MD02G1270400.v1.1

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr02
OG0000370
Physical Location & Seq
Reverse (-)
32524435 .. 32527657
3223 bp
Loading structure...
UTR
Exon/CDS
Intron
MD02G1270400.v1.1.491

Sequence Viewer

Length: 837 bp
ATGAATCGGGATCATCCAGCAGTGAAGGTGAAAGTTGATATGAAGAAAGATATGCCTAGAACAGGTGAAGCCACTTCATCCAATCCCAGGGCTCCACATGATGAGGTCGTGGCTAGGGTTTTTCAAGCCATGAAGAAAATGGCTGACCTTGCGCTTGAAGGCACATCCGAAGTAAATCGGAGGCTGAAATTTTTGAAGGTTTTCATTAGTCTATCACCCCCGCAGTATGCAGGAAATCCTGATGAACCGTTAGAAGGGGTGGAGTGGCTCAAAAGGATAAAGCAATGTTTTGAAGTAAGTGATGTCCCCGAAGACTTAAAAGTTGGGTTTGCCACATACTGTCTTACTGGACCGGCGCACTGCTGGTGGGAATTTGTGAAAAGGAGACGTGATGTTATATCCATCACTTGGGCAGAATTTGAGGAGCTGTTTTTGAATAACTATTTTCCTGAGACTACTAGGCTGGCTAAATACGACGAATTTCTACGGTTAACCCAACAAAACATGACTATTGCTCAGTTGTCATCTAAGTTACTTGAGCTATCATGGTATGCACGACCTAATCTTGTGAGTTCAGATAAATATAAAGCATGGAAGTTTCTAAGGGCACTGAGGCCTTCCATAAGAACAAGGGTAGCTCAATTCAGTACTTATGATGACATTGTCGCAGCGGCGTTGAGAGTGGAACAATCTTTGGAGGACAGCGAGGAAGAGTCGTTTGAGGAAGCTTCTGGTGCAGGGGGAAAAGGGCCAAGAAAGCAGTACATTTGCCATCACTGCGGCGAGCCTGGTCATATTCGGCCTAAGTGCCCGGAATTAAACTCGCGTGCTTTTTGA
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

279

Amino Acids

31.95

Weight (kDa)

8.14

Isoelectric Point (pI)

49.9

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ty3_capsid PF19259 88 - 214 1.9e-06 Ty3 transposon capsid-like protein
Retrotrans_gag PF03732 110 - 206 6.2e-13 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)
AccB7I CCANNNNNTGG 1 cut(s) 408
AccII CGCG 1 cut(s) 826
AciI CCGC 3 cut(s) 221, 671, 780
AclWI GGATC 1 cut(s) 18
AcsI RAATTY 4 cut(s) 188, 371, 416, 479
AfaI GTAC 2 cut(s) 649, 764
AfiI CCNNNNNNNGG 4 cut(s) 62, 87, 254, 408
AgsI TTSAA 5 cut(s) 125, 158, 196, 293, 436
AjiI CACGTC 1 cut(s) 389
AjnI CCWGG 2 cut(s) 86, 787
AluBI AGCT 4 cut(s) 427, 541, 638, 728
AluI AGCT 4 cut(s) 427, 541, 638, 728
Alw26I GTCTC 2 cut(s) 379, 446
AlwI GGATC 1 cut(s) 18
AoxI GGCC 3 cut(s) 614, 749, 800
ApeKI GCWGC 1 cut(s) 668
ApoI RAATTY 4 cut(s) 188, 371, 416, 479
Asp700I GAANNNNTTC 1 cut(s) 200
AspLEI GCGC 2 cut(s) 154, 358
AspS9I GGNCC 2 cut(s) 350, 749
AsuC2I CCSGG 1 cut(s) 812
AsuHPI GGTGA 3 cut(s) 40, 77, 207
AvaII GGWCC 1 cut(s) 350
BaeGI GKGCMC 2 cut(s) 610, 812
BanII GRGCYC 1 cut(s) 94
BbsI GAAGAC 1 cut(s) 318
BbvI GCAGC 1 cut(s) 680
BccI CCATC 2 cut(s) 410, 780
BciT130I CCWGG 2 cut(s) 88, 789
BcnI CCSGG 1 cut(s) 812
BcoDI GTCTC 2 cut(s) 379, 446
BfaI CTAG 3 cut(s) 57, 114, 459
BisI GCNGC 3 cut(s) 669, 672, 781
BlsI GCNGC 3 cut(s) 670, 673, 782
BmcAI AGTACT 1 cut(s) 649
Bme1390I CCNGG 3 cut(s) 88, 789, 812
Bme18I GGWCC 1 cut(s) 350
BmgBI CACGTC 1 cut(s) 389
BmgT120I GGNCC 2 cut(s) 350, 749
BmiI GGNNCC 1 cut(s) 93
BmrFI CCNGG 3 cut(s) 88, 789, 812
BpiI GAAGAC 1 cut(s) 318
BpuEI CTTGAG 1 cut(s) 557
BpuMI CCSGG 1 cut(s) 812
BsaJI CCNNGG 2 cut(s) 86, 87
Bsc4I CCNNNNNNNGG 4 cut(s) 62, 87, 254, 408
Bse118I RCCGGY 1 cut(s) 352
Bse1I ACTGG 1 cut(s) 352
Bse3DI GCAATG 1 cut(s) 290
BseBI CCWGG 2 cut(s) 88, 789
BseDI CCNNGG 2 cut(s) 86, 87
BseGI GGATG 3 cut(s) 13, 77, 164
BseLI CCNNNNNNNGG 4 cut(s) 62, 87, 254, 408
BseMI GCAATG 1 cut(s) 290
BseMII CTCAG 3 cut(s) 441, 530, 602
BseNI ACTGG 1 cut(s) 352
BseRI GAGGAG 1 cut(s) 437
BseSI GKGCMC 2 cut(s) 610, 812
BseXI GCAGC 1 cut(s) 680
BsgI GTGCAG 1 cut(s) 756
Bsh1236I CGCG 1 cut(s) 826
BshFI GGCC 3 cut(s) 616, 751, 802
BsiSI CCGG 2 cut(s) 353, 812
BslFI GGGAC 1 cut(s) 290
BslI CCNNNNNNNGG 4 cut(s) 62, 87, 254, 408
BsmAI GTCTC 2 cut(s) 379, 446
BsmBI CGTCTC 1 cut(s) 379
BsmFI GGGAC 1 cut(s) 290
BsnI GGCC 3 cut(s) 616, 751, 802
Bsp1286I GDGCHC 3 cut(s) 94, 610, 812
Bsp143I GATC 1 cut(s) 10
BspACI CCGC 3 cut(s) 221, 671, 780
BspANI GGCC 3 cut(s) 616, 751, 802
BspCNI CTCAG 3 cut(s) 442, 529, 603
BspFNI CGCG 1 cut(s) 826
BspLI GGNNCC 1 cut(s) 93
BspPI GGATC 1 cut(s) 18
BsrDI GCAATG 1 cut(s) 290
BsrFI RCCGGY 1 cut(s) 352
BsrI ACTGG 1 cut(s) 352
BssAI RCCGGY 1 cut(s) 352
BssECI CCNNGG 2 cut(s) 86, 87
BssMI GATC 1 cut(s) 10
Bst2UI CCWGG 2 cut(s) 88, 789
Bst4CI ACNGT 3 cut(s) 249, 341, 489
Bst6I CTCTTC 1 cut(s) 705
BstC8I GCNNGC 3 cut(s) 465, 785, 828
BstDEI CTNAG 6 cut(s) 450, 516, 528, 602, 611, 804
BstENI CCTNNNNNAGG 1 cut(s) 60
BstF5I GGATG 3 cut(s) 13, 77, 164
BstFNI CGCG 1 cut(s) 826
BstHHI GCGC 2 cut(s) 154, 358
BstKTI GATC 1 cut(s) 13
BstMAI GTCTC 2 cut(s) 379, 446
BstMBI GATC 1 cut(s) 10
BstMWI GCNNNNNNNGC 4 cut(s) 149, 734, 757, 777
BstNI CCWGG 2 cut(s) 88, 789
BstSCI CCNGG 3 cut(s) 86, 787, 810
BstSLI GKGCMC 2 cut(s) 610, 812
BstUI CGCG 1 cut(s) 826
BstV1I GCAGC 1 cut(s) 680
BstV2I GAAGAC 1 cut(s) 318
BsuRI GGCC 3 cut(s) 616, 751, 802
BtrI CACGTC 1 cut(s) 389
BtsCI GGATG 3 cut(s) 13, 77, 164
BtsI GCAGTG 3 cut(s) 27, 358, 775
BtsIMutI CAGTG 4 cut(s) 27, 358, 608, 775
Cac8I GCNNGC 3 cut(s) 465, 785, 828
CfoI GCGC 2 cut(s) 154, 358
Cfr10I RCCGGY 1 cut(s) 352
Cfr13I GGNCC 2 cut(s) 350, 749
Csp6I GTAC 2 cut(s) 648, 763
CviAII CATG 5 cut(s) 98, 130, 505, 546, 591
CviQI GTAC 2 cut(s) 648, 763
DdeI CTNAG 6 cut(s) 450, 516, 528, 602, 611, 804
DpnI GATC 1 cut(s) 12
DpnII GATC 1 cut(s) 10
Eam1104I CTCTTC 1 cut(s) 705
EarI CTCTTC 1 cut(s) 705
Eco147I AGGCCT 1 cut(s) 616
Eco24I GRGCYC 1 cut(s) 94
Eco47I GGWCC 1 cut(s) 350
EcoNI CCTNNNNNAGG 1 cut(s) 60
EcoRII CCWGG 2 cut(s) 86, 787
EcoT38I GRGCYC 1 cut(s) 94
Esp3I CGTCTC 1 cut(s) 379
FaeI CATG 5 cut(s) 101, 133, 508, 549, 594
FaqI GGGAC 1 cut(s) 290
FatI CATG 5 cut(s) 97, 129, 504, 545, 590
FauI CCCGC 1 cut(s) 228
Fnu4HI GCNGC 3 cut(s) 669, 672, 781
FokI GGATG 2 cut(s) 64, 151
FriOI GRGCYC 1 cut(s) 94
Fsp4HI GCNGC 3 cut(s) 669, 672, 781
FspBI CTAG 3 cut(s) 57, 114, 459
GlaI GCGC 2 cut(s) 153, 357
GluI GCNGC 3 cut(s) 669, 672, 781
HaeIII GGCC 3 cut(s) 616, 751, 802
HapII CCGG 2 cut(s) 353, 812
HhaI GCGC 2 cut(s) 154, 358
Hin1II CATG 5 cut(s) 101, 133, 508, 549, 594
Hin6I GCGC 2 cut(s) 152, 356
HinP1I GCGC 2 cut(s) 152, 356
HincII GTYRAC 1 cut(s) 492
HindII GTYRAC 1 cut(s) 492
HindIII AAGCTT 1 cut(s) 726
HinfI GANTC 2 cut(s) 4, 713
HpaI GTTAAC 1 cut(s) 492
HpaII CCGG 2 cut(s) 353, 812
HphI GGTGA 3 cut(s) 40, 77, 207
Hpy166II GTNNAC 1 cut(s) 492
Hpy188I TCNGA 3 cut(s) 169, 180, 577
Hpy188III TCNNGA 3 cut(s) 8, 239, 449
Hpy8I GTNNAC 1 cut(s) 492
Hpy99I CGWCG 1 cut(s) 479
HpyAV CCTTC 5 cut(s) 19, 152, 190, 248, 627
HpyCH4III ACNGT 3 cut(s) 249, 341, 489
HpyCH4IV ACGT 1 cut(s) 388
HpyCH4V TGCA 3 cut(s) 230, 554, 737
HpyF10VI GCNNNNNNNGC 4 cut(s) 149, 734, 757, 777
HpyF3I CTNAG 6 cut(s) 450, 516, 528, 602, 611, 804
HpySE526I ACGT 1 cut(s) 388
Hsp92II CATG 5 cut(s) 101, 133, 508, 549, 594
HspAI GCGC 2 cut(s) 152, 356
KspAI GTTAAC 1 cut(s) 492
Kzo9I GATC 1 cut(s) 10
LmnI GCTCC 2 cut(s) 97, 424
Lsp1109I GCAGC 1 cut(s) 680
MaeI CTAG 3 cut(s) 57, 114, 459
MaeII ACGT 1 cut(s) 388
MaeIII GTNAC 1 cut(s) 531
MalI GATC 1 cut(s) 12
MboI GATC 1 cut(s) 10
MboII GAAGA 4 cut(s) 55, 145, 323, 722
MhlI GDGCHC 3 cut(s) 94, 610, 812
MluCI AATT 6 cut(s) 188, 371, 416, 479, 641, 815
MlyI GAGTC 1 cut(s) 722
MnlI CCTC 7 cut(s) 97, 174, 415, 606, 691, 700, 715
MroXI GAANNNNTTC 1 cut(s) 200
MseI TTAA 3 cut(s) 317, 491, 818
MspA1I CMGCKG 1 cut(s) 671
MspI CCGG 2 cut(s) 353, 812
MspR9I CCNGG 3 cut(s) 88, 789, 812
MvaI CCWGG 2 cut(s) 88, 789
MvnI CGCG 1 cut(s) 826
MwoI GCNNNNNNNGC 4 cut(s) 149, 734, 757, 777
NciI CCSGG 1 cut(s) 812
NdeII GATC 1 cut(s) 10
NlaIII CATG 5 cut(s) 101, 133, 508, 549, 594
NlaIV GGNNCC 1 cut(s) 93
PasI CCCWGGG 1 cut(s) 87
PceI AGGCCT 1 cut(s) 616
PdmI GAANNNNTTC 1 cut(s) 200
PfeI GAWTC 1 cut(s) 4
PflFI GACNNNGTC 1 cut(s) 662
PflMI CCANNNNNTGG 1 cut(s) 408
PkrI GCNGC 3 cut(s) 670, 673, 782
PleI GAGTC 1 cut(s) 721
PpsI GAGTC 1 cut(s) 721
Psp6I CCWGG 2 cut(s) 86, 787
PspGI CCWGG 2 cut(s) 86, 787
PspN4I GGNNCC 1 cut(s) 93
PspPI GGNCC 2 cut(s) 350, 749
PsyI GACNNNGTC 1 cut(s) 662
RsaI GTAC 2 cut(s) 649, 764
RsaNI GTAC 2 cut(s) 648, 763
SaqAI TTAA 3 cut(s) 317, 491, 818
SatI GCNGC 3 cut(s) 669, 672, 781
Sau3AI GATC 1 cut(s) 10
Sau96I GGNCC 2 cut(s) 350, 749
ScaI AGTACT 1 cut(s) 649
SchI GAGTC 1 cut(s) 722
ScrFI CCNGG 3 cut(s) 88, 789, 812
SduI GDGCHC 3 cut(s) 94, 610, 812
SinI GGWCC 1 cut(s) 350
SmlI CTYRAG 1 cut(s) 536
SmoI CTYRAG 1 cut(s) 536
Sse9I AATT 6 cut(s) 188, 371, 416, 479, 641, 815
SseBI AGGCCT 1 cut(s) 616
SsiI CCGC 3 cut(s) 221, 671, 780
SspMI CTAG 3 cut(s) 57, 114, 459
StuI AGGCCT 1 cut(s) 616
StyD4I CCNGG 3 cut(s) 86, 787, 810
TaaI ACNGT 3 cut(s) 249, 341, 489
TaiI ACGT 1 cut(s) 391
TasI AATT 6 cut(s) 188, 371, 416, 479, 641, 815
TatI WGTACW 2 cut(s) 647, 762
TauI GCSGC 2 cut(s) 674, 783
TfiI GAWTC 1 cut(s) 4
Tru1I TTAA 3 cut(s) 317, 491, 818
Tru9I TTAA 3 cut(s) 317, 491, 818
TscAI CASTG 4 cut(s) 27, 365, 615, 782
TseI GCWGC 1 cut(s) 668
TspDTI ATGAA 6 cut(s) 17, 56, 66, 146, 193, 258
TspRI CASTG 4 cut(s) 27, 365, 615, 782
Tth111I GACNNNGTC 1 cut(s) 662
Van91I CCANNNNNTGG 1 cut(s) 408
VpaK11BI GGWCC 1 cut(s) 350
XagI CCTNNNNNAGG 1 cut(s) 60
XapI RAATTY 4 cut(s) 188, 371, 416, 479
XcmI CCANNNNNNNNNTGG 1 cut(s) 136
XmnI GAANNNNTTC 1 cut(s) 200
XspI CTAG 3 cut(s) 57, 114, 459
ZrmI AGTACT 1 cut(s) 649
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.