MD04G1206700.v1.1

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr04
OG0005399
Physical Location & Seq
Reverse (-)
29231223 .. 29232421
1199 bp
Loading structure...
UTR
Exon/CDS
Intron
MD04G1206700.v1.1.491

Sequence Viewer

Length: 600 bp
ATGGCTTCCCTCATCGAACTTAGCTGCTTCTTCTTTGTGATTGCTCATTCCCTTCTCTTGCTTTCTCCGTTGGTGCAGGGTGCTGATAAGGATGAGGACAACCTTCTCCAAGGCATTAACAGTTACAGAACCTCACTAAACCTGCCCGCCCTCGTCAAGAACGGTAATGCAGGCTGCTTAGCAGAGCAAATTGCTGATGACATGGAAGACCAGCCTTGCAGCAGTCCCACCAACGGAGCCAACATTCTGGCAACCACGCCGACTCCGCTTGCCAATCTTCCCAAGCACTTGAGTAAGTGCAAAATCGATGCCAACAGCACATCAGCCGGAGTTATTCTCCCTATTTGTGTGCCTCATTTGGTCCCAACTCTGGTGCTTACCAATTATACTCACCGACCGCAGTTCGCAGAGTGTCTGAACGATTCGAAGTTCACTGGAGTTGGGCTTGGATCCGAGGATGATTGGATGGTGGTGGTTTTGGCCACAAATAACCCAGCTGGAAGCTTCGCTAATGCAGCAAGCTCGTTAGTTTCAACTGTTGGTTTTGGTCGTTTCTTGGTCACCTTTTTGCTAGGGTTGTGTTTTATCTTGGTTAGCTGA
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
Retrotran_gag_2 Retrotran_gag_3 rve

Protein Analysis

200

Amino Acids

21.04

Weight (kDa)

4.82

Isoelectric Point (pI)

36.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
At5g19230 PF25884 32 - 160 4.1e-51 Uncharacterized GPI-anchored protein At5g19230-like domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 150
AciI CCGC 3 cut(s) 147, 266, 398
AclWI GGATC 2 cut(s) 444, 457
AcoI YGGCCR 1 cut(s) 480
AfiI CCNNNNNNNGG 2 cut(s) 233, 370
AgsI TTSAA 1 cut(s) 534
AluBI AGCT 5 cut(s) 24, 497, 504, 522, 597
AluI AGCT 5 cut(s) 24, 497, 504, 522, 597
AlwI GGATC 2 cut(s) 444, 457
AoxI GGCC 1 cut(s) 480
ApeKI GCWGC 4 cut(s) 24, 174, 219, 515
AspS9I GGNCC 1 cut(s) 361
AsuHPI GGTGA 2 cut(s) 383, 553
AsuII TTCGAA 1 cut(s) 425
AvaII GGWCC 1 cut(s) 361
BalI TGGCCA 1 cut(s) 482
BamHI GGATCC 1 cut(s) 449
BbsI GAAGAC 1 cut(s) 213
BbvI GCAGC 4 cut(s) 11, 161, 231, 527
BccI CCATC 1 cut(s) 460
BcgI CGANNNNNNTGC 2 cut(s) 504, 538
BfaI CTAG 1 cut(s) 572
BfuAI ACCTGC 1 cut(s) 150
BisI GCNGC 4 cut(s) 25, 175, 220, 516
BlpI GCTNAGC 1 cut(s) 178
BlsI GCNGC 4 cut(s) 26, 176, 221, 517
Bme18I GGWCC 1 cut(s) 361
BmgT120I GGNCC 1 cut(s) 361
BmiI GGNNCC 3 cut(s) 238, 363, 451
BmsI GCATC 1 cut(s) 298
BpiI GAAGAC 1 cut(s) 213
BplI GAGNNNNNCTC 2 cut(s) 321, 353
BpmI CTGGAG 1 cut(s) 456
Bpu1102I GCTNAGC 1 cut(s) 178
Bpu14I TTCGAA 1 cut(s) 425
BpuEI CTTGAG 1 cut(s) 310
Bsa29I ATCGAT 1 cut(s) 306
BsaJI CCNNGG 2 cut(s) 109, 453
BsaXI ACNNNNNCTCC 2 cut(s) 247, 277
Bsc4I CCNNNNNNNGG 2 cut(s) 233, 370
Bse1I ACTGG 1 cut(s) 439
BseCI ATCGAT 1 cut(s) 306
BseDI CCNNGG 2 cut(s) 109, 453
BseGI GGATG 3 cut(s) 97, 463, 471
BseLI CCNNNNNNNGG 2 cut(s) 233, 370
BseNI ACTGG 1 cut(s) 439
BseXI GCAGC 4 cut(s) 11, 161, 231, 527
BseYI CCCAGC 1 cut(s) 493
BsgI GTGCAG 1 cut(s) 95
Bsh1285I CGRYCG 1 cut(s) 398
BshFI GGCC 1 cut(s) 482
BshVI ATCGAT 1 cut(s) 306
BsiEI CGRYCG 1 cut(s) 398
BsiSI CCGG 1 cut(s) 327
BslFI GGGAC 2 cut(s) 210, 347
BslI CCNNNNNNNGG 2 cut(s) 233, 370
BsmFI GGGAC 2 cut(s) 210, 347
BsnI GGCC 1 cut(s) 482
Bsp119I TTCGAA 1 cut(s) 425
Bsp143I GATC 1 cut(s) 449
Bsp1720I GCTNAGC 1 cut(s) 178
BspACI CCGC 3 cut(s) 147, 266, 398
BspANI GGCC 1 cut(s) 482
BspDI ATCGAT 1 cut(s) 306
BspLI GGNNCC 3 cut(s) 238, 363, 451
BspMI ACCTGC 1 cut(s) 150
BspPI GGATC 2 cut(s) 444, 457
BspT104I TTCGAA 1 cut(s) 425
BsrI ACTGG 1 cut(s) 439
BssECI CCNNGG 2 cut(s) 109, 453
BssMI GATC 1 cut(s) 449
BssT1I CCWWGG 1 cut(s) 109
Bst4CI ACNGT 3 cut(s) 122, 164, 538
BstBI TTCGAA 1 cut(s) 425
BstC8I GCNNGC 4 cut(s) 147, 172, 270, 520
BstDEI CTNAG 2 cut(s) 20, 178
BstEII GGTNACC 1 cut(s) 559
BstF5I GGATG 3 cut(s) 97, 463, 471
BstKTI GATC 1 cut(s) 452
BstMBI GATC 1 cut(s) 449
BstMCI CGRYCG 1 cut(s) 398
BstMWI GCNNNNNNNGC 2 cut(s) 265, 515
BstPI GGTNACC 1 cut(s) 559
BstV1I GCAGC 4 cut(s) 11, 161, 231, 527
BstV2I GAAGAC 1 cut(s) 213
BstX2I RGATCY 1 cut(s) 449
BstXI CCANNNNNNTGG 1 cut(s) 247
BstYI RGATCY 1 cut(s) 449
Bsu15I ATCGAT 1 cut(s) 306
BsuRI GGCC 1 cut(s) 482
BsuTUI ATCGAT 1 cut(s) 306
BtsCI GGATG 3 cut(s) 97, 463, 471
BtsIMutI CAGTG 1 cut(s) 432
BveI ACCTGC 1 cut(s) 150
Cac8I GCNNGC 4 cut(s) 147, 172, 270, 520
Cfr13I GGNCC 1 cut(s) 361
ClaI ATCGAT 1 cut(s) 306
CviAII CATG 1 cut(s) 202
DdeI CTNAG 2 cut(s) 20, 178
DpnI GATC 1 cut(s) 451
DpnII GATC 1 cut(s) 449
EaeI YGGCCR 1 cut(s) 480
Eco130I CCWWGG 1 cut(s) 109
Eco47I GGWCC 1 cut(s) 361
Eco91I GGTNACC 1 cut(s) 559
EcoO65I GGTNACC 1 cut(s) 559
EcoT14I CCWWGG 1 cut(s) 109
ErhI CCWWGG 1 cut(s) 109
FaeI CATG 1 cut(s) 205
FaiI YATR 2 cut(s) 203, 387
FaqI GGGAC 2 cut(s) 210, 347
FatI CATG 1 cut(s) 201
FauI CCCGC 1 cut(s) 154
Fnu4HI GCNGC 4 cut(s) 25, 175, 220, 516
FokI GGATG 3 cut(s) 104, 470, 478
Fsp4HI GCNGC 4 cut(s) 25, 175, 220, 516
FspBI CTAG 1 cut(s) 572
GluI GCNGC 4 cut(s) 25, 175, 220, 516
GsaI CCCAGC 1 cut(s) 497
GsuI CTGGAG 1 cut(s) 456
HaeIII GGCC 1 cut(s) 482
HapII CCGG 1 cut(s) 327
Hin1II CATG 1 cut(s) 205
HindIII AAGCTT 1 cut(s) 502
HinfI GANTC 2 cut(s) 262, 422
HpaII CCGG 1 cut(s) 327
HphI GGTGA 2 cut(s) 383, 553
Hpy166II GTNNAC 1 cut(s) 432
Hpy188I TCNGA 2 cut(s) 417, 454
Hpy188III TCNNGA 1 cut(s) 157
Hpy8I GTNNAC 1 cut(s) 432
HpyAV CCTTC 2 cut(s) 62, 113
HpyCH4III ACNGT 3 cut(s) 122, 164, 538
HpyCH4V TGCA 5 cut(s) 76, 170, 219, 300, 515
HpyF10VI GCNNNNNNNGC 2 cut(s) 265, 515
HpyF3I CTNAG 2 cut(s) 20, 178
Hsp92II CATG 1 cut(s) 205
Kzo9I GATC 1 cut(s) 449
LmnI GCTCC 1 cut(s) 236
Lsp1109I GCAGC 4 cut(s) 11, 161, 231, 527
LweI GCATC 1 cut(s) 298
MaeI CTAG 1 cut(s) 572
MaeIII GTNAC 2 cut(s) 122, 559
MalI GATC 1 cut(s) 451
MboI GATC 1 cut(s) 449
MboII GAAGA 3 cut(s) 22, 218, 269
MflI RGATCY 1 cut(s) 449
MlsI TGGCCA 1 cut(s) 482
MluCI AATT 2 cut(s) 189, 382
MluNI TGGCCA 1 cut(s) 482
MlyI GAGTC 1 cut(s) 256
MnlI CCTC 6 cut(s) 20, 88, 142, 161, 363, 448
Mox20I TGGCCA 1 cut(s) 482
MscI TGGCCA 1 cut(s) 482
MseI TTAA 1 cut(s) 117
Msp20I TGGCCA 1 cut(s) 482
MspA1I CMGCKG 1 cut(s) 497
MspI CCGG 1 cut(s) 327
MwoI GCNNNNNNNGC 2 cut(s) 265, 515
NdeII GATC 1 cut(s) 449
NlaIII CATG 1 cut(s) 205
NlaIV GGNNCC 3 cut(s) 238, 363, 451
NmuCI GTSAC 1 cut(s) 559
NspV TTCGAA 1 cut(s) 425
PfeI GAWTC 1 cut(s) 422
PkrI GCNGC 4 cut(s) 26, 176, 221, 517
PleI GAGTC 1 cut(s) 256
PpsI GAGTC 1 cut(s) 256
PspEI GGTNACC 1 cut(s) 559
PspFI CCCAGC 1 cut(s) 493
PspN4I GGNNCC 3 cut(s) 238, 363, 451
PspPI GGNCC 1 cut(s) 361
PsuI RGATCY 1 cut(s) 449
PvuII CAGCTG 1 cut(s) 497
SaqAI TTAA 1 cut(s) 117
SatI GCNGC 4 cut(s) 25, 175, 220, 516
Sau3AI GATC 1 cut(s) 449
Sau96I GGNCC 1 cut(s) 361
SchI GAGTC 1 cut(s) 256
SetI ASST 9 cut(s) 26, 105, 134, 144, 499, 506, 524, 566, 599
SfaNI GCATC 1 cut(s) 298
SfuI TTCGAA 1 cut(s) 425
SinI GGWCC 1 cut(s) 361
SmlI CTYRAG 1 cut(s) 289
SmoI CTYRAG 1 cut(s) 289
Sse9I AATT 2 cut(s) 189, 382
SsiI CCGC 3 cut(s) 147, 266, 398
SspMI CTAG 1 cut(s) 572
StyI CCWWGG 1 cut(s) 109
TaaI ACNGT 3 cut(s) 122, 164, 538
TaqI TCGA 3 cut(s) 15, 306, 425
TasI AATT 2 cut(s) 189, 382
TfiI GAWTC 1 cut(s) 422
Tru1I TTAA 1 cut(s) 117
Tru9I TTAA 1 cut(s) 117
TscAI CASTG 1 cut(s) 439
TseFI GTSAC 1 cut(s) 559
TseI GCWGC 4 cut(s) 24, 174, 219, 515
Tsp45I GTSAC 1 cut(s) 559
TspGWI ACGGA 2 cut(s) 57, 249
TspRI CASTG 1 cut(s) 439
VpaK11BI GGWCC 1 cut(s) 361
XspI CTAG 1 cut(s) 572
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.