Rmu_sc0017869.1_g000002

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0017869.1
OG0000146
Physical Location & Seq
Reverse (-)
8232 .. 8847
616 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0017869.1_g000002.1.cds

Sequence Viewer

Length: 525 bp
atgtctatttatctccgcaggatgcacaagatggggcatgtgactagaacaatcaaggctcctgataaagatgttgtggaagcctatgctaagtgggaagatgatgatgggtttgtaatggcaatactattcagagccatgatcgacgatgtgctacagatggtggaagattctgcgggaatgcaacaaaatgggcaaccagtctctgtattttttaccaagctgaagaatgtatgggctgaaattgatcaaaagcgtccttgcaagatcaagcatcaggaagatattgcatggtaccagaaagagaaggagcttgaacgagttcatgcatttttgagaggacttgatacaaaacataacagtgccaaaggggaattgctcagaatgtcagaccctcctagcttgaccatagcttttgcatacattcgtaaggacgagtctcaacaagaaagtcttaaacaggcacaagttgaagtatctagcctcaccattcaagcaaaatcacctggaccttctctccaatag
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

174

Amino Acids

19.98

Weight (kDa)

6.97

Isoelectric Point (pI)

54.68

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)
Acc65I GGTACC 1 cut(s) 294
AccB1I GGYRCC 1 cut(s) 294
AciI CCGC 2 cut(s) 16, 176
AcuI CTGAAG 1 cut(s) 245
AfaI GTAC 1 cut(s) 296
AgsI TTSAA 3 cut(s) 317, 473, 494
AjnI CCWGG 1 cut(s) 505
AluBI AGCT 4 cut(s) 223, 313, 402, 413
AluI AGCT 4 cut(s) 223, 313, 402, 413
Alw26I GTCTC 2 cut(s) 208, 444
AlwNI CAGNNNCTG 1 cut(s) 206
Asp700I GAANNNNTTC 1 cut(s) 321
Asp718I GGTACC 1 cut(s) 294
AspS9I GGNCC 1 cut(s) 509
AsuHPI GGTGA 2 cut(s) 478, 495
AvaII GGWCC 1 cut(s) 509
BanI GGYRCC 1 cut(s) 294
BccI CCATC 3 cut(s) 25, 101, 154
BciT130I CCWGG 1 cut(s) 507
BclI TGATCA 1 cut(s) 247
BcoDI GTCTC 2 cut(s) 208, 444
BfaI CTAG 3 cut(s) 45, 399, 480
BfmI CTRYAG 1 cut(s) 155
Bme1390I CCNGG 1 cut(s) 507
Bme18I GGWCC 1 cut(s) 509
BmgT120I GGNCC 1 cut(s) 509
BmiI GGNNCC 2 cut(s) 60, 296
BmrFI CCNGG 1 cut(s) 507
BmsI GCATC 2 cut(s) 12, 283
BsaXI ACNNNNNCTCC 1 cut(s) 501
Bse1I ACTGG 1 cut(s) 200
BseBI CCWGG 1 cut(s) 507
BseGI GGATG 1 cut(s) 27
BseMII CTCAG 1 cut(s) 394
BseNI ACTGG 1 cut(s) 200
BshNI GGYRCC 1 cut(s) 294
BsmAI GTCTC 2 cut(s) 208, 444
BsmI GAATGC 1 cut(s) 186
Bsp143I GATC 3 cut(s) 141, 247, 267
BspACI CCGC 2 cut(s) 16, 176
BspCNI CTCAG 1 cut(s) 393
BspLI GGNNCC 2 cut(s) 60, 296
BspT107I GGYRCC 1 cut(s) 294
BsrI ACTGG 1 cut(s) 200
BssMI GATC 3 cut(s) 141, 247, 267
Bst2UI CCWGG 1 cut(s) 507
Bst4CI ACNGT 1 cut(s) 362
BstDEI CTNAG 2 cut(s) 90, 380
BstF5I GGATG 1 cut(s) 27
BstKTI GATC 3 cut(s) 144, 250, 270
BstMAI GTCTC 2 cut(s) 208, 444
BstMBI GATC 3 cut(s) 141, 247, 267
BstNI CCWGG 1 cut(s) 507
BstNSI RCATGY 1 cut(s) 41
BstSCI CCNGG 1 cut(s) 505
BstSFI CTRYAG 1 cut(s) 155
BtsCI GGATG 1 cut(s) 27
BtsIMutI CAGTG 1 cut(s) 367
CaiI CAGNNNCTG 1 cut(s) 206
Cfr13I GGNCC 1 cut(s) 509
CseI GACGC 1 cut(s) 245
Csp6I GTAC 1 cut(s) 295
CviAII CATG 4 cut(s) 38, 139, 291, 326
CviJI RGCY 9 cut(s) 59, 83, 137, 223, 239, 313, 402, 413, 483
CviKI_1 RGCY 9 cut(s) 59, 83, 137, 223, 239, 313, 402, 413, 483
CviQI GTAC 1 cut(s) 295
DdeI CTNAG 2 cut(s) 90, 380
DpnI GATC 3 cut(s) 143, 249, 269
DpnII GATC 3 cut(s) 141, 247, 267
Eco47I GGWCC 1 cut(s) 509
Eco57I CTGAAG 1 cut(s) 245
EcoRII CCWGG 1 cut(s) 505
EcoT22I ATGCAT 1 cut(s) 331
FaeI CATG 4 cut(s) 41, 142, 294, 329
FaiI YATR 9 cut(s) 39, 87, 140, 235, 292, 327, 357, 410, 421
FalI AAGNNNNNCTT 2 cut(s) 438, 470
FatI CATG 4 cut(s) 37, 138, 290, 325
FauI CCCGC 1 cut(s) 169
FbaI TGATCA 1 cut(s) 247
FokI GGATG 1 cut(s) 34
FspBI CTAG 3 cut(s) 45, 399, 480
HgaI GACGC 1 cut(s) 245
Hin1II CATG 4 cut(s) 41, 142, 294, 329
HinfI GANTC 2 cut(s) 170, 437
HphI GGTGA 2 cut(s) 478, 495
Hpy188I TCNGA 3 cut(s) 134, 383, 391
Hpy188III TCNNGA 2 cut(s) 62, 278
Hpy99I CGWCG 1 cut(s) 149
HpyAV CCTTC 2 cut(s) 301, 522
HpyCH4III ACNGT 1 cut(s) 362
HpyCH4V TGCA 6 cut(s) 25, 184, 264, 290, 329, 419
HpyF3I CTNAG 2 cut(s) 90, 380
Hsp92II CATG 4 cut(s) 41, 142, 294, 329
KpnI GGTACC 1 cut(s) 298
Ksp22I TGATCA 1 cut(s) 247
Kzo9I GATC 3 cut(s) 141, 247, 267
LmnI GCTCC 2 cut(s) 64, 310
LpnPI CCDG 8 cut(s) 4, 75, 213, 263, 311, 446, 492, 519
LweI GCATC 2 cut(s) 12, 283
MaeI CTAG 3 cut(s) 45, 399, 480
MaeIII GTNAC 1 cut(s) 40
MalI GATC 3 cut(s) 143, 249, 269
MboI GATC 3 cut(s) 141, 247, 267
MboII GAAGA 4 cut(s) 110, 179, 238, 293
MluCI AATT 2 cut(s) 243, 374
MlyI GAGTC 1 cut(s) 446
MnlI CCTC 3 cut(s) 332, 405, 494
Mph1103I ATGCAT 1 cut(s) 331
MroXI GAANNNNTTC 1 cut(s) 321
MseI TTAA 1 cut(s) 456
MslI CAYNNNNRTG 1 cut(s) 360
MspR9I CCNGG 1 cut(s) 507
Mva1269I GAATGC 1 cut(s) 186
MvaI CCWGG 1 cut(s) 507
NdeII GATC 3 cut(s) 141, 247, 267
NlaIII CATG 4 cut(s) 41, 142, 294, 329
NlaIV GGNNCC 2 cut(s) 60, 296
NmuCI GTSAC 1 cut(s) 40
NsiI ATGCAT 1 cut(s) 331
NspI RCATGY 1 cut(s) 41
PctI GAATGC 1 cut(s) 186
PdmI GAANNNNTTC 1 cut(s) 321
PfeI GAWTC 1 cut(s) 170
PleI GAGTC 1 cut(s) 445
PpsI GAGTC 1 cut(s) 445
Psp6I CCWGG 1 cut(s) 505
PspGI CCWGG 1 cut(s) 505
PspN4I GGNNCC 2 cut(s) 60, 296
PspPI GGNCC 1 cut(s) 509
PstNI CAGNNNCTG 1 cut(s) 206
RsaI GTAC 1 cut(s) 296
RsaNI GTAC 1 cut(s) 295
RseI CAYNNNNRTG 1 cut(s) 360
SaqAI TTAA 1 cut(s) 456
Sau3AI GATC 3 cut(s) 141, 247, 267
Sau96I GGNCC 1 cut(s) 509
SchI GAGTC 1 cut(s) 446
ScrFI CCNGG 1 cut(s) 507
SetI ASST 6 cut(s) 225, 315, 404, 415, 508, 514
SfaNI GCATC 2 cut(s) 12, 283
SfcI CTRYAG 1 cut(s) 155
SinI GGWCC 1 cut(s) 509
SmiMI CAYNNNNRTG 1 cut(s) 360
Sse9I AATT 2 cut(s) 243, 374
SsiI CCGC 2 cut(s) 16, 176
SspMI CTAG 3 cut(s) 45, 399, 480
StyD4I CCNGG 1 cut(s) 505
TaaI ACNGT 1 cut(s) 362
TaqI TCGA 1 cut(s) 144
TasI AATT 2 cut(s) 243, 374
TfiI GAWTC 1 cut(s) 170
Tru1I TTAA 1 cut(s) 456
Tru9I TTAA 1 cut(s) 456
TscAI CASTG 1 cut(s) 367
TseFI GTSAC 1 cut(s) 40
Tsp45I GTSAC 1 cut(s) 40
TspDTI ATGAA 1 cut(s) 314
TspRI CASTG 1 cut(s) 367
VpaK11BI GGWCC 1 cut(s) 509
XceI RCATGY 1 cut(s) 41
XmnI GAANNNNTTC 1 cut(s) 321
XspI CTAG 3 cut(s) 45, 399, 480
Zsp2I ATGCAT 1 cut(s) 331
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.