MD03G1039100.v1.1

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr03
OG0000276
Physical Location & Seq
Forward (+)
3111071 .. 3112088
1018 bp
Loading structure...
UTR
Exon/CDS
Intron
MD03G1039100.v1.1.491

Sequence Viewer

Length: 348 bp
ATGAAGCAAAAGATAGTCGTGAAGGTGCAGCTGAACTGCGAGAAATGCAGAACCAAGGCCTTGAAGATTGCTGCAGTTGCCAAAGGTGTGAGCACAGTGTCCATAGAAGTAGAGAAAGAGCATGTGGTGGTGATCGGAGACGGAGTTGATGCCGTTGACTTGGCTAAATCATTGAAGAAGAAGTTTGGCTTTGCCACCATAATAAGTGTTGAAGAAGTGGGAAAACCGGAAGAAGTGGAAAAACCGGAAGAACAGCCAGCTGAGCCAATTCAGTGGTCATCAAGCTATATTAACTATCCACAGTATCCAGCTGTGCAGTACTACTATGATGGATTCTACAGATGGTAA
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

116

Amino Acids

12.98

Weight (kDa)

6.59

Isoelectric Point (pI)

40.37

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)
AfaI GTAC 1 cut(s) 320
AgsI TTSAA 3 cut(s) 64, 175, 212
AluBI AGCT 4 cut(s) 31, 260, 285, 311
AluI AGCT 4 cut(s) 31, 260, 285, 311
Alw21I GWGCWC 1 cut(s) 95
Alw26I GTCTC 1 cut(s) 132
AoxI GGCC 1 cut(s) 57
ApeKI GCWGC 2 cut(s) 28, 71
AsuHPI GGTGA 1 cut(s) 142
Bbv12I GWGCWC 1 cut(s) 95
BbvI GCAGC 2 cut(s) 40, 58
BccI CCATC 2 cut(s) 323, 336
BceAI ACGGC 1 cut(s) 137
BciVI GTATCC 1 cut(s) 315
BcoDI GTCTC 1 cut(s) 132
BfmI CTRYAG 2 cut(s) 72, 337
BfuI GTATCC 1 cut(s) 315
BisI GCNGC 2 cut(s) 29, 72
BlpI GCTNAGC 1 cut(s) 261
BlsI GCNGC 2 cut(s) 30, 73
BmcAI AGTACT 1 cut(s) 320
BmsI GCATC 1 cut(s) 139
Bpu1102I GCTNAGC 1 cut(s) 261
BsaJI CCNNGG 1 cut(s) 54
BsaWI WCCGGW 2 cut(s) 226, 244
BsaXI ACNNNNNCTCC 2 cut(s) 129, 159
BseDI CCNNGG 1 cut(s) 54
BseMII CTCAG 1 cut(s) 252
BseXI GCAGC 2 cut(s) 40, 58
BsgI GTGCAG 2 cut(s) 47, 335
BshFI GGCC 1 cut(s) 59
BsiHKAI GWGCWC 1 cut(s) 95
BsiSI CCGG 2 cut(s) 227, 245
BsmAI GTCTC 1 cut(s) 132
BsmBI CGTCTC 1 cut(s) 132
BsnI GGCC 1 cut(s) 59
Bsp1286I GDGCHC 1 cut(s) 95
Bsp143I GATC 1 cut(s) 132
Bsp1720I GCTNAGC 1 cut(s) 261
BspANI GGCC 1 cut(s) 59
BspCNI CTCAG 1 cut(s) 253
BspMAI CTGCAG 1 cut(s) 76
BssECI CCNNGG 1 cut(s) 54
BssMI GATC 1 cut(s) 132
BssT1I CCWWGG 1 cut(s) 54
Bst4CI ACNGT 2 cut(s) 97, 303
BstC8I GCNNGC 1 cut(s) 258
BstDEI CTNAG 1 cut(s) 261
BstKTI GATC 1 cut(s) 135
BstMAI GTCTC 1 cut(s) 132
BstMBI GATC 1 cut(s) 132
BstMWI GCNNNNNNNGC 3 cut(s) 45, 77, 262
BstNSI RCATGY 1 cut(s) 125
BstSFI CTRYAG 2 cut(s) 72, 337
BstV1I GCAGC 2 cut(s) 40, 58
BstXI CCANNNNNNTGG 1 cut(s) 273
BsuI GTATCC 1 cut(s) 315
BsuRI GGCC 1 cut(s) 59
BtsIMutI CAGTG 2 cut(s) 102, 278
Cac8I GCNNGC 1 cut(s) 258
Csp6I GTAC 1 cut(s) 319
CviAII CATG 1 cut(s) 122
CviJI RGCY 9 cut(s) 31, 59, 164, 189, 256, 260, 265, 285, 311
CviKI_1 RGCY 9 cut(s) 31, 59, 164, 189, 256, 260, 265, 285, 311
CviQI GTAC 1 cut(s) 319
DdeI CTNAG 1 cut(s) 261
DpnI GATC 1 cut(s) 134
DpnII GATC 1 cut(s) 132
Eco130I CCWWGG 1 cut(s) 54
Eco147I AGGCCT 1 cut(s) 59
EcoT14I CCWWGG 1 cut(s) 54
ErhI CCWWGG 1 cut(s) 54
Esp3I CGTCTC 1 cut(s) 132
FaeI CATG 1 cut(s) 125
FaiI YATR 5 cut(s) 104, 123, 200, 288, 327
FalI AAGNNNNNCTT 2 cut(s) 173, 205
FatI CATG 1 cut(s) 121
Fnu4HI GCNGC 2 cut(s) 29, 72
Fsp4HI GCNGC 2 cut(s) 29, 72
GluI GCNGC 2 cut(s) 29, 72
HaeIII GGCC 1 cut(s) 59
HapII CCGG 2 cut(s) 227, 245
Hin1II CATG 1 cut(s) 125
HincII GTYRAC 1 cut(s) 157
HindII GTYRAC 1 cut(s) 157
HinfI GANTC 1 cut(s) 333
HpaII CCGG 2 cut(s) 227, 245
HphI GGTGA 1 cut(s) 142
Hpy166II GTNNAC 1 cut(s) 157
Hpy188I TCNGA 1 cut(s) 137
Hpy188III TCNNGA 1 cut(s) 19
Hpy8I GTNNAC 1 cut(s) 157
HpyAV CCTTC 1 cut(s) 16
HpyCH4III ACNGT 2 cut(s) 97, 303
HpyCH4V TGCA 4 cut(s) 28, 48, 74, 316
HpyF10VI GCNNNNNNNGC 3 cut(s) 45, 77, 262
HpyF3I CTNAG 1 cut(s) 261
Hsp92II CATG 1 cut(s) 125
Kzo9I GATC 1 cut(s) 132
LpnPI CCDG 4 cut(s) 240, 258, 270, 321
Lsp1109I GCAGC 2 cut(s) 40, 58
LweI GCATC 1 cut(s) 139
MalI GATC 1 cut(s) 134
MboI GATC 1 cut(s) 132
MboII GAAGA 6 cut(s) 76, 187, 190, 224, 242, 260
MhlI GDGCHC 1 cut(s) 95
MluCI AATT 1 cut(s) 267
MseI TTAA 1 cut(s) 291
MspA1I CMGCKG 3 cut(s) 31, 260, 311
MspI CCGG 2 cut(s) 227, 245
MwoI GCNNNNNNNGC 3 cut(s) 45, 77, 262
NdeII GATC 1 cut(s) 132
NlaIII CATG 1 cut(s) 125
NspI RCATGY 1 cut(s) 125
PceI AGGCCT 1 cut(s) 59
PfeI GAWTC 1 cut(s) 333
PkrI GCNGC 2 cut(s) 30, 73
PstI CTGCAG 1 cut(s) 76
PvuII CAGCTG 3 cut(s) 31, 260, 311
RsaI GTAC 1 cut(s) 320
RsaNI GTAC 1 cut(s) 319
SaqAI TTAA 1 cut(s) 291
SatI GCNGC 2 cut(s) 29, 72
Sau3AI GATC 1 cut(s) 132
ScaI AGTACT 1 cut(s) 320
SduI GDGCHC 1 cut(s) 95
SetI ASST 6 cut(s) 27, 33, 88, 262, 287, 313
SfaNI GCATC 1 cut(s) 139
SfcI CTRYAG 2 cut(s) 72, 337
Sse9I AATT 1 cut(s) 267
SseBI AGGCCT 1 cut(s) 59
StuI AGGCCT 1 cut(s) 59
StyI CCWWGG 1 cut(s) 54
TaaI ACNGT 2 cut(s) 97, 303
TasI AATT 1 cut(s) 267
TatI WGTACW 1 cut(s) 318
TfiI GAWTC 1 cut(s) 333
Tru1I TTAA 1 cut(s) 291
Tru9I TTAA 1 cut(s) 291
TscAI CASTG 2 cut(s) 102, 278
TseI GCWGC 2 cut(s) 28, 71
TspDTI ATGAA 1 cut(s) 17
TspGWI ACGGA 1 cut(s) 156
TspRI CASTG 2 cut(s) 102, 278
XceI RCATGY 1 cut(s) 125
ZrmI AGTACT 1 cut(s) 320
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.