Rmu_sc0004988.1_g000031

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0004988.1
OG0000437
Physical Location & Seq
Forward (+)
128012 .. 128356
345 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0004988.1_g000031.1.cds

Sequence Viewer

Length: 345 bp
atgtcttctttgtctgaggaacaggtgaattatatggggcaacaaaggcctaaatatgactcttattcgaacacgtacaatctgggatggcaggatcacccaaacttccgttggggtggtaatgacaacgcggttcgacctattcaaggcgtctacagtgcaccacctgaattccaacaagcggttaggcagcaaatctatcaacaaactccccttcaacaatcctcaagcaagtccttggaagaactagtgaaggagatggctctgaacaccgcatcattccataaagacaccatatccttccaaaaggatacaacagccttcatacaggaggcaagatcttaa
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
Asp_protease_2 RVT_1 Retrotrans_gag rve

Protein Analysis

114

Amino Acids

13.13

Weight (kDa)

5.59

Isoelectric Point (pI)

69.34

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)
AccI GTMKAC 1 cut(s) 153
AccII CGCG 1 cut(s) 131
AciI CCGC 3 cut(s) 131, 182, 273
AclWI GGATC 1 cut(s) 102
AcsI RAATTY 1 cut(s) 170
AcyI GRCGYC 1 cut(s) 150
AfaI GTAC 1 cut(s) 77
AfiI CCNNNNNNNGG 2 cut(s) 146, 181
AflIII ACRYGT 1 cut(s) 72
AgsI TTSAA 2 cut(s) 146, 218
AhlI ACTAGT 1 cut(s) 247
Alw21I GWGCWC 1 cut(s) 163
Alw44I GTGCAC 1 cut(s) 159
AlwI GGATC 1 cut(s) 102
AoxI GGCC 1 cut(s) 47
ApaLI GTGCAC 1 cut(s) 159
ApeKI GCWGC 1 cut(s) 190
ApoI RAATTY 1 cut(s) 170
AsuHPI GGTGA 2 cut(s) 37, 89
AsuII TTCGAA 1 cut(s) 68
BaeGI GKGCMC 1 cut(s) 163
Bbv12I GWGCWC 1 cut(s) 163
BbvI GCAGC 1 cut(s) 202
BccI CCATC 2 cut(s) 81, 253
BciVI GTATCC 1 cut(s) 304
BcuI ACTAGT 1 cut(s) 247
BfaI CTAG 1 cut(s) 248
BfmI CTRYAG 1 cut(s) 154
BfuI GTATCC 1 cut(s) 304
BglII AGATCT 1 cut(s) 338
BisI GCNGC 1 cut(s) 191
BlsI GCNGC 1 cut(s) 192
BmsI GCATC 1 cut(s) 284
Bpu14I TTCGAA 1 cut(s) 68
BpuEI CTTGAG 1 cut(s) 211
BsaAI YACGTR 1 cut(s) 75
BsaHI GRCGYC 1 cut(s) 150
BsaJI CCNNGG 1 cut(s) 237
Bsc4I CCNNNNNNNGG 2 cut(s) 146, 181
BseDI CCNNGG 1 cut(s) 237
BseGI GGATG 1 cut(s) 92
BseLI CCNNNNNNNGG 2 cut(s) 146, 181
BseMII CTCAG 1 cut(s) 6
BseSI GKGCMC 1 cut(s) 163
BseXI GCAGC 1 cut(s) 202
Bsh1236I CGCG 1 cut(s) 131
BshFI GGCC 1 cut(s) 49
BsiHKAI GWGCWC 1 cut(s) 163
BslI CCNNNNNNNGG 2 cut(s) 146, 181
BsnI GGCC 1 cut(s) 49
Bsp119I TTCGAA 1 cut(s) 68
Bsp1286I GDGCHC 1 cut(s) 163
Bsp143I GATC 2 cut(s) 94, 338
BspACI CCGC 3 cut(s) 131, 182, 273
BspANI GGCC 1 cut(s) 49
BspCNI CTCAG 1 cut(s) 7
BspFNI CGCG 1 cut(s) 131
BspPI GGATC 1 cut(s) 102
BspT104I TTCGAA 1 cut(s) 68
BssECI CCNNGG 1 cut(s) 237
BssMI GATC 2 cut(s) 94, 338
BssNI GRCGYC 1 cut(s) 150
BssT1I CCWWGG 1 cut(s) 237
Bst4CI ACNGT 1 cut(s) 158
BstACI GRCGYC 1 cut(s) 150
BstBAI YACGTR 1 cut(s) 75
BstBI TTCGAA 1 cut(s) 68
BstDEI CTNAG 1 cut(s) 15
BstENI CCTNNNNNAGG 1 cut(s) 144
BstF5I GGATG 1 cut(s) 92
BstFNI CGCG 1 cut(s) 131
BstKTI GATC 2 cut(s) 97, 341
BstMBI GATC 2 cut(s) 94, 338
BstMWI GCNNNNNNNGC 1 cut(s) 46
BstSFI CTRYAG 1 cut(s) 154
BstSLI GKGCMC 1 cut(s) 163
BstUI CGCG 1 cut(s) 131
BstV1I GCAGC 1 cut(s) 202
BstX2I RGATCY 1 cut(s) 338
BstYI RGATCY 1 cut(s) 338
BsuI GTATCC 1 cut(s) 304
BsuRI GGCC 1 cut(s) 49
BtsCI GGATG 1 cut(s) 92
BtsIMutI CAGTG 1 cut(s) 163
CseI GACGC 1 cut(s) 139
Csp6I GTAC 1 cut(s) 76
CviJI RGCY 3 cut(s) 49, 263, 320
CviKI_1 RGCY 3 cut(s) 49, 263, 320
CviQI GTAC 1 cut(s) 76
DdeI CTNAG 1 cut(s) 15
DpnI GATC 2 cut(s) 96, 340
DpnII GATC 2 cut(s) 94, 338
Eco130I CCWWGG 1 cut(s) 237
Eco147I AGGCCT 1 cut(s) 49
EcoNI CCTNNNNNAGG 1 cut(s) 144
EcoRI GAATTC 1 cut(s) 170
EcoT14I CCWWGG 1 cut(s) 237
ErhI CCWWGG 1 cut(s) 237
FaiI YATR 6 cut(s) 33, 35, 57, 285, 296, 326
FblI GTMKAC 1 cut(s) 153
Fnu4HI GCNGC 1 cut(s) 191
FokI GGATG 1 cut(s) 99
Fsp4HI GCNGC 1 cut(s) 191
FspBI CTAG 1 cut(s) 248
GluI GCNGC 1 cut(s) 191
HaeIII GGCC 1 cut(s) 49
HgaI GACGC 1 cut(s) 139
Hin1I GRCGYC 1 cut(s) 150
HinfI GANTC 1 cut(s) 59
HphI GGTGA 2 cut(s) 37, 89
Hpy166II GTNNAC 2 cut(s) 154, 161
Hpy188I TCNGA 2 cut(s) 16, 267
Hpy8I GTNNAC 2 cut(s) 154, 161
HpyAV CCTTC 4 cut(s) 224, 247, 310, 331
HpyCH4III ACNGT 1 cut(s) 158
HpyCH4IV ACGT 1 cut(s) 74
HpyCH4V TGCA 1 cut(s) 161
HpyF10VI GCNNNNNNNGC 1 cut(s) 46
HpyF3I CTNAG 1 cut(s) 15
HpySE526I ACGT 1 cut(s) 74
Hsp92I GRCGYC 1 cut(s) 150
Kzo9I GATC 2 cut(s) 94, 338
LpnPI CCDG 5 cut(s) 8, 68, 77, 180, 314
Lsp1109I GCAGC 1 cut(s) 202
LweI GCATC 1 cut(s) 284
MaeI CTAG 1 cut(s) 248
MaeII ACGT 1 cut(s) 74
MalI GATC 2 cut(s) 96, 340
MboI GATC 2 cut(s) 94, 338
MboII GAAGA 1 cut(s) 254
MflI RGATCY 1 cut(s) 338
MhlI GDGCHC 1 cut(s) 163
MluCI AATT 2 cut(s) 28, 170
MlyI GAGTC 1 cut(s) 53
MmeI TCCRAC 1 cut(s) 199
MnlI CCTC 3 cut(s) 10, 235, 325
MseI TTAA 1 cut(s) 343
MvnI CGCG 1 cut(s) 131
MwoI GCNNNNNNNGC 1 cut(s) 46
NdeII GATC 2 cut(s) 94, 338
NspV TTCGAA 1 cut(s) 68
PceI AGGCCT 1 cut(s) 49
PkrI GCNGC 1 cut(s) 192
PleI GAGTC 1 cut(s) 53
PpsI GAGTC 1 cut(s) 53
Ppu21I YACGTR 1 cut(s) 75
PsuI RGATCY 1 cut(s) 338
RsaI GTAC 1 cut(s) 77
RsaNI GTAC 1 cut(s) 76
SaqAI TTAA 1 cut(s) 343
SatI GCNGC 1 cut(s) 191
Sau3AI GATC 2 cut(s) 94, 338
SchI GAGTC 1 cut(s) 53
SduI GDGCHC 1 cut(s) 163
SetI ASST 4 cut(s) 27, 77, 142, 169
SfaNI GCATC 1 cut(s) 284
SfcI CTRYAG 1 cut(s) 154
SfuI TTCGAA 1 cut(s) 68
SmlI CTYRAG 1 cut(s) 226
SmoI CTYRAG 1 cut(s) 226
SpeI ACTAGT 1 cut(s) 247
Sse9I AATT 2 cut(s) 28, 170
SseBI AGGCCT 1 cut(s) 49
SsiI CCGC 3 cut(s) 131, 182, 273
SspMI CTAG 1 cut(s) 248
StuI AGGCCT 1 cut(s) 49
StyI CCWWGG 1 cut(s) 237
TaaI ACNGT 1 cut(s) 158
TaiI ACGT 1 cut(s) 77
TaqI TCGA 2 cut(s) 68, 136
TasI AATT 2 cut(s) 28, 170
Tru1I TTAA 1 cut(s) 343
Tru9I TTAA 1 cut(s) 343
TscAI CASTG 1 cut(s) 163
TseI GCWGC 1 cut(s) 190
TspDTI ATGAA 1 cut(s) 313
TspGWI ACGGA 1 cut(s) 98
TspRI CASTG 1 cut(s) 163
VneI GTGCAC 1 cut(s) 159
XagI CCTNNNNNAGG 1 cut(s) 144
XapI RAATTY 1 cut(s) 170
XcmI CCANNNNNNNNNTGG 1 cut(s) 108
XmiI GTMKAC 1 cut(s) 153
XspI CTAG 1 cut(s) 248
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.