Rroxscaffold_4G00321100

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0000370
Physical Location & Seq
Reverse (-)
50270327 .. 50273251
2925 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00321100.1

Sequence Viewer

Length: 342 bp
ATGACAGTTTTTCAGTACGAGTCTAAGTTCATTGAATTATCATGGCATGCACCTAATGTTCTGACTTCGGATAAAGATATGGCAGGGAAGTTTTTACGCGGGTTGAGGCCTTCCATCGGTATCGGTTTACCTGGTTTTGTGCATAATACTTATCACCAGGCAGTGGCAGCAGCACTGATGGCAGAAGAAATTGAAAATTTCGAGTATCAGAGTGTGCAAGAGTCATTTGAGGGAGCTTCTGGTAGAGGGGGAAAAAGGAAAAGGAAGCCGTATACTTGCCACAACTGTGGTCAGCCTGGTCATATTCGGCCTCATTGCCCATATAATCCGCCATCTTCCTGA
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
Retrotrans_gag zf-CCHC

Protein Analysis

113

Amino Acids

12.61

Weight (kDa)

8.5

Isoelectric Point (pI)

64.07

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: OG0000370)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g29481 FvH4_2g11454 FvH4_3g19661 FvH4_3g28463 FvH4_3g31691 FvH4_3g34551 FvH4_3g35241 FvH4_4g06575 FvH4_4g09082 FvH4_4g15804 FvH4_4g15805 FvH4_4g16178 FvH4_4g16282 FvH4_5g25163 FvH4_6g27413 FvH4_7g02962 FvH4_7g04361
malus_domestica MD01G1095000.v1.1 MD02G1270200.v1.1 MD02G1270300.v1.1 MD02G1270400.v1.1 MD06G1059100.v1.1 MD08G1226500.v1.1
prunus_persica Prupe.1G169500_v2.0.a1 Prupe.5G195800_v2.0.a1
pyrus_communis pycom01g00010 pycom01g00770 pycom02g23140 pycom03g11760 pycom04g06090 pycom05g06900 pycom05g08070 pycom05g14500 pycom06g03050 pycom07g06250 pycom07g07540 pycom07g10580 pycom08g04990 pycom1146g00060 pycom11g01080 pycom11g15270 pycom11g15460 pycom11g24900 pycom12419g00150 pycom12424g00120 pycom13g08740 pycom13g24950 pycom13g25960 pycom13g26030 pycom13g27820 pycom16g23270 pycom16g25020 pycom16g25960 pycom17g07780 pycom17g08210 pycom17g13100
rosa_chinensis RchiOBHm_Chr1g0329421 RchiOBHm_Chr4g0397711 RchiOBHm_Chr4g0403481 RchiOBHm_Chr5g0019091 RchiOBHm_Chr5g0049101
rosa_laevigata RLG00000029892
rosa_multiflora Rmu_sc0001866.1_g000007
rosa_roxburghii Rroxscaffold_2G00094160 Rroxscaffold_3G00229110 Rroxscaffold_4G00321100 Rroxscaffold_7G00196040 Rroxscaffold_7G00196280
rosa_rugosa Rorug05G0160500 Rorug06G0096500
rosa_samantha Rh1AG098600 Rh1AG098800 Rh1BG078200 Rh1BG078700 Rh1BG178500 Rh1CG094600 Rh1CG094900 Rh1DG101700 Rh1DG109600 Rh2AG175800 Rh2AG175900 Rh2AG511400 Rh2BG114700 Rh2CG042200 Rh2CG116600 Rh2CG317500 Rh2DG327700 Rh2DG337800 Rh4CG142700 Rh4DG113100 Rh5BG335800 Rh5CG360600 Rh5DG352000 Rh6BG071400 Rh6BG417100 Rh6CG463300 Rh6CG463400 Rh7BG186600 Rh7CG196500 Rh7CG196600 Rh7CG448900 Rh7DG228300
rosa_wichuraiana Rw4G006560 Rw4G017340 Rw5G030450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 163
AccI GTMKAC 1 cut(s) 272
AccII CGCG 1 cut(s) 99
AciI CCGC 2 cut(s) 99, 329
AcsI RAATTY 1 cut(s) 196
AfaI GTAC 1 cut(s) 17
AfiI CCNNNNNNNGG 2 cut(s) 116, 163
AgsI TTSAA 2 cut(s) 35, 194
AjnI CCWGG 3 cut(s) 130, 156, 295
AleI CACNNNNGTG 1 cut(s) 285
AluBI AGCT 1 cut(s) 236
AluI AGCT 1 cut(s) 236
AoxI GGCC 2 cut(s) 107, 308
ApeKI GCWGC 2 cut(s) 167, 170
ApoI RAATTY 1 cut(s) 196
AsuHPI GGTGA 1 cut(s) 146
BbvI GCAGC 2 cut(s) 179, 182
BccI CCATC 3 cut(s) 122, 172, 340
BceAI ACGGC 1 cut(s) 253
BciT130I CCWGG 3 cut(s) 132, 158, 297
BisI GCNGC 2 cut(s) 168, 171
BlsI GCNGC 2 cut(s) 169, 172
Bme1390I CCNGG 3 cut(s) 132, 158, 297
BmrFI CCNGG 3 cut(s) 132, 158, 297
Bsc4I CCNNNNNNNGG 2 cut(s) 116, 163
Bse3DI GCAATG 1 cut(s) 313
BseBI CCWGG 3 cut(s) 132, 158, 297
BseLI CCNNNNNNNGG 2 cut(s) 116, 163
BseMI GCAATG 1 cut(s) 313
BseXI GCAGC 2 cut(s) 179, 182
Bsh1236I CGCG 1 cut(s) 99
BshFI GGCC 2 cut(s) 109, 310
BslI CCNNNNNNNGG 2 cut(s) 116, 163
BsnI GGCC 2 cut(s) 109, 310
BspACI CCGC 2 cut(s) 99, 329
BspANI GGCC 2 cut(s) 109, 310
BspFNI CGCG 1 cut(s) 99
BsrDI GCAATG 1 cut(s) 313
BssNAI GTATAC 1 cut(s) 273
Bst1107I GTATAC 1 cut(s) 273
Bst2UI CCWGG 3 cut(s) 132, 158, 297
Bst4CI ACNGT 2 cut(s) 7, 287
BstC8I GCNNGC 1 cut(s) 48
BstDEI CTNAG 1 cut(s) 24
BstFNI CGCG 1 cut(s) 99
BstMWI GCNNNNNNNGC 2 cut(s) 167, 179
BstNI CCWGG 3 cut(s) 132, 158, 297
BstNSI RCATGY 1 cut(s) 50
BstSCI CCNGG 3 cut(s) 130, 156, 295
BstUI CGCG 1 cut(s) 99
BstV1I GCAGC 2 cut(s) 179, 182
BstXI CCANNNNNNTGG 1 cut(s) 287
BstZ17I GTATAC 1 cut(s) 273
BsuRI GGCC 2 cut(s) 109, 310
BtsI GCAGTG 1 cut(s) 168
BtsIMutI CAGTG 2 cut(s) 168, 173
Cac8I GCNNGC 1 cut(s) 48
CsiI ACCWGGT 1 cut(s) 130
Csp6I GTAC 1 cut(s) 16
CviAII CATG 2 cut(s) 42, 47
CviJI RGCY 5 cut(s) 109, 236, 268, 295, 310
CviKI_1 RGCY 5 cut(s) 109, 236, 268, 295, 310
CviQI GTAC 1 cut(s) 16
DdeI CTNAG 1 cut(s) 24
EciI GGCGGA 1 cut(s) 318
Eco147I AGGCCT 1 cut(s) 109
EcoRII CCWGG 3 cut(s) 130, 156, 295
FaeI CATG 2 cut(s) 45, 50
FaiI YATR 8 cut(s) 43, 48, 80, 144, 273, 303, 322, 324
FatI CATG 2 cut(s) 41, 46
FauI CCCGC 1 cut(s) 92
FblI GTMKAC 1 cut(s) 272
Fnu4HI GCNGC 2 cut(s) 168, 171
Fsp4HI GCNGC 2 cut(s) 168, 171
GluI GCNGC 2 cut(s) 168, 171
HaeIII GGCC 2 cut(s) 109, 310
Hin1II CATG 2 cut(s) 45, 50
HinfI GANTC 2 cut(s) 20, 221
HphI GGTGA 1 cut(s) 146
Hpy166II GTNNAC 2 cut(s) 128, 273
Hpy188I TCNGA 3 cut(s) 63, 70, 210
Hpy188III TCNNGA 1 cut(s) 339
Hpy8I GTNNAC 2 cut(s) 128, 273
HpyAV CCTTC 1 cut(s) 120
HpyCH4III ACNGT 2 cut(s) 7, 287
HpyCH4V TGCA 3 cut(s) 50, 142, 217
HpyF10VI GCNNNNNNNGC 2 cut(s) 167, 179
HpyF3I CTNAG 1 cut(s) 24
Hsp92II CATG 2 cut(s) 45, 50
LmnI GCTCC 1 cut(s) 233
LpnPI CCDG 8 cut(s) 69, 117, 143, 144, 170, 225, 282, 309
Lsp1109I GCAGC 2 cut(s) 179, 182
MabI ACCWGGT 1 cut(s) 130
MboII GAAGA 2 cut(s) 197, 327
MluCI AATT 3 cut(s) 35, 189, 196
MlyI GAGTC 2 cut(s) 29, 230
MnlI CCTC 4 cut(s) 99, 223, 239, 321
MslI CAYNNNNRTG 1 cut(s) 285
MspR9I CCNGG 3 cut(s) 132, 158, 297
MvaI CCWGG 3 cut(s) 132, 158, 297
MvnI CGCG 1 cut(s) 99
MwoI GCNNNNNNNGC 2 cut(s) 167, 179
NlaIII CATG 2 cut(s) 45, 50
NspI RCATGY 1 cut(s) 50
OliI CACNNNNGTG 1 cut(s) 285
PaeI GCATGC 1 cut(s) 50
PceI AGGCCT 1 cut(s) 109
PflMI CCANNNNNTGG 1 cut(s) 163
PkrI GCNGC 2 cut(s) 169, 172
PleI GAGTC 2 cut(s) 28, 229
PpsI GAGTC 2 cut(s) 28, 229
Psp6I CCWGG 3 cut(s) 130, 156, 295
PspGI CCWGG 3 cut(s) 130, 156, 295
RsaI GTAC 1 cut(s) 17
RsaNI GTAC 1 cut(s) 16
RseI CAYNNNNRTG 1 cut(s) 285
SatI GCNGC 2 cut(s) 168, 171
SchI GAGTC 2 cut(s) 29, 230
ScrFI CCNGG 3 cut(s) 132, 158, 297
SetI ASST 3 cut(s) 55, 133, 238
SexAI ACCWGGT 1 cut(s) 130
SmiMI CAYNNNNRTG 1 cut(s) 285
SphI GCATGC 1 cut(s) 50
Sse9I AATT 3 cut(s) 35, 189, 196
SseBI AGGCCT 1 cut(s) 109
SsiI CCGC 2 cut(s) 99, 329
StuI AGGCCT 1 cut(s) 109
StyD4I CCNGG 3 cut(s) 130, 156, 295
TaaI ACNGT 2 cut(s) 7, 287
TaqI TCGA 1 cut(s) 201
TasI AATT 3 cut(s) 35, 189, 196
TscAI CASTG 2 cut(s) 168, 180
TseI GCWGC 2 cut(s) 167, 170
TspDTI ATGAA 1 cut(s) 19
TspRI CASTG 2 cut(s) 168, 180
Van91I CCANNNNNTGG 1 cut(s) 163
XapI RAATTY 1 cut(s) 196
XceI RCATGY 1 cut(s) 50
XmiI GTMKAC 1 cut(s) 272
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.