MD03G1221100.v1.1

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr03
OG0006038
Physical Location & Seq
Forward (+)
30491120 .. 30491578
459 bp
Loading structure...
UTR
Exon/CDS
Intron
MD03G1221100.v1.1.491

Sequence Viewer

Length: 459 bp
ATGTGGCAATCTCCAGAAAATGCCATTAGAGTAGAGAGAACATCGAGCAAGAACAGTGTTCTGGTCACTCTCCCGGAAGTTGCTGAAATTTCAGTAAATGTGGTGCCTGTGACAAAGGAAGATGATAGGATCCACAATTATCAGATACCATCAGATGACTGTTTTGCACATCTGGAAGTACAGTTCAGATTCTATGGATTATCCTCAAATGTGGAGGGAGTGCTTGGAAGGACTTACCAGCCAGATTTCAAGAACCCGGCAAAGCCAGGAGTAGCTATGCCAGTTGTGGGAGGGGAAAACAAGTACAGAACAACATCACTTGTCTCCGCAGATTGCGCTGCTTGTGTTTTCACTAAATCCGGGAAGATGGATCAAACAAGTTTAAGGGTGATGGATTACGGAAATCTTGACTGCACTGGTAATTCCTTCAGTGGGAATGGAATAGTTTGCAGGAAGTAA
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

153

Amino Acids

16.7

Weight (kDa)

6.1

Isoelectric Point (pI)

35.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 61 - 117 1.1e-27 Root cap
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 103
AciI CCGC 1 cut(s) 327
AclWI GGATC 3 cut(s) 124, 137, 378
AcsI RAATTY 1 cut(s) 87
AcuI CTGAAG 1 cut(s) 412
AfaI GTAC 2 cut(s) 180, 305
AfiI CCNNNNNNNGG 2 cut(s) 287, 432
AgsI TTSAA 1 cut(s) 250
AjnI CCWGG 1 cut(s) 265
AloI GAACNNNNNNTCC 2 cut(s) 167, 199
AluBI AGCT 1 cut(s) 275
AluI AGCT 1 cut(s) 275
Alw26I GTCTC 1 cut(s) 328
AlwI GGATC 3 cut(s) 124, 137, 378
ApeKI GCWGC 1 cut(s) 338
ApoI RAATTY 1 cut(s) 87
AspLEI GCGC 1 cut(s) 338
AsuC2I CCSGG 3 cut(s) 74, 257, 361
AsuHPI GGTGA 1 cut(s) 400
BamHI GGATCC 1 cut(s) 129
BanI GGYRCC 1 cut(s) 103
BbvI GCAGC 1 cut(s) 325
BccI CCATC 3 cut(s) 157, 361, 385
BciT130I CCWGG 1 cut(s) 267
BcnI CCSGG 3 cut(s) 74, 257, 361
BcoDI GTCTC 1 cut(s) 328
BisI GCNGC 1 cut(s) 339
BlsI GCNGC 1 cut(s) 340
Bme1390I CCNGG 4 cut(s) 74, 257, 267, 361
BmiI GGNNCC 2 cut(s) 105, 131
BmrFI CCNGG 4 cut(s) 74, 257, 267, 361
BpuMI CCSGG 3 cut(s) 74, 257, 361
Bsc4I CCNNNNNNNGG 2 cut(s) 287, 432
Bse1I ACTGG 2 cut(s) 281, 421
BseBI CCWGG 1 cut(s) 267
BseLI CCNNNNNNNGG 2 cut(s) 287, 432
BseNI ACTGG 2 cut(s) 281, 421
BseXI GCAGC 1 cut(s) 325
BsgI GTGCAG 1 cut(s) 397
BshNI GGYRCC 1 cut(s) 103
BsiSI CCGG 3 cut(s) 74, 257, 360
BslI CCNNNNNNNGG 2 cut(s) 287, 432
BsmAI GTCTC 1 cut(s) 328
Bsp143I GATC 2 cut(s) 129, 370
BspACI CCGC 1 cut(s) 327
BspLI GGNNCC 2 cut(s) 105, 131
BspPI GGATC 3 cut(s) 124, 137, 378
BspT107I GGYRCC 1 cut(s) 103
BsrI ACTGG 2 cut(s) 281, 421
BssMI GATC 2 cut(s) 129, 370
Bst2UI CCWGG 1 cut(s) 267
Bst4CI ACNGT 3 cut(s) 56, 161, 183
BstHHI GCGC 1 cut(s) 338
BstKTI GATC 2 cut(s) 132, 373
BstMAI GTCTC 1 cut(s) 328
BstMBI GATC 2 cut(s) 129, 370
BstMWI GCNNNNNNNGC 1 cut(s) 335
BstNI CCWGG 1 cut(s) 267
BstSCI CCNGG 4 cut(s) 72, 255, 265, 359
BstV1I GCAGC 1 cut(s) 325
BstX2I RGATCY 1 cut(s) 129
BstYI RGATCY 1 cut(s) 129
BtsIMutI CAGTG 3 cut(s) 61, 414, 436
CfoI GCGC 1 cut(s) 338
Csp6I GTAC 2 cut(s) 179, 304
CviJI RGCY 3 cut(s) 241, 265, 275
CviKI_1 RGCY 3 cut(s) 241, 265, 275
CviQI GTAC 2 cut(s) 179, 304
DpnI GATC 2 cut(s) 131, 372
DpnII GATC 2 cut(s) 129, 370
Eco57I CTGAAG 1 cut(s) 412
EcoRII CCWGG 1 cut(s) 265
FaiI YATR 2 cut(s) 195, 278
Fnu4HI GCNGC 1 cut(s) 339
Fsp4HI GCNGC 1 cut(s) 339
GlaI GCGC 1 cut(s) 337
GluI GCNGC 1 cut(s) 339
HapII CCGG 3 cut(s) 74, 257, 360
HhaI GCGC 1 cut(s) 338
Hin6I GCGC 1 cut(s) 336
HinP1I GCGC 1 cut(s) 336
HinfI GANTC 1 cut(s) 189
HpaII CCGG 3 cut(s) 74, 257, 360
HphI GGTGA 1 cut(s) 400
Hpy188I TCNGA 3 cut(s) 144, 154, 188
Hpy188III TCNNGA 4 cut(s) 14, 173, 250, 407
HpyAV CCTTC 2 cut(s) 222, 436
HpyCH4III ACNGT 3 cut(s) 56, 161, 183
HpyCH4V TGCA 3 cut(s) 167, 414, 450
HpyF10VI GCNNNNNNNGC 1 cut(s) 335
HspAI GCGC 1 cut(s) 336
Kzo9I GATC 2 cut(s) 129, 370
Lsp1109I GCAGC 1 cut(s) 325
MaeIII GTNAC 2 cut(s) 64, 109
MalI GATC 2 cut(s) 131, 372
MboI GATC 2 cut(s) 129, 370
MboII GAAGA 2 cut(s) 131, 376
MflI RGATCY 1 cut(s) 129
MluCI AATT 3 cut(s) 87, 136, 421
MnlI CCTC 3 cut(s) 208, 214, 284
MseI TTAA 1 cut(s) 383
MspI CCGG 3 cut(s) 74, 257, 360
MspR9I CCNGG 4 cut(s) 74, 257, 267, 361
MvaI CCWGG 1 cut(s) 267
MwoI GCNNNNNNNGC 1 cut(s) 335
NciI CCSGG 3 cut(s) 74, 257, 361
NdeII GATC 2 cut(s) 129, 370
NlaIV GGNNCC 2 cut(s) 105, 131
NmuCI GTSAC 2 cut(s) 64, 109
PfeI GAWTC 1 cut(s) 189
PfoI TCCNGGA 2 cut(s) 72, 359
PkrI GCNGC 1 cut(s) 340
Psp6I CCWGG 1 cut(s) 265
PspGI CCWGG 1 cut(s) 265
PspN4I GGNNCC 2 cut(s) 105, 131
PsuI RGATCY 1 cut(s) 129
RsaI GTAC 2 cut(s) 180, 305
RsaNI GTAC 2 cut(s) 179, 304
SaqAI TTAA 1 cut(s) 383
SatI GCNGC 1 cut(s) 339
Sau3AI GATC 2 cut(s) 129, 370
ScrFI CCNGG 4 cut(s) 74, 257, 267, 361
SetI ASST 1 cut(s) 277
Sse9I AATT 3 cut(s) 87, 136, 421
SsiI CCGC 1 cut(s) 327
StyD4I CCNGG 4 cut(s) 72, 255, 265, 359
TaaI ACNGT 3 cut(s) 56, 161, 183
TaqI TCGA 1 cut(s) 44
TasI AATT 3 cut(s) 87, 136, 421
TatI WGTACW 2 cut(s) 178, 303
TfiI GAWTC 1 cut(s) 189
Tru1I TTAA 1 cut(s) 383
Tru9I TTAA 1 cut(s) 383
TscAI CASTG 3 cut(s) 61, 421, 436
TseFI GTSAC 2 cut(s) 64, 109
TseI GCWGC 1 cut(s) 338
Tsp45I GTSAC 2 cut(s) 64, 109
TspGWI ACGGA 1 cut(s) 414
TspRI CASTG 3 cut(s) 61, 421, 436
XapI RAATTY 1 cut(s) 87
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.