Rroxscaffold_7G00196280

Gag protease polyprotein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0000370
Physical Location & Seq
Reverse (-)
38980955 .. 38985626
4672 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00196280.1

Sequence Viewer

Length: 1158 bp
ATGAACTTTGAACTTGTCTTTCACCGTAAGTCGTTAATTGCATGCCAAAGTTTACGAAAGAGAAATGGCTTTAAGAAAATAAGATTTATCAAAGTAGTTTTAAATATTAAATTATTTTTGTCCTCTCACCGAGCTTGTCTCACATTTTCTATGTTTTTCTCGGGGCTCCTTGGATTTCCGTTTTGCCCAGGTAGTAGATTTTGCGAGGTCGGACCACACCACGTTGAAGCATTCTCCTTATCCACCGTCATCCATCTCGACTTGTATCATGCCTCCTCAACGTGGTCGTCCTCTAGGACTTCAGGTAAGAGAGCAGGCAATGTGCCTAAGGATGTAGCAGAGAACACTCGTGTATCGCAGCCTAATCTTGAGCATACCATAGAGAGGCTGGCTGAGGTTGTGACTGCCGCCATACATGGTCAAAGTAGAGGCCCCGATTATAGTATTGAGTGTGCCAAGAAGCTGGGTGTGACCCAATTTTCTGGCACTAGTAATCCTGCAGATGCGGAGAGTTGGATGGTTAGGCTTGAGAGGGTGTTTGATGTTATGGGTTGTCCAGATGATTGTAAGCCAAGTTTGGCTATATTTTTGCTTGAGGAAAATGCTTATCATTGGTGGGAGTTGGAGCGACAGCGATATGTGGGCCAGGTGGCTATATCTTGGGTAGATTTTAGGCTTGCATTTTATGAGCATTTTTACCCCCGATCTTTTCGTGATGCAAAGCTAGCAGAGTTTCTGAAGTTGGTTCAGGGTACTATGACAGTAGCACAGTATGAGCAGAGATTCATTGAGCTGTCTAGGTATGCTCCATTGCTAGTAGCTAATGAGGAGGATAAGTGTCGCAGGTTTCGGGATGGTTTGAGAGAGGAGATTCGATCTGTTGTGACTGCGATTGGGCATACTCGGTTTGTGACACTAGTTCAGGCGGCTATGAGGGTTGACAGGAGCATTGACGAGGGACATGCACGTATGGATAGGCGCCGTCAGTTTACTGGTATGGGTGGCCCTAGCAGGGTCCATCCAAGAGAGGTGGTTCTACCTCTGGATCCTCTTCTAGTGGTAGCCGAACTAGTGGTTTCAGTTATGGAGGTAGTTTTGGTGGTCATGGAGCTAGACAGAGTCAGGGTTCAGCTCAGCATGCAGTTGGTAGTTCAGTGA
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
RVP_2 Retrotrans_gag zf-CCHC

Protein Analysis

385

Amino Acids

44.03

Weight (kDa)

9.0

Isoelectric Point (pI)

39.59

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotrans_gag PF03732 193 - 289 2.3e-17 Retrotransposon gag 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: OG0000370)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g29481 FvH4_2g11454 FvH4_3g19661 FvH4_3g28463 FvH4_3g31691 FvH4_3g34551 FvH4_3g35241 FvH4_4g06575 FvH4_4g09082 FvH4_4g15804 FvH4_4g15805 FvH4_4g16178 FvH4_4g16282 FvH4_5g25163 FvH4_6g27413 FvH4_7g02962 FvH4_7g04361
malus_domestica MD01G1095000.v1.1 MD02G1270200.v1.1 MD02G1270300.v1.1 MD02G1270400.v1.1 MD06G1059100.v1.1 MD08G1226500.v1.1
prunus_persica Prupe.1G169500_v2.0.a1 Prupe.5G195800_v2.0.a1
pyrus_communis pycom01g00010 pycom01g00770 pycom02g23140 pycom03g11760 pycom04g06090 pycom05g06900 pycom05g08070 pycom05g14500 pycom06g03050 pycom07g06250 pycom07g07540 pycom07g10580 pycom08g04990 pycom1146g00060 pycom11g01080 pycom11g15270 pycom11g15460 pycom11g24900 pycom12419g00150 pycom12424g00120 pycom13g08740 pycom13g24950 pycom13g25960 pycom13g26030 pycom13g27820 pycom16g23270 pycom16g25020 pycom16g25960 pycom17g07780 pycom17g08210 pycom17g13100
rosa_chinensis RchiOBHm_Chr1g0329421 RchiOBHm_Chr4g0397711 RchiOBHm_Chr4g0403481 RchiOBHm_Chr5g0019091 RchiOBHm_Chr5g0049101
rosa_laevigata RLG00000029892
rosa_multiflora Rmu_sc0001866.1_g000007
rosa_roxburghii Rroxscaffold_2G00094160 Rroxscaffold_3G00229110 Rroxscaffold_4G00321100 Rroxscaffold_7G00196040 Rroxscaffold_7G00196280
rosa_rugosa Rorug05G0160500 Rorug06G0096500
rosa_samantha Rh1AG098600 Rh1AG098800 Rh1BG078200 Rh1BG078700 Rh1BG178500 Rh1CG094600 Rh1CG094900 Rh1DG101700 Rh1DG109600 Rh2AG175800 Rh2AG175900 Rh2AG511400 Rh2BG114700 Rh2CG042200 Rh2CG116600 Rh2CG317500 Rh2DG327700 Rh2DG337800 Rh4CG142700 Rh4DG113100 Rh5BG335800 Rh5CG360600 Rh5DG352000 Rh6BG071400 Rh6BG417100 Rh6CG463300 Rh6CG463400 Rh7BG186600 Rh7CG196500 Rh7CG196600 Rh7CG448900 Rh7DG228300
rosa_wichuraiana Rw4G006560 Rw4G017340 Rw5G030450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 834
AccB1I GGYRCC 1 cut(s) 978
AciI CCGC 3 cut(s) 408, 506, 926
AclWI GGATC 2 cut(s) 1040, 1053
AcuI CTGAAG 2 cut(s) 285, 758
AcyI GRCGYC 1 cut(s) 979
AfaI GTAC 1 cut(s) 754
AfiI CCNNNNNNNGG 3 cut(s) 282, 384, 1012
AgsI TTSAA 2 cut(s) 11, 227
AhlI ACTAGT 3 cut(s) 488, 916, 1069
AjnI CCWGG 2 cut(s) 187, 645
AluBI AGCT 7 cut(s) 134, 463, 724, 793, 821, 1111, 1132
AluI AGCT 7 cut(s) 134, 463, 724, 793, 821, 1111, 1132
Alw26I GTCTC 1 cut(s) 143
AlwI GGATC 2 cut(s) 1040, 1053
Ama87I CYCGRG 1 cut(s) 160
AoxI GGCC 3 cut(s) 430, 643, 1003
ApeKI GCWGC 1 cut(s) 358
AspLEI GCGC 1 cut(s) 981
AspS9I GGNCC 5 cut(s) 212, 431, 643, 1004, 1015
AsuHPI GGTGA 2 cut(s) 14, 119
AsuNHI GCTAGC 1 cut(s) 724
AvaI CYCGRG 1 cut(s) 160
AvaII GGWCC 2 cut(s) 212, 1015
AxyI CCTNAGG 1 cut(s) 327
BaeI ACNNNNGTAYC 2 cut(s) 336, 369
BamHI GGATCC 1 cut(s) 1045
BanI GGYRCC 1 cut(s) 978
BanII GRGCYC 1 cut(s) 168
BauI CACGAG 1 cut(s) 348
BbvCI CCTCAGC 1 cut(s) 393
BbvI GCAGC 1 cut(s) 370
BccI CCATC 4 cut(s) 261, 511, 848, 1026
BceAI ACGGC 1 cut(s) 966
BcgI CGANNNNNNTGC 2 cut(s) 944, 978
BciT130I CCWGG 2 cut(s) 189, 647
BcoDI GTCTC 1 cut(s) 143
BcuI ACTAGT 3 cut(s) 488, 916, 1069
BfmI CTRYAG 1 cut(s) 498
BfoI RGCGCY 1 cut(s) 982
BfuAI ACCTGC 1 cut(s) 834
BisI GCNGC 3 cut(s) 359, 408, 927
BlpI GCTNAGC 1 cut(s) 1133
BlsI GCNGC 3 cut(s) 360, 409, 928
Bme1390I CCNGG 2 cut(s) 189, 647
Bme18I GGWCC 2 cut(s) 212, 1015
BmeT110I CYCGRG 1 cut(s) 160
BmgT120I GGNCC 5 cut(s) 212, 431, 643, 1004, 1015
BmiI GGNNCC 5 cut(s) 167, 433, 980, 1016, 1047
BmrFI CCNGG 2 cut(s) 189, 647
BmsI GCATC 2 cut(s) 493, 706
BmtI GCTAGC 1 cut(s) 728
BplI GAGNNNNNCTC 2 cut(s) 123, 155
Bpu10I CCTNAGC 1 cut(s) 393
Bpu1102I GCTNAGC 1 cut(s) 1133
BpuEI CTTGAG 3 cut(s) 389, 548, 614
BsaAI YACGTR 1 cut(s) 968
BsaHI GRCGYC 1 cut(s) 979
BsaJI CCNNGG 2 cut(s) 169, 187
BsaXI ACNNNNNCTCC 2 cut(s) 821, 851
Bsc4I CCNNNNNNNGG 3 cut(s) 282, 384, 1012
Bse1I ACTGG 1 cut(s) 997
Bse21I CCTNAGG 1 cut(s) 327
Bse3DI GCAATG 2 cut(s) 325, 809
BseBI CCWGG 2 cut(s) 189, 647
BseDI CCNNGG 2 cut(s) 169, 187
BseGI GGATG 5 cut(s) 249, 337, 522, 859, 1018
BseLI CCNNNNNNNGG 3 cut(s) 282, 384, 1012
BseMI GCAATG 2 cut(s) 325, 809
BseMII CTCAG 2 cut(s) 384, 1147
BseNI ACTGG 1 cut(s) 997
BseRI GAGGAG 3 cut(s) 265, 842, 881
BseXI GCAGC 1 cut(s) 370
BseYI CCCAGC 1 cut(s) 463
BshFI GGCC 3 cut(s) 432, 645, 1005
BshNI GGYRCC 1 cut(s) 978
BsiHKCI CYCGRG 1 cut(s) 160
BslFI GGGAC 1 cut(s) 972
BslI CCNNNNNNNGG 3 cut(s) 282, 384, 1012
BsmAI GTCTC 1 cut(s) 143
BsmFI GGGAC 1 cut(s) 972
BsmI GAATGC 1 cut(s) 230
BsnI GGCC 3 cut(s) 432, 645, 1005
BsoBI CYCGRG 1 cut(s) 160
Bsp1286I GDGCHC 1 cut(s) 168
Bsp143I GATC 3 cut(s) 704, 875, 1045
Bsp1720I GCTNAGC 1 cut(s) 1133
BspACI CCGC 3 cut(s) 408, 506, 926
BspANI GGCC 3 cut(s) 432, 645, 1005
BspCNI CTCAG 2 cut(s) 385, 1146
BspLI GGNNCC 5 cut(s) 167, 433, 980, 1016, 1047
BspMAI CTGCAG 1 cut(s) 502
BspMI ACCTGC 1 cut(s) 834
BspOI GCTAGC 1 cut(s) 728
BspPI GGATC 2 cut(s) 1040, 1053
BspT107I GGYRCC 1 cut(s) 978
BsrDI GCAATG 2 cut(s) 325, 809
BsrI ACTGG 1 cut(s) 997
BssECI CCNNGG 2 cut(s) 169, 187
BssMI GATC 3 cut(s) 704, 875, 1045
BssNI GRCGYC 1 cut(s) 979
BssSI CACGAG 1 cut(s) 348
BssT1I CCWWGG 1 cut(s) 169
Bst2BI CACGAG 1 cut(s) 348
Bst2UI CCWGG 2 cut(s) 189, 647
Bst4CI ACNGT 4 cut(s) 26, 247, 763, 771
Bst6I CTCTTC 1 cut(s) 1056
BstACI GRCGYC 1 cut(s) 979
BstBAI YACGTR 1 cut(s) 968
BstC8I GCNNGC 6 cut(s) 43, 316, 390, 678, 726, 1139
BstDEI CTNAG 3 cut(s) 327, 393, 1133
BstF5I GGATG 5 cut(s) 249, 337, 522, 859, 1018
BstH2I RGCGCY 1 cut(s) 982
BstHHI GCGC 1 cut(s) 981
BstKTI GATC 3 cut(s) 707, 878, 1048
BstMAI GTCTC 1 cut(s) 143
BstMBI GATC 3 cut(s) 704, 875, 1045
BstMWI GCNNNNNNNGC 2 cut(s) 725, 1138
BstNI CCWGG 2 cut(s) 189, 647
BstNSI RCATGY 3 cut(s) 45, 965, 1141
BstSCI CCNGG 2 cut(s) 187, 645
BstSFI CTRYAG 1 cut(s) 498
BstV1I GCAGC 1 cut(s) 370
BstX2I RGATCY 1 cut(s) 1045
BstXI CCANNNNNNTGG 2 cut(s) 463, 482
BstYI RGATCY 1 cut(s) 1045
Bsu36I CCTNAGG 1 cut(s) 327
BsuRI GGCC 3 cut(s) 432, 645, 1005
BtsCI GGATG 5 cut(s) 249, 337, 522, 859, 1018
BveI ACCTGC 1 cut(s) 834
Cac8I GCNNGC 6 cut(s) 43, 316, 390, 678, 726, 1139
CfoI GCGC 1 cut(s) 981
Cfr13I GGNCC 5 cut(s) 212, 431, 643, 1004, 1015
Csp6I GTAC 1 cut(s) 753
CspCI CAANNNNNGTGG 2 cut(s) 1011, 1046
CviAII CATG 6 cut(s) 42, 269, 416, 962, 1105, 1138
CviQI GTAC 1 cut(s) 753
DdeI CTNAG 3 cut(s) 327, 393, 1133
DinI GGCGCC 1 cut(s) 980
DpnI GATC 3 cut(s) 706, 877, 1047
DpnII GATC 3 cut(s) 704, 875, 1045
DraI TTTAAA 1 cut(s) 102
Eam1104I CTCTTC 1 cut(s) 1056
EarI CTCTTC 1 cut(s) 1056
Eco130I CCWWGG 1 cut(s) 169
Eco24I GRGCYC 1 cut(s) 168
Eco47I GGWCC 2 cut(s) 212, 1015
Eco57I CTGAAG 2 cut(s) 285, 758
Eco81I CCTNAGG 1 cut(s) 327
Eco88I CYCGRG 1 cut(s) 160
EcoO109I RGGNCCY 1 cut(s) 431
EcoRII CCWGG 2 cut(s) 187, 645
EcoT14I CCWWGG 1 cut(s) 169
EcoT38I GRGCYC 1 cut(s) 168
EgeI GGCGCC 1 cut(s) 980
EheI GGCGCC 1 cut(s) 980
ErhI CCWWGG 1 cut(s) 169
FaeI CATG 6 cut(s) 45, 272, 419, 965, 1108, 1141
FaqI GGGAC 1 cut(s) 972
FatI CATG 6 cut(s) 41, 268, 415, 961, 1104, 1137
Fnu4HI GCNGC 3 cut(s) 359, 408, 927
FokI GGATG 5 cut(s) 236, 344, 529, 866, 1005
FriOI GRGCYC 1 cut(s) 168
Fsp4HI GCNGC 3 cut(s) 359, 408, 927
GlaI GCGC 1 cut(s) 980
GluI GCNGC 3 cut(s) 359, 408, 927
GsaI CCCAGC 1 cut(s) 467
HaeII RGCGCY 1 cut(s) 982
HaeIII GGCC 3 cut(s) 432, 645, 1005
HhaI GCGC 1 cut(s) 981
Hin1I GRCGYC 1 cut(s) 979
Hin1II CATG 6 cut(s) 45, 272, 419, 965, 1108, 1141
Hin6I GCGC 1 cut(s) 979
HinP1I GCGC 1 cut(s) 979
HincII GTYRAC 1 cut(s) 940
HindII GTYRAC 1 cut(s) 940
HinfI GANTC 3 cut(s) 783, 871, 1119
HphI GGTGA 2 cut(s) 14, 119
Hpy166II GTNNAC 3 cut(s) 53, 940, 990
Hpy188I TCNGA 2 cut(s) 212, 738
Hpy188III TCNNGA 6 cut(s) 257, 368, 557, 713, 851, 1043
Hpy8I GTNNAC 3 cut(s) 53, 940, 990
HpyCH4III ACNGT 4 cut(s) 26, 247, 763, 771
HpyCH4IV ACGT 3 cut(s) 222, 281, 967
HpyCH4V TGCA 6 cut(s) 41, 500, 680, 719, 965, 1141
HpyF10VI GCNNNNNNNGC 2 cut(s) 725, 1138
HpyF3I CTNAG 3 cut(s) 327, 393, 1133
HpySE526I ACGT 3 cut(s) 222, 281, 967
Hsp92I GRCGYC 1 cut(s) 979
Hsp92II CATG 6 cut(s) 45, 272, 419, 965, 1108, 1141
HspAI GCGC 1 cut(s) 979
KasI GGCGCC 1 cut(s) 978
Kzo9I GATC 3 cut(s) 704, 875, 1045
LmnI GCTCC 5 cut(s) 171, 625, 811, 945, 1108
Lsp1109I GCAGC 1 cut(s) 370
LweI GCATC 2 cut(s) 493, 706
MaeII ACGT 3 cut(s) 222, 281, 967
MaeIII GTNAC 4 cut(s) 400, 469, 883, 910
MalI GATC 3 cut(s) 706, 877, 1047
MboI GATC 3 cut(s) 704, 875, 1045
MboII GAAGA 1 cut(s) 1043
MflI RGATCY 1 cut(s) 1045
MhlI GDGCHC 1 cut(s) 168
MluCI AATT 3 cut(s) 36, 110, 476
Mly113I GGCGCC 1 cut(s) 979
MlyI GAGTC 1 cut(s) 1128
MmeI TCCRAC 3 cut(s) 190, 494, 603
MseI TTAA 4 cut(s) 35, 72, 101, 108
MspR9I CCNGG 2 cut(s) 189, 647
Mva1269I GAATGC 1 cut(s) 230
MvaI CCWGG 2 cut(s) 189, 647
MwoI GCNNNNNNNGC 2 cut(s) 725, 1138
NarI GGCGCC 1 cut(s) 979
NdeII GATC 3 cut(s) 704, 875, 1045
NheI GCTAGC 1 cut(s) 724
NlaIII CATG 6 cut(s) 45, 272, 419, 965, 1108, 1141
NlaIV GGNNCC 5 cut(s) 167, 433, 980, 1016, 1047
NmuCI GTSAC 4 cut(s) 400, 469, 883, 910
NspI RCATGY 3 cut(s) 45, 965, 1141
PaeI GCATGC 2 cut(s) 45, 1141
PctI GAATGC 1 cut(s) 230
PfeI GAWTC 2 cut(s) 783, 871
PflFI GACNNNGTC 1 cut(s) 1118
PkrI GCNGC 3 cut(s) 360, 409, 928
PleI GAGTC 1 cut(s) 1127
PluTI GGCGCC 1 cut(s) 982
PpsI GAGTC 1 cut(s) 1127
Ppu21I YACGTR 1 cut(s) 968
Psp6I CCWGG 2 cut(s) 187, 645
PspFI CCCAGC 1 cut(s) 463
PspGI CCWGG 2 cut(s) 187, 645
PspN4I GGNNCC 5 cut(s) 167, 433, 980, 1016, 1047
PspPI GGNCC 5 cut(s) 212, 431, 643, 1004, 1015
PstI CTGCAG 1 cut(s) 502
PsuI RGATCY 1 cut(s) 1045
PsyI GACNNNGTC 1 cut(s) 1118
RsaI GTAC 1 cut(s) 754
RsaNI GTAC 1 cut(s) 753
SaqAI TTAA 4 cut(s) 35, 72, 101, 108
SatI GCNGC 3 cut(s) 359, 408, 927
Sau3AI GATC 3 cut(s) 704, 875, 1045
Sau96I GGNCC 5 cut(s) 212, 431, 643, 1004, 1015
SchI GAGTC 1 cut(s) 1128
ScrFI CCNGG 2 cut(s) 189, 647
SduI GDGCHC 1 cut(s) 168
SfaNI GCATC 2 cut(s) 493, 706
SfcI CTRYAG 1 cut(s) 498
SfoI GGCGCC 1 cut(s) 980
SinI GGWCC 2 cut(s) 212, 1015
SmlI CTYRAG 3 cut(s) 368, 527, 593
SmoI CTYRAG 3 cut(s) 368, 527, 593
SpeI ACTAGT 3 cut(s) 488, 916, 1069
SphI GCATGC 2 cut(s) 45, 1141
Sse9I AATT 3 cut(s) 36, 110, 476
SsiI CCGC 3 cut(s) 408, 506, 926
SspDI GGCGCC 1 cut(s) 978
SspI AATATT 1 cut(s) 106
StyD4I CCNGG 2 cut(s) 187, 645
StyI CCWWGG 1 cut(s) 169
TaaI ACNGT 4 cut(s) 26, 247, 763, 771
TaiI ACGT 3 cut(s) 225, 284, 970
TaqI TCGA 2 cut(s) 258, 874
TasI AATT 3 cut(s) 36, 110, 476
TauI GCSGC 2 cut(s) 410, 929
TfiI GAWTC 2 cut(s) 783, 871
Tru1I TTAA 4 cut(s) 35, 72, 101, 108
Tru9I TTAA 4 cut(s) 35, 72, 101, 108
TseFI GTSAC 4 cut(s) 400, 469, 883, 910
TseI GCWGC 1 cut(s) 358
Tsp45I GTSAC 4 cut(s) 400, 469, 883, 910
TspDTI ATGAA 2 cut(s) 17, 775
TspGWI ACGGA 1 cut(s) 168
Tth111I GACNNNGTC 1 cut(s) 1118
VpaK11BI GGWCC 2 cut(s) 212, 1015
XceI RCATGY 3 cut(s) 45, 965, 1141
XcmI CCANNNNNNNNNTGG 1 cut(s) 385
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.