MD11G1238300.v1.1

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr11
OG0017497
Physical Location & Seq
Forward (+)
34602249 .. 34603940
1692 bp
Loading structure...
UTR
Exon/CDS
Intron
MD11G1238300.v1.1.491

Sequence Viewer

Length: 1029 bp
ATGGAGATGGTAAGAAGCAGTTCCACCACATTAGTCATCGTACTAGTATTTGTTGCAGGTGCAGCATTTCAAGCTAAAGCGTACAAATCTCTTTACTGTACCAACCCGGCAAGCCGATGCTTTGGAAAGACTGTGGAATGTCCATATGAATGCCCTAGCAGTTACTCTGAAGACCAGAAAGCCAAAGTCTGCTATATTGACTGTGATTCCCCTATGTGCAAGGCCCATTGCAAACACCGTAAACCAAACTGCAATAGTCCTGGATCAGCATGCCATGATCCCCGCTTCATCGGTGGTGATGGCATTGTTTTCTACTTCCATGGCAAGAGCAACCAGCAGTTTAGCTTGGTCTCAGACAACAACCTCCAGATCAATGGTCGCTTCATTGGCCATAGGCCAGCAGAACGAACCCGTGACTACACTTGGATTCAAGCCCTAGGAATCCTTTTCAGCACTCACAGCTTCTCTGTAGAAGCCACCAAAGCAGCTGCTTGGGACAATCAAATTGACCACCTAAAATTCACCCACAACGGAAACGATGTAGTTTTACAAGAAGGGTATCTCTCCACTTGGTATTCTCCAGAAAAGGATATGAAAGTTGAGAGAATATCAAGCAAGAACAGTGTTATTGTGTCCCTAAAGGATGTTGCTGAGATTATGATCAATGTGGTGCCCGTAACCAAAGAAGATGATAGAATTCACAACTATCAAGTTCCTTCTGATGACTGCTTTGCTCATTTGGAAGTCCAGTTTAAGTTCTTTGCTCTGTCCACGGAAGTTGAGGGAGTGCTTGGAAGGACTTACAGGCCTGATTTTGAGAACCCGGCAAAGCCTGGAGTGGCAATGCCGGTCTTGGGGGGTGAAGATAAGTATCGAACCTCATCTCTTCTGTCAGCAGATTGTGTTTCTTGCAGGTTCTCAGCACAGGAAAGTGTGACAGAGGAAGATAGATCAGCAATTGTGGATTATGGCACACTTGACTGCACCAGAAGATCCTCAGGAGGATATGGAATTGTTTGCAAAAAATGA
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
Root_cap

Protein Analysis

343

Amino Acids

38.1

Weight (kDa)

6.37

Isoelectric Point (pI)

40.07

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 250 - 306 1.8e-28 Root cap
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: OG0017497)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G27400 AT5G54370
malus_domestica MD11G1238300.v1.1
prunus_persica Prupe.4G188500_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0035121
rosa_multiflora Rmu_sc0000879.1_g000008 Rmu_sc0005362.1_g000004
rosa_rugosa Rorug05G0150200
rosa_samantha Rh5AG243000 Rh5BG242600 Rh5CG274200 Rh5DG251300

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 47
Acc36I ACCTGC 2 cut(s) 47, 903
AccB1I GGYRCC 1 cut(s) 670
AciI CCGC 1 cut(s) 283
AclWI GGATC 3 cut(s) 271, 272, 987
AcoI YGGCCR 1 cut(s) 388
AcsI RAATTY 2 cut(s) 518, 696
AcuI CTGAAG 1 cut(s) 189
AfaI GTAC 3 cut(s) 42, 83, 100
AfiI CCNNNNNNNGG 1 cut(s) 854
AgsI TTSAA 2 cut(s) 71, 431
AhlI ACTAGT 1 cut(s) 43
AjnI CCWGG 2 cut(s) 259, 832
AluBI AGCT 4 cut(s) 74, 345, 462, 488
AluI AGCT 4 cut(s) 74, 345, 462, 488
Alw26I GTCTC 1 cut(s) 355
AlwI GGATC 3 cut(s) 271, 272, 987
AoxI GGCC 4 cut(s) 222, 388, 395, 806
ApeKI GCWGC 3 cut(s) 62, 485, 488
ApoI RAATTY 2 cut(s) 518, 696
Asp700I GAANNNNTTC 1 cut(s) 19
AspA2I CCTAGG 1 cut(s) 436
AspS9I GGNCC 1 cut(s) 223
AsuC2I CCSGG 2 cut(s) 107, 824
AsuHPI GGTGA 3 cut(s) 308, 514, 872
AvrII CCTAGG 1 cut(s) 436
AxyI CCTNAGG 1 cut(s) 997
BaeGI GKGCMC 1 cut(s) 675
BalI TGGCCA 1 cut(s) 390
BanI GGYRCC 1 cut(s) 670
BbsI GAAGAC 1 cut(s) 177
BbvI GCAGC 3 cut(s) 74, 475, 497
BccI CCATC 1 cut(s) 293
BciT130I CCWGG 2 cut(s) 261, 834
BclI TGATCA 1 cut(s) 660
BcnI CCSGG 2 cut(s) 107, 824
BcoDI GTCTC 1 cut(s) 355
BcuI ACTAGT 1 cut(s) 43
BfaI CTAG 3 cut(s) 44, 156, 437
BfmI CTRYAG 1 cut(s) 468
BfuAI ACCTGC 2 cut(s) 47, 903
BisI GCNGC 3 cut(s) 63, 486, 489
BlnI CCTAGG 1 cut(s) 436
BlsI GCNGC 3 cut(s) 64, 487, 490
Bme1390I CCNGG 4 cut(s) 107, 261, 824, 834
BmgT120I GGNCC 1 cut(s) 223
BmiI GGNNCC 1 cut(s) 672
BmrFI CCNGG 4 cut(s) 107, 261, 824, 834
BmsI GCATC 1 cut(s) 107
BpiI GAAGAC 1 cut(s) 177
BpmI CTGGAG 3 cut(s) 350, 564, 855
BpuMI CCSGG 2 cut(s) 107, 824
BsaBI GATNNNNATC 2 cut(s) 659, 870
BsaI GGTCTC 1 cut(s) 355
BsaJI CCNNGG 3 cut(s) 319, 436, 771
Bsc4I CCNNNNNNNGG 1 cut(s) 854
Bse118I RCCGGY 1 cut(s) 847
Bse1I ACTGG 1 cut(s) 748
Bse21I CCTNAGG 1 cut(s) 997
Bse3DI GCAATG 2 cut(s) 226, 849
Bse8I GATNNNNATC 2 cut(s) 659, 870
BseBI CCWGG 2 cut(s) 261, 834
BseDI CCNNGG 3 cut(s) 319, 436, 771
BseGI GGATG 1 cut(s) 649
BseJI GATNNNNATC 2 cut(s) 659, 870
BseLI CCNNNNNNNGG 1 cut(s) 854
BseMI GCAATG 2 cut(s) 226, 849
BseMII CTCAG 4 cut(s) 366, 642, 933, 1011
BseNI ACTGG 1 cut(s) 748
BseSI GKGCMC 1 cut(s) 675
BseXI GCAGC 3 cut(s) 74, 475, 497
BsgI GTGCAG 2 cut(s) 81, 967
BshFI GGCC 4 cut(s) 224, 390, 397, 808
BshNI GGYRCC 1 cut(s) 670
BsiSI CCGG 3 cut(s) 107, 824, 848
BslFI GGGAC 2 cut(s) 509, 619
BslI CCNNNNNNNGG 1 cut(s) 854
BsmAI GTCTC 1 cut(s) 355
BsmFI GGGAC 2 cut(s) 509, 619
BsmI GAATGC 1 cut(s) 155
BsnI GGCC 4 cut(s) 224, 390, 397, 808
Bso31I GGTCTC 1 cut(s) 355
Bsp1286I GDGCHC 1 cut(s) 675
Bsp143I GATC 6 cut(s) 263, 277, 369, 660, 950, 992
Bsp19I CCATGG 1 cut(s) 319
BspACI CCGC 1 cut(s) 283
BspANI GGCC 4 cut(s) 224, 390, 397, 808
BspCNI CTCAG 4 cut(s) 365, 643, 932, 1010
BspLI GGNNCC 1 cut(s) 672
BspMI ACCTGC 2 cut(s) 47, 903
BspPI GGATC 3 cut(s) 271, 272, 987
BspT107I GGYRCC 1 cut(s) 670
BspTNI GGTCTC 1 cut(s) 355
BsrDI GCAATG 2 cut(s) 226, 849
BsrFI RCCGGY 1 cut(s) 847
BsrI ACTGG 1 cut(s) 748
BssAI RCCGGY 1 cut(s) 847
BssECI CCNNGG 3 cut(s) 319, 436, 771
BssMI GATC 6 cut(s) 263, 277, 369, 660, 950, 992
BssT1I CCWWGG 2 cut(s) 319, 436
Bst2UI CCWGG 2 cut(s) 261, 834
Bst4CI ACNGT 5 cut(s) 98, 133, 203, 239, 623
Bst6I CTCTTC 1 cut(s) 891
BstC8I GCNNGC 3 cut(s) 112, 271, 399
BstDEI CTNAG 4 cut(s) 352, 651, 919, 997
BstDSI CCRYGG 2 cut(s) 319, 771
BstF5I GGATG 1 cut(s) 649
BstKTI GATC 6 cut(s) 266, 280, 372, 663, 953, 995
BstMAI GTCTC 1 cut(s) 355
BstMBI GATC 6 cut(s) 263, 277, 369, 660, 950, 992
BstMWI GCNNNNNNNGC 5 cut(s) 62, 71, 387, 459, 482
BstNI CCWGG 2 cut(s) 261, 834
BstNSI RCATGY 1 cut(s) 273
BstSCI CCNGG 4 cut(s) 105, 259, 822, 832
BstSFI CTRYAG 1 cut(s) 468
BstSLI GKGCMC 1 cut(s) 675
BstV1I GCAGC 3 cut(s) 74, 475, 497
BstV2I GAAGAC 1 cut(s) 177
BstX2I RGATCY 1 cut(s) 992
BstXI CCANNNNNNTGG 1 cut(s) 374
BstYI RGATCY 1 cut(s) 992
Bsu36I CCTNAGG 1 cut(s) 997
BsuRI GGCC 4 cut(s) 224, 390, 397, 808
BtgI CCRYGG 2 cut(s) 319, 771
BtsCI GGATG 1 cut(s) 649
BtsIMutI CAGTG 1 cut(s) 628
BveI ACCTGC 2 cut(s) 47, 903
Cac8I GCNNGC 3 cut(s) 112, 271, 399
Cfr10I RCCGGY 1 cut(s) 847
Cfr13I GGNCC 1 cut(s) 223
Csp6I GTAC 3 cut(s) 41, 82, 99
CspCI CAANNNNNGTGG 2 cut(s) 760, 795
CviAII CATG 3 cut(s) 270, 275, 320
CviQI GTAC 3 cut(s) 41, 82, 99
DdeI CTNAG 4 cut(s) 352, 651, 919, 997
DpnI GATC 6 cut(s) 265, 279, 371, 662, 952, 994
DpnII GATC 6 cut(s) 263, 277, 369, 660, 950, 992
EaeI YGGCCR 1 cut(s) 388
Eam1104I CTCTTC 1 cut(s) 891
EarI CTCTTC 1 cut(s) 891
Eco130I CCWWGG 2 cut(s) 319, 436
Eco147I AGGCCT 1 cut(s) 808
Eco31I GGTCTC 1 cut(s) 355
Eco57I CTGAAG 1 cut(s) 189
Eco81I CCTNAGG 1 cut(s) 997
EcoRI GAATTC 1 cut(s) 696
EcoRII CCWGG 2 cut(s) 259, 832
EcoT14I CCWWGG 2 cut(s) 319, 436
ErhI CCWWGG 2 cut(s) 319, 436
FaeI CATG 3 cut(s) 273, 278, 323
FaqI GGGAC 2 cut(s) 509, 619
FatI CATG 3 cut(s) 269, 274, 319
FauI CCCGC 1 cut(s) 290
FauNDI CATATG 1 cut(s) 145
FbaI TGATCA 1 cut(s) 660
Fnu4HI GCNGC 3 cut(s) 63, 486, 489
FokI GGATG 1 cut(s) 656
Fsp4HI GCNGC 3 cut(s) 63, 486, 489
FspBI CTAG 3 cut(s) 44, 156, 437
GluI GCNGC 3 cut(s) 63, 486, 489
GsuI CTGGAG 3 cut(s) 350, 564, 855
HaeIII GGCC 4 cut(s) 224, 390, 397, 808
HapII CCGG 3 cut(s) 107, 824, 848
Hin1II CATG 3 cut(s) 273, 278, 323
HinfI GANTC 3 cut(s) 206, 427, 441
HpaII CCGG 3 cut(s) 107, 824, 848
HphI GGTGA 3 cut(s) 308, 514, 872
Hpy166II GTNNAC 2 cut(s) 242, 771
Hpy188I TCNGA 3 cut(s) 169, 355, 721
Hpy188III TCNNGA 3 cut(s) 367, 581, 999
Hpy8I GTNNAC 2 cut(s) 242, 771
HpyAV CCTTC 3 cut(s) 548, 726, 789
HpyCH4III ACNGT 5 cut(s) 98, 133, 203, 239, 623
HpyCH4V TGCA 8 cut(s) 56, 62, 219, 231, 252, 912, 984, 1020
HpyF10VI GCNNNNNNNGC 5 cut(s) 62, 71, 387, 459, 482
HpyF3I CTNAG 4 cut(s) 352, 651, 919, 997
Hsp92II CATG 3 cut(s) 273, 278, 323
Ksp22I TGATCA 1 cut(s) 660
Kzo9I GATC 6 cut(s) 263, 277, 369, 660, 950, 992
Lsp1109I GCAGC 3 cut(s) 74, 475, 497
LweI GCATC 1 cut(s) 107
MaeI CTAG 3 cut(s) 44, 156, 437
MaeIII GTNAC 4 cut(s) 161, 413, 676, 934
MalI GATC 6 cut(s) 265, 279, 371, 662, 952, 994
MboI GATC 6 cut(s) 263, 277, 369, 660, 950, 992
MboII GAAGA 6 cut(s) 182, 698, 875, 878, 956, 1002
MfeI CAATTG 1 cut(s) 957
MflI RGATCY 1 cut(s) 992
MhlI GDGCHC 1 cut(s) 675
MlsI TGGCCA 1 cut(s) 390
MluCI AATT 5 cut(s) 504, 518, 696, 957, 1011
MluNI TGGCCA 1 cut(s) 390
MnlI CCTC 6 cut(s) 374, 775, 889, 934, 995, 1006
Mox20I TGGCCA 1 cut(s) 390
MroXI GAANNNNTTC 1 cut(s) 19
MscI TGGCCA 1 cut(s) 390
MseI TTAA 1 cut(s) 753
MslI CAYNNNNRTG 1 cut(s) 148
Msp20I TGGCCA 1 cut(s) 390
MspA1I CMGCKG 1 cut(s) 488
MspI CCGG 3 cut(s) 107, 824, 848
MspR9I CCNGG 4 cut(s) 107, 261, 824, 834
MunI CAATTG 1 cut(s) 957
Mva1269I GAATGC 1 cut(s) 155
MvaI CCWGG 2 cut(s) 261, 834
MwoI GCNNNNNNNGC 5 cut(s) 62, 71, 387, 459, 482
NciI CCSGG 2 cut(s) 107, 824
NcoI CCATGG 1 cut(s) 319
NdeI CATATG 1 cut(s) 145
NdeII GATC 6 cut(s) 263, 277, 369, 660, 950, 992
NlaIII CATG 3 cut(s) 273, 278, 323
NlaIV GGNNCC 1 cut(s) 672
NmuCI GTSAC 2 cut(s) 413, 934
NspI RCATGY 1 cut(s) 273
PaeI GCATGC 1 cut(s) 273
PaqCI CACCTGC 1 cut(s) 47
PceI AGGCCT 1 cut(s) 808
PctI GAATGC 1 cut(s) 155
PdmI GAANNNNTTC 1 cut(s) 19
PfeI GAWTC 3 cut(s) 206, 427, 441
PfoI TCCNGGA 1 cut(s) 259
PkrI GCNGC 3 cut(s) 64, 487, 490
Psp6I CCWGG 2 cut(s) 259, 832
PspGI CCWGG 2 cut(s) 259, 832
PspN4I GGNNCC 1 cut(s) 672
PspPI GGNCC 1 cut(s) 223
PsuI RGATCY 1 cut(s) 992
PvuII CAGCTG 1 cut(s) 488
RsaI GTAC 3 cut(s) 42, 83, 100
RsaNI GTAC 3 cut(s) 41, 82, 99
RseI CAYNNNNRTG 1 cut(s) 148
SaqAI TTAA 1 cut(s) 753
SatI GCNGC 3 cut(s) 63, 486, 489
Sau3AI GATC 6 cut(s) 263, 277, 369, 660, 950, 992
Sau96I GGNCC 1 cut(s) 223
ScrFI CCNGG 4 cut(s) 107, 261, 824, 834
SduI GDGCHC 1 cut(s) 675
SetI ASST 9 cut(s) 61, 76, 347, 366, 464, 490, 516, 881, 917
SfaNI GCATC 1 cut(s) 107
SfcI CTRYAG 1 cut(s) 468
SmiMI CAYNNNNRTG 1 cut(s) 148
SpeI ACTAGT 1 cut(s) 43
SphI GCATGC 1 cut(s) 273
Sse9I AATT 5 cut(s) 504, 518, 696, 957, 1011
SseBI AGGCCT 1 cut(s) 808
SsiI CCGC 1 cut(s) 283
SspMI CTAG 3 cut(s) 44, 156, 437
StuI AGGCCT 1 cut(s) 808
StyD4I CCNGG 4 cut(s) 105, 259, 822, 832
StyI CCWWGG 2 cut(s) 319, 436
TaaI ACNGT 5 cut(s) 98, 133, 203, 239, 623
TaqI TCGA 1 cut(s) 874
TasI AATT 5 cut(s) 504, 518, 696, 957, 1011
TfiI GAWTC 3 cut(s) 206, 427, 441
Tru1I TTAA 1 cut(s) 753
Tru9I TTAA 1 cut(s) 753
TscAI CASTG 1 cut(s) 628
TseFI GTSAC 2 cut(s) 413, 934
TseI GCWGC 3 cut(s) 62, 485, 488
Tsp45I GTSAC 2 cut(s) 413, 934
TspDTI ATGAA 4 cut(s) 162, 277, 373, 608
TspGWI ACGGA 2 cut(s) 546, 788
TspRI CASTG 1 cut(s) 628
XapI RAATTY 2 cut(s) 518, 696
XceI RCATGY 1 cut(s) 273
XmaJI CCTAGG 1 cut(s) 436
XmnI GAANNNNTTC 1 cut(s) 19
XspI CTAG 3 cut(s) 44, 156, 437
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.