MD09G1232100.v1.1

isoform X1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr09
OG0007601
Physical Location & Seq
Reverse (-)
28817733 .. 28821857
4125 bp
Loading structure...
UTR
Exon/CDS
Intron
MD09G1232100.v1.1.491

Sequence Viewer

Length: 480 bp
ATGCATGGGAGCAGTGGTTGTCTAGCATGCCATAGTAAGACCGCACTGAAAACTTCAGTGAATGAGCCACCGAAAGGGTTATTAAACGAAGGTCGGACTGTAAAGAAACCAAGCATATCAGAGGATTTTTGGACCACCAGCACGTGGGATATGGACAACAGTGCAGTTCAGTCCAAGGGAAGCATCTTATCAATCAGCACAAACCAGACCCTTGATCTGCATGGTGGCTCTGGCAGCAGTAGCACCCCTGCCGAATTTGTAAATCATGGTCTTCTTCTGTGGAGCCAGACTAGGCACCTTTGGGTAGGGAATAAAAAGTCTGAGAGCCCGTCAAAGAAAATTCGAGAACCCAAATTAGGTTGGAATGCGTCGTATGAAAGTTTACTTGGGAGTACAAAGCCTTTCCCTCAGCCTATTCCTCTCCCAGAAATGGTAGATTTTCTCGTGGATATTTGGGAGCAAGAAGGGTTGTACGATTGA
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
DUF4050

Protein Analysis

160

Amino Acids

17.46

Weight (kDa)

6.2

Isoelectric Point (pI)

49.38

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
clamp_Gag1-like PF13259 49 - 159 7.3e-23 Gag1-like, clamp domain
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) 294
AccB7I CCANNNNNTGG 1 cut(s) 144
AciI CCGC 1 cut(s) 42
AcsI RAATTY 2 cut(s) 254, 339
AcuI CTGAAG 1 cut(s) 39
AcvI CACGTG 1 cut(s) 144
AfaI GTAC 2 cut(s) 394, 473
AfiI CCNNNNNNNGG 4 cut(s) 74, 144, 356, 430
AjuI GAANNNNNNNTTGG 2 cut(s) 369, 401
ApeKI GCWGC 1 cut(s) 234
ApoI RAATTY 2 cut(s) 254, 339
AspS9I GGNCC 1 cut(s) 132
AvaII GGWCC 1 cut(s) 132
BanI GGYRCC 1 cut(s) 294
BanII GRGCYC 1 cut(s) 329
BauI CACGAG 1 cut(s) 443
BbrPI CACGTG 1 cut(s) 144
BbsI GAAGAC 1 cut(s) 263
BbvCI CCTCAGC 1 cut(s) 408
BbvI GCAGC 1 cut(s) 246
BfaI CTAG 2 cut(s) 23, 291
BisI GCNGC 1 cut(s) 235
BlsI GCNGC 1 cut(s) 236
Bme18I GGWCC 1 cut(s) 132
BmgT120I GGNCC 1 cut(s) 132
BmiI GGNNCC 2 cut(s) 284, 296
BmsI GCATC 1 cut(s) 192
BpiI GAAGAC 1 cut(s) 263
Bpu10I CCTNAGC 1 cut(s) 408
BsaAI YACGTR 1 cut(s) 144
BsaJI CCNNGG 1 cut(s) 174
BsaXI ACNNNNNCTCC 1 cut(s) 31
Bsc4I CCNNNNNNNGG 4 cut(s) 74, 144, 356, 430
BseDI CCNNGG 1 cut(s) 174
BseLI CCNNNNNNNGG 4 cut(s) 74, 144, 356, 430
BseMII CTCAG 2 cut(s) 312, 422
BseXI GCAGC 1 cut(s) 246
BsgI GTGCAG 1 cut(s) 183
BshNI GGYRCC 1 cut(s) 294
BslI CCNNNNNNNGG 4 cut(s) 74, 144, 356, 430
BsmI GAATGC 1 cut(s) 370
Bsp1286I GDGCHC 1 cut(s) 329
Bsp143I GATC 1 cut(s) 214
BspACI CCGC 1 cut(s) 42
BspCNI CTCAG 2 cut(s) 313, 421
BspLI GGNNCC 2 cut(s) 284, 296
BspT107I GGYRCC 1 cut(s) 294
BssECI CCNNGG 1 cut(s) 174
BssMI GATC 1 cut(s) 214
BssSI CACGAG 1 cut(s) 443
BssT1I CCWWGG 1 cut(s) 174
Bst2BI CACGAG 1 cut(s) 443
Bst4CI ACNGT 2 cut(s) 100, 161
BstBAI YACGTR 1 cut(s) 144
BstC8I GCNNGC 1 cut(s) 28
BstDEI CTNAG 2 cut(s) 321, 408
BstKTI GATC 1 cut(s) 217
BstMBI GATC 1 cut(s) 214
BstMWI GCNNNNNNNGC 2 cut(s) 234, 240
BstNSI RCATGY 1 cut(s) 30
BstV1I GCAGC 1 cut(s) 246
BstV2I GAAGAC 1 cut(s) 263
BtsI GCAGTG 1 cut(s) 19
BtsIMutI CAGTG 4 cut(s) 19, 44, 63, 166
Cac8I GCNNGC 1 cut(s) 28
Cfr13I GGNCC 1 cut(s) 132
CseI GACGC 1 cut(s) 357
Csp6I GTAC 2 cut(s) 393, 472
CviAII CATG 4 cut(s) 5, 27, 221, 266
CviJI RGCY 6 cut(s) 67, 228, 285, 327, 400, 412
CviKI_1 RGCY 6 cut(s) 67, 228, 285, 327, 400, 412
CviQI GTAC 2 cut(s) 393, 472
DdeI CTNAG 2 cut(s) 321, 408
DpnI GATC 1 cut(s) 216
DpnII GATC 1 cut(s) 214
Eco130I CCWWGG 1 cut(s) 174
Eco24I GRGCYC 1 cut(s) 329
Eco47I GGWCC 1 cut(s) 132
Eco57I CTGAAG 1 cut(s) 39
Eco72I CACGTG 1 cut(s) 144
EcoT14I CCWWGG 1 cut(s) 174
EcoT22I ATGCAT 1 cut(s) 6
EcoT38I GRGCYC 1 cut(s) 329
ErhI CCWWGG 1 cut(s) 174
FaeI CATG 4 cut(s) 8, 30, 224, 269
FaiI YATR 8 cut(s) 6, 28, 33, 116, 152, 222, 267, 375
FatI CATG 4 cut(s) 4, 26, 220, 265
Fnu4HI GCNGC 1 cut(s) 235
FriOI GRGCYC 1 cut(s) 329
Fsp4HI GCNGC 1 cut(s) 235
FspBI CTAG 2 cut(s) 23, 291
GluI GCNGC 1 cut(s) 235
HgaI GACGC 1 cut(s) 357
Hin1II CATG 4 cut(s) 8, 30, 224, 269
Hpy166II GTNNAC 1 cut(s) 383
Hpy188I TCNGA 3 cut(s) 96, 121, 322
Hpy188III TCNNGA 1 cut(s) 344
Hpy8I GTNNAC 1 cut(s) 383
Hpy99I CGWCG 1 cut(s) 373
HpyAV CCTTC 2 cut(s) 83, 458
HpyCH4III ACNGT 2 cut(s) 100, 161
HpyCH4IV ACGT 1 cut(s) 143
HpyCH4V TGCA 3 cut(s) 4, 164, 220
HpyF10VI GCNNNNNNNGC 2 cut(s) 234, 240
HpyF3I CTNAG 2 cut(s) 321, 408
HpySE526I ACGT 1 cut(s) 143
Hsp92II CATG 4 cut(s) 8, 30, 224, 269
Kzo9I GATC 1 cut(s) 214
LmnI GCTCC 3 cut(s) 9, 282, 457
LpnPI CCDG 6 cut(s) 151, 216, 218, 261, 299, 438
Lsp1109I GCAGC 1 cut(s) 246
LweI GCATC 1 cut(s) 192
MaeI CTAG 2 cut(s) 23, 291
MaeII ACGT 1 cut(s) 143
MalI GATC 1 cut(s) 216
MboI GATC 1 cut(s) 214
MboII GAAGA 2 cut(s) 263, 266
MhlI GDGCHC 1 cut(s) 329
MluCI AATT 3 cut(s) 254, 339, 353
MmeI TCCRAC 2 cut(s) 74, 341
MnlI CCTC 3 cut(s) 115, 417, 429
Mph1103I ATGCAT 1 cut(s) 6
MseI TTAA 1 cut(s) 83
Mva1269I GAATGC 1 cut(s) 370
MwoI GCNNNNNNNGC 2 cut(s) 234, 240
NdeII GATC 1 cut(s) 214
NlaIII CATG 4 cut(s) 8, 30, 224, 269
NlaIV GGNNCC 2 cut(s) 284, 296
NsiI ATGCAT 1 cut(s) 6
NspI RCATGY 1 cut(s) 30
PaeI GCATGC 1 cut(s) 30
PctI GAATGC 1 cut(s) 370
PflMI CCANNNNNTGG 1 cut(s) 144
PkrI GCNGC 1 cut(s) 236
PmaCI CACGTG 1 cut(s) 144
PmlI CACGTG 1 cut(s) 144
Ppu21I YACGTR 1 cut(s) 144
PspCI CACGTG 1 cut(s) 144
PspN4I GGNNCC 2 cut(s) 284, 296
PspPI GGNCC 1 cut(s) 132
RsaI GTAC 2 cut(s) 394, 473
RsaNI GTAC 2 cut(s) 393, 472
SaqAI TTAA 1 cut(s) 83
SatI GCNGC 1 cut(s) 235
Sau3AI GATC 1 cut(s) 214
Sau96I GGNCC 1 cut(s) 132
SduI GDGCHC 1 cut(s) 329
SetI ASST 4 cut(s) 94, 146, 300, 361
SfaNI GCATC 1 cut(s) 192
SinI GGWCC 1 cut(s) 132
SphI GCATGC 1 cut(s) 30
Sse9I AATT 3 cut(s) 254, 339, 353
SsiI CCGC 1 cut(s) 42
SspMI CTAG 2 cut(s) 23, 291
StyI CCWWGG 1 cut(s) 174
TaaI ACNGT 2 cut(s) 100, 161
TaiI ACGT 1 cut(s) 146
TaqI TCGA 1 cut(s) 343
TasI AATT 3 cut(s) 254, 339, 353
TatI WGTACW 1 cut(s) 392
Tru1I TTAA 1 cut(s) 83
Tru9I TTAA 1 cut(s) 83
TscAI CASTG 4 cut(s) 19, 51, 63, 166
TseI GCWGC 1 cut(s) 234
TspDTI ATGAA 1 cut(s) 390
TspRI CASTG 4 cut(s) 19, 51, 63, 166
Van91I CCANNNNNTGG 1 cut(s) 144
VpaK11BI GGWCC 1 cut(s) 132
XapI RAATTY 2 cut(s) 254, 339
XceI RCATGY 1 cut(s) 30
XspI CTAG 2 cut(s) 23, 291
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.