MD02G1270200.v1.1

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr02
OG0000370
Physical Location & Seq
Reverse (-)
32507098 .. 32509679
2582 bp
Loading structure...
UTR
Exon/CDS
Intron
MD02G1270200.v1.1.491

Sequence Viewer

Length: 816 bp
ATGAAGAAAGATGTGCCTAGAACAGGTGACGCTACTTCATCCAATCCCACGGCCTCACATGATGAGGACGTGGCTAAGGTTTTGCAAGCCATCAAGCAAATGGCTGGCCTTGCGCTTGAGGGCACATCCGGAATTGATCAGAGGCTGAAATTTTTGAAGGTTTTCATTAGTCTGTCGCCCCCGCAGTACGCAGGAAATCTTGATGAACCGTTAGAAGGGGTGGAGTGGCTCGAAAGGATAAAGCAATGTTTTGATGTAAGTGACGTCCCCGAAGACCTAAAAGTTGGGTTTGCCACATACTGTCTTATTGGAGCGGCTCACTACTGGTGGGAATTTGTTAAAAGGATCCGTGATGTTAAGTCCGTCGCTTGGGCAGAATTTGAGGAGCTGTTTTTGAATATGTATTTTCCTGAAACTATAAGGAATGCTAAAAACGAAGAATTTATAGGGTTGACCCAAGGAAACATGACCGTTGCTCAGTACGAATCTAAATTCCTTCAGCTGTCACAACTTGCACCCCGTCTTGTGAGTACAGATGAACAGAGAGCAGCAAAGTTTCTAATGGGACTGAGGCCTTCCATAGGAGCAAAGGTAGCTGTAATACAGCATGATACTTATCTTAAGGTGAGGACAGCGGCTTTGTTAGTGGAAAGGTCTTTTGAAATGCTGGCGGAGCAAGAGTCGTTTGAGGGAACTTCTAGTGCAGGGGAGAAAAGGCCAAGAAAGCAGTACATTTGCCACCACTGTGGCGAGCCTGGTCATATCCGGCCAAATTGCCCTGAATTTCAGCCTCCTTCCCCTTCCTATCCCTACTGA
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
Retrotrans_gag zf-CCHC

Protein Analysis

272

Amino Acids

30.59

Weight (kDa)

5.77

Isoelectric Point (pI)

43.45

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ty3_capsid PF19259 75 - 232 1.9e-08 Ty3 transposon capsid-like protein
Retrotrans_gag PF03732 97 - 192 3.2e-18 Retrotransposon gag 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000370)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g29481 FvH4_2g11454 FvH4_3g19661 FvH4_3g28463 FvH4_3g31691 FvH4_3g34551 FvH4_3g35241 FvH4_4g06575 FvH4_4g09082 FvH4_4g15804 FvH4_4g15805 FvH4_4g16178 FvH4_4g16282 FvH4_5g25163 FvH4_6g27413 FvH4_7g02962 FvH4_7g04361
malus_domestica MD01G1095000.v1.1 MD02G1270200.v1.1 MD02G1270300.v1.1 MD02G1270400.v1.1 MD06G1059100.v1.1 MD08G1226500.v1.1
prunus_persica Prupe.1G169500_v2.0.a1 Prupe.5G195800_v2.0.a1
pyrus_communis pycom01g00010 pycom01g00770 pycom02g23140 pycom03g11760 pycom04g06090 pycom05g06900 pycom05g08070 pycom05g14500 pycom06g03050 pycom07g06250 pycom07g07540 pycom07g10580 pycom08g04990 pycom1146g00060 pycom11g01080 pycom11g15270 pycom11g15460 pycom11g24900 pycom12419g00150 pycom12424g00120 pycom13g08740 pycom13g24950 pycom13g25960 pycom13g26030 pycom13g27820 pycom16g23270 pycom16g25020 pycom16g25960 pycom17g07780 pycom17g08210 pycom17g13100
rosa_chinensis RchiOBHm_Chr1g0329421 RchiOBHm_Chr4g0397711 RchiOBHm_Chr4g0403481 RchiOBHm_Chr5g0019091 RchiOBHm_Chr5g0049101
rosa_laevigata RLG00000029892
rosa_multiflora Rmu_sc0001866.1_g000007
rosa_roxburghii Rroxscaffold_2G00094160 Rroxscaffold_3G00229110 Rroxscaffold_4G00321100 Rroxscaffold_7G00196040 Rroxscaffold_7G00196280
rosa_rugosa Rorug05G0160500 Rorug06G0096500
rosa_samantha Rh1AG098600 Rh1AG098800 Rh1BG078200 Rh1BG078700 Rh1BG178500 Rh1CG094600 Rh1CG094900 Rh1DG101700 Rh1DG109600 Rh2AG175800 Rh2AG175900 Rh2AG511400 Rh2BG114700 Rh2CG042200 Rh2CG116600 Rh2CG317500 Rh2DG327700 Rh2DG337800 Rh4CG142700 Rh4DG113100 Rh5BG335800 Rh5CG360600 Rh5DG352000 Rh6BG071400 Rh6BG417100 Rh6CG463300 Rh6CG463400 Rh7BG186600 Rh7CG196500 Rh7CG196600 Rh7CG448900 Rh7DG228300
rosa_wichuraiana Rw4G006560 Rw4G017340 Rw5G030450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 267
AccBSI CCGCTC 1 cut(s) 314
AccIII TCCGGA 1 cut(s) 128
AciI CCGC 4 cut(s) 182, 314, 635, 671
AclWI GGATC 2 cut(s) 340, 353
AcoI YGGCCR 1 cut(s) 767
AcsI RAATTY 6 cut(s) 149, 332, 377, 440, 491, 782
AcuI CTGAAG 1 cut(s) 482
AcyI GRCGYC 1 cut(s) 264
AfaI GTAC 4 cut(s) 188, 482, 532, 731
AfiI CCNNNNNNNGG 4 cut(s) 23, 215, 369, 581
AflII CTTAAG 1 cut(s) 620
AgsI TTSAA 3 cut(s) 157, 397, 662
AjiI CACGTC 1 cut(s) 70
AjnI CCWGG 1 cut(s) 754
AleI CACNNNNGTG 1 cut(s) 744
AluBI AGCT 3 cut(s) 388, 502, 596
AluI AGCT 3 cut(s) 388, 502, 596
AlwI GGATC 2 cut(s) 340, 353
AlwNI CAGNNNCTG 1 cut(s) 145
Aor13HI TCCGGA 1 cut(s) 128
AoxI GGCC 5 cut(s) 51, 106, 572, 716, 767
ApeKI GCWGC 1 cut(s) 548
ApoI RAATTY 6 cut(s) 149, 332, 377, 440, 491, 782
ArsI GACNNNNNNTTYG 2 cut(s) 622, 654
Asp700I GAANNNNTTC 1 cut(s) 161
AspLEI GCGC 1 cut(s) 115
AsuHPI GGTGA 2 cut(s) 38, 637
BaeGI GKGCMC 1 cut(s) 125
BamHI GGATCC 1 cut(s) 345
BbsI GAAGAC 1 cut(s) 279
BbvI GCAGC 1 cut(s) 560
BccI CCATC 1 cut(s) 98
BceAI ACGGC 1 cut(s) 66
BciT130I CCWGG 1 cut(s) 756
BclI TGATCA 1 cut(s) 136
BfaI CTAG 2 cut(s) 18, 699
BfrI CTTAAG 1 cut(s) 620
BisI GCNGC 3 cut(s) 315, 549, 636
BlsI GCNGC 3 cut(s) 316, 550, 637
Bme1390I CCNGG 1 cut(s) 756
BmgBI CACGTC 1 cut(s) 70
BmiI GGNNCC 1 cut(s) 347
BmrFI CCNGG 1 cut(s) 756
BpiI GAAGAC 1 cut(s) 279
Bpu10I CCTNAGC 1 cut(s) 75
BpuEI CTTGAG 1 cut(s) 137
BsaBI GATNNNNATC 1 cut(s) 615
BsaHI GRCGYC 1 cut(s) 264
BsaJI CCNNGG 2 cut(s) 48, 457
BsaWI WCCGGW 1 cut(s) 128
BsaXI ACNNNNNCTCC 4 cut(s) 576, 606, 665, 695
Bsc4I CCNNNNNNNGG 4 cut(s) 23, 215, 369, 581
Bse1I ACTGG 1 cut(s) 329
Bse3DI GCAATG 1 cut(s) 251
Bse8I GATNNNNATC 1 cut(s) 615
BseAI TCCGGA 1 cut(s) 128
BseBI CCWGG 1 cut(s) 756
BseDI CCNNGG 2 cut(s) 48, 457
BseGI GGATG 2 cut(s) 38, 125
BseJI GATNNNNATC 1 cut(s) 615
BseLI CCNNNNNNNGG 4 cut(s) 23, 215, 369, 581
BseMI GCAATG 1 cut(s) 251
BseMII CTCAG 2 cut(s) 491, 560
BseNI ACTGG 1 cut(s) 329
BseRI GAGGAG 1 cut(s) 398
BseSI GKGCMC 1 cut(s) 125
BseXI GCAGC 1 cut(s) 560
BsgI GTGCAG 1 cut(s) 723
BshFI GGCC 5 cut(s) 53, 108, 574, 718, 769
BsiSI CCGG 2 cut(s) 129, 766
BslFI GGGAC 2 cut(s) 251, 579
BslI CCNNNNNNNGG 4 cut(s) 23, 215, 369, 581
BsmFI GGGAC 2 cut(s) 251, 579
BsmI GAATGC 1 cut(s) 430
BsnI GGCC 5 cut(s) 53, 108, 574, 718, 769
Bsp1286I GDGCHC 1 cut(s) 125
Bsp13I TCCGGA 1 cut(s) 128
Bsp143I GATC 2 cut(s) 136, 345
BspACI CCGC 4 cut(s) 182, 314, 635, 671
BspANI GGCC 5 cut(s) 53, 108, 574, 718, 769
BspCNI CTCAG 2 cut(s) 490, 561
BspEI TCCGGA 1 cut(s) 128
BspLI GGNNCC 1 cut(s) 347
BspPI GGATC 2 cut(s) 340, 353
BspTI CTTAAG 1 cut(s) 620
BsrBI CCGCTC 1 cut(s) 314
BsrDI GCAATG 1 cut(s) 251
BsrI ACTGG 1 cut(s) 329
BssECI CCNNGG 2 cut(s) 48, 457
BssMI GATC 2 cut(s) 136, 345
BssNI GRCGYC 1 cut(s) 264
BssT1I CCWWGG 1 cut(s) 457
Bst2UI CCWGG 1 cut(s) 756
Bst4CI ACNGT 4 cut(s) 210, 302, 472, 746
BstACI GRCGYC 1 cut(s) 264
BstAFI CTTAAG 1 cut(s) 620
BstC8I GCNNGC 4 cut(s) 87, 106, 669, 752
BstDEI CTNAG 3 cut(s) 75, 477, 569
BstDSI CCRYGG 1 cut(s) 48
BstENI CCTNNNNNAGG 2 cut(s) 21, 579
BstF5I GGATG 2 cut(s) 38, 125
BstHHI GCGC 1 cut(s) 115
BstKTI GATC 2 cut(s) 139, 348
BstMBI GATC 2 cut(s) 136, 345
BstMWI GCNNNNNNNGC 4 cut(s) 110, 593, 673, 724
BstNI CCWGG 1 cut(s) 756
BstSCI CCNGG 1 cut(s) 754
BstSLI GKGCMC 1 cut(s) 125
BstV1I GCAGC 1 cut(s) 560
BstV2I GAAGAC 1 cut(s) 279
BstX2I RGATCY 1 cut(s) 345
BstXI CCANNNNNNTGG 1 cut(s) 746
BstYI RGATCY 1 cut(s) 345
BsuRI GGCC 5 cut(s) 53, 108, 574, 718, 769
BtgI CCRYGG 1 cut(s) 48
BtrI CACGTC 1 cut(s) 70
BtsCI GGATG 2 cut(s) 38, 125
BtsIMutI CAGTG 1 cut(s) 742
Cac8I GCNNGC 4 cut(s) 87, 106, 669, 752
CaiI CAGNNNCTG 1 cut(s) 145
CfoI GCGC 1 cut(s) 115
CseI GACGC 1 cut(s) 38
Csp6I GTAC 4 cut(s) 187, 481, 531, 730
CviAII CATG 3 cut(s) 59, 466, 608
CviQI GTAC 4 cut(s) 187, 481, 531, 730
DdeI CTNAG 3 cut(s) 75, 477, 569
DpnI GATC 2 cut(s) 138, 347
DpnII GATC 2 cut(s) 136, 345
EaeI YGGCCR 1 cut(s) 767
EciI GGCGGA 1 cut(s) 686
Eco130I CCWWGG 1 cut(s) 457
Eco147I AGGCCT 1 cut(s) 574
Eco57I CTGAAG 1 cut(s) 482
EcoNI CCTNNNNNAGG 2 cut(s) 21, 579
EcoRII CCWGG 1 cut(s) 754
EcoT14I CCWWGG 1 cut(s) 457
ErhI CCWWGG 1 cut(s) 457
FaeI CATG 3 cut(s) 62, 469, 611
FaiI YATR 9 cut(s) 60, 298, 401, 419, 446, 467, 581, 609, 762
FaqI GGGAC 2 cut(s) 251, 579
FatI CATG 3 cut(s) 58, 465, 607
FauI CCCGC 1 cut(s) 189
FbaI TGATCA 1 cut(s) 136
Fnu4HI GCNGC 3 cut(s) 315, 549, 636
FokI GGATG 2 cut(s) 25, 112
Fsp4HI GCNGC 3 cut(s) 315, 549, 636
FspBI CTAG 2 cut(s) 18, 699
GlaI GCGC 1 cut(s) 114
GluI GCNGC 3 cut(s) 315, 549, 636
HaeIII GGCC 5 cut(s) 53, 108, 574, 718, 769
HapII CCGG 2 cut(s) 129, 766
HgaI GACGC 1 cut(s) 38
HhaI GCGC 1 cut(s) 115
Hin1I GRCGYC 1 cut(s) 264
Hin1II CATG 3 cut(s) 62, 469, 611
Hin6I GCGC 1 cut(s) 113
HinP1I GCGC 1 cut(s) 113
HincII GTYRAC 1 cut(s) 453
HindII GTYRAC 1 cut(s) 453
HinfI GANTC 2 cut(s) 485, 680
HpaII CCGG 2 cut(s) 129, 766
HphI GGTGA 2 cut(s) 38, 637
Hpy166II GTNNAC 1 cut(s) 453
Hpy188I TCNGA 1 cut(s) 141
Hpy188III TCNNGA 3 cut(s) 129, 200, 410
Hpy8I GTNNAC 1 cut(s) 453
Hpy99I CGWCG 1 cut(s) 368
HpyAV CCTTC 6 cut(s) 151, 209, 506, 585, 804, 810
HpyCH4III ACNGT 4 cut(s) 210, 302, 472, 746
HpyCH4IV ACGT 2 cut(s) 69, 264
HpyCH4V TGCA 3 cut(s) 85, 515, 704
HpyF10VI GCNNNNNNNGC 4 cut(s) 110, 593, 673, 724
HpyF3I CTNAG 3 cut(s) 75, 477, 569
HpySE526I ACGT 2 cut(s) 69, 264
Hsp92I GRCGYC 1 cut(s) 264
Hsp92II CATG 3 cut(s) 62, 469, 611
HspAI GCGC 1 cut(s) 113
Kpn2I TCCGGA 1 cut(s) 128
Ksp22I TGATCA 1 cut(s) 136
Kzo9I GATC 2 cut(s) 136, 345
LmnI GCTCC 4 cut(s) 311, 385, 584, 673
Lsp1109I GCAGC 1 cut(s) 560
MaeI CTAG 2 cut(s) 18, 699
MaeII ACGT 2 cut(s) 69, 264
MaeIII GTNAC 3 cut(s) 26, 260, 504
MalI GATC 2 cut(s) 138, 347
MbiI CCGCTC 1 cut(s) 314
MboI GATC 2 cut(s) 136, 345
MboII GAAGA 3 cut(s) 16, 284, 449
MflI RGATCY 1 cut(s) 345
MhlI GDGCHC 1 cut(s) 125
MluCI AATT 8 cut(s) 132, 149, 332, 377, 440, 491, 772, 782
MlyI GAGTC 1 cut(s) 689
MnlI CCTC 9 cut(s) 58, 64, 112, 135, 376, 564, 621, 682, 801
MroI TCCGGA 1 cut(s) 128
MroXI GAANNNNTTC 1 cut(s) 161
MseI TTAA 3 cut(s) 339, 357, 621
MslI CAYNNNNRTG 1 cut(s) 744
MspA1I CMGCKG 2 cut(s) 502, 635
MspCI CTTAAG 1 cut(s) 620
MspI CCGG 2 cut(s) 129, 766
MspR9I CCNGG 1 cut(s) 756
Mva1269I GAATGC 1 cut(s) 430
MvaI CCWGG 1 cut(s) 756
MwoI GCNNNNNNNGC 4 cut(s) 110, 593, 673, 724
NdeII GATC 2 cut(s) 136, 345
NlaIII CATG 3 cut(s) 62, 469, 611
NlaIV GGNNCC 1 cut(s) 347
NmuCI GTSAC 3 cut(s) 26, 260, 504
OliI CACNNNNGTG 1 cut(s) 744
PceI AGGCCT 1 cut(s) 574
PctI GAATGC 1 cut(s) 430
PdmI GAANNNNTTC 1 cut(s) 161
PfeI GAWTC 1 cut(s) 485
PkrI GCNGC 3 cut(s) 316, 550, 637
PleI GAGTC 1 cut(s) 688
PpsI GAGTC 1 cut(s) 688
Psp6I CCWGG 1 cut(s) 754
PspGI CCWGG 1 cut(s) 754
PspN4I GGNNCC 1 cut(s) 347
PstNI CAGNNNCTG 1 cut(s) 145
PsuI RGATCY 1 cut(s) 345
PvuII CAGCTG 1 cut(s) 502
RsaI GTAC 4 cut(s) 188, 482, 532, 731
RsaNI GTAC 4 cut(s) 187, 481, 531, 730
RseI CAYNNNNRTG 1 cut(s) 744
SaqAI TTAA 3 cut(s) 339, 357, 621
SatI GCNGC 3 cut(s) 315, 549, 636
Sau3AI GATC 2 cut(s) 136, 345
SchI GAGTC 1 cut(s) 689
ScrFI CCNGG 1 cut(s) 756
SduI GDGCHC 1 cut(s) 125
SmiMI CAYNNNNRTG 1 cut(s) 744
SmlI CTYRAG 2 cut(s) 116, 620
SmoI CTYRAG 2 cut(s) 116, 620
Sse9I AATT 8 cut(s) 132, 149, 332, 377, 440, 491, 772, 782
SseBI AGGCCT 1 cut(s) 574
SsiI CCGC 4 cut(s) 182, 314, 635, 671
SspMI CTAG 2 cut(s) 18, 699
StuI AGGCCT 1 cut(s) 574
StyD4I CCNGG 1 cut(s) 754
StyI CCWWGG 1 cut(s) 457
TaaI ACNGT 4 cut(s) 210, 302, 472, 746
TaiI ACGT 2 cut(s) 72, 267
TaqI TCGA 1 cut(s) 231
TasI AATT 8 cut(s) 132, 149, 332, 377, 440, 491, 772, 782
TatI WGTACW 2 cut(s) 530, 729
TauI GCSGC 2 cut(s) 317, 638
TfiI GAWTC 1 cut(s) 485
Tru1I TTAA 3 cut(s) 339, 357, 621
Tru9I TTAA 3 cut(s) 339, 357, 621
TscAI CASTG 1 cut(s) 749
TseFI GTSAC 3 cut(s) 26, 260, 504
TseI GCWGC 1 cut(s) 548
Tsp45I GTSAC 3 cut(s) 26, 260, 504
TspDTI ATGAA 5 cut(s) 17, 27, 154, 219, 552
TspGWI ACGGA 2 cut(s) 338, 352
TspRI CASTG 1 cut(s) 749
Vha464I CTTAAG 1 cut(s) 620
XagI CCTNNNNNAGG 2 cut(s) 21, 579
XapI RAATTY 6 cut(s) 149, 332, 377, 440, 491, 782
XcmI CCANNNNNNNNNTGG 1 cut(s) 97
XmnI GAANNNNTTC 1 cut(s) 161
XspI CTAG 2 cut(s) 18, 699
ZraI GACGTC 1 cut(s) 265
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.