MD16G1214000.v1.1

HR-like lesion-inducing

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr16
OG0009048
Physical Location & Seq
Forward (+)
20593696 .. 20596104
2409 bp
Loading structure...
UTR
Exon/CDS
Intron
MD16G1214000.v1.1.491

Sequence Viewer

Length: 480 bp
ATGGCTTTCGTTTCGTTCGTTGGACGCCTTCTTTTCGCCTCTGTCTTCCTCCTCTCTGCTTGGCATGAGTTCAATGAATTTGGCGTGGACGGAGGACCCGCAGCCGAATATCTGAGACCAAAATTCGATGTTTTCTCATTTCATCTGTCAACTCACACTGGTGCGCAAGTGCCCAACCAAGTTGAAATCAAACATTTAGTGGCGGCGACGGTGGCATTGAAGGGTATTGGGGGTCTTCTCTTCATCTTTGGTTCTTCTATTGGAGCCTATTTGCTGCTTCTGCATCAGGCCATTGCTACTCCTATCTTGTATGACTTCTACAACTATGATCCCGAGAAGACAGAATTCATTCAACTCTTTTTTAGCTTCACTCAGAACTTGGCATTATTCGGGGCTCTGCTCTTTTTCGTAGGCATGAAGACATCGATACCAAAGAGACAACAATTCAGGAAAAGAGCTCCAAAACCAAAAACTACATGA
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
HR_lesion

Protein Analysis

160

Amino Acids

17.82

Weight (kDa)

9.43

Isoelectric Point (pI)

27.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HR_lesion PF05514 1 - 139 2.8e-63 HR-like lesion-inducing
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)
Acc16I TGCGCA 1 cut(s) 165
AciI CCGC 2 cut(s) 99, 203
AclWI GGATC 1 cut(s) 323
AcsI RAATTY 3 cut(s) 77, 122, 344
AcyI GRCGYC 1 cut(s) 25
AgsI TTSAA 4 cut(s) 73, 185, 220, 353
AleI CACNNNNGTG 1 cut(s) 159
AluBI AGCT 2 cut(s) 366, 458
AluI AGCT 2 cut(s) 366, 458
Alw21I GWGCWC 1 cut(s) 460
Alw26I GTCTC 2 cut(s) 109, 430
AlwI GGATC 1 cut(s) 323
Ama87I CYCGRG 1 cut(s) 332
AoxI GGCC 1 cut(s) 288
ApeKI GCWGC 2 cut(s) 101, 274
ApoI RAATTY 3 cut(s) 77, 122, 344
Asp700I GAANNNNTTC 1 cut(s) 348
AspLEI GCGC 1 cut(s) 166
AspS9I GGNCC 1 cut(s) 95
AvaI CYCGRG 1 cut(s) 332
AvaII GGWCC 1 cut(s) 95
BaeGI GKGCMC 1 cut(s) 174
BanII GRGCYC 2 cut(s) 397, 460
BbsI GAAGAC 4 cut(s) 37, 227, 344, 425
Bbv12I GWGCWC 1 cut(s) 460
BbvI GCAGC 2 cut(s) 113, 261
BcoDI GTCTC 2 cut(s) 109, 430
BisI GCNGC 3 cut(s) 102, 204, 275
BlsI GCNGC 3 cut(s) 103, 205, 276
Bme18I GGWCC 1 cut(s) 95
BmeT110I CYCGRG 1 cut(s) 332
BmgT120I GGNCC 1 cut(s) 95
BmiI GGNNCC 2 cut(s) 97, 265
BmsI GCATC 1 cut(s) 292
BpiI GAAGAC 4 cut(s) 37, 227, 344, 425
Bsa29I ATCGAT 1 cut(s) 425
BsaHI GRCGYC 1 cut(s) 25
BsaI GGTCTC 1 cut(s) 109
Bse1I ACTGG 1 cut(s) 163
Bse3DI GCAATG 1 cut(s) 291
BseCI ATCGAT 1 cut(s) 425
BseMI GCAATG 1 cut(s) 291
BseMII CTCAG 2 cut(s) 104, 386
BseNI ACTGG 1 cut(s) 163
BseRI GAGGAG 1 cut(s) 41
BseSI GKGCMC 1 cut(s) 174
BseXI GCAGC 2 cut(s) 113, 261
BshFI GGCC 1 cut(s) 290
BshVI ATCGAT 1 cut(s) 425
BsiHKAI GWGCWC 1 cut(s) 460
BsiHKCI CYCGRG 1 cut(s) 332
BsmAI GTCTC 2 cut(s) 109, 430
BsnI GGCC 1 cut(s) 290
Bso31I GGTCTC 1 cut(s) 109
BsoBI CYCGRG 1 cut(s) 332
Bsp1286I GDGCHC 3 cut(s) 174, 397, 460
Bsp143I GATC 1 cut(s) 328
BspACI CCGC 2 cut(s) 99, 203
BspANI GGCC 1 cut(s) 290
BspCNI CTCAG 2 cut(s) 105, 385
BspDI ATCGAT 1 cut(s) 425
BspLI GGNNCC 2 cut(s) 97, 265
BspPI GGATC 1 cut(s) 323
BspTNI GGTCTC 1 cut(s) 109
BsrDI GCAATG 1 cut(s) 291
BsrI ACTGG 1 cut(s) 163
BssMI GATC 1 cut(s) 328
BssNI GRCGYC 1 cut(s) 25
Bst4CI ACNGT 1 cut(s) 211
Bst6I CTCTTC 1 cut(s) 245
BstACI GRCGYC 1 cut(s) 25
BstDEI CTNAG 2 cut(s) 113, 372
BstHHI GCGC 1 cut(s) 166
BstKTI GATC 1 cut(s) 331
BstMAI GTCTC 2 cut(s) 109, 430
BstMBI GATC 1 cut(s) 328
BstMWI GCNNNNNNNGC 2 cut(s) 212, 280
BstSLI GKGCMC 1 cut(s) 174
BstV1I GCAGC 2 cut(s) 113, 261
BstV2I GAAGAC 4 cut(s) 37, 227, 344, 425
Bsu15I ATCGAT 1 cut(s) 425
BsuRI GGCC 1 cut(s) 290
BsuTUI ATCGAT 1 cut(s) 425
BtsIMutI CAGTG 1 cut(s) 156
CfoI GCGC 1 cut(s) 166
Cfr13I GGNCC 1 cut(s) 95
ClaI ATCGAT 1 cut(s) 425
CseI GACGC 1 cut(s) 33
CviAII CATG 3 cut(s) 65, 415, 477
CviJI RGCY 7 cut(s) 5, 104, 266, 290, 366, 395, 458
CviKI_1 RGCY 7 cut(s) 5, 104, 266, 290, 366, 395, 458
DdeI CTNAG 2 cut(s) 113, 372
DpnI GATC 1 cut(s) 330
DpnII GATC 1 cut(s) 328
Eam1104I CTCTTC 1 cut(s) 245
EarI CTCTTC 1 cut(s) 245
Ecl136II GAGCTC 1 cut(s) 458
Eco24I GRGCYC 2 cut(s) 397, 460
Eco31I GGTCTC 1 cut(s) 109
Eco47I GGWCC 1 cut(s) 95
Eco53kI GAGCTC 1 cut(s) 458
Eco88I CYCGRG 1 cut(s) 332
EcoICRI GAGCTC 1 cut(s) 458
EcoO109I RGGNCCY 1 cut(s) 95
EcoRI GAATTC 1 cut(s) 344
EcoT38I GRGCYC 2 cut(s) 397, 460
FaeI CATG 3 cut(s) 68, 418, 480
FaiI YATR 5 cut(s) 66, 312, 327, 416, 478
FatI CATG 3 cut(s) 64, 414, 476
FauI CCCGC 1 cut(s) 106
Fnu4HI GCNGC 3 cut(s) 102, 204, 275
FriOI GRGCYC 2 cut(s) 397, 460
Fsp4HI GCNGC 3 cut(s) 102, 204, 275
FspI TGCGCA 1 cut(s) 165
GlaI GCGC 1 cut(s) 165
GluI GCNGC 3 cut(s) 102, 204, 275
HaeIII GGCC 1 cut(s) 290
HgaI GACGC 1 cut(s) 33
HhaI GCGC 1 cut(s) 166
Hin1I GRCGYC 1 cut(s) 25
Hin1II CATG 3 cut(s) 68, 418, 480
Hin6I GCGC 1 cut(s) 164
HinP1I GCGC 1 cut(s) 164
HincII GTYRAC 1 cut(s) 150
HindII GTYRAC 1 cut(s) 150
Hpy166II GTNNAC 2 cut(s) 88, 150
Hpy188I TCNGA 2 cut(s) 114, 375
Hpy188III TCNNGA 2 cut(s) 332, 448
Hpy8I GTNNAC 2 cut(s) 88, 150
Hpy99I CGWCG 1 cut(s) 211
HpyAV CCTTC 2 cut(s) 38, 214
HpyCH4III ACNGT 1 cut(s) 211
HpyCH4V TGCA 1 cut(s) 283
HpyF10VI GCNNNNNNNGC 2 cut(s) 212, 280
HpyF3I CTNAG 2 cut(s) 113, 372
Hsp92I GRCGYC 1 cut(s) 25
Hsp92II CATG 3 cut(s) 68, 418, 480
HspAI GCGC 1 cut(s) 164
Kzo9I GATC 1 cut(s) 328
LmnI GCTCC 2 cut(s) 263, 463
LpnPI CCDG 3 cut(s) 144, 272, 433
Lsp1109I GCAGC 2 cut(s) 113, 261
LweI GCATC 1 cut(s) 292
MalI GATC 1 cut(s) 330
MboI GATC 1 cut(s) 328
MboII GAAGA 6 cut(s) 37, 227, 232, 246, 349, 430
MhlI GDGCHC 3 cut(s) 174, 397, 460
MluCI AATT 4 cut(s) 77, 122, 344, 443
MnlI CCTC 4 cut(s) 49, 59, 62, 86
MroXI GAANNNNTTC 1 cut(s) 348
MslI CAYNNNNRTG 1 cut(s) 159
MwoI GCNNNNNNNGC 2 cut(s) 212, 280
NdeII GATC 1 cut(s) 328
NlaIII CATG 3 cut(s) 68, 418, 480
NlaIV GGNNCC 2 cut(s) 97, 265
NsbI TGCGCA 1 cut(s) 165
OliI CACNNNNGTG 1 cut(s) 159
PcsI WCGNNNNNNNCGW 1 cut(s) 15
PdmI GAANNNNTTC 1 cut(s) 348
PkrI GCNGC 3 cut(s) 103, 205, 276
PpuMI RGGWCCY 1 cut(s) 95
Psp124BI GAGCTC 1 cut(s) 460
Psp5II RGGWCCY 1 cut(s) 95
PspN4I GGNNCC 2 cut(s) 97, 265
PspPI GGNCC 1 cut(s) 95
PspPPI RGGWCCY 1 cut(s) 95
RseI CAYNNNNRTG 1 cut(s) 159
SacI GAGCTC 1 cut(s) 460
SatI GCNGC 3 cut(s) 102, 204, 275
Sau3AI GATC 1 cut(s) 328
Sau96I GGNCC 1 cut(s) 95
SduI GDGCHC 3 cut(s) 174, 397, 460
SetI ASST 2 cut(s) 368, 460
SfaNI GCATC 1 cut(s) 292
SinI GGWCC 1 cut(s) 95
SmiMI CAYNNNNRTG 1 cut(s) 159
Sse9I AATT 4 cut(s) 77, 122, 344, 443
SsiI CCGC 2 cut(s) 99, 203
SstI GAGCTC 1 cut(s) 460
TaaI ACNGT 1 cut(s) 211
TaqI TCGA 2 cut(s) 126, 425
TasI AATT 4 cut(s) 77, 122, 344, 443
TauI GCSGC 1 cut(s) 206
TscAI CASTG 1 cut(s) 163
TseI GCWGC 2 cut(s) 101, 274
TspDTI ATGAA 5 cut(s) 90, 131, 232, 337, 431
TspGWI ACGGA 1 cut(s) 105
TspRI CASTG 1 cut(s) 163
VpaK11BI GGWCC 1 cut(s) 95
XapI RAATTY 3 cut(s) 77, 122, 344
XmnI GAANNNNTTC 1 cut(s) 348
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.