Rroxscaffold_1G00015480

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000146
Physical Location & Seq
Reverse (-)
19260727 .. 19261550
824 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00015480.1

Sequence Viewer

Length: 342 bp
ATGGAGGACGACGCTGCCACCCTTGCACTCCACAACATGCCTCCAATTATTAACCATTATCATACCACCGCTCAGGATAACTCAGCGTTTCCAACTGGCGTTGCTTTGAACGAATCCAACTACACTATATGGGCCCCTCTTATGAAGATGAGGATCGGAGCACGAGGAAAGGTTGGCTATCTCACTGGAACTAGAGCTGCACCAAATGTAGATTCTGCTGAATTTGAAGTTTGGACCACAGAAAACGAAAAAGTGAAGAGTTGGTTAATTGATTCCATGGAGCCATCACTCATGAATCGGTATATCTGTCACACCCCAAATCCGAGACCAATATTATATTGA
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

113

Amino Acids

12.72

Weight (kDa)

5.72

Isoelectric Point (pI)

35.5

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
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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)
AccBSI CCGCTC 1 cut(s) 71
AciI CCGC 1 cut(s) 69
AclWI GGATC 1 cut(s) 161
AcsI RAATTY 1 cut(s) 221
AgsI TTSAA 2 cut(s) 109, 227
AjuI GAANNNNNNNTTGG 2 cut(s) 196, 228
AluBI AGCT 1 cut(s) 197
AluI AGCT 1 cut(s) 197
Alw21I GWGCWC 1 cut(s) 163
Alw26I GTCTC 1 cut(s) 319
AlwI GGATC 1 cut(s) 161
AoxI GGCC 1 cut(s) 132
ApaI GGGCCC 1 cut(s) 136
ApeKI GCWGC 2 cut(s) 14, 197
ApoI RAATTY 1 cut(s) 221
AspS9I GGNCC 3 cut(s) 132, 133, 234
AvaII GGWCC 1 cut(s) 234
BaeGI GKGCMC 1 cut(s) 136
BanII GRGCYC 1 cut(s) 136
BauI CACGAG 1 cut(s) 162
Bbv12I GWGCWC 1 cut(s) 163
BbvI GCAGC 1 cut(s) 184
BccI CCATC 1 cut(s) 292
BcoDI GTCTC 1 cut(s) 319
BfaI CTAG 1 cut(s) 192
BisI GCNGC 2 cut(s) 15, 198
BlsI GCNGC 2 cut(s) 16, 199
Bme18I GGWCC 1 cut(s) 234
BmgT120I GGNCC 3 cut(s) 132, 133, 234
BmiI GGNNCC 3 cut(s) 134, 135, 282
Bpu10I CCTNAGC 1 cut(s) 72
BsaBI GATNNNNATC 1 cut(s) 152
BsaI GGTCTC 1 cut(s) 319
BsaJI CCNNGG 1 cut(s) 276
Bse1I ACTGG 2 cut(s) 100, 190
Bse8I GATNNNNATC 1 cut(s) 152
BseDI CCNNGG 1 cut(s) 276
BseJI GATNNNNATC 1 cut(s) 152
BseMII CTCAG 2 cut(s) 86, 96
BseNI ACTGG 2 cut(s) 100, 190
BseSI GKGCMC 1 cut(s) 136
BseXI GCAGC 1 cut(s) 184
BsgI GTGCAG 1 cut(s) 183
BshFI GGCC 1 cut(s) 134
BsiHKAI GWGCWC 1 cut(s) 163
BsmAI GTCTC 1 cut(s) 319
BsnI GGCC 1 cut(s) 134
Bso31I GGTCTC 1 cut(s) 319
Bsp120I GGGCCC 1 cut(s) 132
Bsp1286I GDGCHC 2 cut(s) 136, 163
Bsp143I GATC 1 cut(s) 153
Bsp19I CCATGG 1 cut(s) 276
BspACI CCGC 1 cut(s) 69
BspANI GGCC 1 cut(s) 134
BspCNI CTCAG 2 cut(s) 85, 95
BspHI TCATGA 1 cut(s) 291
BspLI GGNNCC 3 cut(s) 134, 135, 282
BspPI GGATC 1 cut(s) 161
BspTNI GGTCTC 1 cut(s) 319
BsrBI CCGCTC 1 cut(s) 71
BsrI ACTGG 2 cut(s) 100, 190
BssECI CCNNGG 1 cut(s) 276
BssMI GATC 1 cut(s) 153
BssSI CACGAG 1 cut(s) 162
BssT1I CCWWGG 1 cut(s) 276
Bst2BI CACGAG 1 cut(s) 162
Bst6I CTCTTC 1 cut(s) 251
BstDEI CTNAG 2 cut(s) 72, 82
BstDSI CCRYGG 1 cut(s) 276
BstKTI GATC 1 cut(s) 156
BstMAI GTCTC 1 cut(s) 319
BstMBI GATC 1 cut(s) 153
BstMWI GCNNNNNNNGC 1 cut(s) 23
BstNSI RCATGY 1 cut(s) 40
BstSLI GKGCMC 1 cut(s) 136
BstV1I GCAGC 1 cut(s) 184
BsuRI GGCC 1 cut(s) 134
BtgI CCRYGG 1 cut(s) 276
BtsIMutI CAGTG 1 cut(s) 183
CciI TCATGA 1 cut(s) 291
Cfr13I GGNCC 3 cut(s) 132, 133, 234
CseI GACGC 1 cut(s) 20
CviAII CATG 3 cut(s) 37, 277, 292
CviJI RGCY 4 cut(s) 134, 177, 197, 283
CviKI_1 RGCY 4 cut(s) 134, 177, 197, 283
DdeI CTNAG 2 cut(s) 72, 82
DpnI GATC 1 cut(s) 155
DpnII GATC 1 cut(s) 153
Eam1104I CTCTTC 1 cut(s) 251
EarI CTCTTC 1 cut(s) 251
Eco130I CCWWGG 1 cut(s) 276
Eco24I GRGCYC 1 cut(s) 136
Eco31I GGTCTC 1 cut(s) 319
Eco47I GGWCC 1 cut(s) 234
EcoO109I RGGNCCY 1 cut(s) 133
EcoT14I CCWWGG 1 cut(s) 276
EcoT38I GRGCYC 1 cut(s) 136
ErhI CCWWGG 1 cut(s) 276
FaeI CATG 3 cut(s) 40, 280, 295
FaiI YATR 9 cut(s) 38, 63, 128, 130, 143, 278, 293, 303, 337
FatI CATG 3 cut(s) 36, 276, 291
Fnu4HI GCNGC 2 cut(s) 15, 198
FriOI GRGCYC 1 cut(s) 136
Fsp4HI GCNGC 2 cut(s) 15, 198
FspBI CTAG 1 cut(s) 192
GluI GCNGC 2 cut(s) 15, 198
HaeIII GGCC 1 cut(s) 134
HgaI GACGC 1 cut(s) 20
Hin1II CATG 3 cut(s) 40, 280, 295
HinfI GANTC 4 cut(s) 113, 212, 272, 295
Hpy188I TCNGA 2 cut(s) 158, 324
Hpy188III TCNNGA 2 cut(s) 74, 292
Hpy99I CGWCG 1 cut(s) 14
HpyCH4V TGCA 2 cut(s) 26, 200
HpyF10VI GCNNNNNNNGC 1 cut(s) 23
HpyF3I CTNAG 2 cut(s) 72, 82
Hsp92II CATG 3 cut(s) 40, 280, 295
Kzo9I GATC 1 cut(s) 153
LmnI GCTCC 2 cut(s) 158, 280
LpnPI CCDG 3 cut(s) 59, 81, 171
Lsp1109I GCAGC 1 cut(s) 184
MaeI CTAG 1 cut(s) 192
MaeIII GTNAC 1 cut(s) 308
MalI GATC 1 cut(s) 155
MbiI CCGCTC 1 cut(s) 71
MboI GATC 1 cut(s) 153
MboII GAAGA 2 cut(s) 157, 268
MhlI GDGCHC 2 cut(s) 136, 163
MluCI AATT 3 cut(s) 45, 221, 267
MmeI TCCRAC 2 cut(s) 116, 141
MnlI CCTC 4 cut(s) 51, 144, 147, 158
MseI TTAA 2 cut(s) 51, 266
MwoI GCNNNNNNNGC 1 cut(s) 23
NcoI CCATGG 1 cut(s) 276
NdeII GATC 1 cut(s) 153
NlaIII CATG 3 cut(s) 40, 280, 295
NlaIV GGNNCC 3 cut(s) 134, 135, 282
NmuCI GTSAC 1 cut(s) 308
NspI RCATGY 1 cut(s) 40
PagI TCATGA 1 cut(s) 291
PfeI GAWTC 4 cut(s) 113, 212, 272, 295
PkrI GCNGC 2 cut(s) 16, 199
PspN4I GGNNCC 3 cut(s) 134, 135, 282
PspOMI GGGCCC 1 cut(s) 132
PspPI GGNCC 3 cut(s) 132, 133, 234
SaqAI TTAA 2 cut(s) 51, 266
SatI GCNGC 2 cut(s) 15, 198
Sau3AI GATC 1 cut(s) 153
Sau96I GGNCC 3 cut(s) 132, 133, 234
SduI GDGCHC 2 cut(s) 136, 163
SetI ASST 2 cut(s) 174, 199
SinI GGWCC 1 cut(s) 234
Sse9I AATT 3 cut(s) 45, 221, 267
SsiI CCGC 1 cut(s) 69
SspI AATATT 1 cut(s) 333
SspMI CTAG 1 cut(s) 192
StyI CCWWGG 1 cut(s) 276
TasI AATT 3 cut(s) 45, 221, 267
TfiI GAWTC 4 cut(s) 113, 212, 272, 295
Tru1I TTAA 2 cut(s) 51, 266
Tru9I TTAA 2 cut(s) 51, 266
TscAI CASTG 1 cut(s) 190
TseFI GTSAC 1 cut(s) 308
TseI GCWGC 2 cut(s) 14, 197
Tsp45I GTSAC 1 cut(s) 308
TspDTI ATGAA 2 cut(s) 158, 308
TspRI CASTG 1 cut(s) 190
VpaK11BI GGWCC 1 cut(s) 234
XapI RAATTY 1 cut(s) 221
XceI RCATGY 1 cut(s) 40
XspI CTAG 1 cut(s) 192
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.