Rh5DG529400

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0000276
Physical Location & Seq
Reverse (-)
81692886 .. 81694337
1452 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG529400.1

Sequence Viewer

Length: 381 bp
ATGGTACAGAAAAAGATAGTTATGAAGGTGCAAATGAGCTGTGAGAAGTGCAGAACCATGGCATTGAAGATTGCTGCAGTTGCCAAAGGCGTGAAACAAGTGTCGATAGAAGCGGAGAAAGATCAGGTGGAGGTGATCGGAGAGAGGATTGACTCCGTGACCTTGACTATGTCGATGAGGAAGAAGGTTGGGCATGCAGACATCGTAAGTATTGAAGAAGTGAAAGTGGAAGAAGCAGTGGAGGAGGAGAAAAAGCCTTCTGATGATCCAATTCCAAATGCCTGGACACCAAGCTACTATTATGTTCCCTGCCTGCAATATCCCAATCCCATGCACTATCTAGTGGTTCATGAACAACCAACCAATTGCTCCGTTATGTAA
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

126

Amino Acids

14.25

Weight (kDa)

5.93

Isoelectric Point (pI)

47.52

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)
AciI CCGC 1 cut(s) 113
AclWI GGATC 1 cut(s) 260
AfaI GTAC 1 cut(s) 6
AgsI TTSAA 2 cut(s) 67, 215
AjnI CCWGG 1 cut(s) 281
AluBI AGCT 2 cut(s) 39, 294
AluI AGCT 2 cut(s) 39, 294
AlwI GGATC 1 cut(s) 260
ApeKI GCWGC 1 cut(s) 74
AsuHPI GGTGA 1 cut(s) 145
BbvI GCAGC 1 cut(s) 61
BciT130I CCWGG 1 cut(s) 283
BfaI CTAG 1 cut(s) 341
BfmI CTRYAG 1 cut(s) 75
BisI GCNGC 1 cut(s) 75
BlsI GCNGC 1 cut(s) 76
Bme1390I CCNGG 1 cut(s) 283
BmrFI CCNGG 1 cut(s) 283
BsaJI CCNNGG 1 cut(s) 57
BseBI CCWGG 1 cut(s) 283
BseDI CCNNGG 1 cut(s) 57
BseRI GAGGAG 2 cut(s) 257, 260
BseXI GCAGC 1 cut(s) 61
BsgI GTGCAG 1 cut(s) 70
Bsp143I GATC 3 cut(s) 121, 135, 265
Bsp19I CCATGG 1 cut(s) 57
BspACI CCGC 1 cut(s) 113
BspHI TCATGA 1 cut(s) 349
BspMAI CTGCAG 1 cut(s) 79
BspPI GGATC 1 cut(s) 260
BssECI CCNNGG 1 cut(s) 57
BssMI GATC 3 cut(s) 121, 135, 265
BssT1I CCWWGG 1 cut(s) 57
Bst2UI CCWGG 1 cut(s) 283
BstC8I GCNNGC 2 cut(s) 195, 314
BstDSI CCRYGG 1 cut(s) 57
BstKTI GATC 3 cut(s) 124, 138, 268
BstMBI GATC 3 cut(s) 121, 135, 265
BstMWI GCNNNNNNNGC 1 cut(s) 80
BstNI CCWGG 1 cut(s) 283
BstNSI RCATGY 1 cut(s) 197
BstSCI CCNGG 1 cut(s) 281
BstSFI CTRYAG 1 cut(s) 75
BstV1I GCAGC 1 cut(s) 61
BstXI CCANNNNNNTGG 1 cut(s) 282
BtgI CCRYGG 1 cut(s) 57
BtsI GCAGTG 1 cut(s) 243
BtsIMutI CAGTG 1 cut(s) 243
Cac8I GCNNGC 2 cut(s) 195, 314
CciI TCATGA 1 cut(s) 349
Csp6I GTAC 1 cut(s) 5
CviAII CATG 4 cut(s) 58, 194, 331, 350
CviJI RGCY 3 cut(s) 39, 256, 294
CviKI_1 RGCY 3 cut(s) 39, 256, 294
CviQI GTAC 1 cut(s) 5
DpnI GATC 3 cut(s) 123, 137, 267
DpnII GATC 3 cut(s) 121, 135, 265
Eco130I CCWWGG 1 cut(s) 57
EcoRII CCWGG 1 cut(s) 281
EcoT14I CCWWGG 1 cut(s) 57
ErhI CCWWGG 1 cut(s) 57
FaeI CATG 4 cut(s) 61, 197, 334, 353
FaiI YATR 8 cut(s) 23, 59, 170, 195, 303, 332, 351, 377
FatI CATG 4 cut(s) 57, 193, 330, 349
Fnu4HI GCNGC 1 cut(s) 75
Fsp4HI GCNGC 1 cut(s) 75
FspBI CTAG 1 cut(s) 341
GluI GCNGC 1 cut(s) 75
Hin1II CATG 4 cut(s) 61, 197, 334, 353
HinfI GANTC 1 cut(s) 152
HphI GGTGA 1 cut(s) 145
Hpy188I TCNGA 2 cut(s) 140, 262
Hpy188III TCNNGA 1 cut(s) 350
HpyAV CCTTC 3 cut(s) 19, 178, 267
HpyCH4V TGCA 6 cut(s) 31, 51, 77, 197, 316, 334
HpyF10VI GCNNNNNNNGC 1 cut(s) 80
Hsp92II CATG 4 cut(s) 61, 197, 334, 353
Kzo9I GATC 3 cut(s) 121, 135, 265
LmnI GCTCC 1 cut(s) 374
LpnPI CCDG 5 cut(s) 110, 268, 295, 322, 326
Lsp1109I GCAGC 1 cut(s) 61
MaeI CTAG 1 cut(s) 341
MaeIII GTNAC 1 cut(s) 157
MalI GATC 3 cut(s) 123, 137, 267
MboI GATC 3 cut(s) 121, 135, 265
MboII GAAGA 4 cut(s) 79, 193, 227, 242
MfeI CAATTG 1 cut(s) 364
MluCI AATT 2 cut(s) 270, 364
MlyI GAGTC 1 cut(s) 146
MnlI CCTC 5 cut(s) 124, 138, 171, 235, 238
MspR9I CCNGG 1 cut(s) 283
MunI CAATTG 1 cut(s) 364
MvaI CCWGG 1 cut(s) 283
MwoI GCNNNNNNNGC 1 cut(s) 80
NcoI CCATGG 1 cut(s) 57
NdeII GATC 3 cut(s) 121, 135, 265
NlaIII CATG 4 cut(s) 61, 197, 334, 353
NmuCI GTSAC 1 cut(s) 157
NspI RCATGY 1 cut(s) 197
PaeI GCATGC 1 cut(s) 197
PagI TCATGA 1 cut(s) 349
PflFI GACNNNGTC 1 cut(s) 169
PkrI GCNGC 1 cut(s) 76
PleI GAGTC 1 cut(s) 146
PpsI GAGTC 1 cut(s) 146
Psp6I CCWGG 1 cut(s) 281
PspGI CCWGG 1 cut(s) 281
PstI CTGCAG 1 cut(s) 79
PsyI GACNNNGTC 1 cut(s) 169
RsaI GTAC 1 cut(s) 6
RsaNI GTAC 1 cut(s) 5
SatI GCNGC 1 cut(s) 75
Sau3AI GATC 3 cut(s) 121, 135, 265
SchI GAGTC 1 cut(s) 146
ScrFI CCNGG 1 cut(s) 283
SetI ASST 7 cut(s) 30, 41, 129, 135, 164, 189, 296
SfcI CTRYAG 1 cut(s) 75
SphI GCATGC 1 cut(s) 197
Sse9I AATT 2 cut(s) 270, 364
SsiI CCGC 1 cut(s) 113
SspMI CTAG 1 cut(s) 341
StyD4I CCNGG 1 cut(s) 281
StyI CCWWGG 1 cut(s) 57
TaqI TCGA 2 cut(s) 104, 173
TasI AATT 2 cut(s) 270, 364
TscAI CASTG 1 cut(s) 243
TseFI GTSAC 1 cut(s) 157
TseI GCWGC 1 cut(s) 74
Tsp45I GTSAC 1 cut(s) 157
TspDTI ATGAA 3 cut(s) 38, 338, 366
TspGWI ACGGA 2 cut(s) 145, 361
TspRI CASTG 1 cut(s) 243
Tth111I GACNNNGTC 1 cut(s) 169
XceI RCATGY 1 cut(s) 197
XspI CTAG 1 cut(s) 341
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.