MD14G1159200.v1.1

Protein ROOT INITIATION DEFECTIVE 3-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr14
OG0012617
Physical Location & Seq
Forward (+)
25324856 .. 25327593
2738 bp
Loading structure...
UTR
Exon/CDS
Intron
MD14G1159200.v1.1.491

Sequence Viewer

Length: 786 bp
ATGCTCAAAACTTGGCGTGGACATGATAAATCTTTGAGCTGCATGCTGCTTTCCGATGATGGTTCTCTTCTTGTTTCTGGTTCAGATGATGGGATGATATGTGTGTGGAACTTGATTAGTTTGCTGGATGTAGAAAATGTTGAAAGCTTTCCGTCACCATTACATTATTCAACGGAGCATAAATCCTCTATGACTGGCTTGTTAACTACATCAGGCATCTCAAGTCCAGTGTTAATATCAAGCTCACTTGATGGCTCGTGCAAGGTTTGGGATTTAGTCTTGGGAAACCTCATGCATACTCTAGTTTATCCACCAGGGATAACTGCAGTTGCCCTTCACCCAAAGAAGCAGTTAATTTTCTCCGGAAGTATAGACGGAAGAATTTTTGTGAACAAACTCGAAATCGGACTGGTAGAGGATTATTTGGTTGGTGCTGAAGATCAATCACCTGTGCTAAAAGGACACAACGGATCTGTTACCGCATTAACCTTCAGCAAATCTGGTCTGATATCCGCATCTGAGGACTGCACCATCTGCATTTGGGATATCAGCAGTTGTGAAATCATCCGAAGATTCAACCATCAGAAAGGGCCTGTAACTAATCTGGCAGTGATTCCACAGTCCTCGTTGCTTCCTGTGTCAAACCATCGTAAAAAGTCTAATGCATTTGGTGTTTCTGTGCTCGGTAAGCATCCACAACCAGCCAACTCATCCAACGAGAAGATCACTCTTTTTTCACCATGCCACTCCCGGAAACCAAATCTCCATCAATTTCCAGACCACTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0007275 GO:0007368 GO:0007389 GO:0008150 GO:0009799 GO:0009855 GO:0032501 GO:0032502 GO:0048856 GO:0070121
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
WD40

Protein Analysis

262

Amino Acids

28.28

Weight (kDa)

6.62

Isoelectric Point (pI)

49.74

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NBCH_WD40 PF20426 2 - 211 8.2e-08 Neurobeachin beta propeller domain
WD40 PF00400 2 - 37 4.9e-09 WD domain, G-beta repeat
WD40_Prp19 PF24814 2 - 99 6.8e-06 Prp19 WD40 domain
Beta-prop_WDR5 PF25175 3 - 150 3.5e-14 WDR5 beta-propeller domain
WD40_CDC20-Fz PF24807 3 - 121 4.2e-07 CDC20/Fizzy WD40 domain
Beta-prop_WDR3_1st PF25173 4 - 130 1.1e-14 WDR3 first beta-propeller domain
Beta-prop_TEP1_2nd PF25047 4 - 128 9e-07 TEP-1 second beta-propeller
Beta-prop_THOC3 PF25174 8 - 128 2.9e-09 THOC3 beta-propeller domain
Beta-prop_WDR36-Utp21_2nd PF25168 58 - 212 1.4e-12 WDR36/Utp21 second beta-propeller domain
WD40_Gbeta PF25391 73 - 211 8.6e-06 G protein beta WD-40 repeat protein
Beta-prop_TEP1_2nd PF25047 74 - 185 1.9e-06 TEP-1 second beta-propeller
Beta-prop_WDR5 PF25175 78 - 211 8.3e-15 WDR5 beta-propeller domain
WD40_CDC20-Fz PF24807 78 - 208 1e-07 CDC20/Fizzy WD40 domain
WD40_Prp19 PF24814 104 - 211 5.7e-11 Prp19 WD40 domain
WDR55 PF24796 106 - 207 1.2e-07 WDR55
Beta-prop_THOC3 PF25174 107 - 218 7.5e-10 THOC3 beta-propeller domain
Beta-prop_WDR3_1st PF25173 144 - 211 5.7e-11 WDR3 first beta-propeller domain
WD40 PF00400 151 - 182 4.6e-07 WD domain, G-beta repeat
Beta-prop_TEP1_C PF25048 155 - 208 1.3e-06 TEP-1 C-terminal beta-propeller
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccIII TCCGGA 1 cut(s) 362
AciI CCGC 2 cut(s) 480, 513
AclWI GGATC 1 cut(s) 478
AcsI RAATTY 1 cut(s) 381
AcuI CTGAAG 2 cut(s) 456, 475
AgsI TTSAA 3 cut(s) 143, 171, 577
AjnI CCWGG 1 cut(s) 313
AluBI AGCT 3 cut(s) 39, 147, 243
AluI AGCT 3 cut(s) 39, 147, 243
Alw21I GWGCWC 1 cut(s) 684
AlwI GGATC 1 cut(s) 478
Aor13HI TCCGGA 1 cut(s) 362
AoxI GGCC 1 cut(s) 590
ApeKI GCWGC 2 cut(s) 39, 46
ApoI RAATTY 1 cut(s) 381
Asp700I GAANNNNTTC 1 cut(s) 147
AspS9I GGNCC 1 cut(s) 590
AsuC2I CCSGG 1 cut(s) 751
AsuHPI GGTGA 4 cut(s) 147, 329, 438, 729
BauI CACGAG 1 cut(s) 256
Bbv12I GWGCWC 1 cut(s) 684
BbvI GCAGC 2 cut(s) 26, 33
BccI CCATC 7 cut(s) 53, 83, 245, 539, 588, 654, 774
BciT130I CCWGG 1 cut(s) 315
BcnI CCSGG 1 cut(s) 751
BfaI CTAG 1 cut(s) 302
BfmI CTRYAG 1 cut(s) 324
BisI GCNGC 2 cut(s) 40, 47
BlsI GCNGC 2 cut(s) 41, 48
Bme1390I CCNGG 2 cut(s) 315, 751
BmgT120I GGNCC 1 cut(s) 590
BmrFI CCNGG 2 cut(s) 315, 751
BmsI GCATC 3 cut(s) 225, 524, 700
BpuEI CTTGAG 1 cut(s) 205
BpuMI CCSGG 1 cut(s) 751
BsaJI CCNNGG 1 cut(s) 314
BsaWI WCCGGW 1 cut(s) 362
BsaXI ACNNNNNCTCC 2 cut(s) 747, 777
Bse1I ACTGG 3 cut(s) 199, 227, 414
BseAI TCCGGA 1 cut(s) 362
BseBI CCWGG 1 cut(s) 315
BseDI CCNNGG 1 cut(s) 314
BseGI GGATG 5 cut(s) 99, 133, 564, 691, 710
BseMII CTCAG 1 cut(s) 510
BseNI ACTGG 3 cut(s) 199, 227, 414
BseXI GCAGC 2 cut(s) 26, 33
BsgI GTGCAG 1 cut(s) 511
BshFI GGCC 1 cut(s) 592
BsiHKAI GWGCWC 1 cut(s) 684
BsiSI CCGG 2 cut(s) 363, 751
BsnI GGCC 1 cut(s) 592
Bsp1286I GDGCHC 1 cut(s) 684
Bsp13I TCCGGA 1 cut(s) 362
Bsp143I GATC 3 cut(s) 439, 470, 723
BspACI CCGC 2 cut(s) 480, 513
BspANI GGCC 1 cut(s) 592
BspCNI CTCAG 1 cut(s) 511
BspEI TCCGGA 1 cut(s) 362
BspMAI CTGCAG 1 cut(s) 328
BspPI GGATC 1 cut(s) 478
BsrI ACTGG 3 cut(s) 199, 227, 414
BssECI CCNNGG 1 cut(s) 314
BssMI GATC 3 cut(s) 439, 470, 723
BssSI CACGAG 1 cut(s) 256
Bst2BI CACGAG 1 cut(s) 256
Bst2UI CCWGG 1 cut(s) 315
Bst4CI ACNGT 1 cut(s) 621
Bst6I CTCTTC 1 cut(s) 72
BstAPI GCANNNNNTGC 1 cut(s) 534
BstC8I GCNNGC 1 cut(s) 44
BstDEI CTNAG 1 cut(s) 519
BstF5I GGATG 5 cut(s) 99, 133, 564, 691, 710
BstKTI GATC 3 cut(s) 442, 473, 726
BstMBI GATC 3 cut(s) 439, 470, 723
BstMWI GCNNNNNNNGC 2 cut(s) 534, 688
BstNI CCWGG 1 cut(s) 315
BstNSI RCATGY 1 cut(s) 46
BstSCI CCNGG 2 cut(s) 313, 749
BstSFI CTRYAG 1 cut(s) 324
BstV1I GCAGC 2 cut(s) 26, 33
BstX2I RGATCY 1 cut(s) 470
BstYI RGATCY 1 cut(s) 470
BsuRI GGCC 1 cut(s) 592
BtsCI GGATG 5 cut(s) 99, 133, 564, 691, 710
BtsI GCAGTG 1 cut(s) 615
BtsIMutI CAGTG 3 cut(s) 234, 615, 781
Cac8I GCNNGC 1 cut(s) 44
Cfr13I GGNCC 1 cut(s) 590
CviAII CATG 4 cut(s) 23, 43, 292, 741
CviJI RGCY 7 cut(s) 39, 147, 198, 243, 255, 592, 704
CviKI_1 RGCY 7 cut(s) 39, 147, 198, 243, 255, 592, 704
DdeI CTNAG 1 cut(s) 519
DpnI GATC 3 cut(s) 441, 472, 725
DpnII GATC 3 cut(s) 439, 470, 723
Eam1104I CTCTTC 1 cut(s) 72
EarI CTCTTC 1 cut(s) 72
Eco32I GATATC 2 cut(s) 510, 547
Eco57I CTGAAG 2 cut(s) 456, 475
EcoO109I RGGNCCY 1 cut(s) 590
EcoRII CCWGG 1 cut(s) 313
EcoRV GATATC 2 cut(s) 510, 547
EcoT22I ATGCAT 2 cut(s) 297, 667
FaeI CATG 4 cut(s) 26, 46, 295, 744
FaiI YATR 9 cut(s) 24, 44, 100, 180, 191, 293, 297, 371, 742
FatI CATG 4 cut(s) 22, 42, 291, 740
Fnu4HI GCNGC 2 cut(s) 40, 47
FokI GGATG 5 cut(s) 106, 140, 551, 678, 697
Fsp4HI GCNGC 2 cut(s) 40, 47
FspBI CTAG 1 cut(s) 302
GluI GCNGC 2 cut(s) 40, 47
HaeIII GGCC 1 cut(s) 592
HapII CCGG 2 cut(s) 363, 751
Hin1II CATG 4 cut(s) 26, 46, 295, 744
HincII GTYRAC 1 cut(s) 204
HindII GTYRAC 1 cut(s) 204
HindIII AAGCTT 1 cut(s) 145
HinfI GANTC 2 cut(s) 573, 613
HpaI GTTAAC 1 cut(s) 204
HpaII CCGG 2 cut(s) 363, 751
HphI GGTGA 4 cut(s) 147, 329, 438, 729
Hpy166II GTNNAC 3 cut(s) 20, 204, 391
Hpy188I TCNGA 7 cut(s) 55, 85, 407, 507, 520, 569, 585
Hpy188III TCNNGA 2 cut(s) 363, 776
Hpy8I GTNNAC 3 cut(s) 20, 204, 391
HpyAV CCTTC 2 cut(s) 344, 499
HpyCH4III ACNGT 1 cut(s) 621
HpyCH4V TGCA 7 cut(s) 42, 261, 295, 326, 528, 537, 665
HpyF10VI GCNNNNNNNGC 2 cut(s) 534, 688
HpyF3I CTNAG 1 cut(s) 519
Hsp92II CATG 4 cut(s) 26, 46, 295, 744
Kpn2I TCCGGA 1 cut(s) 362
KspAI GTTAAC 1 cut(s) 204
Kzo9I GATC 3 cut(s) 439, 470, 723
LmnI GCTCC 1 cut(s) 175
Lsp1109I GCAGC 2 cut(s) 26, 33
LweI GCATC 3 cut(s) 225, 524, 700
MaeI CTAG 1 cut(s) 302
MaeIII GTNAC 3 cut(s) 153, 475, 595
MalI GATC 3 cut(s) 441, 472, 725
MboI GATC 3 cut(s) 439, 470, 723
MboII GAAGA 5 cut(s) 59, 390, 449, 582, 733
MflI RGATCY 1 cut(s) 470
MhlI GDGCHC 1 cut(s) 684
MluCI AATT 3 cut(s) 354, 381, 770
MmeI TCCRAC 1 cut(s) 738
MnlI CCTC 5 cut(s) 196, 299, 409, 514, 634
Mph1103I ATGCAT 2 cut(s) 297, 667
MroI TCCGGA 1 cut(s) 362
MroXI GAANNNNTTC 1 cut(s) 147
MseI TTAA 4 cut(s) 203, 233, 353, 485
MspI CCGG 2 cut(s) 363, 751
MspR9I CCNGG 2 cut(s) 315, 751
MvaI CCWGG 1 cut(s) 315
MwoI GCNNNNNNNGC 2 cut(s) 534, 688
NciI CCSGG 1 cut(s) 751
NdeII GATC 3 cut(s) 439, 470, 723
NlaIII CATG 4 cut(s) 26, 46, 295, 744
NmuCI GTSAC 1 cut(s) 153
NsiI ATGCAT 2 cut(s) 297, 667
NspI RCATGY 1 cut(s) 46
PaeI GCATGC 1 cut(s) 46
PdmI GAANNNNTTC 1 cut(s) 147
PfeI GAWTC 2 cut(s) 573, 613
PfoI TCCNGGA 1 cut(s) 749
PkrI GCNGC 2 cut(s) 41, 48
Psp6I CCWGG 1 cut(s) 313
PspGI CCWGG 1 cut(s) 313
PspPI GGNCC 1 cut(s) 590
PstI CTGCAG 1 cut(s) 328
PsuI RGATCY 1 cut(s) 470
SaqAI TTAA 4 cut(s) 203, 233, 353, 485
SatI GCNGC 2 cut(s) 40, 47
Sau3AI GATC 3 cut(s) 439, 470, 723
Sau96I GGNCC 1 cut(s) 590
ScrFI CCNGG 2 cut(s) 315, 751
SduI GDGCHC 1 cut(s) 684
SetI ASST 7 cut(s) 41, 149, 245, 267, 291, 451, 491
SfaNI GCATC 3 cut(s) 225, 524, 700
SfcI CTRYAG 1 cut(s) 324
SmlI CTYRAG 1 cut(s) 220
SmoI CTYRAG 1 cut(s) 220
SphI GCATGC 1 cut(s) 46
Sse9I AATT 3 cut(s) 354, 381, 770
SsiI CCGC 2 cut(s) 480, 513
SspMI CTAG 1 cut(s) 302
StyD4I CCNGG 2 cut(s) 313, 749
TaaI ACNGT 1 cut(s) 621
TaqI TCGA 1 cut(s) 399
TasI AATT 3 cut(s) 354, 381, 770
TfiI GAWTC 2 cut(s) 573, 613
Tru1I TTAA 4 cut(s) 203, 233, 353, 485
Tru9I TTAA 4 cut(s) 203, 233, 353, 485
TscAI CASTG 2 cut(s) 234, 615
TseFI GTSAC 1 cut(s) 153
TseI GCWGC 2 cut(s) 39, 46
Tsp45I GTSAC 1 cut(s) 153
TspGWI ACGGA 4 cut(s) 141, 188, 390, 483
TspRI CASTG 2 cut(s) 234, 615
XapI RAATTY 1 cut(s) 381
XceI RCATGY 1 cut(s) 46
XmnI GAANNNNTTC 1 cut(s) 147
XspI CTAG 1 cut(s) 302
Zsp2I ATGCAT 2 cut(s) 297, 667
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.