MD08G1220300.v1.1

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr08
OG0000513
Physical Location & Seq
Reverse (-)
28309498 .. 28315862
6365 bp
Loading structure...
UTR
Exon/CDS
Intron
MD08G1220300.v1.1.491

Sequence Viewer

Length: 924 bp
ATGCACTTCCCTGCGCTGATTATCATGAGTATTTCGAGATTTTGGTTAGGATGGAGGACTCTGATAATCTTCCTGACAGTGAGGATGACGAGGACAAGAATGAGGGTCAGAAAGAAGAATGATAAGGGTAAGGGTATTTCTATTCCTGGACCTCGACAGACACAGAATTTTAAGAAGAGTGGAGCGAGTTCGAGTTCTTCTAGTGGGGGATATAGTTTTACTGGCCCGAGGAGAGGTGGTGGAAGATTTTCTGGTGGACCCAGATTTCAGGGTCAGAGGGATGCTGGTGGATCTGGCGCTCCATGGTGCCGCCGTTGTAACTCCCGTCACCATGGTGAGTGTAGGAGAGGTTCTGGTGCTTGTTTTACGTGTGGGCAGATGGGACATCGGGCTTCTCAGTGCCCCCAGGGTCAGCAGAGACCGCAGCAGACTAATATGCCACCTCCAGCACCAGTTCAGCAGAGTTTTGGACCGGGTGGTTATGGCCAGCCGAGTCGTGGTGGTGCCTACCACTATCAGGGGGATGCTGCTCCGTATGCTTCCGGACCTTATCAGTATTCTCAGGAGCCTTATCCTCAGGCAGGGTATTCTCAGGATTTTGGAGGTTATTCTTCTTATTCCTCTATGCCAGCTGGTGGATCGCAGTGGCATCAGGGAGGCCAGCCCCGTCAGGGGGAAGTTGCTACTGGTGGTGCAGGATCATCCAGGCAGCCTAGTCAGCCAGGCCAGGGACGTAATCCTCAGGGACGAGGTAATCAGGGCAATAGAGGCCGAGGTGGACGTCAGCAAGCTCAGGGGCGAGTTAATCATATGTCCCTGCAGGAGGCTCAGAACCATCCAGACTTGATAATGGGTGAGACGTATCCCGAGGACGACCGCATCCAGGGACGCCACGGGGGTTACGACCCGTCGACTTATCAGTGA
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
RVP_2 RVT_1 Retrotrans_gag rve zf-CCHC

Protein Analysis

308

Amino Acids

33.25

Weight (kDa)

10.5

Isoelectric Point (pI)

61.14

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-CCHC PF00098 120 - 136 9.4e-07 Zinc knuckle
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 784
AccB1I GGYRCC 2 cut(s) 306, 503
AccB7I CCANNNNNTGG 1 cut(s) 635
AccI GTMKAC 1 cut(s) 911
AccIII TCCGGA 1 cut(s) 542
AciI CCGC 3 cut(s) 310, 422, 877
AclWI GGATC 3 cut(s) 298, 646, 706
AcoI YGGCCR 1 cut(s) 484
AcsI RAATTY 1 cut(s) 166
AcyI GRCGYC 2 cut(s) 781, 889
AflIII ACRYGT 1 cut(s) 368
AjnI CCWGG 6 cut(s) 145, 405, 704, 721, 726, 882
AleI CACNNNNGTG 1 cut(s) 333
AluBI AGCT 2 cut(s) 632, 791
AluI AGCT 2 cut(s) 632, 791
Alw26I GTCTC 2 cut(s) 412, 851
AlwI GGATC 3 cut(s) 298, 646, 706
Ama87I CYCGRG 2 cut(s) 226, 866
Aor13HI TCCGGA 1 cut(s) 542
AoxI GGCC 5 cut(s) 223, 484, 658, 724, 769
ApeKI GCWGC 3 cut(s) 424, 527, 709
ApoI RAATTY 1 cut(s) 166
Asp700I GAANNNNTTC 1 cut(s) 247
AspLEI GCGC 2 cut(s) 16, 299
AspS9I GGNCC 5 cut(s) 149, 224, 257, 470, 545
AsuC2I CCSGG 1 cut(s) 474
AsuHPI GGTGA 3 cut(s) 320, 347, 866
AvaI CYCGRG 2 cut(s) 226, 866
AvaII GGWCC 4 cut(s) 149, 257, 470, 545
AxyI CCTNAGG 2 cut(s) 576, 741
BaeGI GKGCMC 1 cut(s) 404
BalI TGGCCA 1 cut(s) 486
BanI GGYRCC 2 cut(s) 306, 503
BbvI GCAGC 3 cut(s) 436, 514, 721
BccI CCATC 3 cut(s) 45, 373, 843
BceAI ACGGC 1 cut(s) 297
BciT130I CCWGG 6 cut(s) 147, 407, 706, 723, 728, 884
BciVI GTATCC 1 cut(s) 873
BcnI CCSGG 1 cut(s) 474
BcoDI GTCTC 2 cut(s) 412, 851
BfaI CTAG 2 cut(s) 201, 714
BfmI CTRYAG 1 cut(s) 818
BfoI RGCGCY 1 cut(s) 300
BfuI GTATCC 1 cut(s) 873
BisI GCNGC 4 cut(s) 310, 425, 528, 710
BlsI GCNGC 4 cut(s) 311, 426, 529, 711
Bme1390I CCNGG 7 cut(s) 147, 407, 474, 706, 723, 728, 884
Bme18I GGWCC 4 cut(s) 149, 257, 470, 545
BmeT110I CYCGRG 2 cut(s) 226, 866
BmgT120I GGNCC 5 cut(s) 149, 224, 257, 470, 545
BmiI GGNNCC 4 cut(s) 259, 308, 505, 567
BmrFI CCNGG 7 cut(s) 147, 407, 474, 706, 723, 728, 884
BmsI GCATC 4 cut(s) 271, 514, 658, 888
BpmI CTGGAG 1 cut(s) 429
Bpu10I CCTNAGC 1 cut(s) 792
BpuMI CCSGG 1 cut(s) 474
BsaAI YACGTR 1 cut(s) 369
BsaHI GRCGYC 2 cut(s) 781, 889
BsaI GGTCTC 1 cut(s) 412
BsaWI WCCGGW 1 cut(s) 542
BsaXI ACNNNNNCTCC 2 cut(s) 223, 253
Bse1I ACTGG 3 cut(s) 226, 452, 691
Bse21I CCTNAGG 2 cut(s) 576, 741
BseAI TCCGGA 1 cut(s) 542
BseBI CCWGG 6 cut(s) 147, 407, 706, 723, 728, 884
BseGI GGATG 7 cut(s) 56, 90, 286, 529, 701, 835, 879
BseMII CTCAG 7 cut(s) 410, 575, 590, 605, 755, 806, 842
BseNI ACTGG 3 cut(s) 226, 452, 691
BseRI GAGGAG 1 cut(s) 244
BseSI GKGCMC 1 cut(s) 404
BseXI GCAGC 3 cut(s) 436, 514, 721
BsgI GTGCAG 1 cut(s) 714
Bsh1285I CGRYCG 1 cut(s) 877
BshFI GGCC 5 cut(s) 225, 486, 660, 726, 771
BshNI GGYRCC 2 cut(s) 306, 503
BsiEI CGRYCG 1 cut(s) 877
BsiHKCI CYCGRG 2 cut(s) 226, 866
BsiSI CCGG 2 cut(s) 473, 543
BslFI GGGAC 5 cut(s) 396, 744, 759, 799, 900
BsmAI GTCTC 2 cut(s) 412, 851
BsmBI CGTCTC 1 cut(s) 851
BsmFI GGGAC 5 cut(s) 396, 744, 759, 799, 900
BsnI GGCC 5 cut(s) 225, 486, 660, 726, 771
Bso31I GGTCTC 1 cut(s) 412
BsoBI CYCGRG 2 cut(s) 226, 866
Bsp1286I GDGCHC 1 cut(s) 404
Bsp13I TCCGGA 1 cut(s) 542
Bsp143I GATC 3 cut(s) 290, 638, 698
Bsp19I CCATGG 2 cut(s) 302, 331
BspACI CCGC 3 cut(s) 310, 422, 877
BspANI GGCC 5 cut(s) 225, 486, 660, 726, 771
BspCNI CTCAG 7 cut(s) 409, 574, 589, 604, 754, 805, 841
BspEI TCCGGA 1 cut(s) 542
BspHI TCATGA 1 cut(s) 24
BspLI GGNNCC 4 cut(s) 259, 308, 505, 567
BspMAI CTGCAG 1 cut(s) 822
BspPI GGATC 3 cut(s) 298, 646, 706
BspT107I GGYRCC 2 cut(s) 306, 503
BspTNI GGTCTC 1 cut(s) 412
BsrI ACTGG 3 cut(s) 226, 452, 691
BssMI GATC 3 cut(s) 290, 638, 698
BssNI GRCGYC 2 cut(s) 781, 889
BssT1I CCWWGG 2 cut(s) 302, 331
Bst2UI CCWGG 6 cut(s) 147, 407, 706, 723, 728, 884
Bst4CI ACNGT 1 cut(s) 79
Bst6I CTCTTC 1 cut(s) 170
BstACI GRCGYC 2 cut(s) 781, 889
BstBAI YACGTR 1 cut(s) 369
BstC8I GCNNGC 4 cut(s) 488, 630, 662, 789
BstDEI CTNAG 7 cut(s) 396, 561, 576, 591, 741, 792, 828
BstDSI CCRYGG 3 cut(s) 302, 331, 892
BstENI CCTNNNNNAGG 2 cut(s) 579, 821
BstF5I GGATG 7 cut(s) 56, 90, 286, 529, 701, 835, 879
BstH2I RGCGCY 1 cut(s) 300
BstHHI GCGC 2 cut(s) 16, 299
BstKTI GATC 3 cut(s) 293, 641, 701
BstMAI GTCTC 2 cut(s) 412, 851
BstMBI GATC 3 cut(s) 290, 638, 698
BstMCI CGRYCG 1 cut(s) 877
BstMWI GCNNNNNNNGC 4 cut(s) 421, 536, 718, 768
BstNI CCWGG 6 cut(s) 147, 407, 706, 723, 728, 884
BstSCI CCNGG 7 cut(s) 145, 405, 472, 704, 721, 726, 882
BstSFI CTRYAG 1 cut(s) 818
BstSLI GKGCMC 1 cut(s) 404
BstV1I GCAGC 3 cut(s) 436, 514, 721
BstX2I RGATCY 1 cut(s) 290
BstYI RGATCY 1 cut(s) 290
Bsu36I CCTNAGG 2 cut(s) 576, 741
BsuI GTATCC 1 cut(s) 873
BsuRI GGCC 5 cut(s) 225, 486, 660, 726, 771
BtgI CCRYGG 3 cut(s) 302, 331, 892
BtsCI GGATG 7 cut(s) 56, 90, 286, 529, 701, 835, 879
BtsI GCAGTG 1 cut(s) 650
BtsIMutI CAGTG 3 cut(s) 84, 404, 650
Cac8I GCNNGC 4 cut(s) 488, 630, 662, 789
CciI TCATGA 1 cut(s) 24
CfoI GCGC 2 cut(s) 16, 299
Cfr13I GGNCC 5 cut(s) 149, 224, 257, 470, 545
CseI GACGC 1 cut(s) 897
CviAII CATG 3 cut(s) 25, 303, 332
DdeI CTNAG 7 cut(s) 396, 561, 576, 591, 741, 792, 828
DpnI GATC 3 cut(s) 292, 640, 700
DpnII GATC 3 cut(s) 290, 638, 698
EaeI YGGCCR 1 cut(s) 484
Eam1104I CTCTTC 1 cut(s) 170
EarI CTCTTC 1 cut(s) 170
Eco130I CCWWGG 2 cut(s) 302, 331
Eco31I GGTCTC 1 cut(s) 412
Eco47I GGWCC 4 cut(s) 149, 257, 470, 545
Eco81I CCTNAGG 2 cut(s) 576, 741
Eco88I CYCGRG 2 cut(s) 226, 866
EcoNI CCTNNNNNAGG 2 cut(s) 579, 821
EcoRII CCWGG 6 cut(s) 145, 405, 704, 721, 726, 882
EcoT14I CCWWGG 2 cut(s) 302, 331
ErhI CCWWGG 2 cut(s) 302, 331
Esp3I CGTCTC 1 cut(s) 851
FaeI CATG 3 cut(s) 28, 306, 335
FaqI GGGAC 5 cut(s) 396, 744, 759, 799, 900
FatI CATG 3 cut(s) 24, 302, 331
FauNDI CATATG 1 cut(s) 810
FblI GTMKAC 1 cut(s) 911
Fnu4HI GCNGC 4 cut(s) 310, 425, 528, 710
FokI GGATG 7 cut(s) 63, 97, 293, 536, 688, 822, 866
Fsp4HI GCNGC 4 cut(s) 310, 425, 528, 710
FspBI CTAG 2 cut(s) 201, 714
GlaI GCGC 2 cut(s) 15, 298
GluI GCNGC 4 cut(s) 310, 425, 528, 710
GsuI CTGGAG 1 cut(s) 429
HaeII RGCGCY 1 cut(s) 300
HaeIII GGCC 5 cut(s) 225, 486, 660, 726, 771
HapII CCGG 2 cut(s) 473, 543
HgaI GACGC 1 cut(s) 897
HhaI GCGC 2 cut(s) 16, 299
Hin1I GRCGYC 2 cut(s) 781, 889
Hin1II CATG 3 cut(s) 28, 306, 335
Hin6I GCGC 2 cut(s) 14, 297
HinP1I GCGC 2 cut(s) 14, 297
HincII GTYRAC 1 cut(s) 912
HindII GTYRAC 1 cut(s) 912
HinfI GANTC 2 cut(s) 58, 493
HpaII CCGG 2 cut(s) 473, 543
HphI GGTGA 3 cut(s) 320, 347, 866
Hpy166II GTNNAC 3 cut(s) 257, 779, 912
Hpy188I TCNGA 4 cut(s) 63, 110, 276, 831
Hpy188III TCNNGA 8 cut(s) 25, 36, 73, 543, 563, 593, 839, 866
Hpy8I GTNNAC 3 cut(s) 257, 779, 912
Hpy99I CGWCG 1 cut(s) 913
HpyCH4III ACNGT 1 cut(s) 79
HpyCH4IV ACGT 4 cut(s) 368, 733, 781, 860
HpyCH4V TGCA 3 cut(s) 4, 695, 820
HpyF10VI GCNNNNNNNGC 4 cut(s) 421, 536, 718, 768
HpyF3I CTNAG 7 cut(s) 396, 561, 576, 591, 741, 792, 828
HpySE526I ACGT 4 cut(s) 368, 733, 781, 860
Hsp92I GRCGYC 2 cut(s) 781, 889
Hsp92II CATG 3 cut(s) 28, 306, 335
HspAI GCGC 2 cut(s) 14, 297
Kpn2I TCCGGA 1 cut(s) 542
Kzo9I GATC 3 cut(s) 290, 638, 698
LmnI GCTCC 4 cut(s) 182, 304, 535, 565
Lsp1109I GCAGC 3 cut(s) 436, 514, 721
LweI GCATC 4 cut(s) 271, 514, 658, 888
MaeI CTAG 2 cut(s) 201, 714
MaeII ACGT 4 cut(s) 368, 733, 781, 860
MaeIII GTNAC 3 cut(s) 317, 326, 899
MalI GATC 3 cut(s) 292, 640, 700
MboI GATC 3 cut(s) 290, 638, 698
MboII GAAGA 6 cut(s) 61, 127, 187, 189, 255, 603
MflI RGATCY 1 cut(s) 290
MhlI GDGCHC 1 cut(s) 404
MlsI TGGCCA 1 cut(s) 486
MluCI AATT 1 cut(s) 166
MluNI TGGCCA 1 cut(s) 486
MlyI GAGTC 2 cut(s) 52, 502
Mox20I TGGCCA 1 cut(s) 486
MroI TCCGGA 1 cut(s) 542
MroXI GAANNNNTTC 1 cut(s) 247
MscI TGGCCA 1 cut(s) 486
MseI TTAA 2 cut(s) 171, 804
MslI CAYNNNNRTG 1 cut(s) 333
Msp20I TGGCCA 1 cut(s) 486
MspA1I CMGCKG 1 cut(s) 632
MspI CCGG 2 cut(s) 473, 543
MspR9I CCNGG 7 cut(s) 147, 407, 474, 706, 723, 728, 884
MvaI CCWGG 6 cut(s) 147, 407, 706, 723, 728, 884
MwoI GCNNNNNNNGC 4 cut(s) 421, 536, 718, 768
NciI CCSGG 1 cut(s) 474
NcoI CCATGG 2 cut(s) 302, 331
NdeI CATATG 1 cut(s) 810
NdeII GATC 3 cut(s) 290, 638, 698
NlaIII CATG 3 cut(s) 28, 306, 335
NlaIV GGNNCC 4 cut(s) 259, 308, 505, 567
NmeAIII GCCGAG 2 cut(s) 516, 797
NmuCI GTSAC 1 cut(s) 326
OliI CACNNNNGTG 1 cut(s) 333
PagI TCATGA 1 cut(s) 24
PasI CCCWGGG 1 cut(s) 406
PcsI WCGNNNNNNNCGW 1 cut(s) 900
PdmI GAANNNNTTC 1 cut(s) 247
PflMI CCANNNNNTGG 1 cut(s) 635
PfoI TCCNGGA 1 cut(s) 145
PkrI GCNGC 4 cut(s) 311, 426, 529, 711
PleI GAGTC 2 cut(s) 52, 501
PpsI GAGTC 2 cut(s) 52, 501
Ppu21I YACGTR 1 cut(s) 369
Psp6I CCWGG 6 cut(s) 145, 405, 704, 721, 726, 882
PspGI CCWGG 6 cut(s) 145, 405, 704, 721, 726, 882
PspN4I GGNNCC 4 cut(s) 259, 308, 505, 567
PspPI GGNCC 5 cut(s) 149, 224, 257, 470, 545
PsrI GAACNNNNNNTAC 2 cut(s) 334, 366
PstI CTGCAG 1 cut(s) 822
PsuI RGATCY 1 cut(s) 290
PvuII CAGCTG 1 cut(s) 632
RseI CAYNNNNRTG 1 cut(s) 333
SalI GTCGAC 1 cut(s) 910
SaqAI TTAA 2 cut(s) 171, 804
SatI GCNGC 4 cut(s) 310, 425, 528, 710
Sau3AI GATC 3 cut(s) 290, 638, 698
Sau96I GGNCC 5 cut(s) 149, 224, 257, 470, 545
SbfI CCTGCAGG 1 cut(s) 822
SchI GAGTC 2 cut(s) 52, 502
ScrFI CCNGG 7 cut(s) 147, 407, 474, 706, 723, 728, 884
SdaI CCTGCAGG 1 cut(s) 822
SduI GDGCHC 1 cut(s) 404
SfaNI GCATC 4 cut(s) 271, 514, 658, 888
SfcI CTRYAG 1 cut(s) 818
SinI GGWCC 4 cut(s) 149, 257, 470, 545
SmiMI CAYNNNNRTG 1 cut(s) 333
Sse8387I CCTGCAGG 1 cut(s) 822
Sse9I AATT 1 cut(s) 166
SsiI CCGC 3 cut(s) 310, 422, 877
SspMI CTAG 2 cut(s) 201, 714
StyD4I CCNGG 7 cut(s) 145, 405, 472, 704, 721, 726, 882
StyI CCWWGG 2 cut(s) 302, 331
TaaI ACNGT 1 cut(s) 79
TaiI ACGT 4 cut(s) 371, 736, 784, 863
TaqI TCGA 4 cut(s) 35, 154, 191, 911
TasI AATT 1 cut(s) 166
TauI GCSGC 1 cut(s) 312
Tru1I TTAA 2 cut(s) 171, 804
Tru9I TTAA 2 cut(s) 171, 804
TscAI CASTG 3 cut(s) 84, 404, 650
TseFI GTSAC 1 cut(s) 326
TseI GCWGC 3 cut(s) 424, 527, 709
Tsp45I GTSAC 1 cut(s) 326
TspGWI ACGGA 1 cut(s) 522
TspRI CASTG 3 cut(s) 84, 404, 650
Van91I CCANNNNNTGG 1 cut(s) 635
VpaK11BI GGWCC 4 cut(s) 149, 257, 470, 545
XagI CCTNNNNNAGG 2 cut(s) 579, 821
XapI RAATTY 1 cut(s) 166
XcmI CCANNNNNNNNNTGG 1 cut(s) 494
XmiI GTMKAC 1 cut(s) 911
XmnI GAANNNNTTC 1 cut(s) 247
XspI CTAG 2 cut(s) 201, 714
ZraI GACGTC 1 cut(s) 782
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.