Rmu_sc0000720.1_g000013

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0000720.1
OG0000128
Physical Location & Seq
Reverse (-)
44515 .. 45078
564 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0000720.1_g000013.1.cds

Sequence Viewer

Length: 564 bp
atgttagagctcaccaacaccaaacaatggaatgacgagccagccatagaattcatcaaccgttggcgtgcattaagcctcgattgcaatgatcgactcttagagttgtcagcagtagaaatgtgtattcaaggcatgcattgggacttattgtacatccgtcaagggataaagcctcgcacctttgaaaaacttgtcactcgagctcatgacatggaacttagcatcgctagtcatagtcgaagaataggtgaaattgttgaaccacaaaatcagaaacatgtcatggagtccttggcaatcatagctcctgtcaaagtcacagcacaaatcaagtcagataaccaaaacaagttggagccgactcatgatcaaacaaggcgacgcactcttaaagagctagaagctaaaagttacccttttccagattccgatgttgctgacatgttggaagatttgcttcaaaagaaagtaattaaactaccagactgcaagcgtccggaagagatgtatcgcatcaatgaaccaaagtattgcaaataccaccatgttatcagtacctga
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

Protein Analysis

187

Amino Acids

21.98

Weight (kDa)

6.66

Isoelectric Point (pI)

46.24

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this 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: OG0000128)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g28082 FvH4_2g15191 FvH4_2g31621 FvH4_3g07261 FvH4_3g22806 FvH4_3g26703 FvH4_3g26704 FvH4_3g31360 FvH4_4g01161 FvH4_4g22271 FvH4_4g25732 FvH4_5g00242 FvH4_5g28911 FvH4_5g32461 FvH4_6g13112 FvH4_6g53790 FvH4_6g53791 FvH4_7g03661 FvH4_7g04125 FvH4_7g04126
pyrus_communis pycom01g01950 pycom01g01960 pycom01g03260 pycom01g07760 pycom01g11430 pycom01g23980 pycom02g15030 pycom02g18630 pycom03g12320 pycom03g18810 pycom03g19250 pycom04g05010 pycom04g06520 pycom04g06680 pycom04g09630 pycom04g09640 pycom05g06850 pycom05g07540 pycom05g08940 pycom06g04300 pycom06g05750 pycom06g06960 pycom06g19690 pycom07g08750 pycom07g10700 pycom07g10910 pycom07g27480 pycom07g27790 pycom07g27800 pycom08g13620 pycom09g03540 pycom09g03550 pycom09g09870 pycom09g13480 pycom09g14360 pycom09g14890 pycom09g14930 pycom09g15760 pycom10g02190 pycom10g05270 pycom10g06810 pycom10g06830 pycom10g08060 pycom10g08520 pycom11g02350 pycom11g14170 pycom11g15050 pycom11g19270 pycom11g20160 pycom11g22420 pycom12g08620 pycom12g08630 pycom12g10440 pycom12g16590 pycom133g00190 pycom13g20730 pycom13g22230 pycom13g22670 pycom13g23230 pycom13g23250 pycom13g24880 pycom13g25300 pycom13g28040 pycom13g29010 pycom14g07570 pycom14g18650 pycom15g04500 pycom15g09310 pycom15g27210 pycom15g30810 pycom15g34920 pycom16g16040 pycom16g17260 pycom16g17940 pycom16g20990 pycom16g23470 pycom16g24160 pycom16g24720 pycom16g25910 pycom16g25920 pycom16g26370 pycom17g03310 pycom17g12670 pycom17g17530 pycom17g25090 pycom17g27300 pycom17g27310 pycom420g00140 pycom420g00160 pycom420g00320 pycom505g00220 pycom520g00740 pycom520g01010 pycom520g01020 pycom576g00060 pycom675g00040
rosa_laevigata RLG00000022630
rosa_multiflora Rmu_co7993280.1_g000001 Rmu_co8054704.1_g000001 Rmu_co8148394.1_g000001 Rmu_co8243015.1_g000001 Rmu_co8272095.1_g000001 Rmu_co8282359.1_g000001 Rmu_co8334783.1_g000001 Rmu_co8404405.1_g000001 Rmu_sc0000161.1_g000030 Rmu_sc0000418.1_g000026 Rmu_sc0000488.1_g000015 Rmu_sc0000706.1_g000041 Rmu_sc0000720.1_g000013 Rmu_sc0000776.1_g000022 Rmu_sc0000948.1_g000017 Rmu_sc0001167.1_g000045 Rmu_sc0001167.1_g000047 Rmu_sc0001211.1_g000054 Rmu_sc0001241.1_g000019 Rmu_sc0001307.1_g000021 Rmu_sc0001438.1_g000043 Rmu_sc0001468.1_g000032 Rmu_sc0001851.1_g000020 Rmu_sc0002026.1_g000023 Rmu_sc0002811.1_g000016 Rmu_sc0002958.1_g000002 Rmu_sc0002958.1_g000003 Rmu_sc0003745.1_g000010 Rmu_sc0004234.1_g000006 Rmu_sc0004234.1_g000008 Rmu_sc0005035.1_g000001 Rmu_sc0005320.1_g000010 Rmu_sc0005866.1_g000006 Rmu_sc0006139.1_g000009 Rmu_sc0006504.1_g000008 Rmu_sc0006695.1_g000049 Rmu_sc0006695.1_g000050 Rmu_sc0006981.1_g000001 Rmu_sc0007108.1_g000012 Rmu_sc0007355.1_g000001 Rmu_sc0007873.1_g000015 Rmu_sc0007961.1_g000003 Rmu_sc0008991.1_g000005 Rmu_sc0009528.1_g000009 Rmu_sc0013299.1_g000003 Rmu_sc0013532.1_g000015 Rmu_sc0015524.1_g000001 Rmu_sc0015793.1_g000001 Rmu_sc0015817.1_g000006 Rmu_sc0015930.1_g000003 Rmu_sc0015930.1_g000006 Rmu_sc0016952.1_g000002 Rmu_sc0016952.1_g000003 Rmu_sc0018715.1_g000003 Rmu_sc0018715.1_g000005 Rmu_sc0023934.1_g000003 Rmu_sc0023989.1_g000002 Rmu_sc0023989.1_g000003 Rmu_sc0028612.1_g000001 Rmu_sc0029049.1_g000001 Rmu_sc0029639.1_g000001 Rmu_sc0035263.1_g000001 Rmu_sc0037892.1_g000001 Rmu_ssc0000170.1_g000024 Rmu_ssc0000233.1_g000057 Rmu_ssc0000259.1_g000055 Rmu_ssc0000259.1_g000057
rosa_roxburghii Rroxscaffold_4G00287780 Rroxscaffold_4G00325290 Rroxscaffold_5G00333910 Rroxscaffold_7G00211350
rosa_rugosa Rorug01G0056300 Rorug04G0149000 Rorug07G0222000
rosa_samantha Rh1AG072900 Rh1CG072000
rosa_wichuraiana Rw0G003630 Rw0G005250 Rw0G020770 Rw0G023770 Rw1G005460 Rw1G005980 Rw1G007190 Rw1G011350 Rw1G022520 Rw1G028660 Rw2G018620 Rw2G019490 Rw4G006910 Rw4G013020 Rw4G023970 Rw5G044650 Rw6G006590 Rw6G012210 Rw6G023750 Rw7G027370 Rw7G027460 Rw7G035570

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 27
AccIII TCCGGA 1 cut(s) 499
AcsI RAATTY 1 cut(s) 50
AfaI GTAC 2 cut(s) 155, 559
AfiI CCNNNNNNNGG 1 cut(s) 27
AflIII ACRYGT 2 cut(s) 280, 444
AgsI TTSAA 4 cut(s) 131, 188, 263, 464
AluBI AGCT 5 cut(s) 10, 206, 308, 400, 407
AluI AGCT 5 cut(s) 10, 206, 308, 400, 407
Alw21I GWGCWC 2 cut(s) 12, 208
AlwNI CAGNNNCTG 1 cut(s) 561
Ama87I CYCGRG 1 cut(s) 201
Aor13HI TCCGGA 1 cut(s) 499
ApoI RAATTY 1 cut(s) 50
AsuHPI GGTGA 2 cut(s) 4, 263
AvaI CYCGRG 1 cut(s) 201
BanII GRGCYC 2 cut(s) 12, 208
Bbv12I GWGCWC 2 cut(s) 12, 208
BclI TGATCA 1 cut(s) 370
BfaI CTAG 2 cut(s) 231, 401
BmeT110I CYCGRG 1 cut(s) 201
BmiI GGNNCC 1 cut(s) 360
BmsI GCATC 2 cut(s) 234, 525
BsaJI CCNNGG 1 cut(s) 294
BsaWI WCCGGW 1 cut(s) 499
Bsc4I CCNNNNNNNGG 1 cut(s) 27
Bse3DI GCAATG 1 cut(s) 94
BseAI TCCGGA 1 cut(s) 499
BseDI CCNNGG 1 cut(s) 294
BseGI GGATG 1 cut(s) 156
BseLI CCNNNNNNNGG 1 cut(s) 27
BseMI GCAATG 1 cut(s) 94
BsiHKAI GWGCWC 2 cut(s) 12, 208
BsiHKCI CYCGRG 1 cut(s) 201
BsiSI CCGG 1 cut(s) 500
BslFI GGGAC 1 cut(s) 158
BslI CCNNNNNNNGG 1 cut(s) 27
BsmFI GGGAC 1 cut(s) 158
BsoBI CYCGRG 1 cut(s) 201
Bsp1286I GDGCHC 2 cut(s) 12, 208
Bsp13I TCCGGA 1 cut(s) 499
Bsp1407I TGTACA 1 cut(s) 153
Bsp143I GATC 2 cut(s) 91, 370
BspEI TCCGGA 1 cut(s) 499
BspHI TCATGA 2 cut(s) 208, 367
BspLI GGNNCC 1 cut(s) 360
BsrDI GCAATG 1 cut(s) 94
BsrGI TGTACA 1 cut(s) 153
BssECI CCNNGG 1 cut(s) 294
BssMI GATC 2 cut(s) 91, 370
BssT1I CCWWGG 1 cut(s) 294
Bst4CI ACNGT 1 cut(s) 62
Bst6I CTCTTC 1 cut(s) 498
BstAUI TGTACA 1 cut(s) 153
BstC8I GCNNGC 4 cut(s) 42, 69, 137, 494
BstDEI CTNAG 2 cut(s) 100, 221
BstF5I GGATG 1 cut(s) 156
BstKTI GATC 2 cut(s) 94, 373
BstMBI GATC 2 cut(s) 91, 370
BstMWI GCNNNNNNNGC 2 cut(s) 84, 305
BstNSI RCATGY 3 cut(s) 139, 284, 448
BtgZI GCGATG 1 cut(s) 211
BtsCI GGATG 1 cut(s) 156
Cac8I GCNNGC 4 cut(s) 42, 69, 137, 494
CaiI CAGNNNCTG 1 cut(s) 561
CciI TCATGA 2 cut(s) 208, 367
CseI GACGC 2 cut(s) 393, 485
Csp6I GTAC 2 cut(s) 154, 558
CviAII CATG 8 cut(s) 136, 209, 214, 281, 286, 368, 445, 548
CviQI GTAC 2 cut(s) 154, 558
DdeI CTNAG 2 cut(s) 100, 221
DpnI GATC 2 cut(s) 93, 372
DpnII GATC 2 cut(s) 91, 370
Eam1104I CTCTTC 1 cut(s) 498
EarI CTCTTC 1 cut(s) 498
Ecl136II GAGCTC 2 cut(s) 10, 206
Eco130I CCWWGG 1 cut(s) 294
Eco24I GRGCYC 2 cut(s) 12, 208
Eco53kI GAGCTC 2 cut(s) 10, 206
Eco88I CYCGRG 1 cut(s) 201
EcoICRI GAGCTC 2 cut(s) 10, 206
EcoRI GAATTC 1 cut(s) 50
EcoT14I CCWWGG 1 cut(s) 294
EcoT22I ATGCAT 1 cut(s) 141
EcoT38I GRGCYC 2 cut(s) 12, 208
ErhI CCWWGG 1 cut(s) 294
FaeI CATG 8 cut(s) 139, 212, 217, 284, 289, 371, 448, 551
FalI AAGNNNNNCTT 4 cut(s) 403, 435, 444, 476
FaqI GGGAC 1 cut(s) 158
FatI CATG 8 cut(s) 135, 208, 213, 280, 285, 367, 444, 547
FbaI TGATCA 1 cut(s) 370
FokI GGATG 1 cut(s) 143
FriOI GRGCYC 2 cut(s) 12, 208
FspBI CTAG 2 cut(s) 231, 401
HapII CCGG 1 cut(s) 500
HgaI GACGC 2 cut(s) 393, 485
Hin1II CATG 8 cut(s) 139, 212, 217, 284, 289, 371, 448, 551
HinfI GANTC 4 cut(s) 96, 290, 364, 428
HpaII CCGG 1 cut(s) 500
HphI GGTGA 2 cut(s) 4, 263
Hpy188I TCNGA 3 cut(s) 276, 340, 433
Hpy188III TCNNGA 4 cut(s) 209, 368, 425, 500
Hpy99I CGWCG 1 cut(s) 387
HpyCH4III ACNGT 1 cut(s) 62
HpyCH4V TGCA 5 cut(s) 71, 87, 139, 492, 537
HpyF10VI GCNNNNNNNGC 2 cut(s) 84, 305
HpyF3I CTNAG 2 cut(s) 100, 221
Hsp92II CATG 8 cut(s) 139, 212, 217, 284, 289, 371, 448, 551
Kpn2I TCCGGA 1 cut(s) 499
Ksp22I TGATCA 1 cut(s) 370
Kzo9I GATC 2 cut(s) 91, 370
LmnI GCTCC 2 cut(s) 313, 358
LpnPI CCDG 5 cut(s) 54, 324, 438, 498, 513
LweI GCATC 2 cut(s) 234, 525
MaeI CTAG 2 cut(s) 231, 401
MaeIII GTNAC 3 cut(s) 196, 319, 413
MalI GATC 2 cut(s) 93, 372
MboI GATC 2 cut(s) 91, 370
MboII GAAGA 3 cut(s) 255, 464, 515
MhlI GDGCHC 2 cut(s) 12, 208
MluCI AATT 3 cut(s) 50, 255, 474
MlyI GAGTC 3 cut(s) 90, 299, 358
MmeI TCCRAC 2 cut(s) 336, 429
MnlI CCTC 2 cut(s) 89, 186
Mph1103I ATGCAT 1 cut(s) 141
MroI TCCGGA 1 cut(s) 499
MseI TTAA 3 cut(s) 74, 393, 477
MspI CCGG 1 cut(s) 500
MwoI GCNNNNNNNGC 2 cut(s) 84, 305
NdeII GATC 2 cut(s) 91, 370
NlaIII CATG 8 cut(s) 139, 212, 217, 284, 289, 371, 448, 551
NlaIV GGNNCC 1 cut(s) 360
NmuCI GTSAC 2 cut(s) 196, 319
NsiI ATGCAT 1 cut(s) 141
NspI RCATGY 3 cut(s) 139, 284, 448
PaeI GCATGC 1 cut(s) 139
PaeR7I CTCGAG 1 cut(s) 201
PagI TCATGA 2 cut(s) 208, 367
PciI ACATGT 2 cut(s) 280, 444
PfeI GAWTC 1 cut(s) 428
PflMI CCANNNNNTGG 1 cut(s) 27
PleI GAGTC 3 cut(s) 90, 298, 358
PpsI GAGTC 3 cut(s) 90, 298, 358
PscI ACATGT 2 cut(s) 280, 444
Psp124BI GAGCTC 2 cut(s) 12, 208
PspN4I GGNNCC 1 cut(s) 360
PspXI VCTCGAGB 1 cut(s) 201
PstNI CAGNNNCTG 1 cut(s) 561
RsaI GTAC 2 cut(s) 155, 559
RsaNI GTAC 2 cut(s) 154, 558
SacI GAGCTC 2 cut(s) 12, 208
SaqAI TTAA 3 cut(s) 74, 393, 477
Sau3AI GATC 2 cut(s) 91, 370
SchI GAGTC 3 cut(s) 90, 299, 358
SduI GDGCHC 2 cut(s) 12, 208
SetI ASST 8 cut(s) 12, 185, 208, 253, 310, 402, 409, 563
SfaNI GCATC 2 cut(s) 234, 525
Sfr274I CTCGAG 1 cut(s) 201
SlaI CTCGAG 1 cut(s) 201
SmlI CTYRAG 1 cut(s) 201
SmoI CTYRAG 1 cut(s) 201
SphI GCATGC 1 cut(s) 139
Sse9I AATT 3 cut(s) 50, 255, 474
SspMI CTAG 2 cut(s) 231, 401
SstI GAGCTC 2 cut(s) 12, 208
StyI CCWWGG 1 cut(s) 294
TaaI ACNGT 1 cut(s) 62
TaqI TCGA 4 cut(s) 81, 94, 202, 241
TasI AATT 3 cut(s) 50, 255, 474
TatI WGTACW 1 cut(s) 153
TfiI GAWTC 1 cut(s) 428
Tru1I TTAA 3 cut(s) 74, 393, 477
Tru9I TTAA 3 cut(s) 74, 393, 477
TseFI GTSAC 2 cut(s) 196, 319
Tsp45I GTSAC 2 cut(s) 196, 319
TspDTI ATGAA 2 cut(s) 43, 537
TspGWI ACGGA 1 cut(s) 149
Van91I CCANNNNNTGG 1 cut(s) 27
XapI RAATTY 1 cut(s) 50
XceI RCATGY 3 cut(s) 139, 284, 448
XhoI CTCGAG 1 cut(s) 201
XspI CTAG 2 cut(s) 231, 401
Zsp2I ATGCAT 1 cut(s) 141
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.