 176, 325, 392, 412, 530
HphI GGTGA 1 cut(s) 412
Hpy166II GTNNAC 2 cut(s) 382, 499
Hpy188I TCNGA 2 cut(s) 171, 526
Hpy188III TCNNGA 2 cut(s) 283, 460
Hpy8I GTNNAC 2 cut(s) 382, 499
Hpy99I CGWCG 1 cut(s) 371
HpyCH4III ACNGT 2 cut(s) 63, 141
HpyCH4V TGCA 3 cut(s) 97, 382, 574
HpyF10VI GCNNNNNNNGC 3 cut(s) 98, 352, 436
HpyF3I CTNAG 2 cut(s) 153, 470
HspAI GCGC 4 cut(s) 217, 304, 360, 430
KpnI GGTACC 1 cut(s) 418
Kzo9I GATC 1 cut(s) 402
LmnI GCTCC 1 cut(s) 414
Lsp1109I GCAGC 1 cut(s) 426
MaeI CTAG 1 cut(s) 254
MaeIII GTNAC 1 cut(s) 148
MalI GATC 1 cut(s) 404
MbiI CCGCTC 2 cut(s) 233, 409
MboI GATC 1 cut(s) 402
MboII GAAGA 2 cut(s) 533, 593
MhlI GDGCHC 1 cut(s) 384
MluCI AATT 5 cut(s) 22, 77, 104, 111, 510
MlyI GAGTC 1 cut(s) 164
MnlI CCTC 8 cut(s) 137, 218, 275, 299, 370, 428, 571, 579
MroXI GAANNNNTTC 1 cut(s) 531
MseI TTAA 3 cut(s) 513, 560, 594
MspI CCGG 5 cut(s) 176, 325, 392, 412, 530
MspR9I CCNGG 3 cut(s) 326, 393, 483
MvaI CCWGG 1 cut(s) 483
MvnI CGCG 2 cut(s) 366, 432
MwoI GCNNNNNNNGC 3 cut(s) 98, 352, 436
NciI CCSGG 2 cut(s) 326, 393
NdeI CATATG 1 cut(s) 28
NdeII GATC 1 cut(s) 402
NlaIV GGNNCC 2 cut(s) 416, 528
NmuCI GTSAC 1 cut(s) 148
NsbI TGCGCA 1 cut(s) 218
PaeR7I CTCGAG 1 cut(s) 283
PdmI GAANNNNTTC 1 cut(s) 531
PfeI GAWTC 1 cut(s) 172
PflFI GACNNNGTC 1 cut(s) 154
PinAI ACCGGT 1 cut(s) 529
PkrI GCNGC 2 cut(s) 441, 444
PleI GAGTC 1 cut(s) 163
PpsI GAGTC 1 cut(s) 163
Psp6I CCWGG 1 cut(s) 481
PspFI CCCAGC 1 cut(s) 242
PspGI CCWGG 1 cut(s) 481
PspN4I GGNNCC 2 cut(s) 416, 528
PspPI GGNCC 2 cut(s) 32, 310
PstI CTGCAG 1 cut(s) 576
PstNI CAGNNNCTG 1 cut(s) 152
PsyI GACNNNGTC 1 cut(s) 154
RsaI GTAC 2 cut(s) 350, 416
RsaNI GTAC 2 cut(s) 349, 415
SaqAI TTAA 3 cut(s) 513, 560, 594
SatI GCNGC 2 cut(s) 440, 443
Sau3AI GATC 1 cut(s) 402
Sau96I GGNCC 2 cut(s) 32, 310
SchI GAGTC 1 cut(s) 164
ScrFI CCNGG 3 cut(s) 326, 393, 483
SduI GDGCHC 1 cut(s) 384
SfcI CTRYAG 1 cut(s) 572
Sfr274I CTCGAG 1 cut(s) 283
SinI GGWCC 2 cut(s) 32, 310
SlaI CTCGAG 1 cut(s) 283
SmlI CTYRAG 1 cut(s) 283
SmoI CTYRAG 1 cut(s) 283
Sse9I AATT 5 cut(s) 22, 77, 104, 111, 510
SsiI CCGC 5 cut(s) 223, 231, 364, 407, 442
SspMI CTAG 1 cut(s) 254
StyD4I CCNGG 3 cut(s) 324, 391, 481
StyI CCWWGG 1 cut(s) 16
TaaI ACNGT 2 cut(s) 63, 141
TaqI TCGA 6 cut(s) 284, 321, 333, 420, 492, 544
TaqII GACCGA 1 cut(s) 153
TasI AATT 5 cut(s) 22, 77, 104, 111, 510
TauI GCSGC 1 cut(s) 445
TfiI GAWTC 1 cut(s) 172
Tru1I TTAA 3 cut(s) 513, 560, 594
Tru9I TTAA 3 cut(s) 513, 560, 594
TscAI CASTG 1 cut(s) 153
TseFI GTSAC 1 cut(s) 148
TseI GCWGC 1 cut(s) 439
Tsp45I GTSAC 1 cut(s) 148
TspDTI ATGAA 2 cut(s) 15, 17
TspRI CASTG 1 cut(s) 153
Tth111I GACNNNGTC 1 cut(s) 154
VneI GTGCAC 1 cut(s) 380
VpaK11BI GGWCC 2 cut(s) 32, 310
XapI RAATTY 1 cut(s) 111
XhoI CTCGAG 1 cut(s) 283
XmnI GAANNNNTTC 1 cut(s) 531
XspI CTAG 1 cut(s) 254
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.