Rroxscaffold_2G00125200

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000146
Physical Location & Seq
Reverse (-)
59796541 .. 59797686
1146 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00125200.1

Sequence Viewer

Length: 219 bp
ATGGCAATGGGTGGTGATGACAGTGAAGGTCAGAATTCCAAGATCCATGAGGTCCAGAAGGTTGAGGTTTTTGTCCCACAAGGCTTCACCAACCGCCCTCGTCCTCAATGCACTTATTGCAATGACGTTGGACATGTTCGGGAGACTTGTTGGAAGCTGAATGGGTACCCTAAAAAGAAAGGTTATCATCCTAAGGTAAAGGTAGTTGCGGTTCGTTAA
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_3 Retrotrans_gag

Protein Analysis

72

Amino Acids

8.17

Weight (kDa)

9.33

Isoelectric Point (pI)

27.29

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) 165
AccB1I GGYRCC 1 cut(s) 165
AciI CCGC 2 cut(s) 94, 209
AclWI GGATC 1 cut(s) 37
AcsI RAATTY 1 cut(s) 34
AfaI GTAC 1 cut(s) 167
AflIII ACRYGT 1 cut(s) 133
AluBI AGCT 1 cut(s) 157
AluI AGCT 1 cut(s) 157
Alw26I GTCTC 1 cut(s) 137
AlwI GGATC 1 cut(s) 37
ApoI RAATTY 1 cut(s) 34
Asp718I GGTACC 1 cut(s) 165
AspS9I GGNCC 1 cut(s) 52
AsuHPI GGTGA 2 cut(s) 26, 79
AvaII GGWCC 1 cut(s) 52
AxyI CCTNAGG 1 cut(s) 192
BanI GGYRCC 1 cut(s) 165
BcoDI GTCTC 1 cut(s) 137
Bme18I GGWCC 1 cut(s) 52
BmgT120I GGNCC 1 cut(s) 52
BmiI GGNNCC 1 cut(s) 167
Bse21I CCTNAGG 1 cut(s) 192
Bse3DI GCAATG 2 cut(s) 12, 127
BseGI GGATG 1 cut(s) 187
BseMI GCAATG 2 cut(s) 12, 127
BshNI GGYRCC 1 cut(s) 165
BslFI GGGAC 1 cut(s) 59
BsmAI GTCTC 1 cut(s) 137
BsmFI GGGAC 1 cut(s) 59
Bsp143I GATC 1 cut(s) 42
BspACI CCGC 2 cut(s) 94, 209
BspLI GGNNCC 1 cut(s) 167
BspPI GGATC 1 cut(s) 37
BspT107I GGYRCC 1 cut(s) 165
BsrDI GCAATG 2 cut(s) 12, 127
BssMI GATC 1 cut(s) 42
Bst4CI ACNGT 1 cut(s) 23
BstAPI GCANNNNNTGC 1 cut(s) 117
BstDEI CTNAG 1 cut(s) 192
BstF5I GGATG 1 cut(s) 187
BstKTI GATC 1 cut(s) 45
BstMAI GTCTC 1 cut(s) 137
BstMBI GATC 1 cut(s) 42
BstMWI GCNNNNNNNGC 1 cut(s) 117
BstNSI RCATGY 1 cut(s) 137
BstX2I RGATCY 1 cut(s) 42
BstYI RGATCY 1 cut(s) 42
Bsu36I CCTNAGG 1 cut(s) 192
BtsCI GGATG 1 cut(s) 187
BtsIMutI CAGTG 1 cut(s) 28
Cfr13I GGNCC 1 cut(s) 52
Csp6I GTAC 1 cut(s) 166
CviAII CATG 2 cut(s) 47, 134
CviJI RGCY 2 cut(s) 84, 157
CviKI_1 RGCY 2 cut(s) 84, 157
CviQI GTAC 1 cut(s) 166
DdeI CTNAG 1 cut(s) 192
DpnI GATC 1 cut(s) 44
DpnII GATC 1 cut(s) 42
Eco47I GGWCC 1 cut(s) 52
Eco81I CCTNAGG 1 cut(s) 192
EcoRI GAATTC 1 cut(s) 34
FaeI CATG 2 cut(s) 50, 137
FaiI YATR 2 cut(s) 48, 135
FaqI GGGAC 1 cut(s) 59
FatI CATG 2 cut(s) 46, 133
FokI GGATG 1 cut(s) 174
Hin1II CATG 2 cut(s) 50, 137
HphI GGTGA 2 cut(s) 26, 79
Hpy188I TCNGA 1 cut(s) 33
Hpy188III TCNNGA 2 cut(s) 55, 140
HpyAV CCTTC 2 cut(s) 20, 52
HpyCH4III ACNGT 1 cut(s) 23
HpyCH4IV ACGT 1 cut(s) 126
HpyCH4V TGCA 2 cut(s) 111, 120
HpyF10VI GCNNNNNNNGC 1 cut(s) 117
HpyF3I CTNAG 1 cut(s) 192
HpySE526I ACGT 1 cut(s) 126
Hsp92II CATG 2 cut(s) 50, 137
KpnI GGTACC 1 cut(s) 169
Kzo9I GATC 1 cut(s) 42
LpnPI CCDG 1 cut(s) 68
MaeII ACGT 1 cut(s) 126
MalI GATC 1 cut(s) 44
MboI GATC 1 cut(s) 42
MflI RGATCY 1 cut(s) 42
MluCI AATT 1 cut(s) 34
MmeI TCCRAC 2 cut(s) 109, 131
MnlI CCTC 4 cut(s) 43, 58, 108, 114
MseI TTAA 1 cut(s) 217
MwoI GCNNNNNNNGC 1 cut(s) 117
NdeII GATC 1 cut(s) 42
NlaIII CATG 2 cut(s) 50, 137
NlaIV GGNNCC 1 cut(s) 167
NspI RCATGY 1 cut(s) 137
PciI ACATGT 1 cut(s) 133
PscI ACATGT 1 cut(s) 133
PspN4I GGNNCC 1 cut(s) 167
PspPI GGNCC 1 cut(s) 52
PsrI GAACNNNNNNTAC 1 cut(s) 195
PsuI RGATCY 1 cut(s) 42
RsaI GTAC 1 cut(s) 167
RsaNI GTAC 1 cut(s) 166
SaqAI TTAA 1 cut(s) 217
Sau3AI GATC 1 cut(s) 42
Sau96I GGNCC 1 cut(s) 52
SetI ASST 9 cut(s) 31, 54, 63, 69, 129, 159, 184, 198, 204
SgeI CNNG 8 cut(s) 52, 59, 67, 92, 111, 146, 152, 159
SinI GGWCC 1 cut(s) 52
Sse9I AATT 1 cut(s) 34
SsiI CCGC 2 cut(s) 94, 209
TaaI ACNGT 1 cut(s) 23
TaiI ACGT 1 cut(s) 129
TasI AATT 1 cut(s) 34
Tru1I TTAA 1 cut(s) 217
Tru9I TTAA 1 cut(s) 217
TscAI CASTG 1 cut(s) 28
TspRI CASTG 1 cut(s) 28
VpaK11BI GGWCC 1 cut(s) 52
XapI RAATTY 1 cut(s) 34
XceI RCATGY 1 cut(s) 137
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.