pycom08g08110

Protein ROOT INITIATION DEFECTIVE 3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr8
OG0024402
Physical Location & Seq
Forward (+)
6546403 .. 6547466
1064 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 438 bp
ATGGAGCACACTCTTTGTGTAACGGATGTTGGCGCAGGATATGGTGGATGCAAAGCCATTATTGTGTCAGCATTTCAGGATCGCACGTGTAAGGTTTGGAGAGTAGGAAGTGGGAGAGTATTGAGAAATATTGTTTTCCCTACCATAATTGAGTCATTGCACTGGATCCTGGTGAAAATGTCTTCTTTGCTAGTGGTAGAGATGGCAAGATATGCGTTGGTGCACTATGCTGAGAGTCCGCTTAACAGCAACAATGGATTGCATATCATCAATTGTTTCTCGAATCACAGCAAATTTTTTACTTGCTTAGCATATGGCATTTCTGGAAATTATTTGATTTCTAGATTAGAAGATGGCGTGGTTCGAGTTTGGGATGCTAGAACTCATAATATTCTTCGCGTGTTCAAAAATGCAAAAGGTTATCTCAATTCTATTTGA

Protein Analysis

146

Amino Acids

16.26

Weight (kDa)

9.25

Isoelectric Point (pI)

43.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-prop_WDR36-Utp21_2nd PF25168 16 - 136 2.2e-06 WDR36/Utp21 second beta-propeller domain
Beta-prop_THOC3 PF25174 20 - 144 1.5e-06 THOC3 beta-propeller domain
EIF3I PF24805 20 - 141 1.2e-06 EIF3I
Beta-prop_WDR5 PF25175 89 - 137 4.5e-06 WDR5 beta-propeller domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0024402)

Species Orthologous Gene IDs
malus_domestica MD08G1098500.v1.1 MD08G1099800.v1.1
pyrus_communis pycom08g08110

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 399
AciI CCGC 1 cut(s) 239
AclWI GGATC 3 cut(s) 87, 160, 173
AcsI RAATTY 1 cut(s) 293
AcvI CACGTG 1 cut(s) 87
AflIII ACRYGT 1 cut(s) 86
AgsI TTSAA 1 cut(s) 406
AjnI CCWGG 1 cut(s) 168
Alw21I GWGCWC 2 cut(s) 9, 225
Alw44I GTGCAC 1 cut(s) 221
AlwI GGATC 3 cut(s) 87, 160, 173
ApaLI GTGCAC 1 cut(s) 221
ApoI RAATTY 1 cut(s) 293
AspLEI GCGC 1 cut(s) 35
AsuHPI GGTGA 1 cut(s) 184
BaeGI GKGCMC 1 cut(s) 225
BamHI GGATCC 1 cut(s) 165
BbrPI CACGTG 1 cut(s) 87
BbsI GAAGAC 1 cut(s) 174
Bbv12I GWGCWC 2 cut(s) 9, 225
BccI CCATC 2 cut(s) 196, 347
BciT130I CCWGG 1 cut(s) 170
BfaI CTAG 3 cut(s) 191, 342, 378
BlpI GCTNAGC 1 cut(s) 307
Bme1390I CCNGG 1 cut(s) 170
BmiI GGNNCC 1 cut(s) 167
BmrFI CCNGG 1 cut(s) 170
BmsI GCATC 2 cut(s) 38, 364
BpiI GAAGAC 1 cut(s) 174
Bpu1102I GCTNAGC 1 cut(s) 307
BsaAI YACGTR 1 cut(s) 87
Bse1I ACTGG 1 cut(s) 167
Bse3DI GCAATG 1 cut(s) 155
BseBI CCWGG 1 cut(s) 170
BseGI GGATG 3 cut(s) 31, 53, 379
BseMI GCAATG 1 cut(s) 155
BseMII CTCAG 1 cut(s) 222
BseNI ACTGG 1 cut(s) 167
BseSI GKGCMC 1 cut(s) 225
Bsh1236I CGCG 1 cut(s) 399
BsiHKAI GWGCWC 2 cut(s) 9, 225
Bsp1286I GDGCHC 2 cut(s) 9, 225
Bsp143I GATC 2 cut(s) 79, 165
Bsp1720I GCTNAGC 1 cut(s) 307
BspACI CCGC 1 cut(s) 239
BspCNI CTCAG 1 cut(s) 223
BspFNI CGCG 1 cut(s) 399
BspLI GGNNCC 1 cut(s) 167
BspPI GGATC 3 cut(s) 87, 160, 173
BsrDI GCAATG 1 cut(s) 155
BsrI ACTGG 1 cut(s) 167
BssMI GATC 2 cut(s) 79, 165
Bst2UI CCWGG 1 cut(s) 170
BstAPI GCANNNNNTGC 1 cut(s) 212
BstBAI YACGTR 1 cut(s) 87
BstDEI CTNAG 2 cut(s) 231, 307
BstF5I GGATG 3 cut(s) 31, 53, 379
BstFNI CGCG 1 cut(s) 399
BstHHI GCGC 1 cut(s) 35
BstKTI GATC 2 cut(s) 82, 168
BstMBI GATC 2 cut(s) 79, 165
BstMWI GCNNNNNNNGC 1 cut(s) 212
BstNI CCWGG 1 cut(s) 170
BstSCI CCNGG 1 cut(s) 168
BstSLI GKGCMC 1 cut(s) 225
BstUI CGCG 1 cut(s) 399
BstV2I GAAGAC 1 cut(s) 174
BstX2I RGATCY 1 cut(s) 165
BstYI RGATCY 1 cut(s) 165
BtsCI GGATG 3 cut(s) 31, 53, 379
BtsIMutI CAGTG 1 cut(s) 160
CfoI GCGC 1 cut(s) 35
CviJI RGCY 1 cut(s) 56
CviKI_1 RGCY 1 cut(s) 56
DdeI CTNAG 2 cut(s) 231, 307
DpnI GATC 2 cut(s) 81, 167
DpnII GATC 2 cut(s) 79, 165
Eco72I CACGTG 1 cut(s) 87
EcoRII CCWGG 1 cut(s) 168
FaiI YATR 8 cut(s) 42, 146, 213, 228, 264, 313, 315, 387
FauNDI CATATG 1 cut(s) 313
FokI GGATG 3 cut(s) 38, 60, 386
FspBI CTAG 3 cut(s) 191, 342, 378
GlaI GCGC 1 cut(s) 34
HhaI GCGC 1 cut(s) 35
Hin6I GCGC 1 cut(s) 33
HinP1I GCGC 1 cut(s) 33
HinfI GANTC 3 cut(s) 152, 235, 283
HphI GGTGA 1 cut(s) 184
Hpy166II GTNNAC 1 cut(s) 223
Hpy188III TCNNGA 4 cut(s) 77, 280, 324, 342
Hpy8I GTNNAC 1 cut(s) 223
HpyCH4IV ACGT 1 cut(s) 86
HpyCH4V TGCA 5 cut(s) 51, 160, 223, 262, 413
HpyF10VI GCNNNNNNNGC 1 cut(s) 212
HpyF3I CTNAG 2 cut(s) 231, 307
HpySE526I ACGT 1 cut(s) 86
HspAI GCGC 1 cut(s) 33
Kzo9I GATC 2 cut(s) 79, 165
LmnI GCTCC 1 cut(s) 4
LpnPI CCDG 6 cut(s) 21, 62, 148, 155, 182, 309
LweI GCATC 2 cut(s) 38, 364
MaeI CTAG 3 cut(s) 191, 342, 378
MaeII ACGT 1 cut(s) 86
MaeIII GTNAC 1 cut(s) 19
MalI GATC 2 cut(s) 81, 167
MboI GATC 2 cut(s) 79, 165
MboII GAAGA 3 cut(s) 174, 362, 386
MfeI CAATTG 1 cut(s) 271
MflI RGATCY 1 cut(s) 165
MhlI GDGCHC 2 cut(s) 9, 225
MluCI AATT 5 cut(s) 147, 271, 293, 328, 427
MlyI GAGTC 2 cut(s) 161, 244
MseI TTAA 1 cut(s) 243
MslI CAYNNNNRTG 1 cut(s) 62
MspR9I CCNGG 1 cut(s) 170
MunI CAATTG 1 cut(s) 271
MvaI CCWGG 1 cut(s) 170
MvnI CGCG 1 cut(s) 399
MwoI GCNNNNNNNGC 1 cut(s) 212
NdeI CATATG 1 cut(s) 313
NdeII GATC 2 cut(s) 79, 165
NlaIV GGNNCC 1 cut(s) 167
PfeI GAWTC 1 cut(s) 283
PleI GAGTC 2 cut(s) 160, 243
PmaCI CACGTG 1 cut(s) 87
PmlI CACGTG 1 cut(s) 87
PpsI GAGTC 2 cut(s) 160, 243
Ppu21I YACGTR 1 cut(s) 87
Psp6I CCWGG 1 cut(s) 168
PspCI CACGTG 1 cut(s) 87
PspGI CCWGG 1 cut(s) 168
PspN4I GGNNCC 1 cut(s) 167
PsuI RGATCY 1 cut(s) 165
RseI CAYNNNNRTG 1 cut(s) 62
SaqAI TTAA 1 cut(s) 243
Sau3AI GATC 2 cut(s) 79, 165
SchI GAGTC 2 cut(s) 161, 244
ScrFI CCNGG 1 cut(s) 170
SduI GDGCHC 2 cut(s) 9, 225
SetI ASST 3 cut(s) 89, 96, 421
SfaNI GCATC 2 cut(s) 38, 364
SmiMI CAYNNNNRTG 1 cut(s) 62
Sse9I AATT 5 cut(s) 147, 271, 293, 328, 427
SsiI CCGC 1 cut(s) 239
SspI AATATT 2 cut(s) 130, 391
SspMI CTAG 3 cut(s) 191, 342, 378
StyD4I CCNGG 1 cut(s) 168
TaiI ACGT 1 cut(s) 89
TaqI TCGA 2 cut(s) 281, 364
TasI AATT 5 cut(s) 147, 271, 293, 328, 427
TfiI GAWTC 1 cut(s) 283
Tru1I TTAA 1 cut(s) 243
Tru9I TTAA 1 cut(s) 243
TscAI CASTG 1 cut(s) 167
TspGWI ACGGA 1 cut(s) 38
TspRI CASTG 1 cut(s) 167
VneI GTGCAC 1 cut(s) 221
XapI RAATTY 1 cut(s) 293
XbaI TCTAGA 1 cut(s) 341
XspI CTAG 3 cut(s) 191, 342, 378
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.