MD11G1009100.v1.1

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr11
OG0000291
Physical Location & Seq
Reverse (-)
748616 .. 750787
2172 bp
Loading structure...
UTR
Exon/CDS
Intron
MD11G1009100.v1.1.491

Sequence Viewer

Length: 573 bp
ATGTTGAATGAAGGGGAGGAGAAGCACGGGCCTTTGCCGAAACAAGTGGAAGACGTCCTTGTGGAGTTTGCGGACGTGATGCCTAAGGAACTGCCAAAGAAGTTGCCACCAAGGAGAGAGGTCGACCATGCAATTGAGTTGGAGCCTGGTGCTAAGCCTCCCTCCAAATCACCTTATAGGATGTCGCCACCCGAGTTGGAGGAATTGAGGAAGCAACTCAACGAGCTGCTTGATGCTGGCTACATCCAACCCTCCAAGTCCCCATATGGTGCACCTGTCTTGTTCCAACGCAAGAAAGAAGGTAGCCTAAGGTTGTGCATCGACTATAGAGCATTGAACAAGATTACCATCAAGAACAAGTACCCACTTCCGTTGATCGCCGACTTATTCGATCAACTTGGTGAAGCAAGGTACTTCACAAAGTTAGATCTTCGATCGGGATACTACCAAGTGAGGATAGCCCCTGGAGACGAATCGAAGACGGCGATGGTGACCAGATATGGAGCTAGCTGCACGCTTGTTTTTAAAGCACGTGGTGAAGTATTGGGGAGTTCCGAGAAGCATAGTCAGTGA
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
Asp_protease_2 Chromo RVT_1 Retrotrans_gag gag-asp_proteas rve

Protein Analysis

191

Amino Acids

21.48

Weight (kDa)

8.72

Isoelectric Point (pI)

51.98

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_1 PF00078 97 - 166 1.1e-11 Reverse transcriptase (RNA-dependent DNA polymerase)
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: OG0000291)

Species Orthologous Gene IDs
arabidopsis_thaliana ATMG00860
fragaria_vesca FvH4_1g23712 FvH4_1g29809 FvH4_1g29810 FvH4_2g02661 FvH4_2g13451 FvH4_2g17921 FvH4_2g17922 FvH4_2g19251 FvH4_2g19252 FvH4_2g28221 FvH4_2g35961 FvH4_3g10372 FvH4_3g12461 FvH4_3g12461 FvH4_3g27861 FvH4_3g34591 FvH4_3g40201 FvH4_3g44612 FvH4_4g08352 FvH4_4g12251 FvH4_4g12742 FvH4_4g13904 FvH4_4g14287 FvH4_4g15243 FvH4_4g24071 FvH4_4g33448 FvH4_5g21912 FvH4_5g39371 FvH4_6g14992 FvH4_6g15221 FvH4_6g20603 FvH4_6g31093 FvH4_6g32372 FvH4_6g33012
malus_domestica MD11G1009100.v1.1 MD13G1145000.v1.1 MD16G1138700.v1.1
prunus_persica Prupe.5G246300_v2.0.a1 Prupe.7G034800_v2.0.a1 Prupe.8G084500_v2.0.a1
pyrus_communis pycom01g18240 pycom04g00330 pycom05g09010 pycom06g01670 pycom06g01690 pycom06g07180 pycom06g11620 pycom10g05720 pycom1134g00040 pycom1134g00060 pycom12486g00010 pycom12555g00230 pycom13g21670 pycom13g23130 pycom13g23140 pycom14g10580
rosa_chinensis RchiOBHm_Chr1g0330691 RchiOBHm_Chr2g0106171 RchiOBHm_Chr2g0134731 RchiOBHm_Chr2g0142791 RchiOBHm_Chr2g0149861 RchiOBHm_Chr3g0452401 RchiOBHm_Chr3g0461881 RchiOBHm_Chr4g0401341 RchiOBHm_Chr5g0075641 RchiOBHm_Chr6g0265961 RchiOBHm_Chr7g0200201 RchiOBHm_Chr7g0237811
rosa_laevigata RLG00000002773
rosa_multiflora Rmu_co8037806.1_g000001 Rmu_co8445989.1_g000001 Rmu_sc0000745.1_g000039 Rmu_sc0004448.1_g000029 Rmu_sc0004488.1_g000002 Rmu_sc0004591.1_g000018 Rmu_sc0005065.1_g000030 Rmu_sc0005150.1_g000005 Rmu_sc0005654.1_g000011 Rmu_sc0006986.1_g000016
rosa_roxburghii Rroxscaffold_164G00436490 Rroxscaffold_175G00432490 Rroxscaffold_1G00059440 Rroxscaffold_1G00064410 Rroxscaffold_2G00100310 Rroxscaffold_2G00128170 Rroxscaffold_3G00239420 Rroxscaffold_3G00264970 Rroxscaffold_3G00271550 Rroxscaffold_4G00300240 Rroxscaffold_5G00385050 Rroxscaffold_6G00399720
rosa_rugosa Rorug02G0252200
rosa_samantha Rh2DG251900 Rh7CG329900
rosa_wichuraiana Rw0G004800 Rw1G000850 Rw1G022350 Rw2G027030 Rw2G027760 Rw2G028410 Rw2G029130 Rw2G029390 Rw2G032490 Rw2G039460 Rw2G047800 Rw2G050340 Rw3G026430 Rw4G018370 Rw4G030750 Rw4G033140 Rw5G011950 Rw5G012010 Rw5G029280 Rw5G040190 Rw5G044570 Rw5G048240 Rw6G000340 Rw6G010140 Rw6G026480 Rw7G033750 Rw7G037250 Rw7G042080

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 57
AccI GTMKAC 1 cut(s) 123
AciI CCGC 1 cut(s) 71
AcvI CACGTG 1 cut(s) 533
AcyI GRCGYC 1 cut(s) 54
AdeI CACNNNGTG 1 cut(s) 536
AfaI GTAC 2 cut(s) 362, 413
AgsI TTSAA 2 cut(s) 7, 337
AjiI CACGTC 1 cut(s) 76
AjnI CCWGG 2 cut(s) 145, 463
AluBI AGCT 3 cut(s) 226, 506, 510
AluI AGCT 3 cut(s) 226, 506, 510
Alw21I GWGCWC 1 cut(s) 274
Alw26I GTCTC 1 cut(s) 462
Alw44I GTGCAC 1 cut(s) 270
Ama87I CYCGRG 1 cut(s) 191
AoxI GGCC 1 cut(s) 29
ApaLI GTGCAC 1 cut(s) 270
ApeKI GCWGC 2 cut(s) 226, 510
AspS9I GGNCC 1 cut(s) 29
AsuHPI GGTGA 4 cut(s) 162, 413, 502, 548
AsuNHI GCTAGC 1 cut(s) 506
AvaI CYCGRG 1 cut(s) 191
AxyI CCTNAGG 2 cut(s) 84, 308
BaeGI GKGCMC 1 cut(s) 274
BbrPI CACGTG 1 cut(s) 533
BbsI GAAGAC 2 cut(s) 57, 485
Bbv12I GWGCWC 1 cut(s) 274
BbvI GCAGC 2 cut(s) 213, 497
BccI CCATC 2 cut(s) 356, 481
BceAI ACGGC 1 cut(s) 498
BciT130I CCWGG 2 cut(s) 147, 465
BciVI GTATCC 1 cut(s) 434
BcoDI GTCTC 1 cut(s) 462
BfaI CTAG 1 cut(s) 507
BfmI CTRYAG 1 cut(s) 325
BfuI GTATCC 1 cut(s) 434
BglII AGATCT 1 cut(s) 427
BisI GCNGC 2 cut(s) 227, 511
BlpI GCTNAGC 1 cut(s) 153
BlsI GCNGC 2 cut(s) 228, 512
Bme1390I CCNGG 2 cut(s) 147, 465
BmeT110I CYCGRG 1 cut(s) 191
BmgBI CACGTC 1 cut(s) 76
BmgT120I GGNCC 1 cut(s) 29
BmiI GGNNCC 1 cut(s) 144
BmrFI CCNGG 2 cut(s) 147, 465
BmsI GCATC 3 cut(s) 69, 223, 327
BmtI GCTAGC 1 cut(s) 510
BpiI GAAGAC 2 cut(s) 57, 485
BpmI CTGGAG 1 cut(s) 486
Bpu1102I GCTNAGC 1 cut(s) 153
BsaAI YACGTR 1 cut(s) 533
BsaBI GATNNNNATC 1 cut(s) 347
BsaHI GRCGYC 1 cut(s) 54
BsaJI CCNNGG 2 cut(s) 110, 463
Bse21I CCTNAGG 2 cut(s) 84, 308
Bse8I GATNNNNATC 1 cut(s) 347
BseBI CCWGG 2 cut(s) 147, 465
BseDI CCNNGG 2 cut(s) 110, 463
BseGI GGATG 2 cut(s) 186, 243
BseJI GATNNNNATC 1 cut(s) 347
BseRI GAGGAG 1 cut(s) 32
BseSI GKGCMC 1 cut(s) 274
BseXI GCAGC 2 cut(s) 213, 497
BsgI GTGCAG 1 cut(s) 496
Bsh1285I CGRYCG 1 cut(s) 437
BshFI GGCC 1 cut(s) 31
BsiEI CGRYCG 1 cut(s) 437
BsiHKAI GWGCWC 1 cut(s) 274
BsiHKCI CYCGRG 1 cut(s) 191
BslFI GGGAC 1 cut(s) 244
BsmAI GTCTC 1 cut(s) 462
BsmBI CGTCTC 1 cut(s) 462
BsmFI GGGAC 1 cut(s) 244
BsnI GGCC 1 cut(s) 31
BsoBI CYCGRG 1 cut(s) 191
Bsp1286I GDGCHC 1 cut(s) 274
Bsp143I GATC 4 cut(s) 375, 391, 427, 434
Bsp1720I GCTNAGC 1 cut(s) 153
BspACI CCGC 1 cut(s) 71
BspANI GGCC 1 cut(s) 31
BspLI GGNNCC 1 cut(s) 144
BspOI GCTAGC 1 cut(s) 510
BssECI CCNNGG 2 cut(s) 110, 463
BssMI GATC 4 cut(s) 375, 391, 427, 434
BssNI GRCGYC 1 cut(s) 54
BssT1I CCWWGG 1 cut(s) 110
Bst2UI CCWGG 2 cut(s) 147, 465
BstACI GRCGYC 1 cut(s) 54
BstBAI YACGTR 1 cut(s) 533
BstC8I GCNNGC 3 cut(s) 238, 508, 515
BstDEI CTNAG 3 cut(s) 84, 153, 308
BstEII GGTNACC 1 cut(s) 490
BstF5I GGATG 2 cut(s) 186, 243
BstKTI GATC 4 cut(s) 378, 394, 430, 437
BstMAI GTCTC 1 cut(s) 462
BstMBI GATC 4 cut(s) 375, 391, 427, 434
BstMCI CGRYCG 1 cut(s) 437
BstNI CCWGG 2 cut(s) 147, 465
BstPI GGTNACC 1 cut(s) 490
BstSCI CCNGG 2 cut(s) 145, 463
BstSFI CTRYAG 1 cut(s) 325
BstSLI GKGCMC 1 cut(s) 274
BstV1I GCAGC 2 cut(s) 213, 497
BstV2I GAAGAC 2 cut(s) 57, 485
BstX2I RGATCY 1 cut(s) 427
BstYI RGATCY 1 cut(s) 427
Bsu36I CCTNAGG 2 cut(s) 84, 308
BsuI GTATCC 1 cut(s) 434
BsuRI GGCC 1 cut(s) 31
BtgZI GCGATG 1 cut(s) 500
BtrI CACGTC 1 cut(s) 76
BtsCI GGATG 2 cut(s) 186, 243
Cac8I GCNNGC 3 cut(s) 238, 508, 515
Cfr13I GGNCC 1 cut(s) 29
Csp6I GTAC 2 cut(s) 361, 412
CspCI CAANNNNNGTGG 4 cut(s) 177, 212, 354, 389
CviAII CATG 1 cut(s) 128
CviJI RGCY 9 cut(s) 31, 145, 157, 226, 240, 306, 461, 506, 510
CviKI_1 RGCY 9 cut(s) 31, 145, 157, 226, 240, 306, 461, 506, 510
CviQI GTAC 2 cut(s) 361, 412
DdeI CTNAG 3 cut(s) 84, 153, 308
DpnI GATC 4 cut(s) 377, 393, 429, 436
DpnII GATC 4 cut(s) 375, 391, 427, 434
DraI TTTAAA 1 cut(s) 526
DraIII CACNNNGTG 1 cut(s) 536
Eco130I CCWWGG 1 cut(s) 110
Eco72I CACGTG 1 cut(s) 533
Eco81I CCTNAGG 2 cut(s) 84, 308
Eco88I CYCGRG 1 cut(s) 191
Eco91I GGTNACC 1 cut(s) 490
EcoO65I GGTNACC 1 cut(s) 490
EcoRII CCWGG 2 cut(s) 145, 463
EcoT14I CCWWGG 1 cut(s) 110
ErhI CCWWGG 1 cut(s) 110
Esp3I CGTCTC 1 cut(s) 462
FaeI CATG 1 cut(s) 131
FaiI YATR 7 cut(s) 129, 177, 265, 267, 327, 501, 564
FalI AAGNNNNNCTT 2 cut(s) 42, 74
FaqI GGGAC 1 cut(s) 244
FatI CATG 1 cut(s) 127
FauNDI CATATG 1 cut(s) 265
FblI GTMKAC 1 cut(s) 123
Fnu4HI GCNGC 2 cut(s) 227, 511
FokI GGATG 2 cut(s) 193, 230
Fsp4HI GCNGC 2 cut(s) 227, 511
FspBI CTAG 1 cut(s) 507
GluI GCNGC 2 cut(s) 227, 511
GsuI CTGGAG 1 cut(s) 486
HaeIII GGCC 1 cut(s) 31
Hin1I GRCGYC 1 cut(s) 54
Hin1II CATG 1 cut(s) 131
HincII GTYRAC 1 cut(s) 124
HindII GTYRAC 1 cut(s) 124
HinfI GANTC 1 cut(s) 473
HphI GGTGA 4 cut(s) 162, 413, 502, 548
Hpy166II GTNNAC 2 cut(s) 124, 272
Hpy188I TCNGA 1 cut(s) 556
Hpy188III TCNNGA 2 cut(s) 352, 438
Hpy8I GTNNAC 2 cut(s) 124, 272
HpyAV CCTTC 2 cut(s) 5, 293
HpyCH4IV ACGT 3 cut(s) 54, 75, 532
HpyCH4V TGCA 4 cut(s) 131, 272, 318, 513
HpyF3I CTNAG 3 cut(s) 84, 153, 308
HpySE526I ACGT 3 cut(s) 54, 75, 532
Hsp92I GRCGYC 1 cut(s) 54
Hsp92II CATG 1 cut(s) 131
Kzo9I GATC 4 cut(s) 375, 391, 427, 434
LmnI GCTCC 2 cut(s) 142, 503
LpnPI CCDG 7 cut(s) 132, 159, 222, 288, 450, 477, 508
Lsp1109I GCAGC 2 cut(s) 213, 497
LweI GCATC 3 cut(s) 69, 223, 327
MaeI CTAG 1 cut(s) 507
MaeII ACGT 3 cut(s) 54, 75, 532
MaeIII GTNAC 1 cut(s) 490
MalI GATC 4 cut(s) 377, 393, 429, 436
MboI GATC 4 cut(s) 375, 391, 427, 434
MboII GAAGA 3 cut(s) 62, 422, 490
MfeI CAATTG 1 cut(s) 132
MflI RGATCY 1 cut(s) 427
MhlI GDGCHC 1 cut(s) 274
MluCI AATT 2 cut(s) 132, 203
MmeI TCCRAC 4 cut(s) 120, 177, 271, 310
MnlI CCTC 8 cut(s) 10, 112, 168, 172, 193, 201, 262, 447
MseI TTAA 1 cut(s) 525
MspR9I CCNGG 2 cut(s) 147, 465
MunI CAATTG 1 cut(s) 132
MvaI CCWGG 2 cut(s) 147, 465
NdeI CATATG 1 cut(s) 265
NdeII GATC 4 cut(s) 375, 391, 427, 434
NheI GCTAGC 1 cut(s) 506
NlaIII CATG 1 cut(s) 131
NlaIV GGNNCC 1 cut(s) 144
NmuCI GTSAC 1 cut(s) 490
PcsI WCGNNNNNNNCGW 1 cut(s) 482
PfeI GAWTC 1 cut(s) 473
PkrI GCNGC 2 cut(s) 228, 512
Ple19I CGATCG 1 cut(s) 437
PmaCI CACGTG 1 cut(s) 533
PmlI CACGTG 1 cut(s) 533
Ppu21I YACGTR 1 cut(s) 533
Psp6I CCWGG 2 cut(s) 145, 463
PspCI CACGTG 1 cut(s) 533
PspEI GGTNACC 1 cut(s) 490
PspGI CCWGG 2 cut(s) 145, 463
PspN4I GGNNCC 1 cut(s) 144
PspPI GGNCC 1 cut(s) 29
PsuI RGATCY 1 cut(s) 427
PvuI CGATCG 1 cut(s) 437
RsaI GTAC 2 cut(s) 362, 413
RsaNI GTAC 2 cut(s) 361, 412
SalI GTCGAC 1 cut(s) 122
SaqAI TTAA 1 cut(s) 525
SatI GCNGC 2 cut(s) 227, 511
Sau3AI GATC 4 cut(s) 375, 391, 427, 434
Sau96I GGNCC 1 cut(s) 29
ScrFI CCNGG 2 cut(s) 147, 465
SduI GDGCHC 1 cut(s) 274
SfaNI GCATC 3 cut(s) 69, 223, 327
SfcI CTRYAG 1 cut(s) 325
Sse9I AATT 2 cut(s) 132, 203
SsiI CCGC 1 cut(s) 71
SspMI CTAG 1 cut(s) 507
StyD4I CCNGG 2 cut(s) 145, 463
StyI CCWWGG 1 cut(s) 110
TaiI ACGT 3 cut(s) 57, 78, 535
TaqI TCGA 5 cut(s) 123, 321, 390, 433, 476
TasI AATT 2 cut(s) 132, 203
TfiI GAWTC 1 cut(s) 473
Tru1I TTAA 1 cut(s) 525
Tru9I TTAA 1 cut(s) 525
TseFI GTSAC 1 cut(s) 490
TseI GCWGC 2 cut(s) 226, 510
Tsp45I GTSAC 1 cut(s) 490
TspDTI ATGAA 1 cut(s) 24
TspGWI ACGGA 1 cut(s) 360
VneI GTGCAC 1 cut(s) 270
XmiI GTMKAC 1 cut(s) 123
XspI CTAG 1 cut(s) 507
ZraI GACGTC 1 cut(s) 55
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.