Rroxscaffold_5G00333910

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000128
Physical Location & Seq
Forward (+)
1243462 .. 1245033
1572 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00333910.1

Sequence Viewer

Length: 426 bp
ATGGAACTTAGCATCGCTAGTCATAGTCGAGGAAGAGGTGAAATTGTTGAACCACAAAATCAAAAACATGACATGGAGTCCTTGGAGATCACAACTCCTGTCAAGATCACGGCACGAGTCAAGTCAAATAACCAAAACAAGTTGGAGCCGACTCATGATCAAACAAGGCGGTGCACTCTTAGAGAGCTAGAAGCTAAAAGTTACCCTTTTCCGCATTCCGATGTTGTTGACATGTTGGAAGACTTGCTTCAAAAGAAAATGATCAAATTGCCATACCGCAAACGTCCGGAAGAGATGCATCGCATCAATGACCCAAAGTACTGCAAGTACCACCGTGTCATCGGTCACCCGACGGAGAAGTGCTTTGTGTTGAAAGACCTCATCATGAAGCTCGCACAACAAGGAAAAATCTGTTTAGACATTTAG
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

141

Amino Acids

16.55

Weight (kDa)

9.05

Isoelectric Point (pI)

46.39

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
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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)
AccIII TCCGGA 1 cut(s) 286
AciI CCGC 3 cut(s) 169, 212, 277
AfaI GTAC 2 cut(s) 320, 329
AflIII ACRYGT 1 cut(s) 231
AgsI TTSAA 3 cut(s) 50, 251, 373
AhdI GACNNNNNGTC 1 cut(s) 76
AluBI AGCT 3 cut(s) 187, 194, 391
AluI AGCT 3 cut(s) 187, 194, 391
Alw21I GWGCWC 1 cut(s) 176
Alw44I GTGCAC 1 cut(s) 172
Aor13HI TCCGGA 1 cut(s) 286
ApaLI GTGCAC 1 cut(s) 172
AsuHPI GGTGA 2 cut(s) 50, 338
BaeGI GKGCMC 1 cut(s) 176
BauI CACGAG 1 cut(s) 114
BbsI GAAGAC 1 cut(s) 246
Bbv12I GWGCWC 1 cut(s) 176
BceAI ACGGC 1 cut(s) 126
BclI TGATCA 2 cut(s) 157, 261
BfaI CTAG 2 cut(s) 18, 188
BmcAI AGTACT 1 cut(s) 320
BmeRI GACNNNNNGTC 1 cut(s) 76
BmiI GGNNCC 1 cut(s) 147
BmsI GCATC 4 cut(s) 21, 285, 307, 312
BpiI GAAGAC 1 cut(s) 246
BsaJI CCNNGG 1 cut(s) 81
BsaWI WCCGGW 1 cut(s) 286
BseAI TCCGGA 1 cut(s) 286
BseDI CCNNGG 1 cut(s) 81
BseSI GKGCMC 1 cut(s) 176
BsiHKAI GWGCWC 1 cut(s) 176
BsiSI CCGG 1 cut(s) 287
BsmI GAATGC 1 cut(s) 214
Bsp1286I GDGCHC 1 cut(s) 176
Bsp13I TCCGGA 1 cut(s) 286
Bsp143I GATC 4 cut(s) 87, 105, 157, 261
BspACI CCGC 3 cut(s) 169, 212, 277
BspEI TCCGGA 1 cut(s) 286
BspHI TCATGA 2 cut(s) 154, 384
BspLI GGNNCC 1 cut(s) 147
BssECI CCNNGG 1 cut(s) 81
BssMI GATC 4 cut(s) 87, 105, 157, 261
BssSI CACGAG 1 cut(s) 114
BssT1I CCWWGG 1 cut(s) 81
Bst2BI CACGAG 1 cut(s) 114
Bst4CI ACNGT 1 cut(s) 335
Bst6I CTCTTC 2 cut(s) 28, 285
BstC8I GCNNGC 1 cut(s) 393
BstDEI CTNAG 2 cut(s) 8, 179
BstEII GGTNACC 1 cut(s) 344
BstKTI GATC 4 cut(s) 90, 108, 160, 264
BstMBI GATC 4 cut(s) 87, 105, 157, 261
BstNSI RCATGY 1 cut(s) 235
BstPI GGTNACC 1 cut(s) 344
BstSLI GKGCMC 1 cut(s) 176
BstV2I GAAGAC 1 cut(s) 246
BtgZI GCGATG 1 cut(s) 284
Cac8I GCNNGC 1 cut(s) 393
CciI TCATGA 2 cut(s) 154, 384
Csp6I GTAC 2 cut(s) 319, 328
CviAII CATG 5 cut(s) 68, 73, 155, 232, 385
CviJI RGCY 4 cut(s) 148, 187, 194, 391
CviKI_1 RGCY 4 cut(s) 148, 187, 194, 391
CviQI GTAC 2 cut(s) 319, 328
DdeI CTNAG 2 cut(s) 8, 179
DpnI GATC 4 cut(s) 89, 107, 159, 263
DpnII GATC 4 cut(s) 87, 105, 157, 261
DriI GACNNNNNGTC 1 cut(s) 76
Eam1104I CTCTTC 2 cut(s) 28, 285
Eam1105I GACNNNNNGTC 1 cut(s) 76
EarI CTCTTC 2 cut(s) 28, 285
Eco130I CCWWGG 1 cut(s) 81
Eco91I GGTNACC 1 cut(s) 344
EcoO65I GGTNACC 1 cut(s) 344
EcoT14I CCWWGG 1 cut(s) 81
EcoT22I ATGCAT 1 cut(s) 300
ErhI CCWWGG 1 cut(s) 81
FaeI CATG 5 cut(s) 71, 76, 158, 235, 388
FaiI YATR 7 cut(s) 24, 69, 74, 156, 233, 274, 386
FalI AAGNNNNNCTT 4 cut(s) 190, 222, 231, 263
FatI CATG 5 cut(s) 67, 72, 154, 231, 384
FbaI TGATCA 2 cut(s) 157, 261
FspBI CTAG 2 cut(s) 18, 188
HapII CCGG 1 cut(s) 287
Hin1II CATG 5 cut(s) 71, 76, 158, 235, 388
HincII GTYRAC 1 cut(s) 229
HindII GTYRAC 1 cut(s) 229
HinfI GANTC 3 cut(s) 77, 117, 151
HpaII CCGG 1 cut(s) 287
HphI GGTGA 2 cut(s) 50, 338
Hpy166II GTNNAC 2 cut(s) 174, 229
Hpy188I TCNGA 1 cut(s) 220
Hpy188III TCNNGA 4 cut(s) 103, 155, 287, 385
Hpy8I GTNNAC 2 cut(s) 174, 229
Hpy99I CGWCG 1 cut(s) 355
HpyCH4III ACNGT 1 cut(s) 335
HpyCH4IV ACGT 1 cut(s) 283
HpyCH4V TGCA 3 cut(s) 174, 298, 324
HpyF3I CTNAG 2 cut(s) 8, 179
HpySE526I ACGT 1 cut(s) 283
Hsp92II CATG 5 cut(s) 71, 76, 158, 235, 388
Kpn2I TCCGGA 1 cut(s) 286
Ksp22I TGATCA 2 cut(s) 157, 261
Kzo9I GATC 4 cut(s) 87, 105, 157, 261
LmnI GCTCC 1 cut(s) 145
LpnPI CCDG 2 cut(s) 111, 300
LweI GCATC 4 cut(s) 21, 285, 307, 312
MaeI CTAG 2 cut(s) 18, 188
MaeII ACGT 1 cut(s) 283
MaeIII GTNAC 2 cut(s) 200, 344
MalI GATC 4 cut(s) 89, 107, 159, 263
MboI GATC 4 cut(s) 87, 105, 157, 261
MboII GAAGA 3 cut(s) 45, 251, 302
MhlI GDGCHC 1 cut(s) 176
MluCI AATT 2 cut(s) 42, 266
MlyI GAGTC 3 cut(s) 86, 126, 145
MmeI TCCRAC 2 cut(s) 123, 216
MnlI CCTC 3 cut(s) 23, 29, 389
Mph1103I ATGCAT 1 cut(s) 300
MroI TCCGGA 1 cut(s) 286
MslI CAYNNNNRTG 1 cut(s) 219
MspI CCGG 1 cut(s) 287
Mva1269I GAATGC 1 cut(s) 214
NdeII GATC 4 cut(s) 87, 105, 157, 261
NlaIII CATG 5 cut(s) 71, 76, 158, 235, 388
NlaIV GGNNCC 1 cut(s) 147
NmuCI GTSAC 1 cut(s) 344
NsiI ATGCAT 1 cut(s) 300
NspI RCATGY 1 cut(s) 235
PagI TCATGA 2 cut(s) 154, 384
PciI ACATGT 1 cut(s) 231
PctI GAATGC 1 cut(s) 214
PleI GAGTC 3 cut(s) 85, 125, 145
PpsI GAGTC 3 cut(s) 85, 125, 145
PscI ACATGT 1 cut(s) 231
PspEI GGTNACC 1 cut(s) 344
PspN4I GGNNCC 1 cut(s) 147
RsaI GTAC 2 cut(s) 320, 329
RsaNI GTAC 2 cut(s) 319, 328
RseI CAYNNNNRTG 1 cut(s) 219
Sau3AI GATC 4 cut(s) 87, 105, 157, 261
ScaI AGTACT 1 cut(s) 320
SchI GAGTC 3 cut(s) 86, 126, 145
SduI GDGCHC 1 cut(s) 176
SetI ASST 6 cut(s) 40, 189, 196, 286, 381, 393
SfaNI GCATC 4 cut(s) 21, 285, 307, 312
SmiMI CAYNNNNRTG 1 cut(s) 219
Sse9I AATT 2 cut(s) 42, 266
SsiI CCGC 3 cut(s) 169, 212, 277
SspMI CTAG 2 cut(s) 18, 188
StyI CCWWGG 1 cut(s) 81
TaaI ACNGT 1 cut(s) 335
TaiI ACGT 1 cut(s) 286
TaqI TCGA 1 cut(s) 28
TaqII GACCGA 1 cut(s) 332
TasI AATT 2 cut(s) 42, 266
TatI WGTACW 1 cut(s) 318
TseFI GTSAC 1 cut(s) 344
Tsp45I GTSAC 1 cut(s) 344
TspDTI ATGAA 1 cut(s) 401
TspGWI ACGGA 1 cut(s) 368
VneI GTGCAC 1 cut(s) 172
XceI RCATGY 1 cut(s) 235
XspI CTAG 2 cut(s) 18, 188
ZrmI AGTACT 1 cut(s) 320
Zsp2I ATGCAT 1 cut(s) 300
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.