MD08G1093000.v1.1

Protein DCL, chloroplastic-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr08
OG0012457
Physical Location & Seq
Reverse (-)
7748412 .. 7751568
3157 bp
Loading structure...
UTR
Exon/CDS
Intron
MD08G1093000.v1.1.491

Sequence Viewer

Length: 567 bp
ATGACGACGACGACGCTTATGGCGGCTCTGAACCCGTTGCTGGTGCGTACAATTTCGTTCCTCTGCGCGCGAGGCCACCGCCGACGCCTGGGCCTCGGGCTTGCGGTCCCGAGCGGCAGGGCGTGTTCCGCGCTGAGAGGAGTGCTGAGCGTGAAGGACCTGCCGAAGTACCCTCGCTGGGACGACCCTGACTACTTCAAGTGGAAGGATGAGGAACGGGAGGTTTTAAACGACATCGAGCCCGTCGTTTTACTGGCCAAGGAGATTCTGCACTCGGATAGGTATATGGATGGTGAGCAGCTGACGGAGGAAGATGAAAAGGTTGTGGTGGAAAGGCTTCTTGCTCATCATCCACACTCAGAGGATAAAATTGGCTGCGGAATTGATTCTATCATGGTTGATCGGCATCCCCAATTTAAACACTCGAGGTGCCTCTTTGTCATAAGAACTGATGGTGTATGGATAGACTTCTCCTACCAGAAGTGTCTCCGAGCATATATCCGAGATAAGTGCCCATCCCATGCAGATAGATTCATTCGGGAACATTTTAAATGCGGTAGTGGCTAA
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
DUF3223

Protein Analysis

189

Amino Acids

21.69

Weight (kDa)

7.66

Isoelectric Point (pI)

40.83

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF3223 PF11523 87 - 163 4.4e-32 Protein of unknown function (DUF3223)
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: OG0012457)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G46630
fragaria_vesca FvH4_2g33750
malus_domestica MD08G1093000.v1.1 MD08G1093500.v1.1 MD15G1077200.v1.1
prunus_persica Prupe.1G430600_v2.0.a1
pyrus_communis pycom08g07580 pycom08g07600 pycom15g07190
rosa_chinensis RchiOBHm_Chr6g0308801
rosa_laevigata RLG00000010617
rosa_multiflora Rmu_sc0004046.1_g000005
rosa_roxburghii Rroxscaffold_7G00159910
rosa_rugosa Rorug06G0368300
rosa_samantha Rh6AG479600 Rh6BG489100 Rh6CG494600 Rh6DG479900
rosa_wichuraiana Rw6G041810

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 168
AccB1I GGYRCC 1 cut(s) 429
AccBSI CCGCTC 1 cut(s) 114
AccII CGCG 3 cut(s) 68, 70, 131
AciI CCGC 7 cut(s) 23, 79, 104, 114, 129, 378, 555
AcoI YGGCCR 1 cut(s) 255
AcyI GRCGYC 1 cut(s) 85
AfaI GTAC 2 cut(s) 49, 170
AfiI CCNNNNNNNGG 3 cut(s) 40, 88, 178
AgsI TTSAA 1 cut(s) 199
AjnI CCWGG 1 cut(s) 87
AluBI AGCT 1 cut(s) 301
AluI AGCT 1 cut(s) 301
Alw26I GTCTC 1 cut(s) 491
Ama87I CYCGRG 3 cut(s) 95, 109, 424
AoxI GGCC 3 cut(s) 73, 91, 255
ApeKI GCWGC 2 cut(s) 298, 375
Asp700I GAANNNNTTC 2 cut(s) 336, 385
AspLEI GCGC 3 cut(s) 68, 70, 133
AspS9I GGNCC 3 cut(s) 91, 106, 157
AsuHPI GGTGA 1 cut(s) 305
AvaI CYCGRG 3 cut(s) 95, 109, 424
AvaII GGWCC 2 cut(s) 106, 157
BaeGI GKGCMC 1 cut(s) 515
BalI TGGCCA 1 cut(s) 257
BanI GGYRCC 1 cut(s) 429
BanII GRGCYC 1 cut(s) 243
BbvI GCAGC 2 cut(s) 310, 362
BccI CCATC 3 cut(s) 284, 446, 523
BcgI CGANNNNNNTGC 2 cut(s) 492, 526
BciT130I CCWGG 1 cut(s) 89
BcoDI GTCTC 1 cut(s) 491
BfuAI ACCTGC 1 cut(s) 168
BisI GCNGC 4 cut(s) 24, 115, 299, 376
BlpI GCTNAGC 1 cut(s) 146
BlsI GCNGC 4 cut(s) 25, 116, 300, 377
Bme1390I CCNGG 1 cut(s) 89
Bme18I GGWCC 2 cut(s) 106, 157
BmeT110I CYCGRG 3 cut(s) 95, 109, 424
BmgT120I GGNCC 3 cut(s) 91, 106, 157
BmiI GGNNCC 2 cut(s) 108, 431
BmrFI CCNGG 1 cut(s) 89
BmsI GCATC 1 cut(s) 415
Bpu1102I GCTNAGC 1 cut(s) 146
BsaBI GATNNNNATC 1 cut(s) 405
BsaHI GRCGYC 1 cut(s) 85
BsaJI CCNNGG 3 cut(s) 88, 94, 258
Bsc4I CCNNNNNNNGG 3 cut(s) 40, 88, 178
Bse1I ACTGG 1 cut(s) 258
Bse8I GATNNNNATC 1 cut(s) 405
BseBI CCWGG 1 cut(s) 89
BseDI CCNNGG 3 cut(s) 88, 94, 258
BseGI GGATG 5 cut(s) 214, 295, 349, 406, 515
BseJI GATNNNNATC 1 cut(s) 405
BseLI CCNNNNNNNGG 3 cut(s) 40, 88, 178
BseMII CTCAG 3 cut(s) 125, 137, 372
BseNI ACTGG 1 cut(s) 258
BsePI GCGCGC 1 cut(s) 66
BseRI GAGGAG 1 cut(s) 153
BseSI GKGCMC 1 cut(s) 515
BseXI GCAGC 2 cut(s) 310, 362
BseYI CCCAGC 1 cut(s) 177
BsgI GTGCAG 1 cut(s) 254
Bsh1236I CGCG 3 cut(s) 68, 70, 131
BshFI GGCC 3 cut(s) 75, 93, 257
BshNI GGYRCC 1 cut(s) 429
BsiHKCI CYCGRG 3 cut(s) 95, 109, 424
BslFI GGGAC 2 cut(s) 92, 194
BslI CCNNNNNNNGG 3 cut(s) 40, 88, 178
BsmAI GTCTC 1 cut(s) 491
BsmFI GGGAC 2 cut(s) 92, 194
BsnI GGCC 3 cut(s) 75, 93, 257
BsoBI CYCGRG 3 cut(s) 95, 109, 424
Bsp1286I GDGCHC 2 cut(s) 243, 515
Bsp143I GATC 1 cut(s) 400
Bsp1720I GCTNAGC 1 cut(s) 146
BspACI CCGC 7 cut(s) 23, 79, 104, 114, 129, 378, 555
BspANI GGCC 3 cut(s) 75, 93, 257
BspCNI CTCAG 3 cut(s) 126, 138, 371
BspFNI CGCG 3 cut(s) 68, 70, 131
BspLI GGNNCC 2 cut(s) 108, 431
BspMI ACCTGC 1 cut(s) 168
BspT107I GGYRCC 1 cut(s) 429
BsrBI CCGCTC 1 cut(s) 114
BsrI ACTGG 1 cut(s) 258
BssECI CCNNGG 3 cut(s) 88, 94, 258
BssHII GCGCGC 1 cut(s) 66
BssMI GATC 1 cut(s) 400
BssNI GRCGYC 1 cut(s) 85
BssT1I CCWWGG 1 cut(s) 258
Bst2UI CCWGG 1 cut(s) 89
BstACI GRCGYC 1 cut(s) 85
BstC8I GCNNGC 2 cut(s) 68, 102
BstDEI CTNAG 3 cut(s) 134, 146, 358
BstF5I GGATG 5 cut(s) 214, 295, 349, 406, 515
BstFNI CGCG 3 cut(s) 68, 70, 131
BstHHI GCGC 3 cut(s) 68, 70, 133
BstKTI GATC 1 cut(s) 403
BstMAI GTCTC 1 cut(s) 491
BstMBI GATC 1 cut(s) 400
BstMWI GCNNNNNNNGC 3 cut(s) 72, 128, 561
BstNI CCWGG 1 cut(s) 89
BstSCI CCNGG 1 cut(s) 87
BstSLI GKGCMC 1 cut(s) 515
BstUI CGCG 3 cut(s) 68, 70, 131
BstV1I GCAGC 2 cut(s) 310, 362
BsuRI GGCC 3 cut(s) 75, 93, 257
BtsCI GGATG 5 cut(s) 214, 295, 349, 406, 515
BveI ACCTGC 1 cut(s) 168
Cac8I GCNNGC 2 cut(s) 68, 102
CfoI GCGC 3 cut(s) 68, 70, 133
Cfr13I GGNCC 3 cut(s) 91, 106, 157
CseI GACGC 2 cut(s) 22, 93
Csp6I GTAC 2 cut(s) 48, 169
CviAII CATG 2 cut(s) 394, 521
CviQI GTAC 2 cut(s) 48, 169
DdeI CTNAG 3 cut(s) 134, 146, 358
DpnI GATC 1 cut(s) 402
DpnII GATC 1 cut(s) 400
DraI TTTAAA 3 cut(s) 228, 418, 550
EaeI YGGCCR 1 cut(s) 255
Eco130I CCWWGG 1 cut(s) 258
Eco24I GRGCYC 1 cut(s) 243
Eco47I GGWCC 2 cut(s) 106, 157
Eco88I CYCGRG 3 cut(s) 95, 109, 424
EcoO109I RGGNCCY 1 cut(s) 157
EcoRII CCWGG 1 cut(s) 87
EcoT14I CCWWGG 1 cut(s) 258
EcoT38I GRGCYC 1 cut(s) 243
ErhI CCWWGG 1 cut(s) 258
FaeI CATG 2 cut(s) 397, 524
FaiI YATR 9 cut(s) 20, 285, 287, 395, 443, 460, 496, 498, 522
FaqI GGGAC 2 cut(s) 92, 194
FatI CATG 2 cut(s) 393, 520
Fnu4HI GCNGC 4 cut(s) 24, 115, 299, 376
FokI GGATG 5 cut(s) 221, 302, 336, 393, 502
FriOI GRGCYC 1 cut(s) 243
Fsp4HI GCNGC 4 cut(s) 24, 115, 299, 376
GlaI GCGC 3 cut(s) 67, 69, 132
GluI GCNGC 4 cut(s) 24, 115, 299, 376
GsaI CCCAGC 1 cut(s) 181
HaeIII GGCC 3 cut(s) 75, 93, 257
HgaI GACGC 2 cut(s) 22, 93
HhaI GCGC 3 cut(s) 68, 70, 133
Hin1I GRCGYC 1 cut(s) 85
Hin1II CATG 2 cut(s) 397, 524
Hin6I GCGC 3 cut(s) 66, 68, 131
HinP1I GCGC 3 cut(s) 66, 68, 131
HinfI GANTC 3 cut(s) 265, 386, 531
HphI GGTGA 1 cut(s) 305
Hpy188I TCNGA 5 cut(s) 30, 277, 361, 491, 503
Hpy188III TCNNGA 2 cut(s) 109, 539
Hpy99I CGWCG 5 cut(s) 10, 13, 16, 87, 248
HpyAV CCTTC 2 cut(s) 148, 199
HpyCH4V TGCA 2 cut(s) 271, 524
HpyF10VI GCNNNNNNNGC 3 cut(s) 72, 128, 561
HpyF3I CTNAG 3 cut(s) 134, 146, 358
Hsp92I GRCGYC 1 cut(s) 85
Hsp92II CATG 2 cut(s) 397, 524
HspAI GCGC 3 cut(s) 66, 68, 131
Kzo9I GATC 1 cut(s) 400
LpnPI CCDG 9 cut(s) 26, 74, 101, 103, 163, 173, 201, 239, 491
Lsp1109I GCAGC 2 cut(s) 310, 362
LweI GCATC 1 cut(s) 415
MalI GATC 1 cut(s) 402
MbiI CCGCTC 1 cut(s) 114
MboI GATC 1 cut(s) 400
MboII GAAGA 1 cut(s) 323
MhlI GDGCHC 2 cut(s) 243, 515
MlsI TGGCCA 1 cut(s) 257
MluCI AATT 4 cut(s) 51, 369, 381, 413
MluNI TGGCCA 1 cut(s) 257
Mox20I TGGCCA 1 cut(s) 257
MroXI GAANNNNTTC 2 cut(s) 336, 385
MscI TGGCCA 1 cut(s) 257
MseI TTAA 3 cut(s) 227, 417, 549
Msp20I TGGCCA 1 cut(s) 257
MspA1I CMGCKG 1 cut(s) 301
MspR9I CCNGG 1 cut(s) 89
MvaI CCWGG 1 cut(s) 89
MvnI CGCG 3 cut(s) 68, 70, 131
MwoI GCNNNNNNNGC 3 cut(s) 72, 128, 561
NdeII GATC 1 cut(s) 400
NlaIII CATG 2 cut(s) 397, 524
NlaIV GGNNCC 2 cut(s) 108, 431
PaeR7I CTCGAG 1 cut(s) 424
PauI GCGCGC 1 cut(s) 66
PcsI WCGNNNNNNNCGW 1 cut(s) 243
PdmI GAANNNNTTC 2 cut(s) 336, 385
PfeI GAWTC 3 cut(s) 265, 386, 531
PkrI GCNGC 4 cut(s) 25, 116, 300, 377
PpuMI RGGWCCY 1 cut(s) 157
Psp5II RGGWCCY 1 cut(s) 157
Psp6I CCWGG 1 cut(s) 87
PspFI CCCAGC 1 cut(s) 177
PspGI CCWGG 1 cut(s) 87
PspN4I GGNNCC 2 cut(s) 108, 431
PspPI GGNCC 3 cut(s) 91, 106, 157
PspPPI RGGWCCY 1 cut(s) 157
PspXI VCTCGAGB 1 cut(s) 424
PteI GCGCGC 1 cut(s) 66
PvuII CAGCTG 1 cut(s) 301
RsaI GTAC 2 cut(s) 49, 170
RsaNI GTAC 2 cut(s) 48, 169
SaqAI TTAA 3 cut(s) 227, 417, 549
SatI GCNGC 4 cut(s) 24, 115, 299, 376
Sau3AI GATC 1 cut(s) 400
Sau96I GGNCC 3 cut(s) 91, 106, 157
ScrFI CCNGG 1 cut(s) 89
SduI GDGCHC 2 cut(s) 243, 515
SetI ASST 6 cut(s) 162, 225, 284, 303, 324, 431
SfaNI GCATC 1 cut(s) 415
Sfr274I CTCGAG 1 cut(s) 424
SinI GGWCC 2 cut(s) 106, 157
SlaI CTCGAG 1 cut(s) 424
SmlI CTYRAG 1 cut(s) 424
SmoI CTYRAG 1 cut(s) 424
Sse9I AATT 4 cut(s) 51, 369, 381, 413
SsiI CCGC 7 cut(s) 23, 79, 104, 114, 129, 378, 555
StyD4I CCNGG 1 cut(s) 87
StyI CCWWGG 1 cut(s) 258
TaqI TCGA 2 cut(s) 237, 425
TasI AATT 4 cut(s) 51, 369, 381, 413
TauI GCSGC 2 cut(s) 26, 117
TfiI GAWTC 3 cut(s) 265, 386, 531
Tru1I TTAA 3 cut(s) 227, 417, 549
Tru9I TTAA 3 cut(s) 227, 417, 549
TseI GCWGC 2 cut(s) 298, 375
TspDTI ATGAA 2 cut(s) 330, 523
TspGWI ACGGA 1 cut(s) 320
VpaK11BI GGWCC 2 cut(s) 106, 157
XhoI CTCGAG 1 cut(s) 424
XmnI GAANNNNTTC 2 cut(s) 336, 385
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.