Rorug06G0096500

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0000370
Physical Location & Seq
Forward (+)
12863874 .. 12875515
11642 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0096500.1

Sequence Viewer

Length: 1221 bp
ATGCCGTTCGAGAATCACCGGAGCTCTCGGCTCTGTATGCCTTCGATTTCTAGTCTCCAACTCGAATCGAGCTTCAACACCTCCATAAACGAAGTCGGAGCTGCACTATCCTTCGAAACCCCAAACTCCCGACCTCCGATTCTGACCAAAGCCGCCGCCGCTGCCGGAGATGGTGTTCTCCGGTGGTTGCAGAGGGAAGAAGAAGAGAGAAAGGGAGAGTTTAGGTTTTTGGTGAGATGGTGGCTGGAAGTGGTGGTCTCCGGTGATGGCAGAGGAAGAGAAGAAGAAGAGAGGAAGATTGACGGTTGGAGATCATGGGAGGATGAGGCTCACATGGACAGGCATGATTCATTGACTGTGGATGATAAAAAACATGGGATTGTCAAGAGGAATCTTTCGGTGAATTCTGCAAACCAACGACTAAAAGGTTCTTGCCCACTAATGCCAGAAGAGATTGGTATTATTCTTTGTGCATATGGATACTTGTGGGACATAATAATATATGTATCTGGGGGCGAAATTTTTGGTGGCCAAAGGAAATTGATCCCTCTTCTCACAATGTTTAAAAATGTTGTTGATAGGACCTCCCTCAGCATTTTCTGGGAGCTTAGTAGGATTTATGGTCATGAGGCTAACCTCTTTGAAAGTAATTCCAGGAGTCCACCTACAGTTGAGGAAGAGATGAAGGTTGAAGCATGGAAAACTGTAGGGCCACGTCCTTTTCCACCGCCTTCAGCCAGGCCCAGATCATATAACATTGAAGGTAATGGGACATCCAAATTTTATCGTGATGGTAATGGGACATCCAAATTTTATTGTGATGGTAATGGGACTAGACTCTATCAGTCAGCTGCATCAAAAATATACAGGCCAGACAGAAAAGAAGTCGTCAGGCTCTTGGAAGAAATCAGTGACCACCTCTACCATGCAAACCATACATGGCTAATGTCTGTGCACAAGTATTTGAGAAAGAGATTGGTTGATGGGTTATTAGAAGCCTCCACAGTATCCAAGTCAATGTCTTTTATCCCTCATCCAGTCCCTGAATGTTCTTGCTTGAGGTGTGATTATGCTGGAAAATCCATCAATGCTTCAACATCAACTCCTCCTAGTCACTCTCAAGTTATTGCTGCTCTTGGAATTTTGCACTTTTGTCCGGCTTGGATGGAGAATGATTTGACATTACAGACAAAAGGCAAGAAAAATGAGGAAGCTTTATAG
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

406

Amino Acids

45.98

Weight (kDa)

7.19

Isoelectric Point (pI)

58.87

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
O-FucT PF10250 125 - 210 5.4e-11 GDP-fucose protein O-fucosyltransferase
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)
AciI CCGC 4 cut(s) 153, 156, 159, 728
AclWI GGATC 1 cut(s) 538
AcoI YGGCCR 1 cut(s) 529
AcsI RAATTY 5 cut(s) 403, 519, 779, 809, 1140
AcuI CTGAAG 1 cut(s) 717
AgsI TTSAA 5 cut(s) 76, 644, 692, 761, 1095
AjiI CACGTC 1 cut(s) 716
AjnI CCWGG 2 cut(s) 653, 737
AloI GAACNNNNNNTCC 2 cut(s) 159, 191
AluBI AGCT 6 cut(s) 24, 72, 101, 607, 851, 1214
AluI AGCT 6 cut(s) 24, 72, 101, 607, 851, 1214
Alw21I GWGCWC 2 cut(s) 26, 957
Alw26I GTCTC 2 cut(s) 59, 262
Alw44I GTGCAC 1 cut(s) 953
AlwI GGATC 1 cut(s) 538
AlwNI CAGNNNCTG 1 cut(s) 1043
AoxI GGCC 4 cut(s) 529, 710, 740, 869
ApaLI GTGCAC 1 cut(s) 953
ApeKI GCWGC 4 cut(s) 101, 161, 851, 1130
ApoI RAATTY 5 cut(s) 403, 519, 779, 809, 1140
AspS9I GGNCC 3 cut(s) 582, 710, 741
AsuHPI GGTGA 4 cut(s) 8, 244, 275, 412
AsuII TTCGAA 1 cut(s) 114
AvaII GGWCC 1 cut(s) 582
BaeGI GKGCMC 1 cut(s) 957
BalI TGGCCA 1 cut(s) 531
BanII GRGCYC 1 cut(s) 26
Bbv12I GWGCWC 2 cut(s) 26, 957
BbvCI CCTCAGC 1 cut(s) 590
BbvI GCAGC 4 cut(s) 88, 148, 838, 1117
BccI CCATC 8 cut(s) 164, 231, 260, 785, 815, 977, 1091, 1159
BciT130I CCWGG 2 cut(s) 655, 739
BciVI GTATCC 2 cut(s) 473, 1018
BcoDI GTCTC 2 cut(s) 59, 262
BfaI CTAG 3 cut(s) 51, 834, 1110
BfmI CTRYAG 2 cut(s) 666, 705
BfuI GTATCC 2 cut(s) 473, 1018
BisI GCNGC 7 cut(s) 102, 153, 156, 159, 162, 852, 1131
BlsI GCNGC 7 cut(s) 103, 154, 157, 160, 163, 853, 1132
Bme1390I CCNGG 2 cut(s) 655, 739
Bme18I GGWCC 1 cut(s) 582
BmgBI CACGTC 1 cut(s) 716
BmgT120I GGNCC 3 cut(s) 582, 710, 741
BmrFI CCNGG 2 cut(s) 655, 739
BmsI GCATC 1 cut(s) 863
Bpu10I CCTNAGC 1 cut(s) 590
Bpu14I TTCGAA 1 cut(s) 114
BpuEI CTTGAG 2 cut(s) 1078, 1104
BsaI GGTCTC 1 cut(s) 262
BsaWI WCCGGW 3 cut(s) 18, 180, 260
BsaXI ACNNNNNCTCC 4 cut(s) 159, 189, 1087, 1117
Bse1I ACTGG 1 cut(s) 1037
BseBI CCWGG 2 cut(s) 655, 739
BseGI GGATG 6 cut(s) 328, 367, 773, 803, 1033, 1170
BseMII CTCAG 1 cut(s) 604
BseNI ACTGG 1 cut(s) 1037
BseRI GAGGAG 1 cut(s) 1095
BseSI GKGCMC 1 cut(s) 957
BseXI GCAGC 4 cut(s) 88, 148, 838, 1117
BsgI GTGCAG 1 cut(s) 87
BshFI GGCC 4 cut(s) 531, 712, 742, 871
BsiHKAI GWGCWC 2 cut(s) 26, 957
BsiSI CCGG 5 cut(s) 19, 165, 181, 261, 1157
BslFI GGGAC 5 cut(s) 503, 784, 814, 844, 1025
BsmAI GTCTC 2 cut(s) 59, 262
BsmFI GGGAC 5 cut(s) 503, 784, 814, 844, 1025
BsnI GGCC 4 cut(s) 531, 712, 742, 871
Bso31I GGTCTC 1 cut(s) 262
Bsp119I TTCGAA 1 cut(s) 114
Bsp1286I GDGCHC 2 cut(s) 26, 957
Bsp143I GATC 3 cut(s) 311, 543, 746
BspACI CCGC 4 cut(s) 153, 156, 159, 728
BspANI GGCC 4 cut(s) 531, 712, 742, 871
BspCNI CTCAG 1 cut(s) 603
BspHI TCATGA 1 cut(s) 625
BspPI GGATC 1 cut(s) 538
BspT104I TTCGAA 1 cut(s) 114
BspTNI GGTCTC 1 cut(s) 262
BsrI ACTGG 1 cut(s) 1037
BssMI GATC 3 cut(s) 311, 543, 746
Bst2UI CCWGG 2 cut(s) 655, 739
Bst4CI ACNGT 5 cut(s) 305, 358, 670, 706, 1006
Bst6I CTCTTC 6 cut(s) 198, 271, 282, 444, 555, 672
BstBI TTCGAA 1 cut(s) 114
BstDEI CTNAG 2 cut(s) 590, 608
BstF5I GGATG 6 cut(s) 328, 367, 773, 803, 1033, 1170
BstKTI GATC 3 cut(s) 314, 546, 749
BstMAI GTCTC 2 cut(s) 59, 262
BstMBI GATC 3 cut(s) 311, 543, 746
BstMWI GCNNNNNNNGC 3 cut(s) 37, 158, 161
BstNI CCWGG 2 cut(s) 655, 739
BstSCI CCNGG 2 cut(s) 653, 737
BstSFI CTRYAG 2 cut(s) 666, 705
BstSLI GKGCMC 1 cut(s) 957
BstV1I GCAGC 4 cut(s) 88, 148, 838, 1117
BsuI GTATCC 2 cut(s) 473, 1018
BsuRI GGCC 4 cut(s) 531, 712, 742, 871
BtrI CACGTC 1 cut(s) 716
BtsCI GGATG 6 cut(s) 328, 367, 773, 803, 1033, 1170
BtsIMutI CAGTG 1 cut(s) 916
CaiI CAGNNNCTG 1 cut(s) 1043
CciI TCATGA 1 cut(s) 625
Cfr13I GGNCC 3 cut(s) 582, 710, 741
CviAII CATG 8 cut(s) 315, 334, 344, 374, 626, 696, 926, 939
DdeI CTNAG 2 cut(s) 590, 608
DpnI GATC 3 cut(s) 313, 545, 748
DpnII GATC 3 cut(s) 311, 543, 746
DraI TTTAAA 1 cut(s) 565
EaeI YGGCCR 1 cut(s) 529
Eam1104I CTCTTC 6 cut(s) 198, 271, 282, 444, 555, 672
EarI CTCTTC 6 cut(s) 198, 271, 282, 444, 555, 672
Ecl136II GAGCTC 1 cut(s) 24
Eco24I GRGCYC 1 cut(s) 26
Eco31I GGTCTC 1 cut(s) 262
Eco47I GGWCC 1 cut(s) 582
Eco53kI GAGCTC 1 cut(s) 24
Eco57I CTGAAG 1 cut(s) 717
EcoICRI GAGCTC 1 cut(s) 24
EcoO109I RGGNCCY 1 cut(s) 582
EcoRI GAATTC 1 cut(s) 403
EcoRII CCWGG 2 cut(s) 653, 737
EcoT38I GRGCYC 1 cut(s) 26
FaeI CATG 8 cut(s) 318, 337, 347, 377, 629, 699, 929, 942
FaqI GGGAC 5 cut(s) 503, 784, 814, 844, 1025
FatI CATG 8 cut(s) 314, 333, 343, 373, 625, 695, 925, 938
FauNDI CATATG 1 cut(s) 475
Fnu4HI GCNGC 7 cut(s) 102, 153, 156, 159, 162, 852, 1131
FokI GGATG 6 cut(s) 335, 374, 760, 790, 1020, 1177
FriOI GRGCYC 1 cut(s) 26
Fsp4HI GCNGC 7 cut(s) 102, 153, 156, 159, 162, 852, 1131
FspBI CTAG 3 cut(s) 51, 834, 1110
GluI GCNGC 7 cut(s) 102, 153, 156, 159, 162, 852, 1131
HaeIII GGCC 4 cut(s) 531, 712, 742, 871
HapII CCGG 5 cut(s) 19, 165, 181, 261, 1157
Hin1II CATG 8 cut(s) 318, 337, 347, 377, 629, 699, 929, 942
HindIII AAGCTT 1 cut(s) 1212
HinfI GANTC 7 cut(s) 13, 65, 139, 347, 391, 658, 837
HpaII CCGG 5 cut(s) 19, 165, 181, 261, 1157
HphI GGTGA 4 cut(s) 8, 244, 275, 412
Hpy166II GTNNAC 2 cut(s) 662, 955
Hpy188I TCNGA 3 cut(s) 98, 138, 144
Hpy188III TCNNGA 5 cut(s) 10, 129, 385, 626, 788
Hpy8I GTNNAC 2 cut(s) 662, 955
HpyAV CCTTC 5 cut(s) 51, 121, 679, 741, 755
HpyCH4III ACNGT 5 cut(s) 305, 358, 670, 706, 1006
HpyCH4IV ACGT 1 cut(s) 715
HpyCH4V TGCA 8 cut(s) 104, 190, 410, 473, 854, 929, 955, 1147
HpyF10VI GCNNNNNNNGC 3 cut(s) 37, 158, 161
HpyF3I CTNAG 2 cut(s) 590, 608
HpySE526I ACGT 1 cut(s) 715
Hsp92II CATG 8 cut(s) 318, 337, 347, 377, 629, 699, 929, 942
Kzo9I GATC 3 cut(s) 311, 543, 746
LmnI GCTCC 3 cut(s) 21, 98, 604
Lsp1109I GCAGC 4 cut(s) 88, 148, 838, 1117
LweI GCATC 1 cut(s) 863
MaeI CTAG 3 cut(s) 51, 834, 1110
MaeII ACGT 1 cut(s) 715
MaeIII GTNAC 2 cut(s) 911, 1112
MalI GATC 3 cut(s) 313, 545, 748
MboI GATC 3 cut(s) 311, 543, 746
MhlI GDGCHC 2 cut(s) 26, 957
MlsI TGGCCA 1 cut(s) 531
MluCI AATT 7 cut(s) 403, 519, 539, 649, 779, 809, 1140
MluNI TGGCCA 1 cut(s) 531
MlyI GAGTC 2 cut(s) 667, 831
MmeI TCCRAC 3 cut(s) 76, 82, 287
Mox20I TGGCCA 1 cut(s) 531
MscI TGGCCA 1 cut(s) 531
MseI TTAA 1 cut(s) 564
Msp20I TGGCCA 1 cut(s) 531
MspA1I CMGCKG 2 cut(s) 161, 851
MspI CCGG 5 cut(s) 19, 165, 181, 261, 1157
MspR9I CCNGG 2 cut(s) 655, 739
MvaI CCWGG 2 cut(s) 655, 739
MwoI GCNNNNNNNGC 3 cut(s) 37, 158, 161
NdeI CATATG 1 cut(s) 475
NdeII GATC 3 cut(s) 311, 543, 746
NlaIII CATG 8 cut(s) 318, 337, 347, 377, 629, 699, 929, 942
NmeAIII GCCGAG 1 cut(s) 7
NmuCI GTSAC 2 cut(s) 911, 1112
NspV TTCGAA 1 cut(s) 114
PagI TCATGA 1 cut(s) 625
PfeI GAWTC 5 cut(s) 13, 65, 139, 347, 391
PfoI TCCNGGA 1 cut(s) 653
PkrI GCNGC 7 cut(s) 103, 154, 157, 160, 163, 853, 1132
PleI GAGTC 2 cut(s) 666, 831
PpsI GAGTC 2 cut(s) 666, 831
PpuMI RGGWCCY 1 cut(s) 582
Psp124BI GAGCTC 1 cut(s) 26
Psp5II RGGWCCY 1 cut(s) 582
Psp6I CCWGG 2 cut(s) 653, 737
PspGI CCWGG 2 cut(s) 653, 737
PspPI GGNCC 3 cut(s) 582, 710, 741
PspPPI RGGWCCY 1 cut(s) 582
PstNI CAGNNNCTG 1 cut(s) 1043
PvuII CAGCTG 1 cut(s) 851
SacI GAGCTC 1 cut(s) 26
SaqAI TTAA 1 cut(s) 564
SatI GCNGC 7 cut(s) 102, 153, 156, 159, 162, 852, 1131
Sau3AI GATC 3 cut(s) 311, 543, 746
Sau96I GGNCC 3 cut(s) 582, 710, 741
SchI GAGTC 2 cut(s) 667, 831
ScrFI CCNGG 2 cut(s) 655, 739
SduI GDGCHC 2 cut(s) 26, 957
SfaNI GCATC 1 cut(s) 863
SfcI CTRYAG 2 cut(s) 666, 705
SfuI TTCGAA 1 cut(s) 114
SinI GGWCC 1 cut(s) 582
SmlI CTYRAG 2 cut(s) 1057, 1119
SmoI CTYRAG 2 cut(s) 1057, 1119
Sse9I AATT 7 cut(s) 403, 519, 539, 649, 779, 809, 1140
SsiI CCGC 4 cut(s) 153, 156, 159, 728
SspMI CTAG 3 cut(s) 51, 834, 1110
SstI GAGCTC 1 cut(s) 26
StyD4I CCNGG 2 cut(s) 653, 737
TaaI ACNGT 5 cut(s) 305, 358, 670, 706, 1006
TaiI ACGT 1 cut(s) 718
TaqI TCGA 5 cut(s) 9, 44, 63, 68, 114
TasI AATT 7 cut(s) 403, 519, 539, 649, 779, 809, 1140
TauI GCSGC 3 cut(s) 155, 158, 161
TfiI GAWTC 5 cut(s) 13, 65, 139, 347, 391
Tru1I TTAA 1 cut(s) 564
Tru9I TTAA 1 cut(s) 564
TscAI CASTG 1 cut(s) 916
TseFI GTSAC 2 cut(s) 911, 1112
TseI GCWGC 4 cut(s) 101, 161, 851, 1130
Tsp45I GTSAC 2 cut(s) 911, 1112
TspDTI ATGAA 2 cut(s) 339, 698
TspRI CASTG 1 cut(s) 916
VneI GTGCAC 1 cut(s) 953
VpaK11BI GGWCC 1 cut(s) 582
XapI RAATTY 5 cut(s) 403, 519, 779, 809, 1140
XspI CTAG 3 cut(s) 51, 834, 1110
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.