MD12G1262600.v1.1

ycf20-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr12
OG0011386
Physical Location & Seq
Forward (+)
32900979 .. 32903136
2158 bp
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UTR
Exon/CDS
Intron
MD12G1262600.v1.1.491

Sequence Viewer

Length: 627 bp
ATGGCGAGTAATTTCTTGGCCTCTCGAATAGGAACCGCACCACCACTGGAGAATCAATTTCCTGAAAGATCACATGTAGCTCTTGCAACTTGTATGATCCACAACTGTTGCAGCGAACCAACTTTTTTCATGGTCCAAACTTCAAAGATTCGCATAAAGTCTCTGCCATTCCCCCAAAGGAGTTTTCAGTCAACAAGACGACAGTGGAGAATAGCCTTTGCCTTGGACACAGGTGGGATTCCCGATGAGGGTGGGCAAGAGGGCATCAATGGCAACAACTCTAATCTCAATGCCACCCGGTTGGGTCGGATAGTGACTGCAGGTGGGAGACAGCTACTGGAGAAGCTGAATTTAGCCAGGAAAAATTTTCCCATGAAAATATTTCTTCTTCTTTTGGGTTTCTACACGGCAAATGCGTTGGCTACAATCCTGGGGCAGACCGGGGATTGGGATGTTTTGGTTGCGGGTATAGTGGTTGCTGCCATTGAAGGTATTGGCATGCTAATGTATAGAAAGCCCCCCTCTCAATCGAGTGGGAGGCTCAAGTCGTTTGTCATGATGGTAAATTACTGGAAAGCAGGTGTTTGCCTAGGCCTCTTTGTGGATGCTTTTAAATTGGGTAGTTAA

Protein Analysis

209

Amino Acids

22.79

Weight (kDa)

9.9

Isoelectric Point (pI)

36.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF565 PF04483 146 - 208 1.4e-22 Protein of unknown function (DUF565)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0011386)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G65420
fragaria_vesca FvH4_6g00150 FvH4_6g00150 FvH4_6g00150
malus_domestica MD04G1247900.v1.1 MD12G1262600.v1.1
prunus_persica Prupe.6G364400_v2.0.a1 Prupe.6G364400_v2.0.a1 Prupe.6G364400_v2.0.a1
pyrus_communis pycom04g21860
rosa_chinensis RchiOBHm_Chr3g0447501
rosa_laevigata RLG00000025992
rosa_multiflora Rmu_sc0006572.1_g000003
rosa_roxburghii Rroxscaffold_6G00425720
rosa_rugosa Rorug02G0602400
rosa_samantha Rh3AG002600 Rh3BG002100 Rh3CG002400 Rh3DG002500
rosa_wichuraiana Rw3G000150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 2 cut(s) 311, 569
Acc36I ACCTGC 2 cut(s) 311, 569
AciI CCGC 2 cut(s) 36, 464
AclWI GGATC 1 cut(s) 91
AcsI RAATTY 2 cut(s) 349, 364
AfiI CCNNNNNNNGG 3 cut(s) 248, 447, 601
AflIII ACRYGT 1 cut(s) 73
AgsI TTSAA 2 cut(s) 144, 488
AjnI CCWGG 2 cut(s) 356, 429
AjuI GAANNNNNNNTTGG 2 cut(s) 168, 200
AluBI AGCT 3 cut(s) 80, 334, 346
AluI AGCT 3 cut(s) 80, 334, 346
Alw26I GTCTC 2 cut(s) 165, 322
AlwI GGATC 1 cut(s) 91
AlwNI CAGNNNCTG 1 cut(s) 337
AoxI GGCC 2 cut(s) 18, 592
ApeKI GCWGC 2 cut(s) 111, 479
ApoI RAATTY 2 cut(s) 349, 364
AspA2I CCTAGG 1 cut(s) 589
AspS9I GGNCC 1 cut(s) 133
AsuC2I CCSGG 2 cut(s) 298, 442
AvaII GGWCC 1 cut(s) 133
AvrII CCTAGG 1 cut(s) 589
BbvI GCAGC 2 cut(s) 123, 466
BccI CCATC 1 cut(s) 553
BceAI ACGGC 1 cut(s) 423
BciT130I CCWGG 2 cut(s) 358, 431
BcnI CCSGG 2 cut(s) 298, 442
BcoDI GTCTC 2 cut(s) 165, 322
BfaI CTAG 1 cut(s) 590
BfmI CTRYAG 1 cut(s) 318
BfuAI ACCTGC 2 cut(s) 311, 569
BisI GCNGC 2 cut(s) 112, 480
BlnI CCTAGG 1 cut(s) 589
BlsI GCNGC 2 cut(s) 113, 481
Bme1390I CCNGG 4 cut(s) 298, 358, 431, 442
Bme18I GGWCC 1 cut(s) 133
BmgT120I GGNCC 1 cut(s) 133
BmiI GGNNCC 1 cut(s) 34
BmrFI CCNGG 4 cut(s) 298, 358, 431, 442
BmsI GCATC 2 cut(s) 273, 595
BpmI CTGGAG 2 cut(s) 68, 359
BpuEI CTTGAG 1 cut(s) 527
BpuMI CCSGG 2 cut(s) 298, 442
BsaJI CCNNGG 4 cut(s) 222, 430, 441, 589
Bsc4I CCNNNNNNNGG 3 cut(s) 248, 447, 601
Bse1I ACTGG 3 cut(s) 51, 342, 575
BseBI CCWGG 2 cut(s) 358, 431
BseDI CCNNGG 4 cut(s) 222, 430, 441, 589
BseGI GGATG 2 cut(s) 457, 610
BseLI CCNNNNNNNGG 3 cut(s) 248, 447, 601
BseNI ACTGG 3 cut(s) 51, 342, 575
BseXI GCAGC 2 cut(s) 123, 466
BshFI GGCC 2 cut(s) 20, 594
BsiSI CCGG 2 cut(s) 298, 441
BslI CCNNNNNNNGG 3 cut(s) 248, 447, 601
BsmAI GTCTC 2 cut(s) 165, 322
BsnI GGCC 2 cut(s) 20, 594
Bsp143I GATC 2 cut(s) 68, 96
BspACI CCGC 2 cut(s) 36, 464
BspANI GGCC 2 cut(s) 20, 594
BspHI TCATGA 1 cut(s) 555
BspLI GGNNCC 1 cut(s) 34
BspMAI CTGCAG 1 cut(s) 322
BspMI ACCTGC 2 cut(s) 311, 569
BspPI GGATC 1 cut(s) 91
BsrI ACTGG 3 cut(s) 51, 342, 575
BssECI CCNNGG 4 cut(s) 222, 430, 441, 589
BssMI GATC 2 cut(s) 68, 96
BssT1I CCWWGG 2 cut(s) 222, 589
Bst2UI CCWGG 2 cut(s) 358, 431
Bst4CI ACNGT 2 cut(s) 107, 204
BstC8I GCNNGC 1 cut(s) 500
BstF5I GGATG 2 cut(s) 457, 610
BstKTI GATC 2 cut(s) 71, 99
BstMAI GTCTC 2 cut(s) 165, 322
BstMBI GATC 2 cut(s) 68, 96
BstMWI GCNNNNNNNGC 1 cut(s) 270
BstNI CCWGG 2 cut(s) 358, 431
BstNSI RCATGY 2 cut(s) 77, 502
BstSCI CCNGG 4 cut(s) 296, 356, 429, 440
BstSFI CTRYAG 1 cut(s) 318
BstV1I GCAGC 2 cut(s) 123, 466
BstXI CCANNNNNNTGG 1 cut(s) 301
BsuRI GGCC 2 cut(s) 20, 594
BtsCI GGATG 2 cut(s) 457, 610
BtsIMutI CAGTG 2 cut(s) 44, 209
BveI ACCTGC 2 cut(s) 311, 569
Cac8I GCNNGC 1 cut(s) 500
CaiI CAGNNNCTG 1 cut(s) 337
CciI TCATGA 1 cut(s) 555
Cfr13I GGNCC 1 cut(s) 133
CspCI CAANNNNNGTGG 2 cut(s) 89, 124
CviAII CATG 5 cut(s) 74, 130, 373, 499, 556
DpnI GATC 2 cut(s) 70, 98
DpnII GATC 2 cut(s) 68, 96
DraI TTTAAA 1 cut(s) 613
Eco130I CCWWGG 2 cut(s) 222, 589
Eco147I AGGCCT 1 cut(s) 594
Eco47I GGWCC 1 cut(s) 133
EcoRII CCWGG 2 cut(s) 356, 429
EcoT14I CCWWGG 2 cut(s) 222, 589
ErhI CCWWGG 2 cut(s) 222, 589
FaeI CATG 5 cut(s) 77, 133, 376, 502, 559
FaiI YATR 9 cut(s) 75, 95, 131, 155, 374, 470, 500, 510, 557
FatI CATG 5 cut(s) 73, 129, 372, 498, 555
FauI CCCGC 1 cut(s) 457
Fnu4HI GCNGC 2 cut(s) 112, 480
FokI GGATG 2 cut(s) 464, 617
Fsp4HI GCNGC 2 cut(s) 112, 480
FspBI CTAG 1 cut(s) 590
GluI GCNGC 2 cut(s) 112, 480
GsuI CTGGAG 2 cut(s) 68, 359
HaeIII GGCC 2 cut(s) 20, 594
HapII CCGG 2 cut(s) 298, 441
Hin1II CATG 5 cut(s) 77, 133, 376, 502, 559
HincII GTYRAC 1 cut(s) 192
HindII GTYRAC 1 cut(s) 192
HinfI GANTC 3 cut(s) 52, 148, 238
HpaII CCGG 2 cut(s) 298, 441
Hpy166II GTNNAC 1 cut(s) 192
Hpy188I TCNGA 1 cut(s) 309
Hpy188III TCNNGA 4 cut(s) 24, 62, 242, 556
Hpy8I GTNNAC 1 cut(s) 192
HpyAV CCTTC 1 cut(s) 482
HpyCH4III ACNGT 2 cut(s) 107, 204
HpyCH4V TGCA 3 cut(s) 86, 111, 320
HpyF10VI GCNNNNNNNGC 1 cut(s) 270
Hsp92II CATG 5 cut(s) 77, 133, 376, 502, 559
Kzo9I GATC 2 cut(s) 68, 96
Lsp1109I GCAGC 2 cut(s) 123, 466
LweI GCATC 2 cut(s) 273, 595
MaeI CTAG 1 cut(s) 590
MaeIII GTNAC 1 cut(s) 313
MalI GATC 2 cut(s) 70, 98
MboI GATC 2 cut(s) 68, 96
MboII GAAGA 2 cut(s) 377, 380
MluCI AATT 6 cut(s) 10, 56, 349, 364, 565, 614
MmeI TCCRAC 1 cut(s) 287
MnlI CCTC 6 cut(s) 31, 241, 253, 531, 532, 605
MseI TTAA 2 cut(s) 612, 625
MslI CAYNNNNRTG 1 cut(s) 503
MspI CCGG 2 cut(s) 298, 441
MspR9I CCNGG 4 cut(s) 298, 358, 431, 442
MvaI CCWGG 2 cut(s) 358, 431
MwoI GCNNNNNNNGC 1 cut(s) 270
NciI CCSGG 2 cut(s) 298, 442
NdeII GATC 2 cut(s) 68, 96
NlaIII CATG 5 cut(s) 77, 133, 376, 502, 559
NlaIV GGNNCC 1 cut(s) 34
NmuCI GTSAC 1 cut(s) 313
NspI RCATGY 2 cut(s) 77, 502
PaeI GCATGC 1 cut(s) 502
PagI TCATGA 1 cut(s) 555
PaqCI CACCTGC 2 cut(s) 311, 569
PceI AGGCCT 1 cut(s) 594
PciI ACATGT 1 cut(s) 73
PcsI WCGNNNNNNNCGW 1 cut(s) 413
PfeI GAWTC 3 cut(s) 52, 148, 238
PkrI GCNGC 2 cut(s) 113, 481
PscI ACATGT 1 cut(s) 73
Psp6I CCWGG 2 cut(s) 356, 429
PspGI CCWGG 2 cut(s) 356, 429
PspN4I GGNNCC 1 cut(s) 34
PspPI GGNCC 1 cut(s) 133
PstI CTGCAG 1 cut(s) 322
PstNI CAGNNNCTG 1 cut(s) 337
RseI CAYNNNNRTG 1 cut(s) 503
SaqAI TTAA 2 cut(s) 612, 625
SatI GCNGC 2 cut(s) 112, 480
Sau3AI GATC 2 cut(s) 68, 96
Sau96I GGNCC 1 cut(s) 133
ScrFI CCNGG 4 cut(s) 298, 358, 431, 442
SetI ASST 7 cut(s) 82, 235, 325, 336, 348, 493, 583
SfaNI GCATC 2 cut(s) 273, 595
SfcI CTRYAG 1 cut(s) 318
SinI GGWCC 1 cut(s) 133
SmiMI CAYNNNNRTG 1 cut(s) 503
SmlI CTYRAG 1 cut(s) 542
SmoI CTYRAG 1 cut(s) 542
SphI GCATGC 1 cut(s) 502
Sse9I AATT 6 cut(s) 10, 56, 349, 364, 565, 614
SseBI AGGCCT 1 cut(s) 594
SsiI CCGC 2 cut(s) 36, 464
SspI AATATT 1 cut(s) 381
SspMI CTAG 1 cut(s) 590
StuI AGGCCT 1 cut(s) 594
StyD4I CCNGG 4 cut(s) 296, 356, 429, 440
StyI CCWWGG 2 cut(s) 222, 589
TaaI ACNGT 2 cut(s) 107, 204
TaqI TCGA 2 cut(s) 25, 530
TasI AATT 6 cut(s) 10, 56, 349, 364, 565, 614
TfiI GAWTC 3 cut(s) 52, 148, 238
Tru1I TTAA 2 cut(s) 612, 625
Tru9I TTAA 2 cut(s) 612, 625
TscAI CASTG 2 cut(s) 51, 209
TseFI GTSAC 1 cut(s) 313
TseI GCWGC 2 cut(s) 111, 479
Tsp45I GTSAC 1 cut(s) 313
TspDTI ATGAA 2 cut(s) 118, 389
TspRI CASTG 2 cut(s) 51, 209
VpaK11BI GGWCC 1 cut(s) 133
XapI RAATTY 2 cut(s) 349, 364
XceI RCATGY 2 cut(s) 77, 502
XmaJI CCTAGG 1 cut(s) 589
XspI CTAG 1 cut(s) 590
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.