Rmu_ssc0000381.1_g000004

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_ssc0000381.1
OG0000146
Physical Location & Seq
Forward (+)
15493 .. 16083
591 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_ssc0000381.1_g000004.1.cds

Sequence Viewer

Length: 447 bp
atggtgccatcctcacaagtcatccatcaccactacaccacccaacaagacaactttgcattcccaacaagtgttgtcttgaatgaatccaaccacaccatatgggctcctttcatgcggatgcgcattggagaacgacggaaggttggttatctgaccaaagtgaaggctgaacctgccatgaattctgcagagtatgaaacttgggccacggataatgaaaagaagtgttttgcagcaaagaaaaatggatggcccattcaaacctactataatgagttagtggcgatgttccaggagattgatcaaagggtggcctctcaaaatgataatattgcagttgtagttcaagagacctcagcgaggtcccgaatgcatgttcacatattttggagtggacttgacccagagtatgatcaggtgcatggagaaattgatgcggcttaa
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
Retrotran_gag_2

Protein Analysis

148

Amino Acids

17.07

Weight (kDa)

5.94

Isoelectric Point (pI)

44.82

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: OG0000146)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g19561 FvH4_1g25371 FvH4_1g25961 FvH4_2g00352 FvH4_2g00861 FvH4_2g04952 FvH4_2g05413 FvH4_2g07531 FvH4_2g08961 FvH4_2g25141 FvH4_2g27292 FvH4_3g18164 FvH4_3g19921 FvH4_3g43870 FvH4_4g14441 FvH4_4g15581 FvH4_4g15582 FvH4_4g16890 FvH4_4g19782 FvH4_4g33444 FvH4_4g33921 FvH4_5g22281 FvH4_5g22282 FvH4_5g32571 FvH4_5g37451 FvH4_5g39631 FvH4_6g04721 FvH4_6g11661 FvH4_6g20571 FvH4_6g32791 FvH4_7g23184
prunus_persica Prupe.1G090900_v2.0.a1 Prupe.1G241200_v2.0.a1 Prupe.1G534100_v2.0.a1 Prupe.3G076700_v2.0.a1 Prupe.4G150800_v2.0.a1 Prupe.4G181800_v2.0.a1 Prupe.4G240900_v2.0.a1 Prupe.4G247600_v2.0.a1 Prupe.6G115900_v2.0.a1 Prupe.6G327500_v2.0.a1 Prupe.8G071700_v2.0.a1
pyrus_communis pycom06g11480 pycom10g08330 pycom15g04320 pycom15g04350 pycom15g12620 pycom2874g00060
rosa_chinensis RchiOBHm_Chr1g0317241 RchiOBHm_Chr1g0341801 RchiOBHm_Chr1g0341931 RchiOBHm_Chr1g0359621 RchiOBHm_Chr2g0113741 RchiOBHm_Chr2g0117261 RchiOBHm_Chr2g0138831 RchiOBHm_Chr2g0141421 RchiOBHm_Chr2g0145281 RchiOBHm_Chr2g0152991 RchiOBHm_Chr3g0448001 RchiOBHm_Chr3g0450981 RchiOBHm_Chr3g0455161 RchiOBHm_Chr3g0457401 RchiOBHm_Chr3g0460001 RchiOBHm_Chr4g0387431 RchiOBHm_Chr4g0388741 RchiOBHm_Chr4g0444201 RchiOBHm_Chr4g0444261 RchiOBHm_Chr5g0010221 RchiOBHm_Chr6g0271721 RchiOBHm_Chr6g0274641 RchiOBHm_Chr6g0294691 RchiOBHm_Chr7g0237031 RchiOBHm_Chr7g0238461 RchiOBHm_Chr7g0239981
rosa_laevigata RLG00000009017
rosa_multiflora Rmu_co7986768.1_g000001 Rmu_co8302239.1_g000001 Rmu_co8485799.1_g000001 Rmu_sc0000061.1_g000013 Rmu_sc0000303.1_g000034 Rmu_sc0000303.1_g000035 Rmu_sc0000315.1_g000017 Rmu_sc0000349.1_g000003 Rmu_sc0000498.1_g000068 Rmu_sc0000508.1_g000014 Rmu_sc0000602.1_g000001 Rmu_sc0000633.1_g000002 Rmu_sc0000638.1_g000030 Rmu_sc0000756.1_g000016 Rmu_sc0000756.1_g000017 Rmu_sc0000785.1_g000037 Rmu_sc0000795.1_g000017 Rmu_sc0000796.1_g000030 Rmu_sc0000863.1_g000023 Rmu_sc0000920.1_g000021 Rmu_sc0000960.1_g000015 Rmu_sc0000982.1_g000102 Rmu_sc0001036.1_g000008 Rmu_sc0001036.1_g000009 Rmu_sc0001643.1_g000029 Rmu_sc0001687.1_g000026 Rmu_sc0001708.1_g000037 Rmu_sc0001768.1_g000015 Rmu_sc0001790.1_g000022 Rmu_sc0002180.1_g000007 Rmu_sc0002211.1_g000006 Rmu_sc0002270.1_g000010 Rmu_sc0002404.1_g000031 Rmu_sc0002858.1_g000016 Rmu_sc0003063.1_g000028 Rmu_sc0003730.1_g000017 Rmu_sc0004087.1_g000020 Rmu_sc0004618.1_g000048 Rmu_sc0004724.1_g000005 Rmu_sc0005167.1_g000036 Rmu_sc0005781.1_g000003 Rmu_sc0005878.1_g000012 Rmu_sc0006011.1_g000003 Rmu_sc0006343.1_g000011 Rmu_sc0006573.1_g000007 Rmu_sc0006599.1_g000007 Rmu_sc0006803.1_g000014 Rmu_sc0006836.1_g000002 Rmu_sc0006849.1_g000002 Rmu_sc0007109.1_g000009 Rmu_sc0009268.1_g000016 Rmu_sc0009618.1_g000017 Rmu_sc0009674.1_g000009 Rmu_sc0010244.1_g000009 Rmu_sc0011151.1_g000004 Rmu_sc0011356.1_g000001 Rmu_sc0011674.1_g000002 Rmu_sc0011778.1_g000016 Rmu_sc0012342.1_g000001 Rmu_sc0012467.1_g000002 Rmu_sc0012574.1_g000003 Rmu_sc0012913.1_g000005 Rmu_sc0013612.1_g000020 Rmu_sc0014824.1_g000001 Rmu_sc0017869.1_g000002 Rmu_sc0018085.1_g000003 Rmu_sc0024789.1_g000001 Rmu_sc0025106.1_g000013 Rmu_sc0034502.1_g000001 Rmu_sc0034547.1_g000001 Rmu_sc0035094.1_g000001 Rmu_sc0035095.1_g000001 Rmu_ssc0000100.1_g000027 Rmu_ssc0000244.1_g000005 Rmu_ssc0000371.1_g000029 Rmu_ssc0000381.1_g000004
rosa_roxburghii Rroxscaffold_1G00015480 Rroxscaffold_1G00023580 Rroxscaffold_1G00039340 Rroxscaffold_1G00047080 Rroxscaffold_2G00095820 Rroxscaffold_2G00125200 Rroxscaffold_2G00128330 Rroxscaffold_3G00270860
rosa_rugosa Rorug06G0120700
rosa_samantha Rh3BG173100 Rh6AG089600 Rh7AG488100 Rh7DG389600
rosa_wichuraiana Rw0G001150 Rw0G001990 Rw0G002010 Rw0G019540 Rw1G013730 Rw1G024110 Rw1G029190 Rw2G018850 Rw2G021090 Rw2G022260 Rw2G023180 Rw2G027280 Rw3G010190 Rw3G020660 Rw3G029380 Rw4G002390 Rw4G002690 Rw4G033260 Rw5G011960 Rw5G023110 Rw5G025250 Rw5G028950 Rw5G033740 Rw5G033950 Rw5G037900 Rw6G009640 Rw6G011620 Rw6G027720 Rw7G010680 Rw7G042070

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 125
Acc36I ACCTGC 1 cut(s) 184
AccB1I GGYRCC 1 cut(s) 4
AciI CCGC 2 cut(s) 118, 440
AcsI RAATTY 1 cut(s) 184
AfiI CCNNNNNNNGG 1 cut(s) 363
AgsI TTSAA 3 cut(s) 82, 263, 350
AjnI CCWGG 1 cut(s) 294
Alw26I GTCTC 1 cut(s) 347
AoxI GGCC 3 cut(s) 207, 254, 315
ApeKI GCWGC 1 cut(s) 236
ApoI RAATTY 1 cut(s) 184
AspLEI GCGC 1 cut(s) 126
AspS9I GGNCC 3 cut(s) 207, 255, 366
AsuHPI GGTGA 1 cut(s) 20
AvaII GGWCC 1 cut(s) 366
BanI GGYRCC 1 cut(s) 4
BanII GRGCYC 1 cut(s) 109
BbvCI CCTCAGC 1 cut(s) 358
BbvI GCAGC 1 cut(s) 248
BccI CCATC 3 cut(s) 16, 33, 246
BciT130I CCWGG 1 cut(s) 296
BclI TGATCA 2 cut(s) 304, 415
BcoDI GTCTC 1 cut(s) 347
BfmI CTRYAG 1 cut(s) 189
BfuAI ACCTGC 1 cut(s) 184
BisI GCNGC 2 cut(s) 237, 441
BlsI GCNGC 2 cut(s) 238, 442
Bme1390I CCNGG 1 cut(s) 296
Bme18I GGWCC 1 cut(s) 366
BmgT120I GGNCC 3 cut(s) 207, 255, 366
BmiI GGNNCC 3 cut(s) 6, 108, 368
BmrFI CCNGG 1 cut(s) 296
BmsI GCATC 2 cut(s) 111, 427
Bpu10I CCTNAGC 1 cut(s) 358
BsaI GGTCTC 1 cut(s) 347
BsaJI CCNNGG 1 cut(s) 210
Bsc4I CCNNNNNNNGG 1 cut(s) 363
BseBI CCWGG 1 cut(s) 296
BseDI CCNNGG 1 cut(s) 210
BseGI GGATG 4 cut(s) 8, 21, 126, 257
BseLI CCNNNNNNNGG 1 cut(s) 363
BseMII CTCAG 1 cut(s) 372
BseXI GCAGC 1 cut(s) 248
BshFI GGCC 3 cut(s) 209, 256, 317
BshNI GGYRCC 1 cut(s) 4
BslFI GGGAC 1 cut(s) 352
BslI CCNNNNNNNGG 1 cut(s) 363
BsmAI GTCTC 1 cut(s) 347
BsmFI GGGAC 1 cut(s) 352
BsmI GAATGC 2 cut(s) 59, 378
BsnI GGCC 3 cut(s) 209, 256, 317
Bso31I GGTCTC 1 cut(s) 347
Bsp1286I GDGCHC 1 cut(s) 109
Bsp143I GATC 2 cut(s) 304, 415
BspACI CCGC 2 cut(s) 118, 440
BspANI GGCC 3 cut(s) 209, 256, 317
BspCNI CTCAG 1 cut(s) 371
BspLI GGNNCC 3 cut(s) 6, 108, 368
BspMAI CTGCAG 1 cut(s) 193
BspMI ACCTGC 1 cut(s) 184
BspT107I GGYRCC 1 cut(s) 4
BspTNI GGTCTC 1 cut(s) 347
BssECI CCNNGG 1 cut(s) 210
BssMI GATC 2 cut(s) 304, 415
Bst2UI CCWGG 1 cut(s) 296
BstDEI CTNAG 1 cut(s) 358
BstDSI CCRYGG 1 cut(s) 210
BstENI CCTNNNNNAGG 1 cut(s) 361
BstF5I GGATG 4 cut(s) 8, 21, 126, 257
BstHHI GCGC 1 cut(s) 126
BstKTI GATC 2 cut(s) 307, 418
BstMAI GTCTC 1 cut(s) 347
BstMBI GATC 2 cut(s) 304, 415
BstMWI GCNNNNNNNGC 1 cut(s) 176
BstNI CCWGG 1 cut(s) 296
BstNSI RCATGY 1 cut(s) 380
BstSCI CCNGG 1 cut(s) 294
BstSFI CTRYAG 1 cut(s) 189
BstV1I GCAGC 1 cut(s) 248
BsuRI GGCC 3 cut(s) 209, 256, 317
BtgI CCRYGG 1 cut(s) 210
BtgZI GCGATG 1 cut(s) 302
BtsCI GGATG 4 cut(s) 8, 21, 126, 257
BveI ACCTGC 1 cut(s) 184
CfoI GCGC 1 cut(s) 126
Cfr13I GGNCC 3 cut(s) 207, 255, 366
CviAII CATG 4 cut(s) 115, 181, 377, 425
CviJI RGCY 6 cut(s) 107, 170, 209, 256, 317, 443
CviKI_1 RGCY 6 cut(s) 107, 170, 209, 256, 317, 443
DdeI CTNAG 1 cut(s) 358
DpnI GATC 2 cut(s) 306, 417
DpnII GATC 2 cut(s) 304, 415
Eco24I GRGCYC 1 cut(s) 109
Eco31I GGTCTC 1 cut(s) 347
Eco47I GGWCC 1 cut(s) 366
EcoNI CCTNNNNNAGG 1 cut(s) 361
EcoO109I RGGNCCY 1 cut(s) 366
EcoRI GAATTC 1 cut(s) 184
EcoRII CCWGG 1 cut(s) 294
EcoT22I ATGCAT 1 cut(s) 378
EcoT38I GRGCYC 1 cut(s) 109
FaeI CATG 4 cut(s) 118, 184, 380, 428
FaqI GGGAC 1 cut(s) 352
FatI CATG 4 cut(s) 114, 180, 376, 424
FauNDI CATATG 1 cut(s) 101
FbaI TGATCA 2 cut(s) 304, 415
Fnu4HI GCNGC 2 cut(s) 237, 441
FokI GGATG 3 cut(s) 8, 133, 264
FriOI GRGCYC 1 cut(s) 109
Fsp4HI GCNGC 2 cut(s) 237, 441
FspAI RTGCGCAY 1 cut(s) 125
FspI TGCGCA 1 cut(s) 125
GlaI GCGC 1 cut(s) 125
GluI GCNGC 2 cut(s) 237, 441
HaeIII GGCC 3 cut(s) 209, 256, 317
HhaI GCGC 1 cut(s) 126
Hin1II CATG 4 cut(s) 118, 184, 380, 428
Hin6I GCGC 1 cut(s) 124
HinP1I GCGC 1 cut(s) 124
HinfI GANTC 1 cut(s) 86
HphI GGTGA 1 cut(s) 20
Hpy166II GTNNAC 2 cut(s) 382, 398
Hpy188I TCNGA 1 cut(s) 156
Hpy188III TCNNGA 3 cut(s) 79, 350, 369
Hpy8I GTNNAC 2 cut(s) 382, 398
Hpy99I CGWCG 1 cut(s) 141
HpyAV CCTTC 2 cut(s) 136, 160
HpyCH4V TGCA 6 cut(s) 59, 191, 236, 338, 376, 424
HpyF10VI GCNNNNNNNGC 1 cut(s) 176
HpyF3I CTNAG 1 cut(s) 358
Hsp92II CATG 4 cut(s) 118, 184, 380, 428
HspAI GCGC 1 cut(s) 124
Ksp22I TGATCA 2 cut(s) 304, 415
Kzo9I GATC 2 cut(s) 304, 415
LmnI GCTCC 1 cut(s) 112
LpnPI CCDG 5 cut(s) 189, 281, 308, 404, 420
Lsp1109I GCAGC 1 cut(s) 248
LweI GCATC 2 cut(s) 111, 427
MalI GATC 2 cut(s) 306, 417
MboI GATC 2 cut(s) 304, 415
MhlI GDGCHC 1 cut(s) 109
MluCI AATT 2 cut(s) 184, 432
MmeI TCCRAC 1 cut(s) 114
MnlI CCTC 4 cut(s) 22, 328, 357, 367
Mph1103I ATGCAT 1 cut(s) 378
MseI TTAA 1 cut(s) 445
MslI CAYNNNNRTG 1 cut(s) 119
MspR9I CCNGG 1 cut(s) 296
Mva1269I GAATGC 2 cut(s) 59, 378
MvaI CCWGG 1 cut(s) 296
MwoI GCNNNNNNNGC 1 cut(s) 176
NdeI CATATG 1 cut(s) 101
NdeII GATC 2 cut(s) 304, 415
NlaIII CATG 4 cut(s) 118, 184, 380, 428
NlaIV GGNNCC 3 cut(s) 6, 108, 368
NsbI TGCGCA 1 cut(s) 125
NsiI ATGCAT 1 cut(s) 378
NspI RCATGY 1 cut(s) 380
PctI GAATGC 2 cut(s) 59, 378
PfeI GAWTC 1 cut(s) 86
PfoI TCCNGGA 1 cut(s) 294
PkrI GCNGC 2 cut(s) 238, 442
PpuMI RGGWCCY 1 cut(s) 366
Psp5II RGGWCCY 1 cut(s) 366
Psp6I CCWGG 1 cut(s) 294
PspGI CCWGG 1 cut(s) 294
PspN4I GGNNCC 3 cut(s) 6, 108, 368
PspPI GGNCC 3 cut(s) 207, 255, 366
PspPPI RGGWCCY 1 cut(s) 366
PstI CTGCAG 1 cut(s) 193
RseI CAYNNNNRTG 1 cut(s) 119
SaqAI TTAA 1 cut(s) 445
SatI GCNGC 2 cut(s) 237, 441
Sau3AI GATC 2 cut(s) 304, 415
Sau96I GGNCC 3 cut(s) 207, 255, 366
ScrFI CCNGG 1 cut(s) 296
SduI GDGCHC 1 cut(s) 109
SetI ASST 6 cut(s) 147, 178, 269, 359, 368, 423
SfaNI GCATC 2 cut(s) 111, 427
SfcI CTRYAG 1 cut(s) 189
SinI GGWCC 1 cut(s) 366
SmiMI CAYNNNNRTG 1 cut(s) 119
Sse9I AATT 2 cut(s) 184, 432
SsiI CCGC 2 cut(s) 118, 440
SspI AATATT 1 cut(s) 334
StyD4I CCNGG 1 cut(s) 294
TasI AATT 2 cut(s) 184, 432
TauI GCSGC 1 cut(s) 443
TfiI GAWTC 1 cut(s) 86
Tru1I TTAA 1 cut(s) 445
Tru9I TTAA 1 cut(s) 445
TseI GCWGC 1 cut(s) 236
TspDTI ATGAA 5 cut(s) 99, 103, 197, 213, 234
TspGWI ACGGA 2 cut(s) 154, 227
VpaK11BI GGWCC 1 cut(s) 366
XagI CCTNNNNNAGG 1 cut(s) 361
XapI RAATTY 1 cut(s) 184
XceI RCATGY 1 cut(s) 380
Zsp2I ATGCAT 1 cut(s) 378
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.