Rmu_sc0001211.1_g000054

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0001211.1
OG0000128
Physical Location & Seq
Reverse (-)
192414 .. 193000
587 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0001211.1_g000054.1.cds

Sequence Viewer

Length: 483 bp
atgcattgggacttactttacatccttcgagggataacgcctcgcacctttgaagaacttgccactcgagctcatgacatggaacttagcatcgctagtcatggtcgaagaaaaggtgaaatcgttgaaccacataatcagagtcgtgtcatggaagagctagaagctaaaagttacccttttccagattccgatgttgccaacatgttggaagatttgcttcaaaagaaaataatcaaattgtcaaacggcaaatgtccagaagagatgcatcgtatcaatgacccaaagtactacaagtaccaccgtgtcatcggttacccagtggagaagtgcttcatgttgaaagacctcatcatgaagctagcaaaaaaagaaaaaatctatttagacattgaagatgacgtggctcagtcaaatcacgctgccatcatccttgaacaacatgaagcaatgttgtccacgcctttgctggggaaatga
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

160

Amino Acids

18.65

Weight (kDa)

6.24

Isoelectric Point (pI)

49.26

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
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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)
AfaI GTAC 2 cut(s) 293, 302
AfiI CCNNNNNNNGG 1 cut(s) 473
AflIII ACRYGT 1 cut(s) 204
AgsI TTSAA 6 cut(s) 53, 128, 224, 346, 398, 440
AjiI CACGTC 1 cut(s) 406
AluBI AGCT 4 cut(s) 71, 160, 167, 364
AluI AGCT 4 cut(s) 71, 160, 167, 364
Alw21I GWGCWC 1 cut(s) 73
Ama87I CYCGRG 1 cut(s) 66
ApeKI GCWGC 1 cut(s) 425
Asp700I GAANNNNTTC 1 cut(s) 335
AsuHPI GGTGA 1 cut(s) 128
AsuNHI GCTAGC 1 cut(s) 364
AvaI CYCGRG 1 cut(s) 66
BanII GRGCYC 1 cut(s) 73
Bbv12I GWGCWC 1 cut(s) 73
BbvI GCAGC 1 cut(s) 412
BccI CCATC 1 cut(s) 437
BceAI ACGGC 1 cut(s) 265
BfaI CTAG 3 cut(s) 96, 161, 365
BisI GCNGC 1 cut(s) 426
BlsI GCNGC 1 cut(s) 427
BmcAI AGTACT 1 cut(s) 293
BmeT110I CYCGRG 1 cut(s) 66
BmgBI CACGTC 1 cut(s) 406
BmrI ACTGGG 1 cut(s) 317
BmsI GCATC 3 cut(s) 99, 258, 280
BmtI GCTAGC 1 cut(s) 368
BmuI ACTGGG 1 cut(s) 317
Bsc4I CCNNNNNNNGG 1 cut(s) 473
Bse1I ACTGG 1 cut(s) 323
Bse3DI GCAATG 1 cut(s) 459
BseGI GGATG 2 cut(s) 21, 432
BseLI CCNNNNNNNGG 1 cut(s) 473
BseMI GCAATG 1 cut(s) 459
BseMII CTCAG 1 cut(s) 425
BseNI ACTGG 1 cut(s) 323
BseXI GCAGC 1 cut(s) 412
BseYI CCCAGC 1 cut(s) 472
BsiHKAI GWGCWC 1 cut(s) 73
BsiHKCI CYCGRG 1 cut(s) 66
BslFI GGGAC 1 cut(s) 23
BslI CCNNNNNNNGG 1 cut(s) 473
BsmFI GGGAC 1 cut(s) 23
BsoBI CYCGRG 1 cut(s) 66
Bsp1286I GDGCHC 1 cut(s) 73
BspCNI CTCAG 1 cut(s) 424
BspHI TCATGA 2 cut(s) 73, 357
BspOI GCTAGC 1 cut(s) 368
BspQI GCTCTTC 1 cut(s) 150
BsrDI GCAATG 1 cut(s) 459
BsrI ACTGG 1 cut(s) 323
Bst4CI ACNGT 1 cut(s) 308
Bst6I CTCTTC 2 cut(s) 150, 258
BstC8I GCNNGC 1 cut(s) 366
BstDEI CTNAG 2 cut(s) 86, 411
BstEII GGTNACC 1 cut(s) 317
BstF5I GGATG 2 cut(s) 21, 432
BstMWI GCNNNNNNNGC 1 cut(s) 68
BstNSI RCATGY 1 cut(s) 208
BstPI GGTNACC 1 cut(s) 317
BstV1I GCAGC 1 cut(s) 412
BstXI CCANNNNNNTGG 1 cut(s) 208
BtgZI GCGATG 1 cut(s) 76
BtrI CACGTC 1 cut(s) 406
BtsCI GGATG 2 cut(s) 21, 432
BtsIMutI CAGTG 1 cut(s) 330
Cac8I GCNNGC 1 cut(s) 366
CciI TCATGA 2 cut(s) 73, 357
Csp6I GTAC 2 cut(s) 292, 301
CviAII CATG 8 cut(s) 74, 79, 101, 151, 205, 340, 358, 446
CviJI RGCY 5 cut(s) 71, 160, 167, 364, 410
CviKI_1 RGCY 5 cut(s) 71, 160, 167, 364, 410
CviQI GTAC 2 cut(s) 292, 301
DdeI CTNAG 2 cut(s) 86, 411
Eam1104I CTCTTC 2 cut(s) 150, 258
EarI CTCTTC 2 cut(s) 150, 258
Ecl136II GAGCTC 1 cut(s) 71
Eco24I GRGCYC 1 cut(s) 73
Eco53kI GAGCTC 1 cut(s) 71
Eco88I CYCGRG 1 cut(s) 66
Eco91I GGTNACC 1 cut(s) 317
EcoICRI GAGCTC 1 cut(s) 71
EcoO65I GGTNACC 1 cut(s) 317
EcoT22I ATGCAT 2 cut(s) 6, 273
EcoT38I GRGCYC 1 cut(s) 73
FaeI CATG 8 cut(s) 77, 82, 104, 154, 208, 343, 361, 449
FaiI YATR 9 cut(s) 75, 80, 102, 135, 152, 206, 341, 359, 447
FalI AAGNNNNNCTT 4 cut(s) 163, 195, 204, 236
FaqI GGGAC 1 cut(s) 23
FatI CATG 8 cut(s) 73, 78, 100, 150, 204, 339, 357, 445
Fnu4HI GCNGC 1 cut(s) 426
FokI GGATG 2 cut(s) 8, 419
FriOI GRGCYC 1 cut(s) 73
Fsp4HI GCNGC 1 cut(s) 426
FspBI CTAG 3 cut(s) 96, 161, 365
GluI GCNGC 1 cut(s) 426
GsaI CCCAGC 1 cut(s) 476
Hin1II CATG 8 cut(s) 77, 82, 104, 154, 208, 343, 361, 449
HinfI GANTC 2 cut(s) 142, 188
HphI GGTGA 1 cut(s) 128
Hpy166II GTNNAC 1 cut(s) 462
Hpy188I TCNGA 2 cut(s) 141, 193
Hpy188III TCNNGA 4 cut(s) 74, 185, 260, 358
Hpy8I GTNNAC 1 cut(s) 462
HpyAV CCTTC 1 cut(s) 35
HpyCH4III ACNGT 1 cut(s) 308
HpyCH4IV ACGT 1 cut(s) 405
HpyCH4V TGCA 2 cut(s) 4, 271
HpyF10VI GCNNNNNNNGC 1 cut(s) 68
HpyF3I CTNAG 2 cut(s) 86, 411
HpySE526I ACGT 1 cut(s) 405
Hsp92II CATG 8 cut(s) 77, 82, 104, 154, 208, 343, 361, 449
LguI GCTCTTC 1 cut(s) 150
LpnPI CCDG 4 cut(s) 198, 273, 336, 458
Lsp1109I GCAGC 1 cut(s) 412
LweI GCATC 3 cut(s) 99, 258, 280
MaeI CTAG 3 cut(s) 96, 161, 365
MaeII ACGT 1 cut(s) 405
MaeIII GTNAC 2 cut(s) 173, 317
MboII GAAGA 6 cut(s) 65, 120, 167, 224, 275, 410
MhlI GDGCHC 1 cut(s) 73
MluCI AATT 1 cut(s) 239
MlyI GAGTC 1 cut(s) 151
MmeI TCCRAC 1 cut(s) 189
MnlI CCTC 3 cut(s) 23, 51, 362
Mph1103I ATGCAT 2 cut(s) 6, 273
MroXI GAANNNNTTC 1 cut(s) 335
MwoI GCNNNNNNNGC 1 cut(s) 68
NheI GCTAGC 1 cut(s) 364
NlaIII CATG 8 cut(s) 77, 82, 104, 154, 208, 343, 361, 449
NsiI ATGCAT 2 cut(s) 6, 273
NspI RCATGY 1 cut(s) 208
PaeR7I CTCGAG 1 cut(s) 66
PagI TCATGA 2 cut(s) 73, 357
PciI ACATGT 1 cut(s) 204
PciSI GCTCTTC 1 cut(s) 150
PdmI GAANNNNTTC 1 cut(s) 335
PfeI GAWTC 1 cut(s) 188
PkrI GCNGC 1 cut(s) 427
PleI GAGTC 1 cut(s) 150
PpsI GAGTC 1 cut(s) 150
PscI ACATGT 1 cut(s) 204
Psp124BI GAGCTC 1 cut(s) 73
PspEI GGTNACC 1 cut(s) 317
PspFI CCCAGC 1 cut(s) 472
PspXI VCTCGAGB 1 cut(s) 66
RsaI GTAC 2 cut(s) 293, 302
RsaNI GTAC 2 cut(s) 292, 301
SacI GAGCTC 1 cut(s) 73
SapI GCTCTTC 1 cut(s) 150
SatI GCNGC 1 cut(s) 426
ScaI AGTACT 1 cut(s) 293
SchI GAGTC 1 cut(s) 151
SduI GDGCHC 1 cut(s) 73
SetI ASST 8 cut(s) 50, 73, 118, 162, 169, 354, 366, 408
SfaNI GCATC 3 cut(s) 99, 258, 280
Sfr274I CTCGAG 1 cut(s) 66
SlaI CTCGAG 1 cut(s) 66
SmlI CTYRAG 1 cut(s) 66
SmoI CTYRAG 1 cut(s) 66
Sse9I AATT 1 cut(s) 239
SspMI CTAG 3 cut(s) 96, 161, 365
SstI GAGCTC 1 cut(s) 73
TaaI ACNGT 1 cut(s) 308
TaiI ACGT 1 cut(s) 408
TaqI TCGA 3 cut(s) 28, 67, 106
TasI AATT 1 cut(s) 239
TatI WGTACW 1 cut(s) 291
TfiI GAWTC 1 cut(s) 188
TscAI CASTG 1 cut(s) 330
TseI GCWGC 1 cut(s) 425
TspDTI ATGAA 3 cut(s) 328, 374, 462
TspRI CASTG 1 cut(s) 330
XceI RCATGY 1 cut(s) 208
XcmI CCANNNNNNNNNTGG 1 cut(s) 469
XhoI CTCGAG 1 cut(s) 66
XmnI GAANNNNTTC 1 cut(s) 335
XspI CTAG 3 cut(s) 96, 161, 365
ZrmI AGTACT 1 cut(s) 293
Zsp2I ATGCAT 2 cut(s) 6, 273
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.