MD04G1247900.v1.1

ycf20-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr04
OG0011386
Physical Location & Seq
Reverse (-)
32264421 .. 32265813
1393 bp
Loading structure...
UTR
Exon/CDS
Intron
MD04G1247900.v1.1.491

Sequence Viewer

Length: 615 bp
ATGGCCTCTCGAATGGGAACTGCACCAGCACTAGAGAATCAAATCCCTGAAAGATCATTTACAACTCCTGCAACTTGTCTGATCCACAACTGTTGCAGTGAACCAACCTTCAAGATCCAAACTTCAAACATTCGCATAAAGTCTGTGCCTTTCCCTTCCCCCCAAAGGAGTTTTCAGTCAACAAGACAACGGTGGAGAATAGCCTTTGCCTTGGACACAGGTGGGGTTCCTGATAACGGTGGGCAAGAGGGCATCAATGGCAACAACTCTAATCTCAATGCCACCCGATTGGGTCGGATAGTGATTGCAGGTGGAAGACAACTATTGGAGAAGCTGAATTTAGCCAGGAAAAATGTTCCCATGAAAGTATTTCTTCTTCTTTTGGGTTTCTACACGGCAAATGCATTGGCTACAATCCTTGGGCAGACCGGGGATTGGGATGTTTTGGTTGCGGGTATAGTGGTTGCCGCCATTGAAGGTATTGGTATGCTTATGTATAGAAAGCCCCCCTCTCAATCAAGTGGGAGGCTCAAGTCTTTTGTCATGATGGTAAATTACTGGAAAGCTGGTGTGTGCTTAGGCCTCTTTGTGGATGCTTTTAAATTGGGTAGTTAA

Protein Analysis

205

Amino Acids

22.16

Weight (kDa)

10.03

Isoelectric Point (pI)

43.63

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF565 PF04483 142 - 204 1.4e-22 Protein of unknown function (DUF565)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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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 1 cut(s) 299
Acc36I ACCTGC 1 cut(s) 299
AciI CCGC 2 cut(s) 452, 468
AclWI GGATC 2 cut(s) 76, 109
AcsI RAATTY 1 cut(s) 337
AfiI CCNNNNNNNGG 4 cut(s) 165, 236, 435, 589
AgsI TTSAA 3 cut(s) 112, 126, 476
AjnI CCWGG 1 cut(s) 344
AjuI GAANNNNNNNTTGG 2 cut(s) 156, 188
AluBI AGCT 2 cut(s) 334, 566
AluI AGCT 2 cut(s) 334, 566
AlwI GGATC 2 cut(s) 76, 109
AoxI GGCC 2 cut(s) 3, 580
ApoI RAATTY 1 cut(s) 337
AsuC2I CCSGG 1 cut(s) 430
BarI GAAGNNNNNNTAC 2 cut(s) 360, 392
BbsI GAAGAC 1 cut(s) 322
BccI CCATC 1 cut(s) 541
BceAI ACGGC 1 cut(s) 411
BciT130I CCWGG 1 cut(s) 346
BcnI CCSGG 1 cut(s) 430
BfaI CTAG 1 cut(s) 32
BfuAI ACCTGC 1 cut(s) 299
BisI GCNGC 1 cut(s) 468
BlsI GCNGC 1 cut(s) 469
Bme1390I CCNGG 2 cut(s) 346, 430
BmiI GGNNCC 1 cut(s) 228
BmrFI CCNGG 2 cut(s) 346, 430
BmsI GCATC 2 cut(s) 261, 583
BpiI GAAGAC 1 cut(s) 322
Bpu10I CCTNAGC 1 cut(s) 577
BpuEI CTTGAG 1 cut(s) 515
BpuMI CCSGG 1 cut(s) 430
BsaJI CCNNGG 3 cut(s) 210, 418, 429
Bsc4I CCNNNNNNNGG 4 cut(s) 165, 236, 435, 589
Bse1I ACTGG 1 cut(s) 563
BseBI CCWGG 1 cut(s) 346
BseDI CCNNGG 3 cut(s) 210, 418, 429
BseGI GGATG 2 cut(s) 445, 598
BseLI CCNNNNNNNGG 4 cut(s) 165, 236, 435, 589
BseNI ACTGG 1 cut(s) 563
BsgI GTGCAG 1 cut(s) 6
BshFI GGCC 2 cut(s) 5, 582
BsiSI CCGG 1 cut(s) 429
BslI CCNNNNNNNGG 4 cut(s) 165, 236, 435, 589
BsnI GGCC 2 cut(s) 5, 582
Bsp143I GATC 3 cut(s) 53, 81, 114
BspACI CCGC 2 cut(s) 452, 468
BspANI GGCC 2 cut(s) 5, 582
BspHI TCATGA 1 cut(s) 543
BspLI GGNNCC 1 cut(s) 228
BspMI ACCTGC 1 cut(s) 299
BspPI GGATC 2 cut(s) 76, 109
BsrI ACTGG 1 cut(s) 563
BssECI CCNNGG 3 cut(s) 210, 418, 429
BssMI GATC 3 cut(s) 53, 81, 114
BssT1I CCWWGG 2 cut(s) 210, 418
Bst2UI CCWGG 1 cut(s) 346
Bst4CI ACNGT 3 cut(s) 92, 192, 239
BstDEI CTNAG 1 cut(s) 577
BstF5I GGATG 2 cut(s) 445, 598
BstKTI GATC 3 cut(s) 56, 84, 117
BstMBI GATC 3 cut(s) 53, 81, 114
BstMWI GCNNNNNNNGC 1 cut(s) 258
BstNI CCWGG 1 cut(s) 346
BstSCI CCNGG 2 cut(s) 344, 428
BstV2I GAAGAC 1 cut(s) 322
BstX2I RGATCY 1 cut(s) 114
BstXI CCANNNNNNTGG 1 cut(s) 289
BstYI RGATCY 1 cut(s) 114
BsuRI GGCC 2 cut(s) 5, 582
BtsCI GGATG 2 cut(s) 445, 598
BtsI GCAGTG 1 cut(s) 103
BtsIMutI CAGTG 1 cut(s) 103
BveI ACCTGC 1 cut(s) 299
CciI TCATGA 1 cut(s) 543
CspCI CAANNNNNGTGG 2 cut(s) 74, 109
CviAII CATG 2 cut(s) 361, 544
CviJI RGCY 9 cut(s) 5, 203, 334, 344, 410, 505, 529, 566, 582
CviKI_1 RGCY 9 cut(s) 5, 203, 334, 344, 410, 505, 529, 566, 582
DdeI CTNAG 1 cut(s) 577
DpnI GATC 3 cut(s) 55, 83, 116
DpnII GATC 3 cut(s) 53, 81, 114
DraI TTTAAA 1 cut(s) 601
Eco130I CCWWGG 2 cut(s) 210, 418
Eco147I AGGCCT 1 cut(s) 582
EcoRII CCWGG 1 cut(s) 344
EcoT14I CCWWGG 2 cut(s) 210, 418
EcoT22I ATGCAT 1 cut(s) 406
ErhI CCWWGG 2 cut(s) 210, 418
FaeI CATG 2 cut(s) 364, 547
FaiI YATR 7 cut(s) 137, 362, 458, 488, 494, 498, 545
FalI AAGNNNNNCTT 2 cut(s) 357, 389
FatI CATG 2 cut(s) 360, 543
FauI CCCGC 1 cut(s) 445
Fnu4HI GCNGC 1 cut(s) 468
FokI GGATG 2 cut(s) 452, 605
Fsp4HI GCNGC 1 cut(s) 468
FspBI CTAG 1 cut(s) 32
GluI GCNGC 1 cut(s) 468
HaeIII GGCC 2 cut(s) 5, 582
HapII CCGG 1 cut(s) 429
Hin1II CATG 2 cut(s) 364, 547
HincII GTYRAC 1 cut(s) 180
HindII GTYRAC 1 cut(s) 180
HinfI GANTC 1 cut(s) 37
HpaII CCGG 1 cut(s) 429
Hpy166II GTNNAC 2 cut(s) 101, 180
Hpy188I TCNGA 2 cut(s) 81, 297
Hpy188III TCNNGA 4 cut(s) 9, 112, 230, 544
Hpy8I GTNNAC 2 cut(s) 101, 180
HpyAV CCTTC 3 cut(s) 118, 165, 470
HpyCH4III ACNGT 3 cut(s) 92, 192, 239
HpyCH4V TGCA 5 cut(s) 23, 71, 96, 308, 404
HpyF10VI GCNNNNNNNGC 1 cut(s) 258
HpyF3I CTNAG 1 cut(s) 577
Hsp92II CATG 2 cut(s) 364, 547
Kzo9I GATC 3 cut(s) 53, 81, 114
LweI GCATC 2 cut(s) 261, 583
MaeI CTAG 1 cut(s) 32
MalI GATC 3 cut(s) 55, 83, 116
MboI GATC 3 cut(s) 53, 81, 114
MboII GAAGA 3 cut(s) 327, 365, 368
MflI RGATCY 1 cut(s) 114
MluCI AATT 3 cut(s) 337, 553, 602
MmeI TCCRAC 1 cut(s) 275
MnlI CCTC 5 cut(s) 16, 241, 519, 520, 593
Mph1103I ATGCAT 1 cut(s) 406
MseI TTAA 2 cut(s) 600, 613
MspI CCGG 1 cut(s) 429
MspR9I CCNGG 2 cut(s) 346, 430
MvaI CCWGG 1 cut(s) 346
MwoI GCNNNNNNNGC 1 cut(s) 258
NciI CCSGG 1 cut(s) 430
NdeII GATC 3 cut(s) 53, 81, 114
NlaIII CATG 2 cut(s) 364, 547
NlaIV GGNNCC 1 cut(s) 228
NsiI ATGCAT 1 cut(s) 406
PagI TCATGA 1 cut(s) 543
PaqCI CACCTGC 1 cut(s) 299
PceI AGGCCT 1 cut(s) 582
PfeI GAWTC 1 cut(s) 37
PkrI GCNGC 1 cut(s) 469
Psp6I CCWGG 1 cut(s) 344
PspGI CCWGG 1 cut(s) 344
PspN4I GGNNCC 1 cut(s) 228
PsuI RGATCY 1 cut(s) 114
SaqAI TTAA 2 cut(s) 600, 613
SatI GCNGC 1 cut(s) 468
Sau3AI GATC 3 cut(s) 53, 81, 114
ScrFI CCNGG 2 cut(s) 346, 430
SetI ASST 6 cut(s) 110, 223, 313, 336, 481, 568
SfaNI GCATC 2 cut(s) 261, 583
SmlI CTYRAG 1 cut(s) 530
SmoI CTYRAG 1 cut(s) 530
Sse9I AATT 3 cut(s) 337, 553, 602
SseBI AGGCCT 1 cut(s) 582
SsiI CCGC 2 cut(s) 452, 468
SspMI CTAG 1 cut(s) 32
StuI AGGCCT 1 cut(s) 582
StyD4I CCNGG 2 cut(s) 344, 428
StyI CCWWGG 2 cut(s) 210, 418
TaaI ACNGT 3 cut(s) 92, 192, 239
TaqI TCGA 1 cut(s) 10
TasI AATT 3 cut(s) 337, 553, 602
TauI GCSGC 1 cut(s) 470
TfiI GAWTC 1 cut(s) 37
Tru1I TTAA 2 cut(s) 600, 613
Tru9I TTAA 2 cut(s) 600, 613
TscAI CASTG 1 cut(s) 103
TspDTI ATGAA 1 cut(s) 377
TspRI CASTG 1 cut(s) 103
XapI RAATTY 1 cut(s) 337
XspI CTAG 1 cut(s) 32
Zsp2I ATGCAT 1 cut(s) 406
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.