MD08G1094700.v1.1

Protein ROOT INITIATION DEFECTIVE 3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr08
OG0007848
Physical Location & Seq
Forward (+)
7955422 .. 7956530
1109 bp
Loading structure...
UTR
Exon/CDS
Intron
MD08G1094700.v1.1.491

Sequence Viewer

Length: 492 bp
ATGATTCATATACCGCAAGTTGATGTCAGGAGCTTCCCAGAAGAACCAATCAATCCGCTCACTGCAAACCGTGAAGGCTCGTACATTGTTGGCGGAGGCTCATCGGGGAATATCTACTTGTGGGAGGTTAATGCTGGTAGACTGCTTAAGAAATGGCATGCTCACTACAGAGGTGTTAGTTGCTTGGTATTCTCGGATGATGGCTCCCTGCTGATTTCGGGGTCGGAGGATGGAGGCATTAGAATTTGGTCTCTTATAGGGAAAGCCATCTGTACATGCATAACTTTACGGAGCACACTCGGTTTAACGGCTGTTGTCGTAGGATATGGTGGATGCAAAGCCATTATCGTGTTAGCATCTCAGGATCGCACGTGTAAGGTTTGGAGCGTAGGAAGTGGGAGATTGTTGAGAAATATTGTTTTCCCTACTATAATTGATGCGGTTGCACTGGATCCTGGTGAAAATGTCTTCTTTGCCGGTGGTAGACCGTAG

Protein Analysis

164

Amino Acids

17.44

Weight (kDa)

8.32

Isoelectric Point (pI)

45.23

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-prop_THOC3 PF25174 15 - 156 3.4e-14 THOC3 beta-propeller domain
Beta-prop_EML_2 PF23414 15 - 85 1.9e-06 Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_WDR3_1st PF25173 16 - 160 2.7e-16 WDR3 first beta-propeller domain
WD40_CDC20-Fz PF24807 16 - 130 2.4e-07 CDC20/Fizzy WD40 domain
WD40_Prp19 PF24814 17 - 139 2.1e-12 Prp19 WD40 domain
WDR55 PF24796 17 - 130 8.7e-08 WDR55
Beta-prop_WDR5 PF25175 23 - 86 2.3e-13 WDR5 beta-propeller domain
Beta-prop_EML PF23409 24 - 107 1.8e-08 Echinoderm microtubule-associated protein first beta-propeller
Beta-prop_TEP1_2nd PF25047 28 - 128 6.7e-06 TEP-1 second beta-propeller
WD40 PF00400 47 - 84 3.6e-10 WD domain, G-beta repeat
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

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 58
AccI GTMKAC 2 cut(s) 139, 484
AciI CCGC 4 cut(s) 14, 56, 93, 440
AclWI GGATC 3 cut(s) 372, 446, 459
AcsI RAATTY 1 cut(s) 243
AcvI CACGTG 1 cut(s) 372
AfaI GTAC 2 cut(s) 83, 274
AflII CTTAAG 1 cut(s) 146
AflIII ACRYGT 1 cut(s) 371
AjnI CCWGG 1 cut(s) 454
AluBI AGCT 1 cut(s) 33
AluI AGCT 1 cut(s) 33
Alw21I GWGCWC 1 cut(s) 296
Alw26I GTCTC 1 cut(s) 255
AlwI GGATC 3 cut(s) 372, 446, 459
ApoI RAATTY 1 cut(s) 243
AsuHPI GGTGA 1 cut(s) 470
BamHI GGATCC 1 cut(s) 451
BbrPI CACGTG 1 cut(s) 372
BbsI GAAGAC 1 cut(s) 460
Bbv12I GWGCWC 1 cut(s) 296
BccI CCATC 3 cut(s) 194, 224, 275
BceAI ACGGC 1 cut(s) 324
BciT130I CCWGG 1 cut(s) 456
BcoDI GTCTC 1 cut(s) 255
BfmI CTRYAG 1 cut(s) 166
BfrI CTTAAG 1 cut(s) 146
Bme1390I CCNGG 1 cut(s) 456
BmiI GGNNCC 2 cut(s) 205, 453
BmrFI CCNGG 1 cut(s) 456
BmsI GCATC 3 cut(s) 323, 365, 427
BpiI GAAGAC 1 cut(s) 460
BsaAI YACGTR 1 cut(s) 372
BsaI GGTCTC 1 cut(s) 255
Bse118I RCCGGY 1 cut(s) 476
Bse1I ACTGG 1 cut(s) 453
BseBI CCWGG 1 cut(s) 456
BseGI GGATG 3 cut(s) 202, 235, 338
BseMII CTCAG 1 cut(s) 374
BseNI ACTGG 1 cut(s) 453
BsiHKAI GWGCWC 1 cut(s) 296
BsiSI CCGG 1 cut(s) 477
BsmAI GTCTC 1 cut(s) 255
Bso31I GGTCTC 1 cut(s) 255
Bsp1286I GDGCHC 1 cut(s) 296
Bsp1407I TGTACA 1 cut(s) 272
Bsp143I GATC 2 cut(s) 364, 451
BspACI CCGC 4 cut(s) 14, 56, 93, 440
BspCNI CTCAG 1 cut(s) 373
BspLI GGNNCC 2 cut(s) 205, 453
BspPI GGATC 3 cut(s) 372, 446, 459
BspTI CTTAAG 1 cut(s) 146
BspTNI GGTCTC 1 cut(s) 255
BsrBI CCGCTC 1 cut(s) 58
BsrFI RCCGGY 1 cut(s) 476
BsrGI TGTACA 1 cut(s) 272
BsrI ACTGG 1 cut(s) 453
BssAI RCCGGY 1 cut(s) 476
BssMI GATC 2 cut(s) 364, 451
Bst2UI CCWGG 1 cut(s) 456
Bst4CI ACNGT 2 cut(s) 71, 489
BstAFI CTTAAG 1 cut(s) 146
BstAUI TGTACA 1 cut(s) 272
BstBAI YACGTR 1 cut(s) 372
BstC8I GCNNGC 1 cut(s) 159
BstDEI CTNAG 1 cut(s) 360
BstF5I GGATG 3 cut(s) 202, 235, 338
BstKTI GATC 2 cut(s) 367, 454
BstMAI GTCTC 1 cut(s) 255
BstMBI GATC 2 cut(s) 364, 451
BstNI CCWGG 1 cut(s) 456
BstNSI RCATGY 2 cut(s) 161, 279
BstSCI CCNGG 1 cut(s) 454
BstSFI CTRYAG 1 cut(s) 166
BstV2I GAAGAC 1 cut(s) 460
BstX2I RGATCY 1 cut(s) 451
BstYI RGATCY 1 cut(s) 451
BtsCI GGATG 3 cut(s) 202, 235, 338
BtsI GCAGTG 1 cut(s) 60
BtsIMutI CAGTG 2 cut(s) 60, 446
Cac8I GCNNGC 1 cut(s) 159
Cfr10I RCCGGY 1 cut(s) 476
Csp6I GTAC 2 cut(s) 82, 273
CviAII CATG 2 cut(s) 158, 276
CviJI RGCY 7 cut(s) 33, 78, 99, 204, 266, 311, 341
CviKI_1 RGCY 7 cut(s) 33, 78, 99, 204, 266, 311, 341
CviQI GTAC 2 cut(s) 82, 273
DdeI CTNAG 1 cut(s) 360
DpnI GATC 2 cut(s) 366, 453
DpnII GATC 2 cut(s) 364, 451
EciI GGCGGA 1 cut(s) 108
Eco31I GGTCTC 1 cut(s) 255
Eco72I CACGTG 1 cut(s) 372
EcoRII CCWGG 1 cut(s) 454
EcoT22I ATGCAT 1 cut(s) 281
FaeI CATG 2 cut(s) 161, 279
FaiI YATR 8 cut(s) 9, 11, 159, 257, 277, 281, 327, 431
FatI CATG 2 cut(s) 157, 275
FblI GTMKAC 2 cut(s) 139, 484
FokI GGATG 3 cut(s) 209, 242, 345
HapII CCGG 1 cut(s) 477
Hin1II CATG 2 cut(s) 161, 279
HinfI GANTC 1 cut(s) 4
HpaII CCGG 1 cut(s) 477
HphI GGTGA 1 cut(s) 470
Hpy166II GTNNAC 2 cut(s) 140, 485
Hpy188I TCNGA 2 cut(s) 196, 226
Hpy188III TCNNGA 2 cut(s) 28, 362
Hpy8I GTNNAC 2 cut(s) 140, 485
HpyAV CCTTC 1 cut(s) 68
HpyCH4III ACNGT 2 cut(s) 71, 489
HpyCH4IV ACGT 1 cut(s) 371
HpyCH4V TGCA 4 cut(s) 65, 279, 336, 446
HpyF3I CTNAG 1 cut(s) 360
HpySE526I ACGT 1 cut(s) 371
Hsp92II CATG 2 cut(s) 161, 279
Kzo9I GATC 2 cut(s) 364, 451
LmnI GCTCC 4 cut(s) 30, 209, 291, 384
LpnPI CCDG 8 cut(s) 13, 51, 120, 221, 347, 434, 441, 468
LweI GCATC 3 cut(s) 323, 365, 427
MaeII ACGT 1 cut(s) 371
MalI GATC 2 cut(s) 366, 453
MbiI CCGCTC 1 cut(s) 58
MboI GATC 2 cut(s) 364, 451
MboII GAAGA 2 cut(s) 53, 460
MflI RGATCY 1 cut(s) 451
MhlI GDGCHC 1 cut(s) 296
MluCI AATT 2 cut(s) 243, 432
MmeI TCCRAC 1 cut(s) 204
MnlI CCTC 5 cut(s) 89, 118, 164, 220, 227
Mph1103I ATGCAT 1 cut(s) 281
MseI TTAA 3 cut(s) 129, 147, 305
MslI CAYNNNNRTG 1 cut(s) 347
MspCI CTTAAG 1 cut(s) 146
MspI CCGG 1 cut(s) 477
MspR9I CCNGG 1 cut(s) 456
MvaI CCWGG 1 cut(s) 456
NdeII GATC 2 cut(s) 364, 451
NlaIII CATG 2 cut(s) 161, 279
NlaIV GGNNCC 2 cut(s) 205, 453
NsiI ATGCAT 1 cut(s) 281
NspI RCATGY 2 cut(s) 161, 279
PaeI GCATGC 1 cut(s) 161
PfeI GAWTC 1 cut(s) 4
PmaCI CACGTG 1 cut(s) 372
PmlI CACGTG 1 cut(s) 372
Ppu21I YACGTR 1 cut(s) 372
Psp6I CCWGG 1 cut(s) 454
PspCI CACGTG 1 cut(s) 372
PspGI CCWGG 1 cut(s) 454
PspN4I GGNNCC 2 cut(s) 205, 453
PsuI RGATCY 1 cut(s) 451
RsaI GTAC 2 cut(s) 83, 274
RsaNI GTAC 2 cut(s) 82, 273
RseI CAYNNNNRTG 1 cut(s) 347
SaqAI TTAA 3 cut(s) 129, 147, 305
Sau3AI GATC 2 cut(s) 364, 451
ScrFI CCNGG 1 cut(s) 456
SduI GDGCHC 1 cut(s) 296
SetI ASST 5 cut(s) 35, 129, 175, 374, 381
SfaNI GCATC 3 cut(s) 323, 365, 427
SfcI CTRYAG 1 cut(s) 166
SmiMI CAYNNNNRTG 1 cut(s) 347
SmlI CTYRAG 1 cut(s) 146
SmoI CTYRAG 1 cut(s) 146
SphI GCATGC 1 cut(s) 161
Sse9I AATT 2 cut(s) 243, 432
SsiI CCGC 4 cut(s) 14, 56, 93, 440
SspI AATATT 1 cut(s) 415
StyD4I CCNGG 1 cut(s) 454
TaaI ACNGT 2 cut(s) 71, 489
TaiI ACGT 1 cut(s) 374
TasI AATT 2 cut(s) 243, 432
TatI WGTACW 1 cut(s) 272
TfiI GAWTC 1 cut(s) 4
Tru1I TTAA 3 cut(s) 129, 147, 305
Tru9I TTAA 3 cut(s) 129, 147, 305
TscAI CASTG 2 cut(s) 67, 453
TspGWI ACGGA 1 cut(s) 304
TspRI CASTG 2 cut(s) 67, 453
Vha464I CTTAAG 1 cut(s) 146
XapI RAATTY 1 cut(s) 243
XceI RCATGY 2 cut(s) 161, 279
XmiI GTMKAC 2 cut(s) 139, 484
Zsp2I ATGCAT 1 cut(s) 281
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.