MD14G1033400.v1.1

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr14
OG0000562
Physical Location & Seq
Reverse (-)
2953942 .. 2955037
1096 bp
Loading structure...
UTR
Exon/CDS
Intron
MD14G1033400.v1.1.491

Sequence Viewer

Length: 855 bp
ATGACTGTCGGAACTATCGGTTCGAGAGCTGGTCCAATGCTTGCTGGGGCTGACAAGTCTTTTGAAGCTGACTGTTCTTTGGCTACTGCAGCAGGTTCCGACGTTGAGGTTAATCCAAACCAACGTCTCAGTTCTGTCTTGTTGAATGAATTCAACTATCTTCCATGTGCTAGAGCCATATCTCTTGCACTGGGAGGAAGATCTAAGCTTGGATATATCAATGGTGCTATAAAGGCGCCTGCAGCCACGTCTCCTACATTTGAGTCATGGCTGTGTAAAGATCAATTGGTTATGTCATGGTTACTTAATTCTATGGAGCGTAGAATTGCTGAAATTTTCAGTTATTCAGAATCATCCATGCATCTATGGGCTCAAGTCAAGGAAATGTATGGGAATCAAAACAACGCTGCTCGTGTTTTTCAGCTTAAGAAAGACATTGCAAATCTGCAACAAGAAGGCAAGTCGTTTGTTCAACATCTTGGCAGCTTGACAAGTATGTGGAACGAACTTAATGTTTATCGACCTCATACCACTGATGCTACTGTCCTAATAAAGAGAGCTGAGGAGGATAAGATCTTTCAACTTTTGGCAAGCTTGGGCACAGAGTTTGAAGATCTTAGAAGTCATGTACTTATGAATTCCGAGCTGCCATCTTTCACAGGTGTATGTGCTATCATTCAAAGAGAAGAAGTAAGGAAGAAAGTGATGAACTTGGAGATCAAATCAAATATGCCTGAAACTAGAGCTTATGTTTCTAATCATAGTCGCACTGAAGGAAGGCCTTATAAAGGTAAAAGGCCTGACTTGAAATGCAACTATTGTGATGCTGTTGGACACACTCGAGATAGATGCTAG
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
Retrotran_gag_2 Retrotran_gag_3 Retrotrans_gag rve

Protein Analysis

285

Amino Acids

31.69

Weight (kDa)

8.42

Isoelectric Point (pI)

37.47

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_3 PF14244 41 - 81 1.1e-10 gag-polypeptide of LTR copia-type
Retrotran_gag_2 PF14223 69 - 235 1.1e-11 gag-polypeptide of LTR copia-type
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000562)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g17331 FvH4_3g36541
malus_domestica MD07G1078600.v1.1 MD10G1237700.v1.1 MD10G1333400.v1.1 MD11G1102200.v1.1 MD13G1138400.v1.1 MD14G1033400.v1.1 MD15G1053300.v1.1
prunus_persica Prupe.1G465400_v2.0.a1 Prupe.3G136000_v2.0.a1 Prupe.7G119900_v2.0.a1
pyrus_communis pycom01g04630 pycom03g13050 pycom04g21190 pycom05g04910 pycom05g05510 pycom08g15850 pycom09g15040 pycom1094g00010 pycom11g02000 pycom12g06150 pycom13g24110 pycom13g24910 pycom14g00050 pycom15g21970 pycom15g35170 pycom15g35180 pycom16g14620 pycom16g14630 pycom808g00110
rosa_chinensis RchiOBHm_Chr1g0322851 RchiOBHm_Chr1g0365941 RchiOBHm_Chr3g0453341 RchiOBHm_Chr4g0388371 RchiOBHm_Chr4g0394021 RchiOBHm_Chr5g0013181 RchiOBHm_Chr6g0261721 RchiOBHm_Chr6g0261731 RchiOBHm_Chr7g0188861 RchiOBHm_Chr7g0192331 RchiOBHm_Chr7g0231721
rosa_multiflora Rmu_sc0002521.1_g000006 Rmu_sc0003255.1_g000026 Rmu_sc0004191.1_g000036 Rmu_sc0004414.1_g000014 Rmu_sc0005670.1_g000006 Rmu_sc0006081.1_g000001 Rmu_sc0007215.1_g000004 Rmu_sc0010088.1_g000010 Rmu_sc0020285.1_g000003 Rmu_sc0026896.1_g000002 Rmu_ssc0000019.1_g000029
rosa_roxburghii Rroxscaffold_3G00224890 Rroxscaffold_6G00400640 Rroxscaffold_7G00176590 Rroxscaffold_7G00189230
rosa_samantha Rh4BG046700
rosa_wichuraiana Rw1G012690 Rw1G031370 Rw2G042180 Rw2G043670 Rw2G046240 Rw2G049890 Rw2G050760 Rw2G051280 Rw2G053590 Rw3G007590 Rw3G026850 Rw4G001540 Rw4G009760 Rw4G019270 Rw5G000720 Rw5G005620 Rw5G041560 Rw6G007370 Rw6G009830 Rw6G015360 Rw6G031160 Rw7G004930 Rw7G011010 Rw7G024230 Rw7G028240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 786
Acc36I ACCTGC 1 cut(s) 83
AccB1I GGYRCC 1 cut(s) 235
AcsI RAATTY 3 cut(s) 149, 333, 637
AcuI CTGAAG 1 cut(s) 792
AcyI GRCGYC 1 cut(s) 236
AfaI GTAC 1 cut(s) 630
AfiI CCNNNNNNNGG 1 cut(s) 788
AflII CTTAAG 1 cut(s) 425
AgsI TTSAA 8 cut(s) 65, 145, 154, 473, 581, 611, 680, 808
AjiI CACGTC 1 cut(s) 249
AluBI AGCT 9 cut(s) 29, 68, 208, 424, 486, 560, 594, 646, 746
AluI AGCT 9 cut(s) 29, 68, 208, 424, 486, 560, 594, 646, 746
Alw26I GTCTC 2 cut(s) 131, 255
Ama87I CYCGRG 1 cut(s) 840
AoxI GGCC 2 cut(s) 779, 797
ApeKI GCWGC 5 cut(s) 89, 242, 407, 483, 646
ApoI RAATTY 3 cut(s) 149, 333, 637
ArsI GACNNNNNNTTYG 2 cut(s) 44, 76
Asp700I GAANNNNTTC 1 cut(s) 149
AspLEI GCGC 1 cut(s) 238
AspS9I GGNCC 1 cut(s) 32
AvaI CYCGRG 1 cut(s) 840
AvaII GGWCC 1 cut(s) 32
BaeGI GKGCMC 1 cut(s) 602
BanI GGYRCC 1 cut(s) 235
BanII GRGCYC 1 cut(s) 373
BauI CACGAG 1 cut(s) 411
BbvCI CCTCAGC 1 cut(s) 561
BbvI GCAGC 5 cut(s) 101, 254, 394, 495, 633
BccI CCATC 1 cut(s) 658
BcgI CGANNNNNNTGC 1 cut(s) 831
BcoDI GTCTC 2 cut(s) 131, 255
BfaI CTAG 3 cut(s) 171, 741, 853
BfmI CTRYAG 2 cut(s) 87, 240
BfoI RGCGCY 1 cut(s) 239
BfrI CTTAAG 1 cut(s) 425
BfuAI ACCTGC 1 cut(s) 83
BglII AGATCT 3 cut(s) 200, 573, 613
BisI GCNGC 5 cut(s) 90, 243, 408, 484, 647
BlsI GCNGC 5 cut(s) 91, 244, 409, 485, 648
Bme18I GGWCC 1 cut(s) 32
BmeT110I CYCGRG 1 cut(s) 840
BmgBI CACGTC 1 cut(s) 249
BmgT120I GGNCC 1 cut(s) 32
BmiI GGNNCC 2 cut(s) 97, 237
BmrI ACTGGG 1 cut(s) 200
BmsI GCATC 4 cut(s) 370, 526, 814, 839
BmuI ACTGGG 1 cut(s) 200
Bpu10I CCTNAGC 1 cut(s) 561
BpuEI CTTGAG 1 cut(s) 357
BsaHI GRCGYC 1 cut(s) 236
Bsc4I CCNNNNNNNGG 1 cut(s) 788
Bse1I ACTGG 1 cut(s) 195
Bse3DI GCAATG 1 cut(s) 435
BseGI GGATG 1 cut(s) 353
BseLI CCNNNNNNNGG 1 cut(s) 788
BseMI GCAATG 1 cut(s) 435
BseMII CTCAG 2 cut(s) 142, 552
BseNI ACTGG 1 cut(s) 195
BseRI GAGGAG 1 cut(s) 578
BseSI GKGCMC 1 cut(s) 602
BseXI GCAGC 5 cut(s) 101, 254, 394, 495, 633
BseYI CCCAGC 1 cut(s) 44
BshFI GGCC 2 cut(s) 781, 799
BshNI GGYRCC 1 cut(s) 235
BsiHKCI CYCGRG 1 cut(s) 840
BslI CCNNNNNNNGG 1 cut(s) 788
BsmAI GTCTC 2 cut(s) 131, 255
BsmBI CGTCTC 2 cut(s) 131, 255
BsnI GGCC 2 cut(s) 781, 799
BsoBI CYCGRG 1 cut(s) 840
Bsp1286I GDGCHC 2 cut(s) 373, 602
Bsp143I GATC 5 cut(s) 200, 280, 573, 613, 717
BspANI GGCC 2 cut(s) 781, 799
BspCNI CTCAG 2 cut(s) 141, 553
BspLI GGNNCC 2 cut(s) 97, 237
BspMAI CTGCAG 2 cut(s) 91, 244
BspMI ACCTGC 1 cut(s) 83
BspT107I GGYRCC 1 cut(s) 235
BspTI CTTAAG 1 cut(s) 425
BsrDI GCAATG 1 cut(s) 435
BsrI ACTGG 1 cut(s) 195
BssMI GATC 5 cut(s) 200, 280, 573, 613, 717
BssNI GRCGYC 1 cut(s) 236
BssSI CACGAG 1 cut(s) 411
Bst2BI CACGAG 1 cut(s) 411
Bst4CI ACNGT 3 cut(s) 7, 74, 544
BstACI GRCGYC 1 cut(s) 236
BstAFI CTTAAG 1 cut(s) 425
BstC8I GCNNGC 3 cut(s) 42, 240, 592
BstDEI CTNAG 4 cut(s) 128, 204, 561, 617
BstENI CCTNNNNNAGG 1 cut(s) 786
BstF5I GGATG 1 cut(s) 353
BstH2I RGCGCY 1 cut(s) 239
BstHHI GCGC 1 cut(s) 238
BstKTI GATC 5 cut(s) 203, 283, 576, 616, 720
BstMAI GTCTC 2 cut(s) 131, 255
BstMBI GATC 5 cut(s) 200, 280, 573, 613, 717
BstMWI GCNNNNNNNGC 3 cut(s) 89, 233, 242
BstSFI CTRYAG 2 cut(s) 87, 240
BstSLI GKGCMC 1 cut(s) 602
BstV1I GCAGC 5 cut(s) 101, 254, 394, 495, 633
BstX2I RGATCY 3 cut(s) 200, 573, 613
BstYI RGATCY 3 cut(s) 200, 573, 613
BsuRI GGCC 2 cut(s) 781, 799
BtrI CACGTC 1 cut(s) 249
BtsCI GGATG 1 cut(s) 353
BtsIMutI CAGTG 3 cut(s) 188, 531, 768
BveI ACCTGC 1 cut(s) 83
Cac8I GCNNGC 3 cut(s) 42, 240, 592
CfoI GCGC 1 cut(s) 238
Cfr13I GGNCC 1 cut(s) 32
Csp6I GTAC 1 cut(s) 629
CviAII CATG 5 cut(s) 165, 267, 297, 358, 626
CviQI GTAC 1 cut(s) 629
DdeI CTNAG 4 cut(s) 128, 204, 561, 617
DinI GGCGCC 1 cut(s) 237
DpnI GATC 5 cut(s) 202, 282, 575, 615, 719
DpnII GATC 5 cut(s) 200, 280, 573, 613, 717
Eco147I AGGCCT 2 cut(s) 781, 799
Eco24I GRGCYC 1 cut(s) 373
Eco47I GGWCC 1 cut(s) 32
Eco57I CTGAAG 1 cut(s) 792
Eco88I CYCGRG 1 cut(s) 840
EcoNI CCTNNNNNAGG 1 cut(s) 786
EcoRI GAATTC 2 cut(s) 149, 637
EcoT22I ATGCAT 1 cut(s) 363
EcoT38I GRGCYC 1 cut(s) 373
EgeI GGCGCC 1 cut(s) 237
EheI GGCGCC 1 cut(s) 237
Esp3I CGTCTC 2 cut(s) 131, 255
FaeI CATG 5 cut(s) 168, 270, 300, 361, 629
FatI CATG 5 cut(s) 164, 266, 296, 357, 625
Fnu4HI GCNGC 5 cut(s) 90, 243, 408, 484, 647
FokI GGATG 1 cut(s) 340
FriOI GRGCYC 1 cut(s) 373
Fsp4HI GCNGC 5 cut(s) 90, 243, 408, 484, 647
FspBI CTAG 3 cut(s) 171, 741, 853
GlaI GCGC 1 cut(s) 237
GluI GCNGC 5 cut(s) 90, 243, 408, 484, 647
GsaI CCCAGC 1 cut(s) 48
HaeII RGCGCY 1 cut(s) 239
HaeIII GGCC 2 cut(s) 781, 799
HhaI GCGC 1 cut(s) 238
Hin1I GRCGYC 1 cut(s) 236
Hin1II CATG 5 cut(s) 168, 270, 300, 361, 629
Hin6I GCGC 1 cut(s) 236
HinP1I GCGC 1 cut(s) 236
HindIII AAGCTT 2 cut(s) 206, 592
HinfI GANTC 3 cut(s) 263, 350, 394
Hpy188I TCNGA 4 cut(s) 11, 100, 349, 643
Hpy188III TCNNGA 2 cut(s) 24, 842
Hpy99I CGWCG 1 cut(s) 104
HpyAV CCTTC 3 cut(s) 449, 767, 771
HpyCH4III ACNGT 3 cut(s) 7, 74, 544
HpyCH4IV ACGT 3 cut(s) 102, 124, 248
HpyCH4V TGCA 7 cut(s) 89, 188, 242, 361, 440, 448, 813
HpyF10VI GCNNNNNNNGC 3 cut(s) 89, 233, 242
HpyF3I CTNAG 4 cut(s) 128, 204, 561, 617
HpySE526I ACGT 3 cut(s) 102, 124, 248
Hsp92I GRCGYC 1 cut(s) 236
Hsp92II CATG 5 cut(s) 168, 270, 300, 361, 629
HspAI GCGC 1 cut(s) 236
KasI GGCGCC 1 cut(s) 235
Kzo9I GATC 5 cut(s) 200, 280, 573, 613, 717
LmnI GCTCC 1 cut(s) 316
LpnPI CCDG 8 cut(s) 15, 30, 78, 176, 252, 645, 747, 813
Lsp1109I GCAGC 5 cut(s) 101, 254, 394, 495, 633
LweI GCATC 4 cut(s) 370, 526, 814, 839
MaeI CTAG 3 cut(s) 171, 741, 853
MaeII ACGT 3 cut(s) 102, 124, 248
MaeIII GTNAC 1 cut(s) 300
MalI GATC 5 cut(s) 202, 282, 575, 615, 719
MboI GATC 5 cut(s) 200, 280, 573, 613, 717
MboII GAAGA 5 cut(s) 152, 210, 623, 698, 709
MfeI CAATTG 1 cut(s) 284
MflI RGATCY 3 cut(s) 200, 573, 613
MhlI GDGCHC 2 cut(s) 373, 602
MluCI AATT 6 cut(s) 149, 284, 307, 324, 333, 637
Mly113I GGCGCC 1 cut(s) 236
MlyI GAGTC 1 cut(s) 272
MmeI TCCRAC 2 cut(s) 123, 811
MnlI CCTC 5 cut(s) 100, 188, 534, 556, 559
Mph1103I ATGCAT 1 cut(s) 363
MroXI GAANNNNTTC 1 cut(s) 149
MseI TTAA 4 cut(s) 111, 306, 426, 510
MslI CAYNNNNRTG 1 cut(s) 271
MspCI CTTAAG 1 cut(s) 425
MunI CAATTG 1 cut(s) 284
MwoI GCNNNNNNNGC 3 cut(s) 89, 233, 242
NarI GGCGCC 1 cut(s) 236
NdeII GATC 5 cut(s) 200, 280, 573, 613, 717
NlaIII CATG 5 cut(s) 168, 270, 300, 361, 629
NlaIV GGNNCC 2 cut(s) 97, 237
NsiI ATGCAT 1 cut(s) 363
PaeR7I CTCGAG 1 cut(s) 840
PceI AGGCCT 2 cut(s) 781, 799
PdmI GAANNNNTTC 1 cut(s) 149
PfeI GAWTC 2 cut(s) 350, 394
PkrI GCNGC 5 cut(s) 91, 244, 409, 485, 648
PleI GAGTC 1 cut(s) 271
PluTI GGCGCC 1 cut(s) 239
PpsI GAGTC 1 cut(s) 271
PsiI TTATAA 1 cut(s) 786
PspFI CCCAGC 1 cut(s) 44
PspN4I GGNNCC 2 cut(s) 97, 237
PspPI GGNCC 1 cut(s) 32
PstI CTGCAG 2 cut(s) 91, 244
PsuI RGATCY 3 cut(s) 200, 573, 613
RsaI GTAC 1 cut(s) 630
RsaNI GTAC 1 cut(s) 629
RseI CAYNNNNRTG 1 cut(s) 271
SaqAI TTAA 4 cut(s) 111, 306, 426, 510
SatI GCNGC 5 cut(s) 90, 243, 408, 484, 647
Sau3AI GATC 5 cut(s) 200, 280, 573, 613, 717
Sau96I GGNCC 1 cut(s) 32
SchI GAGTC 1 cut(s) 272
SduI GDGCHC 2 cut(s) 373, 602
SfaNI GCATC 4 cut(s) 370, 526, 814, 839
SfcI CTRYAG 2 cut(s) 87, 240
SfoI GGCGCC 1 cut(s) 237
Sfr274I CTCGAG 1 cut(s) 840
SinI GGWCC 1 cut(s) 32
SlaI CTCGAG 1 cut(s) 840
SmiMI CAYNNNNRTG 1 cut(s) 271
SmlI CTYRAG 3 cut(s) 372, 425, 840
SmoI CTYRAG 3 cut(s) 372, 425, 840
Sse9I AATT 6 cut(s) 149, 284, 307, 324, 333, 637
SseBI AGGCCT 2 cut(s) 781, 799
SspDI GGCGCC 1 cut(s) 235
SspMI CTAG 3 cut(s) 171, 741, 853
StuI AGGCCT 2 cut(s) 781, 799
TaaI ACNGT 3 cut(s) 7, 74, 544
TaiI ACGT 3 cut(s) 105, 127, 251
TaqI TCGA 3 cut(s) 23, 520, 841
TasI AATT 6 cut(s) 149, 284, 307, 324, 333, 637
TatI WGTACW 1 cut(s) 628
TfiI GAWTC 2 cut(s) 350, 394
Tru1I TTAA 4 cut(s) 111, 306, 426, 510
Tru9I TTAA 4 cut(s) 111, 306, 426, 510
TscAI CASTG 3 cut(s) 195, 538, 775
TseI GCWGC 5 cut(s) 89, 242, 407, 483, 646
TspDTI ATGAA 3 cut(s) 162, 650, 722
TspRI CASTG 3 cut(s) 195, 538, 775
Vha464I CTTAAG 1 cut(s) 425
VpaK11BI GGWCC 1 cut(s) 32
XagI CCTNNNNNAGG 1 cut(s) 786
XapI RAATTY 3 cut(s) 149, 333, 637
XhoI CTCGAG 1 cut(s) 840
XmnI GAANNNNTTC 1 cut(s) 149
XspI CTAG 3 cut(s) 171, 741, 853
Zsp2I ATGCAT 1 cut(s) 363
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.