Rmu_sc0002026.1_g000023

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0002026.1
OG0000128
Physical Location & Seq
Reverse (-)
109853 .. 111218
1366 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0002026.1_g000023.1.cds

Sequence Viewer

Length: 675 bp
atggtttgcgtggattggattgatgtgttggcaattgatggggatgtaaggagaggtcagttcctccttgagccaccgggttccttggggaggcggcgctatggtaatccggtctccgggtcgccacatgcactaagcctcgactgcaaggatcgactctcagagttgtcagcagtagaaatatgcattcaaggcatgcattgggacttactgtacatccttcaagagataaagcctcacacctttgaagaacttgccactcgagctcatgttatggaacttagcatcactagtcatagtcgaagaagaggtgaaattgttgaaccacaaaatcagaaatgtgtcatggagtccttggcaatcacagctcctgtcaaagtcatagcacgaatcaagttagataaccaaaacaagttggagccgactgatgatcaaacaaggcggcgcactcttaaagagctagaagctaaaagttacccttttccagattccgatgttgttgacatgttggaagatttgcttcaaaagaaagtaattaaactgccagactacaagagtctggaagagatgcatcgcatcaatgaaccaaagtattgcaaataccaccgtgtcatcggtcacccgatggagaagtgctttgtgttgaaagacctcatcataacgttcgcacaataa
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

224

Amino Acids

25.83

Weight (kDa)

6.46

Isoelectric Point (pI)

50.63

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)
AciI CCGC 2 cut(s) 94, 442
AclI AACGTT 1 cut(s) 662
AclWI GGATC 1 cut(s) 159
AfaI GTAC 1 cut(s) 215
AfiI CCNNNNNNNGG 2 cut(s) 90, 116
AflIII ACRYGT 1 cut(s) 504
AgsI TTSAA 6 cut(s) 191, 224, 248, 323, 524, 646
AhlI ACTAGT 1 cut(s) 290
AluBI AGCT 4 cut(s) 266, 368, 460, 467
AluI AGCT 4 cut(s) 266, 368, 460, 467
Alw21I GWGCWC 1 cut(s) 268
Alw26I GTCTC 1 cut(s) 118
AlwI GGATC 1 cut(s) 159
AlwNI CAGNNNCTG 1 cut(s) 371
Ama87I CYCGRG 1 cut(s) 261
AspLEI GCGC 2 cut(s) 99, 447
AsuC2I CCSGG 2 cut(s) 78, 118
AsuHPI GGTGA 2 cut(s) 323, 611
AvaI CYCGRG 1 cut(s) 261
BanII GRGCYC 1 cut(s) 268
Bbv12I GWGCWC 1 cut(s) 268
BccI CCATC 2 cut(s) 32, 619
BclI TGATCA 1 cut(s) 430
BcnI CCSGG 2 cut(s) 78, 118
BcoDI GTCTC 1 cut(s) 118
BcuI ACTAGT 1 cut(s) 290
BfaI CTAG 2 cut(s) 291, 461
BfoI RGCGCY 1 cut(s) 100
BisI GCNGC 2 cut(s) 95, 443
BlsI GCNGC 2 cut(s) 96, 444
Bme1390I CCNGG 2 cut(s) 78, 118
BmeT110I CYCGRG 1 cut(s) 261
BmiI GGNNCC 2 cut(s) 82, 420
BmrFI CCNGG 2 cut(s) 78, 118
BmsI GCATC 4 cut(s) 294, 558, 580, 585
BpuEI CTTGAG 1 cut(s) 89
BpuMI CCSGG 2 cut(s) 78, 118
BsaI GGTCTC 1 cut(s) 118
BsaJI CCNNGG 2 cut(s) 84, 354
BsaWI WCCGGW 1 cut(s) 109
Bsc4I CCNNNNNNNGG 2 cut(s) 90, 116
BseDI CCNNGG 2 cut(s) 84, 354
BseGI GGATG 2 cut(s) 49, 216
BseLI CCNNNNNNNGG 2 cut(s) 90, 116
BseMII CTCAG 1 cut(s) 174
BsiHKAI GWGCWC 1 cut(s) 268
BsiHKCI CYCGRG 1 cut(s) 261
BsiSI CCGG 3 cut(s) 77, 110, 117
BslFI GGGAC 1 cut(s) 218
BslI CCNNNNNNNGG 2 cut(s) 90, 116
BsmAI GTCTC 1 cut(s) 118
BsmFI GGGAC 1 cut(s) 218
BsmI GAATGC 1 cut(s) 186
Bso31I GGTCTC 1 cut(s) 118
BsoBI CYCGRG 1 cut(s) 261
Bsp1286I GDGCHC 1 cut(s) 268
Bsp1407I TGTACA 1 cut(s) 213
Bsp143I GATC 2 cut(s) 151, 430
BspACI CCGC 2 cut(s) 94, 442
BspCNI CTCAG 1 cut(s) 173
BspLI GGNNCC 2 cut(s) 82, 420
BspPI GGATC 1 cut(s) 159
BspTNI GGTCTC 1 cut(s) 118
BsrGI TGTACA 1 cut(s) 213
BssECI CCNNGG 2 cut(s) 84, 354
BssMI GATC 2 cut(s) 151, 430
BssT1I CCWWGG 2 cut(s) 84, 354
Bst4CI ACNGT 2 cut(s) 213, 608
Bst6I CTCTTC 2 cut(s) 301, 558
BstAUI TGTACA 1 cut(s) 213
BstC8I GCNNGC 1 cut(s) 197
BstDEI CTNAG 3 cut(s) 134, 160, 281
BstEII GGTNACC 1 cut(s) 617
BstENI CCTNNNNNAGG 1 cut(s) 88
BstF5I GGATG 2 cut(s) 49, 216
BstH2I RGCGCY 1 cut(s) 100
BstHHI GCGC 2 cut(s) 99, 447
BstKTI GATC 2 cut(s) 154, 433
BstMAI GTCTC 1 cut(s) 118
BstMBI GATC 2 cut(s) 151, 430
BstMWI GCNNNNNNNGC 4 cut(s) 144, 192, 263, 365
BstNSI RCATGY 3 cut(s) 131, 199, 508
BstPI GGTNACC 1 cut(s) 617
BstSCI CCNGG 2 cut(s) 76, 116
BtgZI GCGATG 1 cut(s) 557
BtsCI GGATG 2 cut(s) 49, 216
Cac8I GCNNGC 1 cut(s) 197
CaiI CAGNNNCTG 1 cut(s) 371
CfoI GCGC 2 cut(s) 99, 447
Csp6I GTAC 1 cut(s) 214
CviAII CATG 5 cut(s) 128, 196, 269, 346, 505
CviJI RGCY 8 cut(s) 73, 138, 235, 266, 368, 421, 460, 467
CviKI_1 RGCY 8 cut(s) 73, 138, 235, 266, 368, 421, 460, 467
CviQI GTAC 1 cut(s) 214
DdeI CTNAG 3 cut(s) 134, 160, 281
DpnI GATC 2 cut(s) 153, 432
DpnII GATC 2 cut(s) 151, 430
Eam1104I CTCTTC 2 cut(s) 301, 558
EarI CTCTTC 2 cut(s) 301, 558
Ecl136II GAGCTC 1 cut(s) 266
Eco130I CCWWGG 2 cut(s) 84, 354
Eco24I GRGCYC 1 cut(s) 268
Eco31I GGTCTC 1 cut(s) 118
Eco53kI GAGCTC 1 cut(s) 266
Eco88I CYCGRG 1 cut(s) 261
Eco91I GGTNACC 1 cut(s) 617
EcoICRI GAGCTC 1 cut(s) 266
EcoNI CCTNNNNNAGG 1 cut(s) 88
EcoO65I GGTNACC 1 cut(s) 617
EcoT14I CCWWGG 2 cut(s) 84, 354
EcoT22I ATGCAT 3 cut(s) 188, 201, 573
EcoT38I GRGCYC 1 cut(s) 268
ErhI CCWWGG 2 cut(s) 84, 354
FaeI CATG 5 cut(s) 131, 199, 272, 349, 508
FalI AAGNNNNNCTT 4 cut(s) 463, 495, 504, 536
FaqI GGGAC 1 cut(s) 218
FatI CATG 5 cut(s) 127, 195, 268, 345, 504
FbaI TGATCA 1 cut(s) 430
Fnu4HI GCNGC 2 cut(s) 95, 443
FokI GGATG 2 cut(s) 56, 203
FriOI GRGCYC 1 cut(s) 268
Fsp4HI GCNGC 2 cut(s) 95, 443
FspBI CTAG 2 cut(s) 291, 461
GlaI GCGC 2 cut(s) 98, 446
GluI GCNGC 2 cut(s) 95, 443
HaeII RGCGCY 1 cut(s) 100
HapII CCGG 3 cut(s) 77, 110, 117
HhaI GCGC 2 cut(s) 99, 447
Hin1II CATG 5 cut(s) 131, 199, 272, 349, 508
Hin6I GCGC 2 cut(s) 97, 445
HinP1I GCGC 2 cut(s) 97, 445
HincII GTYRAC 1 cut(s) 502
HindII GTYRAC 1 cut(s) 502
HinfI GANTC 5 cut(s) 156, 350, 390, 488, 556
HpaII CCGG 3 cut(s) 77, 110, 117
HphI GGTGA 2 cut(s) 323, 611
Hpy166II GTNNAC 1 cut(s) 502
Hpy188I TCNGA 3 cut(s) 163, 336, 493
Hpy188III TCNNGA 3 cut(s) 224, 485, 560
Hpy8I GTNNAC 1 cut(s) 502
HpyAV CCTTC 1 cut(s) 230
HpyCH4III ACNGT 2 cut(s) 213, 608
HpyCH4IV ACGT 1 cut(s) 662
HpyCH4V TGCA 6 cut(s) 131, 147, 186, 199, 571, 597
HpyF10VI GCNNNNNNNGC 4 cut(s) 144, 192, 263, 365
HpyF3I CTNAG 3 cut(s) 134, 160, 281
HpySE526I ACGT 1 cut(s) 662
Hsp92II CATG 5 cut(s) 131, 199, 272, 349, 508
HspAI GCGC 2 cut(s) 97, 445
Ksp22I TGATCA 1 cut(s) 430
Kzo9I GATC 2 cut(s) 151, 430
LmnI GCTCC 2 cut(s) 373, 418
LpnPI CCDG 7 cut(s) 90, 123, 130, 384, 498, 545, 558
LweI GCATC 4 cut(s) 294, 558, 580, 585
MaeI CTAG 2 cut(s) 291, 461
MaeII ACGT 1 cut(s) 662
MaeIII GTNAC 2 cut(s) 473, 617
MalI GATC 2 cut(s) 153, 432
MboI GATC 2 cut(s) 151, 430
MboII GAAGA 5 cut(s) 260, 315, 318, 524, 575
MfeI CAATTG 1 cut(s) 33
MhlI GDGCHC 1 cut(s) 268
MluCI AATT 3 cut(s) 33, 315, 534
MlyI GAGTC 3 cut(s) 150, 359, 565
MmeI TCCRAC 2 cut(s) 396, 489
MnlI CCTC 7 cut(s) 47, 74, 84, 149, 246, 302, 662
Mph1103I ATGCAT 3 cut(s) 188, 201, 573
MseI TTAA 2 cut(s) 453, 537
MspI CCGG 3 cut(s) 77, 110, 117
MspR9I CCNGG 2 cut(s) 78, 118
MunI CAATTG 1 cut(s) 33
Mva1269I GAATGC 1 cut(s) 186
MwoI GCNNNNNNNGC 4 cut(s) 144, 192, 263, 365
NciI CCSGG 2 cut(s) 78, 118
NdeII GATC 2 cut(s) 151, 430
NlaIII CATG 5 cut(s) 131, 199, 272, 349, 508
NlaIV GGNNCC 2 cut(s) 82, 420
NmuCI GTSAC 1 cut(s) 617
NsiI ATGCAT 3 cut(s) 188, 201, 573
NspI RCATGY 3 cut(s) 131, 199, 508
PaeI GCATGC 1 cut(s) 199
PaeR7I CTCGAG 1 cut(s) 261
PciI ACATGT 1 cut(s) 504
PctI GAATGC 1 cut(s) 186
PfeI GAWTC 2 cut(s) 390, 488
PkrI GCNGC 2 cut(s) 96, 444
PleI GAGTC 3 cut(s) 150, 358, 564
PpsI GAGTC 3 cut(s) 150, 358, 564
PscI ACATGT 1 cut(s) 504
Psp124BI GAGCTC 1 cut(s) 268
Psp1406I AACGTT 1 cut(s) 662
PspEI GGTNACC 1 cut(s) 617
PspN4I GGNNCC 2 cut(s) 82, 420
PspXI VCTCGAGB 1 cut(s) 261
PstNI CAGNNNCTG 1 cut(s) 371
RsaI GTAC 1 cut(s) 215
RsaNI GTAC 1 cut(s) 214
SacI GAGCTC 1 cut(s) 268
SaqAI TTAA 2 cut(s) 453, 537
SatI GCNGC 2 cut(s) 95, 443
Sau3AI GATC 2 cut(s) 151, 430
SchI GAGTC 3 cut(s) 150, 359, 565
ScrFI CCNGG 2 cut(s) 78, 118
SduI GDGCHC 1 cut(s) 268
SetI ASST 9 cut(s) 58, 245, 268, 313, 370, 462, 469, 654, 665
SfaNI GCATC 4 cut(s) 294, 558, 580, 585
Sfr274I CTCGAG 1 cut(s) 261
SlaI CTCGAG 1 cut(s) 261
SmlI CTYRAG 2 cut(s) 68, 261
SmoI CTYRAG 2 cut(s) 68, 261
SpeI ACTAGT 1 cut(s) 290
SphI GCATGC 1 cut(s) 199
Sse9I AATT 3 cut(s) 33, 315, 534
SsiI CCGC 2 cut(s) 94, 442
SspMI CTAG 2 cut(s) 291, 461
SstI GAGCTC 1 cut(s) 268
StyD4I CCNGG 2 cut(s) 76, 116
StyI CCWWGG 2 cut(s) 84, 354
TaaI ACNGT 2 cut(s) 213, 608
TaiI ACGT 1 cut(s) 665
TaqI TCGA 4 cut(s) 141, 154, 262, 301
TaqII GACCGA 1 cut(s) 605
TasI AATT 3 cut(s) 33, 315, 534
TatI WGTACW 1 cut(s) 213
TauI GCSGC 2 cut(s) 97, 445
TfiI GAWTC 2 cut(s) 390, 488
Tru1I TTAA 2 cut(s) 453, 537
Tru9I TTAA 2 cut(s) 453, 537
TseFI GTSAC 1 cut(s) 617
Tsp45I GTSAC 1 cut(s) 617
TspDTI ATGAA 1 cut(s) 597
XagI CCTNNNNNAGG 1 cut(s) 88
XceI RCATGY 3 cut(s) 131, 199, 508
XhoI CTCGAG 1 cut(s) 261
XspI CTAG 2 cut(s) 291, 461
Zsp2I ATGCAT 3 cut(s) 188, 201, 573
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.