MD07G1078600.v1.1

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr07
OG0000562
Physical Location & Seq
Reverse (-)
7596871 .. 7598266
1396 bp
Loading structure...
UTR
Exon/CDS
Intron
MD07G1078600.v1.1.491

Sequence Viewer

Length: 618 bp
ATGCCTGAGACTACCTCACCGGAGTATGATGCTTGGCTATGCAAAGACCAGTTGGTCATGTCGTGGCTACTCAATTCCATGGATCGTAAGATTGCAGAAATTTTTAGCTATGCTGAATCCTCCATGACTCTTTGGAAAAATCTCAAGGAAATGTATGGAAATCAGAACAATGCGGCTAGAGTGTTTCAGTTAAAGAAGGACATTGCTGGTTTGCAACAGGAAGGAAAGCCATTTGTGCAACATCTTGGAAAGCTGACCACTATGTGGAACGAGCTGAATGTGTATCGACCACACACCATCGACGCTGCTGTGCTAACTAAAAGAGCCGAGGAAGACAAAATATTCCAACTCCTAGCAAGTCTGAGTCCTGAATTCGAAGATCTTCGAAGTCATATCCTCATGAATCCCGACCTGCCTTCTTTTTCAAGTGTGTGTGCCACAATTCAAAGAGAAGAGGTTCGAAGGAAAGTCATGACCATGGACATGAAGGCAAATATACCAGAAGCTAGGGCTTACTTCTCTAACCAAAAACTTGGTGAGGAGAGAGGCTACAAAGGAAAGAAAACTGGCTTAAAATGTAGCCATTGTGATGCTGGTGGGCACTCAAGAGATCGATGA
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 rve

Protein Analysis

206

Amino Acids

23.55

Weight (kDa)

8.28

Isoelectric Point (pI)

49.0

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 7 - 157 2.7e-16 gag-polypeptide of LTR copia-type
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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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)
AasI GACNNNNNNGTC 1 cut(s) 53
Acc36I ACCTGC 1 cut(s) 420
AccB7I CCANNNNNTGG 1 cut(s) 264
AciI CCGC 1 cut(s) 173
AclWI GGATC 1 cut(s) 90
AcsI RAATTY 2 cut(s) 99, 371
AdeI CACNNNGTG 1 cut(s) 264
AfiI CCNNNNNNNGG 1 cut(s) 264
AgsI TTSAA 2 cut(s) 426, 446
AluBI AGCT 4 cut(s) 108, 253, 274, 506
AluI AGCT 4 cut(s) 108, 253, 274, 506
Alw26I GTCTC 1 cut(s) 2
AlwI GGATC 1 cut(s) 90
ApeKI GCWGC 1 cut(s) 305
ApoI RAATTY 2 cut(s) 99, 371
Asp700I GAANNNNTTC 2 cut(s) 381, 456
AsuHPI GGTGA 2 cut(s) 9, 548
AsuII TTCGAA 3 cut(s) 375, 385, 460
BaeGI GKGCMC 1 cut(s) 603
BbsI GAAGAC 1 cut(s) 339
BbvI GCAGC 1 cut(s) 292
BccI CCATC 1 cut(s) 305
BcoDI GTCTC 1 cut(s) 2
BfaI CTAG 3 cut(s) 177, 353, 507
BfuAI ACCTGC 1 cut(s) 420
BglII AGATCT 1 cut(s) 379
BisI GCNGC 2 cut(s) 174, 306
BlsI GCNGC 2 cut(s) 175, 307
BmsI GCATC 2 cut(s) 19, 580
BpiI GAAGAC 1 cut(s) 339
BplI GAGNNNNNCTC 1 cut(s) 31
Bpu14I TTCGAA 3 cut(s) 375, 385, 460
BpuEI CTTGAG 2 cut(s) 128, 589
Bsa29I ATCGAT 1 cut(s) 613
BsaJI CCNNGG 3 cut(s) 78, 327, 477
BsaWI WCCGGW 1 cut(s) 19
Bsc4I CCNNNNNNNGG 1 cut(s) 264
Bse1I ACTGG 2 cut(s) 49, 571
Bse3DI GCAATG 1 cut(s) 201
BseCI ATCGAT 1 cut(s) 613
BseDI CCNNGG 3 cut(s) 78, 327, 477
BseLI CCNNNNNNNGG 1 cut(s) 264
BseMI GCAATG 1 cut(s) 201
BseMII CTCAG 1 cut(s) 353
BseNI ACTGG 2 cut(s) 49, 571
BseRI GAGGAG 1 cut(s) 554
BseSI GKGCMC 1 cut(s) 603
BseXI GCAGC 1 cut(s) 292
BshVI ATCGAT 1 cut(s) 613
BsiSI CCGG 1 cut(s) 20
BslI CCNNNNNNNGG 1 cut(s) 264
BsmAI GTCTC 1 cut(s) 2
Bsp119I TTCGAA 3 cut(s) 375, 385, 460
Bsp1286I GDGCHC 1 cut(s) 603
Bsp143I GATC 3 cut(s) 82, 379, 610
Bsp19I CCATGG 2 cut(s) 78, 477
BspACI CCGC 1 cut(s) 173
BspCNI CTCAG 1 cut(s) 354
BspDI ATCGAT 1 cut(s) 613
BspHI TCATGA 2 cut(s) 399, 471
BspMI ACCTGC 1 cut(s) 420
BspPI GGATC 1 cut(s) 90
BspT104I TTCGAA 3 cut(s) 375, 385, 460
BsrDI GCAATG 1 cut(s) 201
BsrI ACTGG 2 cut(s) 49, 571
BssECI CCNNGG 3 cut(s) 78, 327, 477
BssMI GATC 3 cut(s) 82, 379, 610
BssT1I CCWWGG 2 cut(s) 78, 477
Bst6I CTCTTC 1 cut(s) 447
BstBI TTCGAA 3 cut(s) 375, 385, 460
BstDEI CTNAG 2 cut(s) 6, 362
BstDSI CCRYGG 2 cut(s) 78, 477
BstKTI GATC 3 cut(s) 85, 382, 613
BstMAI GTCTC 1 cut(s) 2
BstMBI GATC 3 cut(s) 82, 379, 610
BstMWI GCNNNNNNNGC 1 cut(s) 235
BstSLI GKGCMC 1 cut(s) 603
BstV1I GCAGC 1 cut(s) 292
BstV2I GAAGAC 1 cut(s) 339
BstX2I RGATCY 1 cut(s) 379
BstXI CCANNNNNNTGG 1 cut(s) 533
BstYI RGATCY 1 cut(s) 379
Bsu15I ATCGAT 1 cut(s) 613
BsuTUI ATCGAT 1 cut(s) 613
BtgI CCRYGG 2 cut(s) 78, 477
BveI ACCTGC 1 cut(s) 420
CciI TCATGA 2 cut(s) 399, 471
ClaI ATCGAT 1 cut(s) 613
CseI GACGC 1 cut(s) 311
CviAII CATG 7 cut(s) 58, 79, 124, 400, 472, 478, 484
DdeI CTNAG 2 cut(s) 6, 362
DpnI GATC 3 cut(s) 84, 381, 612
DpnII GATC 3 cut(s) 82, 379, 610
DraIII CACNNNGTG 1 cut(s) 264
DrdI GACNNNNNNGTC 1 cut(s) 53
DseDI GACNNNNNNGTC 1 cut(s) 53
Eam1104I CTCTTC 1 cut(s) 447
EarI CTCTTC 1 cut(s) 447
Eco130I CCWWGG 2 cut(s) 78, 477
EcoRI GAATTC 1 cut(s) 371
EcoT14I CCWWGG 2 cut(s) 78, 477
ErhI CCWWGG 2 cut(s) 78, 477
FaeI CATG 7 cut(s) 61, 82, 127, 403, 475, 481, 487
FatI CATG 7 cut(s) 57, 78, 123, 399, 471, 477, 483
Fnu4HI GCNGC 2 cut(s) 174, 306
Fsp4HI GCNGC 2 cut(s) 174, 306
FspBI CTAG 3 cut(s) 177, 353, 507
GluI GCNGC 2 cut(s) 174, 306
HapII CCGG 1 cut(s) 20
HgaI GACGC 1 cut(s) 311
Hin1II CATG 7 cut(s) 61, 82, 127, 403, 475, 481, 487
HinfI GANTC 4 cut(s) 116, 127, 364, 403
HpaII CCGG 1 cut(s) 20
HphI GGTGA 2 cut(s) 9, 548
Hpy188I TCNGA 2 cut(s) 165, 363
Hpy188III TCNNGA 5 cut(s) 368, 400, 407, 472, 606
Hpy99I CGWCG 1 cut(s) 305
HpyAV CCTTC 5 cut(s) 190, 215, 426, 456, 481
HpyCH4V TGCA 4 cut(s) 42, 95, 214, 238
HpyF10VI GCNNNNNNNGC 1 cut(s) 235
HpyF3I CTNAG 2 cut(s) 6, 362
Hsp92II CATG 7 cut(s) 61, 82, 127, 403, 475, 481, 487
Kzo9I GATC 3 cut(s) 82, 379, 610
Lsp1109I GCAGC 1 cut(s) 292
LweI GCATC 2 cut(s) 19, 580
MaeI CTAG 3 cut(s) 177, 353, 507
MalI GATC 3 cut(s) 84, 381, 612
MboI GATC 3 cut(s) 82, 379, 610
MboII GAAGA 4 cut(s) 344, 374, 389, 464
MflI RGATCY 1 cut(s) 379
MhlI GDGCHC 1 cut(s) 603
MluCI AATT 4 cut(s) 73, 99, 371, 441
MlyI GAGTC 2 cut(s) 121, 373
MmeI TCCRAC 1 cut(s) 370
MnlI CCTC 7 cut(s) 25, 130, 322, 407, 448, 532, 539
MroXI GAANNNNTTC 2 cut(s) 381, 456
MseI TTAA 2 cut(s) 191, 572
MslI CAYNNNNRTG 3 cut(s) 476, 482, 588
MspI CCGG 1 cut(s) 20
MwoI GCNNNNNNNGC 1 cut(s) 235
NcoI CCATGG 2 cut(s) 78, 477
NdeII GATC 3 cut(s) 82, 379, 610
NlaIII CATG 7 cut(s) 61, 82, 127, 403, 475, 481, 487
NmeAIII GCCGAG 1 cut(s) 352
NspV TTCGAA 3 cut(s) 375, 385, 460
PagI TCATGA 2 cut(s) 399, 471
PdmI GAANNNNTTC 2 cut(s) 381, 456
PfeI GAWTC 2 cut(s) 116, 403
PflMI CCANNNNNTGG 1 cut(s) 264
PkrI GCNGC 2 cut(s) 175, 307
PleI GAGTC 2 cut(s) 121, 372
PpsI GAGTC 2 cut(s) 121, 372
PsuI RGATCY 1 cut(s) 379
RseI CAYNNNNRTG 3 cut(s) 476, 482, 588
SaqAI TTAA 2 cut(s) 191, 572
SatI GCNGC 2 cut(s) 174, 306
Sau3AI GATC 3 cut(s) 82, 379, 610
SchI GAGTC 2 cut(s) 121, 373
SduI GDGCHC 1 cut(s) 603
SetI ASST 7 cut(s) 17, 110, 255, 276, 414, 459, 508
SfaNI GCATC 2 cut(s) 19, 580
SfuI TTCGAA 3 cut(s) 375, 385, 460
SmiMI CAYNNNNRTG 3 cut(s) 476, 482, 588
SmlI CTYRAG 2 cut(s) 143, 604
SmoI CTYRAG 2 cut(s) 143, 604
Sse9I AATT 4 cut(s) 73, 99, 371, 441
SsiI CCGC 1 cut(s) 173
SspI AATATT 1 cut(s) 342
SspMI CTAG 3 cut(s) 177, 353, 507
StyI CCWWGG 2 cut(s) 78, 477
TaqI TCGA 6 cut(s) 286, 300, 375, 385, 460, 613
TasI AATT 4 cut(s) 73, 99, 371, 441
TauI GCSGC 1 cut(s) 176
TfiI GAWTC 2 cut(s) 116, 403
Tru1I TTAA 2 cut(s) 191, 572
Tru9I TTAA 2 cut(s) 191, 572
TseI GCWGC 1 cut(s) 305
TspDTI ATGAA 2 cut(s) 416, 500
Van91I CCANNNNNTGG 1 cut(s) 264
XapI RAATTY 2 cut(s) 99, 371
XcmI CCANNNNNNNNNTGG 1 cut(s) 590
XmnI GAANNNNTTC 2 cut(s) 381, 456
XspI CTAG 3 cut(s) 177, 353, 507
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.