Rmu_sc0036944.1_g000001

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0036944.1
OG0000437
Physical Location & Seq
Reverse (-)
2 .. 508
507 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0036944.1_g000001.1.cds

Sequence Viewer

Length: 507 bp
atgaataaaaccggtcaagaagcatataatctaattgatgatttggccgacaacaatagactattctacacaagggataaacgtacaagaggacgaggagtgtatgaagtcaattcaaggaaccaaatggtggctgtggaaaaaaagattgacatgttaatgaatgccttaggcaatggcattaaggcaacacctcaggtatgctctatttgtttctattctgatcatactactgatagatgtcctatgtctgctatgtctgaggaacaggtgaattacatggggcaacaaaggcccaaatatgacccttactcgaacacgtacaatccgggatggaatgatcacccaaacttccgttggggcggtaatgacaacgtggttcgacctactcaaggcgtctacaatggaccacctggattccaacaaagggctaggcagcaagtctatcaacaaactcctcctcaacaatcctcaagcaagtccttggaagaactagtgaaggagatg
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

169

Amino Acids

19.44

Weight (kDa)

8.4

Isoelectric Point (pI)

45.58

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: OG0000437)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G06105
fragaria_vesca FvH4_1g09709 FvH4_4g02101 FvH4_4g08975 FvH4_6g23372 FvH4_6g39851 FvH4_c1g00300
malus_domestica MD01G1176100.v1.1 MD09G1284900.v1.1 MD15G1306600.v1.1
prunus_persica Prupe.1G227700_v2.0.a1
pyrus_communis pycom01g00630 pycom01g01020 pycom01g01690 pycom01g01760 pycom01g04190 pycom01g04400 pycom02g18130 pycom03g10160 pycom05g06370 pycom05g08930 pycom06g05590 pycom10g06320 pycom11g14330 pycom11g15320 pycom11g16240 pycom12416g00050 pycom12420g00010 pycom12420g00120 pycom12426g00180 pycom12426g00710 pycom12531g00010 pycom1256g00020 pycom1256g00050 pycom1341g00030 pycom1353g00030 pycom13g23070 pycom13g23210 pycom13g26260 pycom13g26370 pycom13g26470 pycom13g26980 pycom14g08550 pycom14g08850 pycom1534g00040 pycom15g28760 pycom15g31230 pycom1604g00040 pycom16g21900 pycom16g26030 pycom1739g00020 pycom1739g00050 pycom17g12970 pycom17g17960 pycom17g18300 pycom17g18650 pycom2172g00020 pycom2438g00020 pycom436g00370 pycom436g00390 pycom576g00050 pycom76g00020
rosa_chinensis RchiOBHm_Chr1g0320811 RchiOBHm_Chr2g0135321 RchiOBHm_Chr3g0485721 RchiOBHm_Chr7g0236571
rosa_multiflora Rmu_sc0000185.1_g000007 Rmu_sc0002094.1_g000030 Rmu_sc0002764.1_g000007 Rmu_sc0002809.1_g000014 Rmu_sc0003005.1_g000007 Rmu_sc0003798.1_g000005 Rmu_sc0004646.1_g000027 Rmu_sc0004665.1_g000009 Rmu_sc0004818.1_g000001 Rmu_sc0004988.1_g000031 Rmu_sc0006373.1_g000007 Rmu_sc0007142.1_g000015 Rmu_sc0009930.1_g000001 Rmu_sc0011451.1_g000001 Rmu_sc0020424.1_g000001 Rmu_sc0036944.1_g000001 Rmu_ssc0000062.1_g000010
rosa_roxburghii Rroxscaffold_2G00123930 Rroxscaffold_3G00231480 Rroxscaffold_6G00413880
rosa_rugosa Rorug04G0084800
rosa_samantha Rh3BG150500 Rh6DG232400
rosa_wichuraiana Rw2G018400 Rw3G027860 Rw4G021220 Rw6G020670 Rw6G037970

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 130
AccI GTMKAC 1 cut(s) 399
AciI CCGC 1 cut(s) 363
AcoI YGGCCR 1 cut(s) 45
AcyI GRCGYC 1 cut(s) 396
AfaI GTAC 2 cut(s) 85, 323
AfiI CCNNNNNNNGG 3 cut(s) 130, 392, 427
AflIII ACRYGT 2 cut(s) 153, 318
AgeI ACCGGT 1 cut(s) 11
AgsI TTSAA 1 cut(s) 117
AhlI ACTAGT 1 cut(s) 493
AjnI CCWGG 1 cut(s) 412
AoxI GGCC 2 cut(s) 45, 293
ApeKI GCWGC 1 cut(s) 436
AsiGI ACCGGT 1 cut(s) 11
AspS9I GGNCC 2 cut(s) 294, 407
AsuC2I CCSGG 1 cut(s) 330
AsuHPI GGTGA 2 cut(s) 283, 335
AvaII GGWCC 1 cut(s) 407
AxyI CCTNAGG 2 cut(s) 169, 195
BbvI GCAGC 1 cut(s) 448
BccI CCATC 1 cut(s) 327
BciT130I CCWGG 1 cut(s) 414
BclI TGATCA 2 cut(s) 223, 340
BcnI CCSGG 1 cut(s) 330
BcuI ACTAGT 1 cut(s) 493
BfaI CTAG 2 cut(s) 432, 494
BisI GCNGC 1 cut(s) 437
BlsI GCNGC 1 cut(s) 438
Bme1390I CCNGG 2 cut(s) 330, 414
Bme18I GGWCC 1 cut(s) 407
BmgT120I GGNCC 2 cut(s) 294, 407
BmiI GGNNCC 1 cut(s) 122
BmrFI CCNGG 2 cut(s) 330, 414
BpuEI CTTGAG 2 cut(s) 375, 457
BpuMI CCSGG 1 cut(s) 330
BsaAI YACGTR 1 cut(s) 321
BsaHI GRCGYC 1 cut(s) 396
BsaJI CCNNGG 1 cut(s) 483
BsaWI WCCGGW 1 cut(s) 11
Bsc4I CCNNNNNNNGG 3 cut(s) 130, 392, 427
Bse118I RCCGGY 1 cut(s) 11
Bse21I CCTNAGG 2 cut(s) 169, 195
Bse3DI GCAATG 1 cut(s) 181
BseBI CCWGG 1 cut(s) 414
BseDI CCNNGG 1 cut(s) 483
BseGI GGATG 1 cut(s) 338
BseLI CCNNNNNNNGG 3 cut(s) 130, 392, 427
BseMI GCAATG 1 cut(s) 181
BseMII CTCAG 2 cut(s) 209, 252
BseRI GAGGAG 3 cut(s) 111, 447, 450
BseXI GCAGC 1 cut(s) 448
BshFI GGCC 2 cut(s) 47, 295
BshTI ACCGGT 1 cut(s) 11
BsiSI CCGG 2 cut(s) 12, 329
BslI CCNNNNNNNGG 3 cut(s) 130, 392, 427
BsmI GAATGC 1 cut(s) 169
BsnI GGCC 2 cut(s) 47, 295
Bsp143I GATC 2 cut(s) 223, 340
BspACI CCGC 1 cut(s) 363
BspANI GGCC 2 cut(s) 47, 295
BspCNI CTCAG 2 cut(s) 208, 253
BspLI GGNNCC 1 cut(s) 122
BsrDI GCAATG 1 cut(s) 181
BsrFI RCCGGY 1 cut(s) 11
BssAI RCCGGY 1 cut(s) 11
BssECI CCNNGG 1 cut(s) 483
BssMI GATC 2 cut(s) 223, 340
BssNI GRCGYC 1 cut(s) 396
BssT1I CCWWGG 1 cut(s) 483
Bst2UI CCWGG 1 cut(s) 414
BstACI GRCGYC 1 cut(s) 396
BstBAI YACGTR 1 cut(s) 321
BstDEI CTNAG 3 cut(s) 169, 195, 261
BstENI CCTNNNNNAGG 1 cut(s) 390
BstF5I GGATG 1 cut(s) 338
BstKTI GATC 2 cut(s) 226, 343
BstMBI GATC 2 cut(s) 223, 340
BstMWI GCNNNNNNNGC 1 cut(s) 292
BstNI CCWGG 1 cut(s) 414
BstNSI RCATGY 1 cut(s) 157
BstSCI CCNGG 2 cut(s) 328, 412
BstV1I GCAGC 1 cut(s) 448
Bsu36I CCTNAGG 2 cut(s) 169, 195
BsuRI GGCC 2 cut(s) 47, 295
BtsCI GGATG 1 cut(s) 338
Cfr10I RCCGGY 1 cut(s) 11
Cfr13I GGNCC 2 cut(s) 294, 407
CseI GACGC 1 cut(s) 385
Csp6I GTAC 2 cut(s) 84, 322
CspAI ACCGGT 1 cut(s) 11
CviAII CATG 2 cut(s) 154, 280
CviJI RGCY 4 cut(s) 47, 134, 295, 431
CviKI_1 RGCY 4 cut(s) 47, 134, 295, 431
CviQI GTAC 2 cut(s) 84, 322
DdeI CTNAG 3 cut(s) 169, 195, 261
DpnI GATC 2 cut(s) 225, 342
DpnII GATC 2 cut(s) 223, 340
EaeI YGGCCR 1 cut(s) 45
Eco130I CCWWGG 1 cut(s) 483
Eco47I GGWCC 1 cut(s) 407
Eco81I CCTNAGG 2 cut(s) 169, 195
EcoNI CCTNNNNNAGG 1 cut(s) 390
EcoRII CCWGG 1 cut(s) 412
EcoT14I CCWWGG 1 cut(s) 483
ErhI CCWWGG 1 cut(s) 483
FaeI CATG 2 cut(s) 157, 283
FatI CATG 2 cut(s) 153, 279
FbaI TGATCA 2 cut(s) 223, 340
FblI GTMKAC 1 cut(s) 399
Fnu4HI GCNGC 1 cut(s) 437
FokI GGATG 1 cut(s) 345
Fsp4HI GCNGC 1 cut(s) 437
FspBI CTAG 2 cut(s) 432, 494
GluI GCNGC 1 cut(s) 437
HaeIII GGCC 2 cut(s) 47, 295
HapII CCGG 2 cut(s) 12, 329
HgaI GACGC 1 cut(s) 385
Hin1I GRCGYC 1 cut(s) 396
Hin1II CATG 2 cut(s) 157, 283
HinfI GANTC 1 cut(s) 417
HpaII CCGG 2 cut(s) 12, 329
HphI GGTGA 2 cut(s) 283, 335
Hpy166II GTNNAC 1 cut(s) 400
Hpy188I TCNGA 2 cut(s) 223, 262
Hpy188III TCNNGA 1 cut(s) 17
Hpy8I GTNNAC 1 cut(s) 400
HpyAV CCTTC 1 cut(s) 493
HpyCH4IV ACGT 3 cut(s) 82, 320, 375
HpyF10VI GCNNNNNNNGC 1 cut(s) 292
HpyF3I CTNAG 3 cut(s) 169, 195, 261
HpySE526I ACGT 3 cut(s) 82, 320, 375
Hsp92I GRCGYC 1 cut(s) 396
Hsp92II CATG 2 cut(s) 157, 283
Ksp22I TGATCA 2 cut(s) 223, 340
Kzo9I GATC 2 cut(s) 223, 340
LpnPI CCDG 6 cut(s) 25, 182, 254, 342, 399, 426
Lsp1109I GCAGC 1 cut(s) 448
MaeI CTAG 2 cut(s) 432, 494
MaeII ACGT 3 cut(s) 82, 320, 375
MalI GATC 2 cut(s) 225, 342
MboI GATC 2 cut(s) 223, 340
MboII GAAGA 1 cut(s) 500
MluCI AATT 3 cut(s) 33, 112, 274
MmeI TCCRAC 1 cut(s) 445
MnlI CCTC 7 cut(s) 83, 89, 204, 256, 468, 471, 481
MseI TTAA 2 cut(s) 158, 183
MslI CAYNNNNRTG 1 cut(s) 158
MspI CCGG 2 cut(s) 12, 329
MspR9I CCNGG 2 cut(s) 330, 414
Mva1269I GAATGC 1 cut(s) 169
MvaI CCWGG 1 cut(s) 414
MwoI GCNNNNNNNGC 1 cut(s) 292
NciI CCSGG 1 cut(s) 330
NdeII GATC 2 cut(s) 223, 340
NlaIII CATG 2 cut(s) 157, 283
NlaIV GGNNCC 1 cut(s) 122
NspI RCATGY 1 cut(s) 157
PciI ACATGT 1 cut(s) 153
PctI GAATGC 1 cut(s) 169
PfeI GAWTC 1 cut(s) 417
PflMI CCANNNNNTGG 1 cut(s) 130
PfoI TCCNGGA 1 cut(s) 328
PinAI ACCGGT 1 cut(s) 11
PkrI GCNGC 1 cut(s) 438
Ppu21I YACGTR 1 cut(s) 321
PscI ACATGT 1 cut(s) 153
Psp6I CCWGG 1 cut(s) 412
PspGI CCWGG 1 cut(s) 412
PspN4I GGNNCC 1 cut(s) 122
PspPI GGNCC 2 cut(s) 294, 407
RsaI GTAC 2 cut(s) 85, 323
RsaNI GTAC 2 cut(s) 84, 322
RseI CAYNNNNRTG 1 cut(s) 158
SaqAI TTAA 2 cut(s) 158, 183
SatI GCNGC 1 cut(s) 437
Sau3AI GATC 2 cut(s) 223, 340
Sau96I GGNCC 2 cut(s) 294, 407
ScrFI CCNGG 2 cut(s) 330, 414
SetI ASST 8 cut(s) 85, 196, 201, 273, 323, 378, 388, 415
SinI GGWCC 1 cut(s) 407
SmiMI CAYNNNNRTG 1 cut(s) 158
SmlI CTYRAG 2 cut(s) 390, 472
SmoI CTYRAG 2 cut(s) 390, 472
SpeI ACTAGT 1 cut(s) 493
Sse9I AATT 3 cut(s) 33, 112, 274
SsiI CCGC 1 cut(s) 363
SspMI CTAG 2 cut(s) 432, 494
StyD4I CCNGG 2 cut(s) 328, 412
StyI CCWWGG 1 cut(s) 483
TaiI ACGT 3 cut(s) 85, 323, 378
TaqI TCGA 2 cut(s) 314, 382
TasI AATT 3 cut(s) 33, 112, 274
TfiI GAWTC 1 cut(s) 417
Tru1I TTAA 2 cut(s) 158, 183
Tru9I TTAA 2 cut(s) 158, 183
TseI GCWGC 1 cut(s) 436
TspDTI ATGAA 3 cut(s) 17, 120, 176
TspGWI ACGGA 1 cut(s) 344
Van91I CCANNNNNTGG 1 cut(s) 130
VpaK11BI GGWCC 1 cut(s) 407
XagI CCTNNNNNAGG 1 cut(s) 390
XceI RCATGY 1 cut(s) 157
XcmI CCANNNNNNNNNTGG 1 cut(s) 354
XmiI GTMKAC 1 cut(s) 399
XspI CTAG 2 cut(s) 432, 494
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.