Rroxscaffold_1G00006200

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000276
Physical Location & Seq
Forward (+)
8217894 .. 8218897
1004 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00006200.1

Sequence Viewer

Length: 360 bp
ATGATGCAAAAGATACTTGTGAAGTTGCACATTCATTGCGACAAATGCAGAACCAAGGCTTTAAAGATTGCAGCAACTGCACCAGGTGTGAACGAAGTGTCGATTGAAGGTGATCATATGGAGGTGATTGGGAATGGAGTTGACTCGGTTTGCTTGACTAGGGCTTTGAGGAAGAAGCTTGGCTTCGCCAATATAATCAAAGTCGAACAAGTGGGAGAATCCACAGCCACTACTGAGGAAGAAAACCCGACTCCGATTCAGTATTGTACTACTACATCAAGCTATAGTCATTTTCAACATCCTCCGATTGTTTGTCCATTGTACTATCATGAACCAACTGATAACTGCTCTATTATGTAA
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
HMA

Protein Analysis

119

Amino Acids

13.19

Weight (kDa)

6.28

Isoelectric Point (pI)

38.37

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: OG0000276)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G05030 AT4G05030
fragaria_vesca FvH4_3g24080 FvH4_3g24080 FvH4_3g24100 FvH4_3g24100 FvH4_3g42050 FvH4_3g42060 FvH4_3g42070 FvH4_3g42071 FvH4_3g42080 FvH4_3g42090 FvH4_3g42100 FvH4_3g42110
malus_domestica MD03G1038100.v1.1 MD03G1038400.v1.1 MD03G1038600.v1.1 MD03G1038900.v1.1 MD03G1039000.v1.1 MD03G1039100.v1.1 MD03G1188500.v1.1 MD10G1233100.v1.1 MD10G1233300.v1.1 MD10G1341200.v1.1 MD11G1039200.v1.1 MD11G1039300.v1.1 MD11G1204400.v1.1 MD11G1204600.v1.1
prunus_persica Prupe.2G123900_v2.0.a1 Prupe.4G001900_v2.0.a1 Prupe.4G234700_v2.0.a1 Prupe.4G234800_v2.0.a1 Prupe.6G025900_v2.0.a1 Prupe.6G030200_v2.0.a1 Prupe.6G030300_v2.0.a1 Prupe.6G030400_v2.0.a1 Prupe.6G030600_v2.0.a1 Prupe.6G030900_v2.0.a1 Prupe.6G031000_v2.0.a1 Prupe.6G031100_v2.0.a1 Prupe.6G031100_v2.0.a1
pyrus_communis pycom03g02940 pycom03g02950 pycom03g02980 pycom03g02990 pycom03g03010 pycom11g03310 pycom11g03320
rosa_chinensis RchiOBHm_Chr3g0484311 RchiOBHm_Chr5g0000231 RchiOBHm_Chr5g0042661 RchiOBHm_Chr5g0042671 RchiOBHm_Chr5g0075281 RchiOBHm_Chr5g0075291 RchiOBHm_Chr5g0075321 RchiOBHm_Chr5g0075331
rosa_laevigata RLG00000034149 RLG00000036545 RLG00000036546 RLG00000036547 RLG00000036548 RLG00000036549 RLG00000036550
rosa_multiflora Rmu_sc0000295.1_g000011 Rmu_sc0000770.1_g000041 Rmu_sc0000770.1_g000049 Rmu_sc0002564.1_g000002 Rmu_sc0002564.1_g000003 Rmu_sc0002564.1_g000016
rosa_roxburghii Rroxscaffold_1G00006200 Rroxscaffold_1G00006210 Rroxscaffold_1G00006220 Rroxscaffold_1G00006250 Rroxscaffold_1G00006270 Rroxscaffold_1G00037900 Rroxscaffold_1G00037980 Rroxscaffold_6G00397790
rosa_rugosa Rorug03G0210600 Rorug05G0203800 Rorug05G0203900 Rorug05G0438100 Rorug05G0438200 Rorug05G0438700 Rorug05G0438900 Rorug05G0438900
rosa_samantha Rh3AG259700 Rh3AG259800 Rh3BG296300 Rh3DG289900 Rh5AG001600 Rh5AG288900 Rh5AG289000 Rh5AG289200 Rh5AG494800 Rh5AG495000 Rh5AG495200 Rh5AG495300 Rh5BG293000 Rh5BG293100 Rh5BG293300 Rh5BG516400 Rh5BG516500 Rh5BG516900 Rh5BG517000 Rh5CG001900 Rh5CG325700 Rh5CG325900 Rh5CG326000 Rh5CG540200 Rh5CG540300 Rh5CG540500 Rh5CG540600 Rh5DG001900 Rh5DG302900 Rh5DG303000 Rh5DG303200 Rh5DG529100 Rh5DG529300 Rh5DG529400 Rh5DG532500
rosa_wichuraiana Rw3G023420 Rw3G023430 Rw5G000210 Rw5G026800 Rw5G045910 Rw5G045920 Rw5G045930 Rw5G045940 Rw5G045950

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AdeI CACNNNGTG 1 cut(s) 86
AfaI GTAC 2 cut(s) 268, 323
AgsI TTSAA 2 cut(s) 107, 296
AjnI CCWGG 1 cut(s) 82
AluBI AGCT 2 cut(s) 178, 282
AluI AGCT 2 cut(s) 178, 282
AlwNI CAGNNNCTG 1 cut(s) 77
ApeKI GCWGC 1 cut(s) 71
ArsI GACNNNNNNTTYG 2 cut(s) 148, 180
AsuHPI GGTGA 2 cut(s) 122, 136
BbvI GCAGC 1 cut(s) 83
BciT130I CCWGG 1 cut(s) 84
BclI TGATCA 1 cut(s) 112
BfaI CTAG 1 cut(s) 159
BfmI CTRYAG 1 cut(s) 283
BisI GCNGC 1 cut(s) 72
BlsI GCNGC 1 cut(s) 73
Bme1390I CCNGG 1 cut(s) 84
BmrFI CCNGG 1 cut(s) 84
BsaJI CCNNGG 1 cut(s) 54
Bse3DI GCAATG 1 cut(s) 34
BseBI CCWGG 1 cut(s) 84
BseDI CCNNGG 1 cut(s) 54
BseGI GGATG 1 cut(s) 298
BseMI GCAATG 1 cut(s) 34
BseMII CTCAG 1 cut(s) 225
BseXI GCAGC 1 cut(s) 83
BsgI GTGCAG 1 cut(s) 63
Bsp143I GATC 1 cut(s) 112
BspCNI CTCAG 1 cut(s) 226
BspHI TCATGA 1 cut(s) 328
BsrDI GCAATG 1 cut(s) 34
BssECI CCNNGG 1 cut(s) 54
BssMI GATC 1 cut(s) 112
BssT1I CCWWGG 1 cut(s) 54
Bst2UI CCWGG 1 cut(s) 84
BstAPI GCANNNNNTGC 1 cut(s) 77
BstDEI CTNAG 1 cut(s) 234
BstF5I GGATG 1 cut(s) 298
BstKTI GATC 1 cut(s) 115
BstMBI GATC 1 cut(s) 112
BstMWI GCNNNNNNNGC 2 cut(s) 45, 77
BstNI CCWGG 1 cut(s) 84
BstSCI CCNGG 1 cut(s) 82
BstSFI CTRYAG 1 cut(s) 283
BstV1I GCAGC 1 cut(s) 83
BtsCI GGATG 1 cut(s) 298
CaiI CAGNNNCTG 1 cut(s) 77
CciI TCATGA 1 cut(s) 328
CsiI ACCWGGT 1 cut(s) 82
Csp6I GTAC 2 cut(s) 267, 322
CviAII CATG 1 cut(s) 329
CviJI RGCY 6 cut(s) 59, 164, 178, 183, 227, 282
CviKI_1 RGCY 6 cut(s) 59, 164, 178, 183, 227, 282
CviQI GTAC 2 cut(s) 267, 322
DdeI CTNAG 1 cut(s) 234
DpnI GATC 1 cut(s) 114
DpnII GATC 1 cut(s) 112
DraI TTTAAA 1 cut(s) 63
DraIII CACNNNGTG 1 cut(s) 86
Eco130I CCWWGG 1 cut(s) 54
EcoRII CCWGG 1 cut(s) 82
EcoT14I CCWWGG 1 cut(s) 54
ErhI CCWWGG 1 cut(s) 54
FaeI CATG 1 cut(s) 332
FaiI YATR 6 cut(s) 117, 119, 194, 285, 330, 356
FalI AAGNNNNNCTT 2 cut(s) 167, 199
FatI CATG 1 cut(s) 328
FauNDI CATATG 1 cut(s) 117
FbaI TGATCA 1 cut(s) 112
Fnu4HI GCNGC 1 cut(s) 72
FokI GGATG 1 cut(s) 285
Fsp4HI GCNGC 1 cut(s) 72
FspBI CTAG 1 cut(s) 159
GluI GCNGC 1 cut(s) 72
Hin1II CATG 1 cut(s) 332
HincII GTYRAC 1 cut(s) 142
HindII GTYRAC 1 cut(s) 142
HindIII AAGCTT 1 cut(s) 176
HinfI GANTC 4 cut(s) 143, 218, 250, 256
HphI GGTGA 2 cut(s) 122, 136
Hpy166II GTNNAC 2 cut(s) 91, 142
Hpy188I TCNGA 2 cut(s) 255, 306
Hpy188III TCNNGA 1 cut(s) 329
Hpy8I GTNNAC 2 cut(s) 91, 142
HpyAV CCTTC 1 cut(s) 101
HpyCH4V TGCA 5 cut(s) 7, 28, 48, 71, 80
HpyF10VI GCNNNNNNNGC 2 cut(s) 45, 77
HpyF3I CTNAG 1 cut(s) 234
Hsp92II CATG 1 cut(s) 332
Ksp22I TGATCA 1 cut(s) 112
Kzo9I GATC 1 cut(s) 112
LpnPI CCDG 2 cut(s) 69, 96
Lsp1109I GCAGC 1 cut(s) 83
MabI ACCWGGT 1 cut(s) 82
MaeI CTAG 1 cut(s) 159
MalI GATC 1 cut(s) 114
MboI GATC 1 cut(s) 112
MboII GAAGA 2 cut(s) 184, 251
MlyI GAGTC 2 cut(s) 137, 244
MnlI CCTC 4 cut(s) 115, 162, 229, 312
MseI TTAA 1 cut(s) 62
MspR9I CCNGG 1 cut(s) 84
MvaI CCWGG 1 cut(s) 84
MwoI GCNNNNNNNGC 2 cut(s) 45, 77
NdeI CATATG 1 cut(s) 117
NdeII GATC 1 cut(s) 112
NlaIII CATG 1 cut(s) 332
PagI TCATGA 1 cut(s) 328
PfeI GAWTC 2 cut(s) 218, 256
PkrI GCNGC 1 cut(s) 73
PleI GAGTC 2 cut(s) 137, 244
PpsI GAGTC 2 cut(s) 137, 244
Psp6I CCWGG 1 cut(s) 82
PspGI CCWGG 1 cut(s) 82
PstNI CAGNNNCTG 1 cut(s) 77
RsaI GTAC 2 cut(s) 268, 323
RsaNI GTAC 2 cut(s) 267, 322
SaqAI TTAA 1 cut(s) 62
SatI GCNGC 1 cut(s) 72
Sau3AI GATC 1 cut(s) 112
SchI GAGTC 2 cut(s) 137, 244
ScrFI CCNGG 1 cut(s) 84
SetI ASST 5 cut(s) 88, 112, 126, 180, 284
SexAI ACCWGGT 1 cut(s) 82
SfcI CTRYAG 1 cut(s) 283
SspMI CTAG 1 cut(s) 159
StyD4I CCNGG 1 cut(s) 82
StyI CCWWGG 1 cut(s) 54
TaqI TCGA 2 cut(s) 101, 204
TatI WGTACW 2 cut(s) 266, 321
TfiI GAWTC 2 cut(s) 218, 256
Tru1I TTAA 1 cut(s) 62
Tru9I TTAA 1 cut(s) 62
TseI GCWGC 1 cut(s) 71
TspDTI ATGAA 2 cut(s) 23, 345
XspI CTAG 1 cut(s) 159
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.