Rh5CG325900

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5C
OG0000276
Physical Location & Seq
Forward (+)
36046595 .. 36052289
5695 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5CG325900.1

Sequence Viewer

Length: 519 bp
ATGGATCCTTCTACCATACGGGGAAAAGGAAACAGGCATGATTTAGAAGAGACTGCAATATGTTGCTTGTGTTGGCTTAGGAGTAGAGCTATCAGTCATTCAGCTCCTGCATTAGTAGAGGAGATGCTTGAGGAGCTTTATTTTGTGCAAAAGATAACCATTGAGGCGAACATTTGGTGTGACAAATGTCGGTCCAAGGCCATGAAAATAGCTGCTGTAGAAGATGGTGTTAAATCAGTGGCTTTCAAGGAGGCAAGGAGTGACCAAATAGAGATAATCGGAGACGATGTTGATGCAGCGGGATTGACCGGATTGCTGAGGAAGAAGCTCGGCTATGCAAACTTATTGAGCCTGGAAGAAATAACCGAAAAGAAAGTTGATGAAGAGGAAAAGAAAACTAGCCAAGATGCGCAAAACACTAATAGTTATAGTCCAATTAGGGGAAGAAGATGTTGTCATCACCATGAGATGGAATTGCACATCTATGATCCACCATCAGGGGGTTGCACTATTATGTGA
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

172

Amino Acids

19.31

Weight (kDa)

5.55

Isoelectric Point (pI)

63.39

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: 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)
Acc16I TGCGCA 1 cut(s) 411
AccB7I CCANNNNNTGG 1 cut(s) 469
AciI CCGC 1 cut(s) 299
AclWI GGATC 2 cut(s) 12, 482
AfiI CCNNNNNNNGG 4 cut(s) 440, 469, 497, 500
AgsI TTSAA 1 cut(s) 247
AjnI CCWGG 1 cut(s) 351
AluBI AGCT 5 cut(s) 89, 104, 136, 212, 328
AluI AGCT 5 cut(s) 89, 104, 136, 212, 328
Alw26I GTCTC 2 cut(s) 44, 276
AlwI GGATC 2 cut(s) 12, 482
AlwNI CAGNNNCTG 1 cut(s) 107
AoxI GGCC 1 cut(s) 198
ApeKI GCWGC 2 cut(s) 212, 296
AspLEI GCGC 1 cut(s) 412
AspS9I GGNCC 1 cut(s) 192
AsuHPI GGTGA 1 cut(s) 452
AvaII GGWCC 1 cut(s) 192
BamHI GGATCC 1 cut(s) 4
BbvCI CCTCAGC 1 cut(s) 317
BbvI GCAGC 2 cut(s) 199, 308
BccI CCATC 3 cut(s) 218, 463, 502
BcgI CGANNNNNNTGC 2 cut(s) 275, 309
BciT130I CCWGG 1 cut(s) 353
BcoDI GTCTC 2 cut(s) 44, 276
BfaI CTAG 1 cut(s) 399
BfmI CTRYAG 1 cut(s) 216
BisI GCNGC 2 cut(s) 213, 297
BlsI GCNGC 2 cut(s) 214, 298
Bme1390I CCNGG 1 cut(s) 353
Bme18I GGWCC 1 cut(s) 192
BmgT120I GGNCC 1 cut(s) 192
BmiI GGNNCC 1 cut(s) 6
BmrFI CCNGG 1 cut(s) 353
BmsI GCATC 3 cut(s) 114, 283, 397
BoxI GACNNNNGTC 1 cut(s) 186
Bpu10I CCTNAGC 2 cut(s) 77, 317
BpuEI CTTGAG 1 cut(s) 149
BsaJI CCNNGG 1 cut(s) 195
BsaWI WCCGGW 1 cut(s) 308
BsaXI ACNNNNNCTCC 2 cut(s) 273, 303
Bsc4I CCNNNNNNNGG 4 cut(s) 440, 469, 497, 500
BseBI CCWGG 1 cut(s) 353
BseDI CCNNGG 1 cut(s) 195
BseLI CCNNNNNNNGG 4 cut(s) 440, 469, 497, 500
BseMII CTCAG 1 cut(s) 308
BseRI GAGGAG 2 cut(s) 134, 146
BseXI GCAGC 2 cut(s) 199, 308
BshFI GGCC 1 cut(s) 200
BsiSI CCGG 1 cut(s) 309
BslI CCNNNNNNNGG 4 cut(s) 440, 469, 497, 500
BsmAI GTCTC 2 cut(s) 44, 276
BsmBI CGTCTC 1 cut(s) 276
BsnI GGCC 1 cut(s) 200
Bsp143I GATC 2 cut(s) 4, 487
BspACI CCGC 1 cut(s) 299
BspANI GGCC 1 cut(s) 200
BspCNI CTCAG 1 cut(s) 309
BspLI GGNNCC 1 cut(s) 6
BspPI GGATC 2 cut(s) 12, 482
BssECI CCNNGG 1 cut(s) 195
BssMI GATC 2 cut(s) 4, 487
BssT1I CCWWGG 1 cut(s) 195
Bst2UI CCWGG 1 cut(s) 353
Bst6I CTCTTC 2 cut(s) 42, 378
BstDEI CTNAG 2 cut(s) 77, 317
BstHHI GCGC 1 cut(s) 412
BstKTI GATC 2 cut(s) 7, 490
BstMAI GTCTC 2 cut(s) 44, 276
BstMBI GATC 2 cut(s) 4, 487
BstMWI GCNNNNNNNGC 1 cut(s) 133
BstNI CCWGG 1 cut(s) 353
BstPAI GACNNNNGTC 1 cut(s) 186
BstSCI CCNGG 1 cut(s) 351
BstSFI CTRYAG 1 cut(s) 216
BstV1I GCAGC 2 cut(s) 199, 308
BstX2I RGATCY 1 cut(s) 4
BstYI RGATCY 1 cut(s) 4
BsuRI GGCC 1 cut(s) 200
BtsIMutI CAGTG 1 cut(s) 243
CaiI CAGNNNCTG 1 cut(s) 107
CfoI GCGC 1 cut(s) 412
Cfr13I GGNCC 1 cut(s) 192
CviAII CATG 3 cut(s) 38, 202, 464
DdeI CTNAG 2 cut(s) 77, 317
DpnI GATC 2 cut(s) 6, 489
DpnII GATC 2 cut(s) 4, 487
Eam1104I CTCTTC 2 cut(s) 42, 378
EarI CTCTTC 2 cut(s) 42, 378
Eco130I CCWWGG 1 cut(s) 195
Eco47I GGWCC 1 cut(s) 192
EcoRII CCWGG 1 cut(s) 351
EcoT14I CCWWGG 1 cut(s) 195
ErhI CCWWGG 1 cut(s) 195
Esp3I CGTCTC 1 cut(s) 276
FaeI CATG 3 cut(s) 41, 205, 467
FaiI YATR 9 cut(s) 17, 39, 61, 203, 336, 429, 465, 486, 515
FatI CATG 3 cut(s) 37, 201, 463
FauI CCCGC 1 cut(s) 292
Fnu4HI GCNGC 2 cut(s) 213, 297
Fsp4HI GCNGC 2 cut(s) 213, 297
FspBI CTAG 1 cut(s) 399
FspI TGCGCA 1 cut(s) 411
GlaI GCGC 1 cut(s) 411
GluI GCNGC 2 cut(s) 213, 297
HaeIII GGCC 1 cut(s) 200
HapII CCGG 1 cut(s) 309
HhaI GCGC 1 cut(s) 412
Hin1II CATG 3 cut(s) 41, 205, 467
Hin6I GCGC 1 cut(s) 410
HinP1I GCGC 1 cut(s) 410
HpaII CCGG 1 cut(s) 309
HphI GGTGA 1 cut(s) 452
Hpy188I TCNGA 1 cut(s) 281
HpyAV CCTTC 1 cut(s) 18
HpyCH4V TGCA 7 cut(s) 56, 110, 148, 296, 338, 478, 507
HpyF10VI GCNNNNNNNGC 1 cut(s) 133
HpyF3I CTNAG 2 cut(s) 77, 317
Hsp92II CATG 3 cut(s) 41, 205, 467
HspAI GCGC 1 cut(s) 410
Kzo9I GATC 2 cut(s) 4, 487
LmnI GCTCC 2 cut(s) 109, 133
LpnPI CCDG 6 cut(s) 19, 120, 322, 338, 365, 483
Lsp1109I GCAGC 2 cut(s) 199, 308
LweI GCATC 3 cut(s) 114, 283, 397
MaeI CTAG 1 cut(s) 399
MaeIII GTNAC 2 cut(s) 179, 260
MalI GATC 2 cut(s) 6, 489
MboI GATC 2 cut(s) 4, 487
MboII GAAGA 7 cut(s) 59, 233, 334, 368, 395, 456, 459
MflI RGATCY 1 cut(s) 4
MluCI AATT 2 cut(s) 435, 473
MnlI CCTC 6 cut(s) 112, 124, 157, 244, 312, 379
MseI TTAA 1 cut(s) 231
MslI CAYNNNNRTG 3 cut(s) 462, 483, 512
MspA1I CMGCKG 1 cut(s) 299
MspI CCGG 1 cut(s) 309
MspR9I CCNGG 1 cut(s) 353
MvaI CCWGG 1 cut(s) 353
MwoI GCNNNNNNNGC 1 cut(s) 133
NdeII GATC 2 cut(s) 4, 487
NlaIII CATG 3 cut(s) 41, 205, 467
NlaIV GGNNCC 1 cut(s) 6
NmeAIII GCCGAG 1 cut(s) 309
NmuCI GTSAC 2 cut(s) 179, 260
NsbI TGCGCA 1 cut(s) 411
PflMI CCANNNNNTGG 1 cut(s) 469
PkrI GCNGC 2 cut(s) 214, 298
PshAI GACNNNNGTC 1 cut(s) 186
Psp6I CCWGG 1 cut(s) 351
PspGI CCWGG 1 cut(s) 351
PspN4I GGNNCC 1 cut(s) 6
PspPI GGNCC 1 cut(s) 192
PstNI CAGNNNCTG 1 cut(s) 107
PsuI RGATCY 1 cut(s) 4
RseI CAYNNNNRTG 3 cut(s) 462, 483, 512
SaqAI TTAA 1 cut(s) 231
SatI GCNGC 2 cut(s) 213, 297
Sau3AI GATC 2 cut(s) 4, 487
Sau96I GGNCC 1 cut(s) 192
ScrFI CCNGG 1 cut(s) 353
SetI ASST 5 cut(s) 91, 106, 138, 214, 330
SfaNI GCATC 3 cut(s) 114, 283, 397
SfcI CTRYAG 1 cut(s) 216
SinI GGWCC 1 cut(s) 192
SmiMI CAYNNNNRTG 3 cut(s) 462, 483, 512
SmlI CTYRAG 1 cut(s) 128
SmoI CTYRAG 1 cut(s) 128
Sse9I AATT 2 cut(s) 435, 473
SsiI CCGC 1 cut(s) 299
SspMI CTAG 1 cut(s) 399
StyD4I CCNGG 1 cut(s) 351
StyI CCWWGG 1 cut(s) 195
TaqII GACCGA 1 cut(s) 180
TasI AATT 2 cut(s) 435, 473
Tru1I TTAA 1 cut(s) 231
Tru9I TTAA 1 cut(s) 231
TscAI CASTG 1 cut(s) 243
TseFI GTSAC 2 cut(s) 179, 260
TseI GCWGC 2 cut(s) 212, 296
Tsp45I GTSAC 2 cut(s) 179, 260
TspDTI ATGAA 2 cut(s) 218, 396
TspRI CASTG 1 cut(s) 243
Van91I CCANNNNNTGG 1 cut(s) 469
VpaK11BI GGWCC 1 cut(s) 192
XspI CTAG 1 cut(s) 399
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.