MD11G1280900.v1.1

RIO1 family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr11
OG0012898
Physical Location & Seq
Forward (+)
39845513 .. 39848231
2719 bp
Loading structure...
UTR
Exon/CDS
Intron
MD11G1280900.v1.1.491

Sequence Viewer

Length: 687 bp
ATGGAAACCAAGGCGGATGGTGGAGATAGCTCGCTTGTTCTGATCAAGCAAGGAGCCGAAGCTAGGGTTTTTGAGTCAGACTTCGTGGGAAGGAGGTCAATTGTCAAGGAGCGTTTTTCAAAGAAGTATAGGCATCCGTCTTTGGATGCAAAGCTTACGCTCAAGCGCCTCAATGCGGAGGCCAGGTGCATGACGAAAGCAAGACGGCTCAGGGTCTGTACTCCAGTGCTTTACCATGTAGACACTGTGCTGCATACCCTAACATTTGAATACGTGGAGGGTCCTTCTGTCAAAGATGTATTTCTTAGATTCGGGTTAGGCGATGGAAGTGTTGCTGAAGAACGCATTGATGATATTGCAATGCAGATTGGTCAAGCAATTGCGAAACTACATGATGGTGGCCTCATTCATGGGGACTTGACCACATCTAACTTGTTAATCAGAGCTAGTACTAATCAGTTGGTTGTCATTGATTTCGGTCTGAGCTTTACATCAACCCTTCCAGAAGACAAAGCTGTGGATTTGTATGTACTGGAAAGAGCTTTGCTCTCAATGCATTCTTCGTGTGGGAATGTGATGGATCGGATACTTGCTGCGTATCGGAAGTCCTCAAAGCAGTGGTCATCCACATTAAACAAGTTAGCTCAAGTGAGACAACGAGGCCGAAAGCGCACCATGGTTGGATGA
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
Pkinase

Protein Analysis

229

Amino Acids

25.43

Weight (kDa)

9.58

Isoelectric Point (pI)

35.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pkinase PF00069 44 - 164 1.2e-12 Protein kinase domain
PK_Tyr_Ser-Thr PF07714 54 - 164 2e-08 Protein tyrosine and serine/threonine kinase
ABC1 PF03109 71 - 162 1.2e-07 ABC1 atypical kinase-like domain
Kdo PF06293 112 - 185 2.6e-06 Lipopolysaccharide kinase (Kdo/WaaP) family
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: OG0012898)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G26110 AT5G26110 AT5G26110
fragaria_vesca FvH4_2g23150
malus_domestica MD11G1280900.v1.1
prunus_persica Prupe.8G236800_v2.0.a1
pyrus_communis pycom11g24870
rosa_chinensis RchiOBHm_Chr6g0290401
rosa_laevigata RLG00000012222
rosa_multiflora Rmu_sc0029478.1_g000001
rosa_rugosa Rorug06G0212500 Rorug06G0212600
rosa_samantha Rh6AG322500 Rh6BG329900 Rh6CG335900 Rh6DG322800
rosa_wichuraiana Rw6G027860 Rw6G027960

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 240
AciI CCGC 2 cut(s) 14, 176
AclWI GGATC 1 cut(s) 588
AcuI CTGAAG 1 cut(s) 357
AfaI GTAC 3 cut(s) 220, 451, 531
AfiI CCNNNNNNNGG 2 cut(s) 63, 175
AgsI TTSAA 2 cut(s) 120, 269
AjnI CCWGG 1 cut(s) 182
AluBI AGCT 8 cut(s) 30, 62, 154, 446, 486, 515, 542, 644
AluI AGCT 8 cut(s) 30, 62, 154, 446, 486, 515, 542, 644
Alw26I GTCTC 1 cut(s) 646
AlwI GGATC 1 cut(s) 588
AlwNI CAGNNNCTG 1 cut(s) 216
AoxI GGCC 3 cut(s) 180, 400, 661
ApeKI GCWGC 2 cut(s) 250, 593
ArsI GACNNNNNNTTYG 2 cut(s) 605, 637
AspLEI GCGC 2 cut(s) 168, 672
AspS9I GGNCC 1 cut(s) 281
AvaII GGWCC 1 cut(s) 281
BbsI GAAGAC 1 cut(s) 513
BbvI GCAGC 2 cut(s) 237, 580
BccI CCATC 4 cut(s) 11, 317, 389, 571
BceAI ACGGC 1 cut(s) 221
BciT130I CCWGG 1 cut(s) 184
BciVI GTATCC 1 cut(s) 579
BclI TGATCA 1 cut(s) 42
BcoDI GTCTC 1 cut(s) 646
BfaI CTAG 2 cut(s) 63, 447
BfoI RGCGCY 1 cut(s) 169
BfuI GTATCC 1 cut(s) 579
BisI GCNGC 2 cut(s) 251, 594
BlsI GCNGC 2 cut(s) 252, 595
BmcAI AGTACT 1 cut(s) 451
Bme1390I CCNGG 1 cut(s) 184
Bme18I GGWCC 1 cut(s) 281
BmgT120I GGNCC 1 cut(s) 281
BmiI GGNNCC 2 cut(s) 55, 282
BmrFI CCNGG 1 cut(s) 184
BmsI GCATC 2 cut(s) 136, 142
BpiI GAAGAC 1 cut(s) 513
BplI GAGNNNNNCTC 2 cut(s) 531, 563
BpmI CTGGAG 1 cut(s) 207
Bpu10I CCTNAGC 1 cut(s) 209
BpuEI CTTGAG 2 cut(s) 146, 630
BsaAI YACGTR 1 cut(s) 274
BsaJI CCNNGG 2 cut(s) 9, 675
BsaXI ACNNNNNCTCC 2 cut(s) 170, 200
Bsc4I CCNNNNNNNGG 2 cut(s) 63, 175
Bse1I ACTGG 2 cut(s) 224, 537
Bse3DI GCAATG 1 cut(s) 366
BseBI CCWGG 1 cut(s) 184
BseDI CCNNGG 2 cut(s) 9, 675
BseGI GGATG 4 cut(s) 22, 133, 151, 623
BseLI CCNNNNNNNGG 2 cut(s) 63, 175
BseMI GCAATG 1 cut(s) 366
BseMII CTCAG 2 cut(s) 223, 473
BseNI ACTGG 2 cut(s) 224, 537
BseXI GCAGC 2 cut(s) 237, 580
BshFI GGCC 3 cut(s) 182, 402, 663
BslFI GGGAC 1 cut(s) 428
BslI CCNNNNNNNGG 2 cut(s) 63, 175
BsmAI GTCTC 1 cut(s) 646
BsmFI GGGAC 1 cut(s) 428
BsmI GAATGC 1 cut(s) 556
BsnI GGCC 3 cut(s) 182, 402, 663
Bsp143I GATC 2 cut(s) 42, 580
Bsp19I CCATGG 1 cut(s) 675
BspACI CCGC 2 cut(s) 14, 176
BspANI GGCC 3 cut(s) 182, 402, 663
BspCNI CTCAG 2 cut(s) 222, 474
BspLI GGNNCC 2 cut(s) 55, 282
BspPI GGATC 1 cut(s) 588
BsrDI GCAATG 1 cut(s) 366
BsrI ACTGG 2 cut(s) 224, 537
BssECI CCNNGG 2 cut(s) 9, 675
BssMI GATC 2 cut(s) 42, 580
BssT1I CCWWGG 2 cut(s) 9, 675
Bst2UI CCWGG 1 cut(s) 184
Bst4CI ACNGT 1 cut(s) 247
BstBAI YACGTR 1 cut(s) 274
BstC8I GCNNGC 1 cut(s) 32
BstDEI CTNAG 3 cut(s) 209, 305, 482
BstDSI CCRYGG 1 cut(s) 675
BstF5I GGATG 4 cut(s) 22, 133, 151, 623
BstH2I RGCGCY 1 cut(s) 169
BstHHI GCGC 2 cut(s) 168, 672
BstKTI GATC 2 cut(s) 45, 583
BstMAI GTCTC 1 cut(s) 646
BstMBI GATC 2 cut(s) 42, 580
BstMWI GCNNNNNNNGC 2 cut(s) 553, 669
BstNI CCWGG 1 cut(s) 184
BstSCI CCNGG 1 cut(s) 182
BstV1I GCAGC 2 cut(s) 237, 580
BstV2I GAAGAC 1 cut(s) 513
BsuI GTATCC 1 cut(s) 579
BsuRI GGCC 3 cut(s) 182, 402, 663
BtgI CCRYGG 1 cut(s) 675
BtgZI GCGATG 1 cut(s) 336
BtsCI GGATG 4 cut(s) 22, 133, 151, 623
BtsI GCAGTG 1 cut(s) 623
BtsIMutI CAGTG 3 cut(s) 231, 243, 623
Cac8I GCNNGC 1 cut(s) 32
CaiI CAGNNNCTG 1 cut(s) 216
CfoI GCGC 2 cut(s) 168, 672
Cfr13I GGNCC 1 cut(s) 281
Csp6I GTAC 3 cut(s) 219, 450, 530
CviAII CATG 5 cut(s) 190, 236, 392, 410, 676
CviQI GTAC 3 cut(s) 219, 450, 530
DdeI CTNAG 3 cut(s) 209, 305, 482
DpnI GATC 2 cut(s) 44, 582
DpnII GATC 2 cut(s) 42, 580
EciI GGCGGA 1 cut(s) 29
Eco130I CCWWGG 2 cut(s) 9, 675
Eco47I GGWCC 1 cut(s) 281
Eco57I CTGAAG 1 cut(s) 357
EcoO109I RGGNCCY 1 cut(s) 281
EcoRII CCWGG 1 cut(s) 182
EcoT14I CCWWGG 2 cut(s) 9, 675
EcoT22I ATGCAT 1 cut(s) 558
ErhI CCWWGG 2 cut(s) 9, 675
FaeI CATG 5 cut(s) 193, 239, 395, 413, 679
FaiI YATR 8 cut(s) 129, 191, 237, 255, 393, 411, 528, 677
FaqI GGGAC 1 cut(s) 428
FatI CATG 5 cut(s) 189, 235, 391, 409, 675
FbaI TGATCA 1 cut(s) 42
FblI GTMKAC 1 cut(s) 240
Fnu4HI GCNGC 2 cut(s) 251, 594
FokI GGATG 4 cut(s) 29, 120, 158, 610
Fsp4HI GCNGC 2 cut(s) 251, 594
FspBI CTAG 2 cut(s) 63, 447
GlaI GCGC 2 cut(s) 167, 671
GluI GCNGC 2 cut(s) 251, 594
GsuI CTGGAG 1 cut(s) 207
HaeII RGCGCY 1 cut(s) 169
HaeIII GGCC 3 cut(s) 182, 402, 663
HhaI GCGC 2 cut(s) 168, 672
Hin1II CATG 5 cut(s) 193, 239, 395, 413, 679
Hin6I GCGC 2 cut(s) 166, 670
HinP1I GCGC 2 cut(s) 166, 670
HindIII AAGCTT 1 cut(s) 152
HinfI GANTC 2 cut(s) 74, 309
Hpy166II GTNNAC 1 cut(s) 241
Hpy188I TCNGA 6 cut(s) 42, 79, 443, 483, 585, 603
Hpy188III TCNNGA 1 cut(s) 503
Hpy8I GTNNAC 1 cut(s) 241
HpyAV CCTTC 3 cut(s) 84, 294, 509
HpyCH4III ACNGT 1 cut(s) 247
HpyCH4IV ACGT 1 cut(s) 273
HpyCH4V TGCA 6 cut(s) 149, 189, 253, 359, 364, 556
HpyF10VI GCNNNNNNNGC 2 cut(s) 553, 669
HpyF3I CTNAG 3 cut(s) 209, 305, 482
HpySE526I ACGT 1 cut(s) 273
Hsp92II CATG 5 cut(s) 193, 239, 395, 413, 679
HspAI GCGC 2 cut(s) 166, 670
Ksp22I TGATCA 1 cut(s) 42
Kzo9I GATC 2 cut(s) 42, 580
LmnI GCTCC 2 cut(s) 53, 109
LpnPI CCDG 6 cut(s) 169, 196, 196, 237, 516, 518
Lsp1109I GCAGC 2 cut(s) 237, 580
LweI GCATC 2 cut(s) 136, 142
MaeI CTAG 2 cut(s) 63, 447
MaeII ACGT 1 cut(s) 273
MalI GATC 2 cut(s) 44, 582
MboI GATC 2 cut(s) 42, 580
MboII GAAGA 3 cut(s) 350, 518, 552
MfeI CAATTG 2 cut(s) 99, 378
MluCI AATT 2 cut(s) 99, 378
MlyI GAGTC 1 cut(s) 83
MmeI TCCRAC 1 cut(s) 661
MnlI CCTC 7 cut(s) 87, 172, 179, 271, 413, 619, 653
Mph1103I ATGCAT 1 cut(s) 558
MseI TTAA 2 cut(s) 437, 632
MslI CAYNNNNRTG 1 cut(s) 396
MspR9I CCNGG 1 cut(s) 184
MunI CAATTG 2 cut(s) 99, 378
Mva1269I GAATGC 1 cut(s) 556
MvaI CCWGG 1 cut(s) 184
MwoI GCNNNNNNNGC 2 cut(s) 553, 669
NcoI CCATGG 1 cut(s) 675
NdeII GATC 2 cut(s) 42, 580
NlaIII CATG 5 cut(s) 193, 239, 395, 413, 679
NlaIV GGNNCC 2 cut(s) 55, 282
NsiI ATGCAT 1 cut(s) 558
PcsI WCGNNNNNNNCGW 1 cut(s) 318
PctI GAATGC 1 cut(s) 556
PfeI GAWTC 1 cut(s) 309
PkrI GCNGC 2 cut(s) 252, 595
PleI GAGTC 1 cut(s) 82
PpsI GAGTC 1 cut(s) 82
Ppu21I YACGTR 1 cut(s) 274
PpuMI RGGWCCY 1 cut(s) 281
Psp5II RGGWCCY 1 cut(s) 281
Psp6I CCWGG 1 cut(s) 182
PspGI CCWGG 1 cut(s) 182
PspN4I GGNNCC 2 cut(s) 55, 282
PspPI GGNCC 1 cut(s) 281
PspPPI RGGWCCY 1 cut(s) 281
PstNI CAGNNNCTG 1 cut(s) 216
RsaI GTAC 3 cut(s) 220, 451, 531
RsaNI GTAC 3 cut(s) 219, 450, 530
RseI CAYNNNNRTG 1 cut(s) 396
SaqAI TTAA 2 cut(s) 437, 632
SatI GCNGC 2 cut(s) 251, 594
Sau3AI GATC 2 cut(s) 42, 580
Sau96I GGNCC 1 cut(s) 281
ScaI AGTACT 1 cut(s) 451
SchI GAGTC 1 cut(s) 83
ScrFI CCNGG 1 cut(s) 184
SfaNI GCATC 2 cut(s) 136, 142
SinI GGWCC 1 cut(s) 281
SmiMI CAYNNNNRTG 1 cut(s) 396
SmlI CTYRAG 2 cut(s) 161, 645
SmoI CTYRAG 2 cut(s) 161, 645
Sse9I AATT 2 cut(s) 99, 378
SsiI CCGC 2 cut(s) 14, 176
SspMI CTAG 2 cut(s) 63, 447
StyD4I CCNGG 1 cut(s) 182
StyI CCWWGG 2 cut(s) 9, 675
TaaI ACNGT 1 cut(s) 247
TaiI ACGT 1 cut(s) 276
TaqII GACCGA 1 cut(s) 467
TasI AATT 2 cut(s) 99, 378
TatI WGTACW 3 cut(s) 218, 449, 529
TfiI GAWTC 1 cut(s) 309
Tru1I TTAA 2 cut(s) 437, 632
Tru9I TTAA 2 cut(s) 437, 632
TscAI CASTG 3 cut(s) 231, 250, 623
TseI GCWGC 2 cut(s) 250, 593
TspDTI ATGAA 1 cut(s) 398
TspGWI ACGGA 1 cut(s) 126
TspRI CASTG 3 cut(s) 231, 250, 623
VpaK11BI GGWCC 1 cut(s) 281
XmiI GTMKAC 1 cut(s) 240
XspI CTAG 2 cut(s) 63, 447
ZrmI AGTACT 1 cut(s) 451
Zsp2I ATGCAT 1 cut(s) 558
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.