MD03G1039000.v1.1

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr03
OG0000276
Physical Location & Seq
Forward (+)
3092189 .. 3092942
754 bp
Loading structure...
UTR
Exon/CDS
Intron
MD03G1039000.v1.1.491

Sequence Viewer

Length: 363 bp
ATGGTGCAGCAAAAGATAGTTGTGAAGGTGCACTTGAGCTCTGAAAAACACAGAACCAAGGCGTTGAAGATTGCTGCAGTCGCTAAAGGCGTGAGCAAAGTGTCGATAGATGCGGAGAAAGAGCAGCTGGAGGTGATTGGAGATGGAGTTGATTCCATGAGATTGACCATGTCGTTGAGGAAGAAGCTTGGCCATGCCACCATACAAAGTGTTGAAGAAGTTAAAGGTAAAACCGACGAGAAAAAGCCAACTACTTATCCAATAACTTGGACATCAAGCTATATCCAATATCCACAACATCCTCCACACTATCACGTAGTTCATGATCAATATCCACAAGAAACGAAGTGTTCTATTATGTAA
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
HMA

Protein Analysis

121

Amino Acids

13.58

Weight (kDa)

9.3

Isoelectric Point (pI)

31.32

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000276)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G05030 AT4G05030
fragaria_vesca FvH4_3g24080 FvH4_3g24080 FvH4_3g24100 FvH4_3g24100 FvH4_3g42050 FvH4_3g42060 FvH4_3g42070 FvH4_3g42071 FvH4_3g42080 FvH4_3g42090 FvH4_3g42100 FvH4_3g42110
malus_domestica MD03G1038100.v1.1 MD03G1038400.v1.1 MD03G1038600.v1.1 MD03G1038900.v1.1 MD03G1039000.v1.1 MD03G1039100.v1.1 MD03G1188500.v1.1 MD10G1233100.v1.1 MD10G1233300.v1.1 MD10G1341200.v1.1 MD11G1039200.v1.1 MD11G1039300.v1.1 MD11G1204400.v1.1 MD11G1204600.v1.1
prunus_persica Prupe.2G123900_v2.0.a1 Prupe.4G001900_v2.0.a1 Prupe.4G234700_v2.0.a1 Prupe.4G234800_v2.0.a1 Prupe.6G025900_v2.0.a1 Prupe.6G030200_v2.0.a1 Prupe.6G030300_v2.0.a1 Prupe.6G030400_v2.0.a1 Prupe.6G030600_v2.0.a1 Prupe.6G030900_v2.0.a1 Prupe.6G031000_v2.0.a1 Prupe.6G031100_v2.0.a1 Prupe.6G031100_v2.0.a1
pyrus_communis pycom03g02940 pycom03g02950 pycom03g02980 pycom03g02990 pycom03g03010 pycom11g03310 pycom11g03320
rosa_chinensis RchiOBHm_Chr3g0484311 RchiOBHm_Chr5g0000231 RchiOBHm_Chr5g0042661 RchiOBHm_Chr5g0042671 RchiOBHm_Chr5g0075281 RchiOBHm_Chr5g0075291 RchiOBHm_Chr5g0075321 RchiOBHm_Chr5g0075331
rosa_laevigata RLG00000034149 RLG00000036545 RLG00000036546 RLG00000036547 RLG00000036548 RLG00000036549 RLG00000036550
rosa_multiflora Rmu_sc0000295.1_g000011 Rmu_sc0000770.1_g000041 Rmu_sc0000770.1_g000049 Rmu_sc0002564.1_g000002 Rmu_sc0002564.1_g000003 Rmu_sc0002564.1_g000016
rosa_roxburghii Rroxscaffold_1G00006200 Rroxscaffold_1G00006210 Rroxscaffold_1G00006220 Rroxscaffold_1G00006250 Rroxscaffold_1G00006270 Rroxscaffold_1G00037900 Rroxscaffold_1G00037980 Rroxscaffold_6G00397790
rosa_rugosa Rorug03G0210600 Rorug05G0203800 Rorug05G0203900 Rorug05G0438100 Rorug05G0438200 Rorug05G0438700 Rorug05G0438900 Rorug05G0438900
rosa_samantha Rh3AG259700 Rh3AG259800 Rh3BG296300 Rh3DG289900 Rh5AG001600 Rh5AG288900 Rh5AG289000 Rh5AG289200 Rh5AG494800 Rh5AG495000 Rh5AG495200 Rh5AG495300 Rh5BG293000 Rh5BG293100 Rh5BG293300 Rh5BG516400 Rh5BG516500 Rh5BG516900 Rh5BG517000 Rh5CG001900 Rh5CG325700 Rh5CG325900 Rh5CG326000 Rh5CG540200 Rh5CG540300 Rh5CG540500 Rh5CG540600 Rh5DG001900 Rh5DG302900 Rh5DG303000 Rh5DG303200 Rh5DG529100 Rh5DG529300 Rh5DG529400 Rh5DG532500
rosa_wichuraiana Rw3G023420 Rw3G023430 Rw5G000210 Rw5G026800 Rw5G045910 Rw5G045920 Rw5G045930 Rw5G045940 Rw5G045950

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 113
AcoI YGGCCR 1 cut(s) 190
AgsI TTSAA 2 cut(s) 67, 215
AluBI AGCT 4 cut(s) 39, 127, 187, 279
AluI AGCT 4 cut(s) 39, 127, 187, 279
Alw21I GWGCWC 2 cut(s) 33, 41
Alw44I GTGCAC 1 cut(s) 29
AoxI GGCC 1 cut(s) 190
ApaLI GTGCAC 1 cut(s) 29
ApeKI GCWGC 3 cut(s) 7, 74, 124
AsuHPI GGTGA 1 cut(s) 145
BaeGI GKGCMC 1 cut(s) 33
BalI TGGCCA 1 cut(s) 192
BanII GRGCYC 1 cut(s) 41
Bbv12I GWGCWC 2 cut(s) 33, 41
BbvI GCAGC 3 cut(s) 19, 61, 136
BccI CCATC 1 cut(s) 137
BclI TGATCA 1 cut(s) 325
BfmI CTRYAG 1 cut(s) 75
BisI GCNGC 3 cut(s) 8, 75, 125
BlsI GCNGC 3 cut(s) 9, 76, 126
BmsI GCATC 1 cut(s) 100
BpmI CTGGAG 1 cut(s) 149
BpuEI CTTGAG 1 cut(s) 55
BsaAI YACGTR 1 cut(s) 316
BsaBI GATNNNNATC 1 cut(s) 330
BsaJI CCNNGG 1 cut(s) 57
BsaXI ACNNNNNCTCC 2 cut(s) 132, 162
Bse8I GATNNNNATC 1 cut(s) 330
BseDI CCNNGG 1 cut(s) 57
BseGI GGATG 1 cut(s) 298
BseJI GATNNNNATC 1 cut(s) 330
BseSI GKGCMC 1 cut(s) 33
BseXI GCAGC 3 cut(s) 19, 61, 136
BsgI GTGCAG 1 cut(s) 26
BshFI GGCC 1 cut(s) 192
BsiHKAI GWGCWC 2 cut(s) 33, 41
BsnI GGCC 1 cut(s) 192
Bsp1286I GDGCHC 2 cut(s) 33, 41
Bsp143I GATC 1 cut(s) 325
BspACI CCGC 1 cut(s) 113
BspANI GGCC 1 cut(s) 192
BspHI TCATGA 1 cut(s) 322
BspMAI CTGCAG 1 cut(s) 79
BssECI CCNNGG 1 cut(s) 57
BssMI GATC 1 cut(s) 325
BssT1I CCWWGG 1 cut(s) 57
BstBAI YACGTR 1 cut(s) 316
BstF5I GGATG 1 cut(s) 298
BstKTI GATC 1 cut(s) 328
BstMBI GATC 1 cut(s) 325
BstMWI GCNNNNNNNGC 1 cut(s) 80
BstSFI CTRYAG 1 cut(s) 75
BstSLI GKGCMC 1 cut(s) 33
BstV1I GCAGC 3 cut(s) 19, 61, 136
BstXI CCANNNNNNTGG 1 cut(s) 267
BsuRI GGCC 1 cut(s) 192
BtsCI GGATG 1 cut(s) 298
CciI TCATGA 1 cut(s) 322
CviAII CATG 4 cut(s) 157, 169, 194, 323
CviJI RGCY 6 cut(s) 39, 127, 187, 192, 247, 279
CviKI_1 RGCY 6 cut(s) 39, 127, 187, 192, 247, 279
DpnI GATC 1 cut(s) 327
DpnII GATC 1 cut(s) 325
EaeI YGGCCR 1 cut(s) 190
Ecl136II GAGCTC 1 cut(s) 39
Eco130I CCWWGG 1 cut(s) 57
Eco24I GRGCYC 1 cut(s) 41
Eco53kI GAGCTC 1 cut(s) 39
EcoICRI GAGCTC 1 cut(s) 39
EcoT14I CCWWGG 1 cut(s) 57
EcoT38I GRGCYC 1 cut(s) 41
ErhI CCWWGG 1 cut(s) 57
FaeI CATG 4 cut(s) 160, 172, 197, 326
FaiI YATR 7 cut(s) 158, 170, 195, 203, 282, 324, 359
FalI AAGNNNNNCTT 2 cut(s) 17, 49
FatI CATG 4 cut(s) 156, 168, 193, 322
FbaI TGATCA 1 cut(s) 325
Fnu4HI GCNGC 3 cut(s) 8, 75, 125
FokI GGATG 1 cut(s) 285
FriOI GRGCYC 1 cut(s) 41
Fsp4HI GCNGC 3 cut(s) 8, 75, 125
GluI GCNGC 3 cut(s) 8, 75, 125
GsuI CTGGAG 1 cut(s) 149
HaeIII GGCC 1 cut(s) 192
Hin1II CATG 4 cut(s) 160, 172, 197, 326
HindIII AAGCTT 1 cut(s) 185
HinfI GANTC 1 cut(s) 152
HphI GGTGA 1 cut(s) 145
Hpy166II GTNNAC 1 cut(s) 31
Hpy188I TCNGA 1 cut(s) 43
Hpy188III TCNNGA 1 cut(s) 323
Hpy8I GTNNAC 1 cut(s) 31
Hpy99I CGWCG 1 cut(s) 239
HpyAV CCTTC 1 cut(s) 19
HpyCH4IV ACGT 1 cut(s) 315
HpyCH4V TGCA 3 cut(s) 7, 31, 77
HpyF10VI GCNNNNNNNGC 1 cut(s) 80
HpySE526I ACGT 1 cut(s) 315
Hsp92II CATG 4 cut(s) 160, 172, 197, 326
Ksp22I TGATCA 1 cut(s) 325
Kzo9I GATC 1 cut(s) 325
LpnPI CCDG 1 cut(s) 113
Lsp1109I GCAGC 3 cut(s) 19, 61, 136
LweI GCATC 1 cut(s) 100
MaeII ACGT 1 cut(s) 315
MalI GATC 1 cut(s) 327
MboI GATC 1 cut(s) 325
MboII GAAGA 3 cut(s) 79, 193, 227
MhlI GDGCHC 2 cut(s) 33, 41
MlsI TGGCCA 1 cut(s) 192
MluNI TGGCCA 1 cut(s) 192
MnlI CCTC 3 cut(s) 124, 171, 312
Mox20I TGGCCA 1 cut(s) 192
MscI TGGCCA 1 cut(s) 192
MseI TTAA 1 cut(s) 222
Msp20I TGGCCA 1 cut(s) 192
MspA1I CMGCKG 1 cut(s) 127
MwoI GCNNNNNNNGC 1 cut(s) 80
NdeII GATC 1 cut(s) 325
NlaIII CATG 4 cut(s) 160, 172, 197, 326
PagI TCATGA 1 cut(s) 322
PcsI WCGNNNNNNNCGW 1 cut(s) 87
PfeI GAWTC 1 cut(s) 152
PflFI GACNNNGTC 1 cut(s) 169
PkrI GCNGC 3 cut(s) 9, 76, 126
Ppu21I YACGTR 1 cut(s) 316
Psp124BI GAGCTC 1 cut(s) 41
PstI CTGCAG 1 cut(s) 79
PsyI GACNNNGTC 1 cut(s) 169
PvuII CAGCTG 1 cut(s) 127
SacI GAGCTC 1 cut(s) 41
SaqAI TTAA 1 cut(s) 222
SatI GCNGC 3 cut(s) 8, 75, 125
Sau3AI GATC 1 cut(s) 325
SduI GDGCHC 2 cut(s) 33, 41
SetI ASST 8 cut(s) 30, 41, 129, 135, 189, 229, 281, 318
SfaNI GCATC 1 cut(s) 100
SfcI CTRYAG 1 cut(s) 75
SmlI CTYRAG 1 cut(s) 34
SmoI CTYRAG 1 cut(s) 34
SsiI CCGC 1 cut(s) 113
SstI GAGCTC 1 cut(s) 41
StyI CCWWGG 1 cut(s) 57
TaiI ACGT 1 cut(s) 318
TaqI TCGA 1 cut(s) 104
TfiI GAWTC 1 cut(s) 152
Tru1I TTAA 1 cut(s) 222
Tru9I TTAA 1 cut(s) 222
TseI GCWGC 3 cut(s) 7, 74, 124
TspDTI ATGAA 1 cut(s) 311
Tth111I GACNNNGTC 1 cut(s) 169
VneI GTGCAC 1 cut(s) 29
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.