MD02G1270300.v1.1

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr02
OG0000370
Physical Location & Seq
Reverse (-)
32511695 .. 32515021
3327 bp
Loading structure...
UTR
Exon/CDS
Intron
MD02G1270300.v1.1.491

Sequence Viewer

Length: 828 bp
ATGAACCGGAAAGGGAAGGGGAAAGTTCATGTGAAGAAAGATATGCCTAGAACAGGTGAAGCTACTTCATCCAATCCCAAGGCTCCATATGATGAGGACATGGCTAGTGTTTTTCAAGCCATCAAGCAAATGGCTGACCTTGCGCTTGAAGGCACATCTGCAGTAAATCGGAGGCTGAAATTTTTGAAGGTTTTCATTAGTCTGTCACCCCCGCAGTATGCAGGAAATCCTGATGAACCTTTAGAAGGGGTGGAGTGGCTCGAAAGGATAAAGCAATGTTTTGATGTAAGTGATGTCCCCGAAGACCTAAAAGTTGGTTTTGCCACATACTGTCTTATTGGAGCGGCTCACTACTGGTGGGAATTTGTTAAAAGGATCCGTGATGTTAAATCCATCACTTGGGCAGAATTTGAGGAGCTGTTTTTGAATATGTATTATCCTGAAACTGTAAGGGATGCTAAATGCGACGAATTTCAAGGGTTGACCCAACAAAACATGTCTGTTGCTCAGTATGCATCTAAGTTCCTCGAGCTAGCATGGTATGCACGAACTAATCTTGTGAGTTCAGATGAATATACAGCATCGAAATTTCAAAGGGGACTGAGGCCTTCCATAAGAGCAAGGGTAGCTAAGTTCAGTACTTATGGTGACATGGTGGCAGCGGCGTTAAGAGTGGAACAATCTTTTGAGGACAGCGAAGAAGAGTCGTTTGAGGAAGGTTCTAGTGTACGGGAAAAAAGGCCAAGAAAGCAGTACATTTGCCACCACTGCGGCGAGCCTGGTCATATTCGGCCTAATTGCCCGGAATTAAACTCGCGTGCTTTTTGA
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

276

Amino Acids

31.53

Weight (kDa)

6.27

Isoelectric Point (pI)

47.59

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ty3_capsid PF19259 85 - 210 2.1e-06 Ty3 transposon capsid-like protein
Retrotrans_gag PF03732 107 - 203 3.8e-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)
AccB7I CCANNNNNTGG 1 cut(s) 399
AccBSI CCGCTC 1 cut(s) 344
AccII CGCG 1 cut(s) 817
AciI CCGC 4 cut(s) 212, 344, 662, 771
AclWI GGATC 2 cut(s) 370, 383
AcsI RAATTY 5 cut(s) 179, 362, 407, 470, 587
AfaI GTAC 3 cut(s) 640, 729, 755
AfiI CCNNNNNNNGG 3 cut(s) 53, 245, 399
AflIII ACRYGT 1 cut(s) 495
AgsI TTSAA 6 cut(s) 116, 149, 187, 427, 476, 593
AjnI CCWGG 1 cut(s) 778
AluBI AGCT 4 cut(s) 62, 418, 532, 629
AluI AGCT 4 cut(s) 62, 418, 532, 629
AlwI GGATC 2 cut(s) 370, 383
Ama87I CYCGRG 1 cut(s) 527
AoxI GGCC 3 cut(s) 605, 740, 791
ApeKI GCWGC 1 cut(s) 659
ApoI RAATTY 5 cut(s) 179, 362, 407, 470, 587
Asp700I GAANNNNTTC 1 cut(s) 191
AspLEI GCGC 1 cut(s) 145
AsuC2I CCSGG 1 cut(s) 803
AsuHPI GGTGA 3 cut(s) 68, 198, 659
AsuNHI GCTAGC 1 cut(s) 532
AvaI CYCGRG 1 cut(s) 527
BamHI GGATCC 1 cut(s) 375
BbsI GAAGAC 1 cut(s) 309
BbvI GCAGC 1 cut(s) 671
BccI CCATC 2 cut(s) 128, 401
BciT130I CCWGG 1 cut(s) 780
BcnI CCSGG 1 cut(s) 803
BfaI CTAG 4 cut(s) 48, 105, 533, 723
BfmI CTRYAG 1 cut(s) 159
BisI GCNGC 4 cut(s) 345, 660, 663, 772
BlsI GCNGC 4 cut(s) 346, 661, 664, 773
BmcAI AGTACT 1 cut(s) 640
Bme1390I CCNGG 2 cut(s) 780, 803
BmeT110I CYCGRG 1 cut(s) 527
BmiI GGNNCC 2 cut(s) 84, 377
BmrFI CCNGG 2 cut(s) 780, 803
BmsI GCATC 3 cut(s) 445, 524, 590
BmtI GCTAGC 1 cut(s) 536
BpiI GAAGAC 1 cut(s) 309
BpuMI CCSGG 1 cut(s) 803
BsaJI CCNNGG 1 cut(s) 78
BsaWI WCCGGW 1 cut(s) 6
Bsc4I CCNNNNNNNGG 3 cut(s) 53, 245, 399
Bse1I ACTGG 1 cut(s) 359
Bse3DI GCAATG 1 cut(s) 281
BseBI CCWGG 1 cut(s) 780
BseDI CCNNGG 1 cut(s) 78
BseGI GGATG 2 cut(s) 68, 460
BseLI CCNNNNNNNGG 3 cut(s) 53, 245, 399
BseMI GCAATG 1 cut(s) 281
BseMII CTCAG 2 cut(s) 521, 593
BseNI ACTGG 1 cut(s) 359
BseRI GAGGAG 1 cut(s) 428
BseXI GCAGC 1 cut(s) 671
Bsh1236I CGCG 1 cut(s) 817
BshFI GGCC 3 cut(s) 607, 742, 793
BsiHKCI CYCGRG 1 cut(s) 527
BsiSI CCGG 2 cut(s) 7, 803
BslFI GGGAC 2 cut(s) 281, 612
BslI CCNNNNNNNGG 3 cut(s) 53, 245, 399
BsmFI GGGAC 2 cut(s) 281, 612
BsnI GGCC 3 cut(s) 607, 742, 793
BsoBI CYCGRG 1 cut(s) 527
Bsp143I GATC 1 cut(s) 375
BspACI CCGC 4 cut(s) 212, 344, 662, 771
BspANI GGCC 3 cut(s) 607, 742, 793
BspCNI CTCAG 2 cut(s) 520, 594
BspFNI CGCG 1 cut(s) 817
BspLI GGNNCC 2 cut(s) 84, 377
BspMAI CTGCAG 1 cut(s) 163
BspOI GCTAGC 1 cut(s) 536
BspPI GGATC 2 cut(s) 370, 383
BsrBI CCGCTC 1 cut(s) 344
BsrDI GCAATG 1 cut(s) 281
BsrI ACTGG 1 cut(s) 359
BssECI CCNNGG 1 cut(s) 78
BssMI GATC 1 cut(s) 375
BssT1I CCWWGG 1 cut(s) 78
Bst2UI CCWGG 1 cut(s) 780
Bst4CI ACNGT 2 cut(s) 332, 448
Bst6I CTCTTC 1 cut(s) 696
BstAPI GCANNNNNTGC 1 cut(s) 542
BstC8I GCNNGC 3 cut(s) 534, 776, 819
BstDEI CTNAG 4 cut(s) 507, 519, 602, 630
BstENI CCTNNNNNAGG 2 cut(s) 51, 243
BstF5I GGATG 2 cut(s) 68, 460
BstFNI CGCG 1 cut(s) 817
BstHHI GCGC 1 cut(s) 145
BstKTI GATC 1 cut(s) 378
BstMBI GATC 1 cut(s) 375
BstMWI GCNNNNNNNGC 6 cut(s) 140, 512, 542, 626, 748, 768
BstNI CCWGG 1 cut(s) 780
BstNSI RCATGY 1 cut(s) 499
BstSCI CCNGG 2 cut(s) 778, 801
BstSFI CTRYAG 1 cut(s) 159
BstUI CGCG 1 cut(s) 817
BstV1I GCAGC 1 cut(s) 671
BstV2I GAAGAC 1 cut(s) 309
BstX2I RGATCY 1 cut(s) 375
BstYI RGATCY 1 cut(s) 375
BsuRI GGCC 3 cut(s) 607, 742, 793
BtsCI GGATG 2 cut(s) 68, 460
BtsI GCAGTG 1 cut(s) 766
BtsIMutI CAGTG 1 cut(s) 766
Cac8I GCNNGC 3 cut(s) 534, 776, 819
CfoI GCGC 1 cut(s) 145
Csp6I GTAC 3 cut(s) 639, 728, 754
CviAII CATG 5 cut(s) 29, 100, 496, 537, 652
CviQI GTAC 3 cut(s) 639, 728, 754
DdeI CTNAG 4 cut(s) 507, 519, 602, 630
DpnI GATC 1 cut(s) 377
DpnII GATC 1 cut(s) 375
Eam1104I CTCTTC 1 cut(s) 696
EarI CTCTTC 1 cut(s) 696
Eco130I CCWWGG 1 cut(s) 78
Eco147I AGGCCT 1 cut(s) 607
Eco88I CYCGRG 1 cut(s) 527
EcoNI CCTNNNNNAGG 2 cut(s) 51, 243
EcoRII CCWGG 1 cut(s) 778
EcoT14I CCWWGG 1 cut(s) 78
EcoT22I ATGCAT 1 cut(s) 517
ErhI CCWWGG 1 cut(s) 78
FaeI CATG 5 cut(s) 32, 103, 499, 540, 655
FaqI GGGAC 2 cut(s) 281, 612
FatI CATG 5 cut(s) 28, 99, 495, 536, 651
FauI CCCGC 1 cut(s) 219
FauNDI CATATG 1 cut(s) 88
Fnu4HI GCNGC 4 cut(s) 345, 660, 663, 772
FokI GGATG 2 cut(s) 55, 467
Fsp4HI GCNGC 4 cut(s) 345, 660, 663, 772
FspBI CTAG 4 cut(s) 48, 105, 533, 723
GlaI GCGC 1 cut(s) 144
GluI GCNGC 4 cut(s) 345, 660, 663, 772
HaeIII GGCC 3 cut(s) 607, 742, 793
HapII CCGG 2 cut(s) 7, 803
HhaI GCGC 1 cut(s) 145
Hin1II CATG 5 cut(s) 32, 103, 499, 540, 655
Hin6I GCGC 1 cut(s) 143
HinP1I GCGC 1 cut(s) 143
HincII GTYRAC 1 cut(s) 483
HindII GTYRAC 1 cut(s) 483
HinfI GANTC 1 cut(s) 704
HpaII CCGG 2 cut(s) 7, 803
HphI GGTGA 3 cut(s) 68, 198, 659
Hpy166II GTNNAC 2 cut(s) 483, 728
Hpy188I TCNGA 2 cut(s) 171, 568
Hpy188III TCNNGA 2 cut(s) 230, 440
Hpy8I GTNNAC 2 cut(s) 483, 728
Hpy99I CGWCG 1 cut(s) 470
HpyAV CCTTC 6 cut(s) 10, 143, 181, 239, 618, 710
HpyCH4III ACNGT 2 cut(s) 332, 448
HpyCH4V TGCA 4 cut(s) 161, 221, 515, 545
HpyF10VI GCNNNNNNNGC 6 cut(s) 140, 512, 542, 626, 748, 768
HpyF3I CTNAG 4 cut(s) 507, 519, 602, 630
Hsp92II CATG 5 cut(s) 32, 103, 499, 540, 655
HspAI GCGC 1 cut(s) 143
Kzo9I GATC 1 cut(s) 375
LmnI GCTCC 3 cut(s) 88, 341, 415
LpnPI CCDG 9 cut(s) 20, 39, 207, 243, 340, 453, 765, 792, 816
Lsp1109I GCAGC 1 cut(s) 671
LweI GCATC 3 cut(s) 445, 524, 590
MaeI CTAG 4 cut(s) 48, 105, 533, 723
MaeIII GTNAC 2 cut(s) 204, 647
MalI GATC 1 cut(s) 377
MbiI CCGCTC 1 cut(s) 344
MboI GATC 1 cut(s) 375
MboII GAAGA 4 cut(s) 46, 314, 710, 713
MflI RGATCY 1 cut(s) 375
MluCI AATT 7 cut(s) 179, 362, 407, 470, 587, 796, 806
MlyI GAGTC 1 cut(s) 713
MnlI CCTC 7 cut(s) 88, 165, 406, 536, 597, 682, 706
Mph1103I ATGCAT 1 cut(s) 517
MroXI GAANNNNTTC 1 cut(s) 191
MseI TTAA 4 cut(s) 369, 387, 668, 809
MspA1I CMGCKG 1 cut(s) 662
MspI CCGG 2 cut(s) 7, 803
MspR9I CCNGG 2 cut(s) 780, 803
MvaI CCWGG 1 cut(s) 780
MvnI CGCG 1 cut(s) 817
MwoI GCNNNNNNNGC 6 cut(s) 140, 512, 542, 626, 748, 768
NciI CCSGG 1 cut(s) 803
NdeI CATATG 1 cut(s) 88
NdeII GATC 1 cut(s) 375
NheI GCTAGC 1 cut(s) 532
NlaIII CATG 5 cut(s) 32, 103, 499, 540, 655
NlaIV GGNNCC 2 cut(s) 84, 377
NmuCI GTSAC 2 cut(s) 204, 647
NsiI ATGCAT 1 cut(s) 517
NspI RCATGY 1 cut(s) 499
PaeR7I CTCGAG 1 cut(s) 527
PceI AGGCCT 1 cut(s) 607
PciI ACATGT 1 cut(s) 495
PdmI GAANNNNTTC 1 cut(s) 191
PflMI CCANNNNNTGG 1 cut(s) 399
PkrI GCNGC 4 cut(s) 346, 661, 664, 773
PleI GAGTC 1 cut(s) 712
PpsI GAGTC 1 cut(s) 712
PscI ACATGT 1 cut(s) 495
Psp6I CCWGG 1 cut(s) 778
PspGI CCWGG 1 cut(s) 778
PspN4I GGNNCC 2 cut(s) 84, 377
PspXI VCTCGAGB 1 cut(s) 527
PstI CTGCAG 1 cut(s) 163
PsuI RGATCY 1 cut(s) 375
RsaI GTAC 3 cut(s) 640, 729, 755
RsaNI GTAC 3 cut(s) 639, 728, 754
SaqAI TTAA 4 cut(s) 369, 387, 668, 809
SatI GCNGC 4 cut(s) 345, 660, 663, 772
Sau3AI GATC 1 cut(s) 375
ScaI AGTACT 1 cut(s) 640
SchI GAGTC 1 cut(s) 713
ScrFI CCNGG 2 cut(s) 780, 803
SfaNI GCATC 3 cut(s) 445, 524, 590
SfcI CTRYAG 1 cut(s) 159
Sfr274I CTCGAG 1 cut(s) 527
SlaI CTCGAG 1 cut(s) 527
SmlI CTYRAG 1 cut(s) 527
SmoI CTYRAG 1 cut(s) 527
Sse9I AATT 7 cut(s) 179, 362, 407, 470, 587, 796, 806
SseBI AGGCCT 1 cut(s) 607
SsiI CCGC 4 cut(s) 212, 344, 662, 771
SspMI CTAG 4 cut(s) 48, 105, 533, 723
StuI AGGCCT 1 cut(s) 607
StyD4I CCNGG 2 cut(s) 778, 801
StyI CCWWGG 1 cut(s) 78
TaaI ACNGT 2 cut(s) 332, 448
TaqI TCGA 3 cut(s) 261, 528, 584
TasI AATT 7 cut(s) 179, 362, 407, 470, 587, 796, 806
TatI WGTACW 2 cut(s) 638, 753
TauI GCSGC 3 cut(s) 347, 665, 774
Tru1I TTAA 4 cut(s) 369, 387, 668, 809
Tru9I TTAA 4 cut(s) 369, 387, 668, 809
TscAI CASTG 1 cut(s) 773
TseFI GTSAC 2 cut(s) 204, 647
TseI GCWGC 1 cut(s) 659
Tsp45I GTSAC 2 cut(s) 204, 647
TspDTI ATGAA 6 cut(s) 17, 17, 57, 184, 249, 585
TspGWI ACGGA 1 cut(s) 368
TspRI CASTG 1 cut(s) 773
Van91I CCANNNNNTGG 1 cut(s) 399
XagI CCTNNNNNAGG 2 cut(s) 51, 243
XapI RAATTY 5 cut(s) 179, 362, 407, 470, 587
XceI RCATGY 1 cut(s) 499
XcmI CCANNNNNNNNNTGG 1 cut(s) 127
XhoI CTCGAG 1 cut(s) 527
XmnI GAANNNNTTC 1 cut(s) 191
XspI CTAG 4 cut(s) 48, 105, 533, 723
ZrmI AGTACT 1 cut(s) 640
Zsp2I ATGCAT 1 cut(s) 517
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.