Rmu_ssc0000233.1_g000057

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_ssc0000233.1
OG0000128
Physical Location & Seq
Reverse (-)
260361 .. 261053
693 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_ssc0000233.1_g000057.1.cds

Sequence Viewer

Length: 693 bp
atgtgttcctataagaagatcctcgctcattgttcaaagtttgcatctcatctcgacaatgacgtagaaatgtgcattcaaggcatgcattgggacttactgtacatccttcaagggataaagcctcgcacctttgaagaactttccactcgagctcatgacatggaatttagcatcgctagtcatagtcgaagaaaagatgaaatcgttgaatcacataatcagaagcatgtcatggagtctttggcgatcacaactcctgtcaagatcacagcacgagtcaagtcaaataaccaaaacaagttggagccgactcatgatcaaacaaggcggcgcactcttaaagagttagaagctaaaagttacccttttccagattttgatgttgctgacatgttggaagatttgcttcaaaagaaagtaattaaactgccagactgcaaacgtccggaagagatgcatcgcatcaatgaaccaaagtattgcaaataccaccgtgtcatcggtaacccgacggagaagtgctttgtgttgaaagacctcatcatgaagcttgcacaacaaggaaaaatatgtttagacattaaagatgacgtggctcaatcaaatcatgttgctatcatctttgatcaacttgaagcagagtcgtcatcgcctttgctgggggcatgctacttgcccaaattgccttag
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

230

Amino Acids

26.59

Weight (kDa)

7.63

Isoelectric Point (pI)

48.6

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)
AccIII TCCGGA 1 cut(s) 448
AciI CCGC 1 cut(s) 331
AclWI GGATC 1 cut(s) 13
AcsI RAATTY 1 cut(s) 167
AfaI GTAC 1 cut(s) 104
AfiI CCNNNNNNNGG 1 cut(s) 662
AflIII ACRYGT 1 cut(s) 393
AgsI TTSAA 8 cut(s) 36, 80, 113, 137, 212, 413, 535, 638
AjiI CACGTC 1 cut(s) 595
AluBI AGCT 3 cut(s) 155, 356, 553
AluI AGCT 3 cut(s) 155, 356, 553
Alw21I GWGCWC 1 cut(s) 157
AlwI GGATC 1 cut(s) 13
Ama87I CYCGRG 1 cut(s) 150
Aor13HI TCCGGA 1 cut(s) 448
ApoI RAATTY 1 cut(s) 167
AspLEI GCGC 1 cut(s) 336
AvaI CYCGRG 1 cut(s) 150
BanII GRGCYC 1 cut(s) 157
BauI CACGAG 1 cut(s) 276
Bbv12I GWGCWC 1 cut(s) 157
BclI TGATCA 2 cut(s) 319, 628
BfaI CTAG 1 cut(s) 180
BisI GCNGC 1 cut(s) 332
BlsI GCNGC 1 cut(s) 333
BmeT110I CYCGRG 1 cut(s) 150
BmgBI CACGTC 1 cut(s) 595
BmiI GGNNCC 1 cut(s) 309
BmsI GCATC 5 cut(s) 53, 183, 447, 469, 474
BsaWI WCCGGW 1 cut(s) 448
Bsc4I CCNNNNNNNGG 1 cut(s) 662
BseAI TCCGGA 1 cut(s) 448
BseGI GGATG 1 cut(s) 105
BseLI CCNNNNNNNGG 1 cut(s) 662
BseYI CCCAGC 1 cut(s) 661
BsiHKAI GWGCWC 1 cut(s) 157
BsiHKCI CYCGRG 1 cut(s) 150
BsiSI CCGG 1 cut(s) 449
BslFI GGGAC 1 cut(s) 107
BslI CCNNNNNNNGG 1 cut(s) 662
BsmFI GGGAC 1 cut(s) 107
BsmI GAATGC 1 cut(s) 75
BsoBI CYCGRG 1 cut(s) 150
Bsp1286I GDGCHC 1 cut(s) 157
Bsp13I TCCGGA 1 cut(s) 448
Bsp1407I TGTACA 1 cut(s) 102
Bsp143I GATC 5 cut(s) 18, 249, 267, 319, 628
BspACI CCGC 1 cut(s) 331
BspEI TCCGGA 1 cut(s) 448
BspHI TCATGA 3 cut(s) 157, 316, 546
BspLI GGNNCC 1 cut(s) 309
BspPI GGATC 1 cut(s) 13
BsrGI TGTACA 1 cut(s) 102
BssMI GATC 5 cut(s) 18, 249, 267, 319, 628
BssSI CACGAG 1 cut(s) 276
Bst2BI CACGAG 1 cut(s) 276
Bst4CI ACNGT 2 cut(s) 102, 497
Bst6I CTCTTC 1 cut(s) 447
BstAUI TGTACA 1 cut(s) 102
BstC8I GCNNGC 3 cut(s) 86, 555, 670
BstDEI CTNAG 1 cut(s) 690
BstEII GGTNACC 1 cut(s) 506
BstF5I GGATG 1 cut(s) 105
BstHHI GCGC 1 cut(s) 336
BstKTI GATC 5 cut(s) 21, 252, 270, 322, 631
BstMBI GATC 5 cut(s) 18, 249, 267, 319, 628
BstMWI GCNNNNNNNGC 2 cut(s) 81, 685
BstNSI RCATGY 4 cut(s) 88, 233, 397, 672
BstPI GGTNACC 1 cut(s) 506
BstX2I RGATCY 1 cut(s) 18
BstYI RGATCY 1 cut(s) 18
BtgZI GCGATG 3 cut(s) 160, 446, 636
BtrI CACGTC 1 cut(s) 595
BtsCI GGATG 1 cut(s) 105
Cac8I GCNNGC 3 cut(s) 86, 555, 670
CciI TCATGA 3 cut(s) 157, 316, 546
CfoI GCGC 1 cut(s) 336
Csp6I GTAC 1 cut(s) 103
CviJI RGCY 6 cut(s) 124, 155, 310, 356, 553, 599
CviKI_1 RGCY 6 cut(s) 124, 155, 310, 356, 553, 599
CviQI GTAC 1 cut(s) 103
DdeI CTNAG 1 cut(s) 690
DpnI GATC 5 cut(s) 20, 251, 269, 321, 630
DpnII GATC 5 cut(s) 18, 249, 267, 319, 628
Eam1104I CTCTTC 1 cut(s) 447
EarI CTCTTC 1 cut(s) 447
Ecl136II GAGCTC 1 cut(s) 155
Eco24I GRGCYC 1 cut(s) 157
Eco53kI GAGCTC 1 cut(s) 155
Eco88I CYCGRG 1 cut(s) 150
Eco91I GGTNACC 1 cut(s) 506
EcoICRI GAGCTC 1 cut(s) 155
EcoO65I GGTNACC 1 cut(s) 506
EcoT22I ATGCAT 2 cut(s) 90, 462
EcoT38I GRGCYC 1 cut(s) 157
FalI AAGNNNNNCTT 4 cut(s) 352, 384, 393, 425
FaqI GGGAC 1 cut(s) 107
FbaI TGATCA 2 cut(s) 319, 628
Fnu4HI GCNGC 1 cut(s) 332
FokI GGATG 1 cut(s) 92
FriOI GRGCYC 1 cut(s) 157
Fsp4HI GCNGC 1 cut(s) 332
FspBI CTAG 1 cut(s) 180
GlaI GCGC 1 cut(s) 335
GluI GCNGC 1 cut(s) 332
GsaI CCCAGC 1 cut(s) 665
HapII CCGG 1 cut(s) 449
HhaI GCGC 1 cut(s) 336
Hin6I GCGC 1 cut(s) 334
HinP1I GCGC 1 cut(s) 334
HindIII AAGCTT 1 cut(s) 551
HinfI GANTC 5 cut(s) 212, 239, 279, 313, 644
HpaII CCGG 1 cut(s) 449
Hpy188I TCNGA 1 cut(s) 225
Hpy188III TCNNGA 7 cut(s) 53, 158, 265, 317, 374, 449, 547
Hpy99I CGWCG 1 cut(s) 517
HpyAV CCTTC 1 cut(s) 119
HpyCH4III ACNGT 2 cut(s) 102, 497
HpyCH4IV ACGT 3 cut(s) 63, 445, 594
HpyCH4V TGCA 7 cut(s) 44, 75, 88, 441, 460, 486, 557
HpyF10VI GCNNNNNNNGC 2 cut(s) 81, 685
HpyF3I CTNAG 1 cut(s) 690
HpySE526I ACGT 3 cut(s) 63, 445, 594
HspAI GCGC 1 cut(s) 334
Kpn2I TCCGGA 1 cut(s) 448
Ksp22I TGATCA 2 cut(s) 319, 628
Kzo9I GATC 5 cut(s) 18, 249, 267, 319, 628
LmnI GCTCC 1 cut(s) 307
LpnPI CCDG 5 cut(s) 273, 387, 447, 462, 647
LweI GCATC 5 cut(s) 53, 183, 447, 469, 474
MaeI CTAG 1 cut(s) 180
MaeII ACGT 3 cut(s) 63, 445, 594
MaeIII GTNAC 2 cut(s) 362, 506
MalI GATC 5 cut(s) 20, 251, 269, 321, 630
MboI GATC 5 cut(s) 18, 249, 267, 319, 628
MboII GAAGA 5 cut(s) 28, 149, 204, 413, 464
MflI RGATCY 1 cut(s) 18
MhlI GDGCHC 1 cut(s) 157
MluCI AATT 3 cut(s) 167, 423, 683
MlyI GAGTC 4 cut(s) 248, 288, 307, 653
MmeI TCCRAC 2 cut(s) 285, 378
MnlI CCTC 3 cut(s) 32, 135, 551
Mph1103I ATGCAT 2 cut(s) 90, 462
MroI TCCGGA 1 cut(s) 448
MseI TTAA 3 cut(s) 342, 426, 585
MspI CCGG 1 cut(s) 449
Mva1269I GAATGC 1 cut(s) 75
MwoI GCNNNNNNNGC 2 cut(s) 81, 685
NdeII GATC 5 cut(s) 18, 249, 267, 319, 628
NlaIV GGNNCC 1 cut(s) 309
NsiI ATGCAT 2 cut(s) 90, 462
NspI RCATGY 4 cut(s) 88, 233, 397, 672
PaeI GCATGC 2 cut(s) 88, 672
PaeR7I CTCGAG 1 cut(s) 150
PagI TCATGA 3 cut(s) 157, 316, 546
PciI ACATGT 1 cut(s) 393
PcsI WCGNNNNNNNCGW 1 cut(s) 60
PctI GAATGC 1 cut(s) 75
PfeI GAWTC 1 cut(s) 212
PkrI GCNGC 1 cut(s) 333
PleI GAGTC 4 cut(s) 247, 287, 307, 652
PpsI GAGTC 4 cut(s) 247, 287, 307, 652
PscI ACATGT 1 cut(s) 393
Psp124BI GAGCTC 1 cut(s) 157
PspEI GGTNACC 1 cut(s) 506
PspFI CCCAGC 1 cut(s) 661
PspN4I GGNNCC 1 cut(s) 309
PspXI VCTCGAGB 1 cut(s) 150
PsuI RGATCY 1 cut(s) 18
RsaI GTAC 1 cut(s) 104
RsaNI GTAC 1 cut(s) 103
SacI GAGCTC 1 cut(s) 157
SaqAI TTAA 3 cut(s) 342, 426, 585
SatI GCNGC 1 cut(s) 332
Sau3AI GATC 5 cut(s) 18, 249, 267, 319, 628
SchI GAGTC 4 cut(s) 248, 288, 307, 653
SduI GDGCHC 1 cut(s) 157
SetI ASST 8 cut(s) 66, 134, 157, 358, 448, 543, 555, 597
SfaNI GCATC 5 cut(s) 53, 183, 447, 469, 474
Sfr274I CTCGAG 1 cut(s) 150
SlaI CTCGAG 1 cut(s) 150
SmlI CTYRAG 1 cut(s) 150
SmoI CTYRAG 1 cut(s) 150
SphI GCATGC 2 cut(s) 88, 672
Sse9I AATT 3 cut(s) 167, 423, 683
SsiI CCGC 1 cut(s) 331
SspMI CTAG 1 cut(s) 180
SstI GAGCTC 1 cut(s) 157
TaaI ACNGT 2 cut(s) 102, 497
TaiI ACGT 3 cut(s) 66, 448, 597
TaqI TCGA 3 cut(s) 54, 151, 190
TasI AATT 3 cut(s) 167, 423, 683
TatI WGTACW 1 cut(s) 102
TauI GCSGC 1 cut(s) 334
TfiI GAWTC 1 cut(s) 212
Tru1I TTAA 3 cut(s) 342, 426, 585
Tru9I TTAA 3 cut(s) 342, 426, 585
TspDTI ATGAA 3 cut(s) 216, 486, 563
TspGWI ACGGA 1 cut(s) 530
XapI RAATTY 1 cut(s) 167
XceI RCATGY 4 cut(s) 88, 233, 397, 672
XhoI CTCGAG 1 cut(s) 150
XspI CTAG 1 cut(s) 180
Zsp2I ATGCAT 2 cut(s) 90, 462
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.