RchiOBHm_Chr1g0382731

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0002557
Physical Location & Seq
Forward (+)
67421232 .. 67422372
1141 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ60567

Sequence Viewer

Length: 522 bp
ATGGCTGCTCGATACAGACCGCCGCATGTTCGTAACTTCCAGCCTTCTTCATCTACATCACCCAGGAAAGCACCTTTTTCAGTTCCCATGAATCACTCTGGTAACTCCACTTTTACCTTCATGACCACTTCAGGTAAACCTTACTCTCTGCTATCGAGTAACTCTGACTTTAATTGGAAGGATATGTGGATAATAGATTCAGGTGCAACGGACCATATGACTAATAACTCTAGCAATATTCACCATTTAACTTCAGTTCACCGGTCTGGCGTAACTAATGCCAATGGCGATTCCTATCCAATTACAGGTGCTGGGTCTGTCACTCTTACAGACTCCATTACCCTTGATACAGTGTTACTTGTTCCTTCCCTATCTCATAATCTCTTGTCTGTCAAACAGATAACAAAACAATTTTATTGTTGTGTAATTCTTTACCCGTGGTGTTGTATATTTCAGGACATCCTAACAGGGGAAATCATTGGGCGGGGTATTGAGAAGGGGGGTTATACTACATGGAGATGA
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
Retrotran_gag_2

Protein Analysis

173

Amino Acids

19.12

Weight (kDa)

8.74

Isoelectric Point (pI)

36.74

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pol_BBD PF22936 63 - 137 4.7e-18 Pol polyprotein, beta-barrel domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 3 cut(s) 20, 23, 484
AcuI CTGAAG 2 cut(s) 114, 237
AfiI CCNNNNNNNGG 2 cut(s) 305, 469
AgeI ACCGGT 1 cut(s) 261
AjnI CCWGG 1 cut(s) 62
AlwNI CAGNNNCTG 1 cut(s) 311
ApeKI GCWGC 1 cut(s) 5
AsiGI ACCGGT 1 cut(s) 261
AspS9I GGNCC 1 cut(s) 211
AsuHPI GGTGA 3 cut(s) 51, 233, 251
AvaII GGWCC 1 cut(s) 211
BciT130I CCWGG 1 cut(s) 64
BfaI CTAG 1 cut(s) 231
BisI GCNGC 2 cut(s) 6, 23
BlsI GCNGC 2 cut(s) 7, 24
Bme1390I CCNGG 1 cut(s) 64
Bme18I GGWCC 1 cut(s) 211
BmgT120I GGNCC 1 cut(s) 211
BmrFI CCNGG 1 cut(s) 64
BsaBI GATNNNNATC 1 cut(s) 294
BsaJI CCNNGG 2 cut(s) 62, 437
BsaWI WCCGGW 1 cut(s) 261
Bsc4I CCNNNNNNNGG 2 cut(s) 305, 469
Bse118I RCCGGY 1 cut(s) 261
Bse8I GATNNNNATC 1 cut(s) 294
BseBI CCWGG 1 cut(s) 64
BseDI CCNNGG 2 cut(s) 62, 437
BseGI GGATG 1 cut(s) 459
BseJI GATNNNNATC 1 cut(s) 294
BseLI CCNNNNNNNGG 2 cut(s) 305, 469
BseYI CCCAGC 1 cut(s) 311
BshTI ACCGGT 1 cut(s) 261
BsiSI CCGG 1 cut(s) 262
BslI CCNNNNNNNGG 2 cut(s) 305, 469
BspACI CCGC 3 cut(s) 20, 23, 484
BspHI TCATGA 1 cut(s) 120
BsrFI RCCGGY 1 cut(s) 261
BssAI RCCGGY 1 cut(s) 261
BssECI CCNNGG 2 cut(s) 62, 437
Bst2UI CCWGG 1 cut(s) 64
Bst4CI ACNGT 1 cut(s) 352
BstDSI CCRYGG 1 cut(s) 437
BstF5I GGATG 1 cut(s) 459
BstNI CCWGG 1 cut(s) 64
BstNSI RCATGY 1 cut(s) 29
BstSCI CCNGG 1 cut(s) 62
BtgI CCRYGG 1 cut(s) 437
BtsCI GGATG 1 cut(s) 459
BtsIMutI CAGTG 1 cut(s) 357
CaiI CAGNNNCTG 1 cut(s) 311
CciI TCATGA 1 cut(s) 120
Cfr10I RCCGGY 1 cut(s) 261
Cfr13I GGNCC 1 cut(s) 211
CspAI ACCGGT 1 cut(s) 261
CviAII CATG 4 cut(s) 26, 88, 121, 513
CviJI RGCY 2 cut(s) 5, 43
CviKI_1 RGCY 2 cut(s) 5, 43
Eco47I GGWCC 1 cut(s) 211
Eco57I CTGAAG 2 cut(s) 114, 237
EcoRII CCWGG 1 cut(s) 62
FaeI CATG 4 cut(s) 29, 91, 124, 516
FatI CATG 4 cut(s) 25, 87, 120, 512
FauI CCCGC 1 cut(s) 477
FauNDI CATATG 1 cut(s) 216
Fnu4HI GCNGC 2 cut(s) 6, 23
FokI GGATG 1 cut(s) 446
Fsp4HI GCNGC 2 cut(s) 6, 23
FspBI CTAG 1 cut(s) 231
GluI GCNGC 2 cut(s) 6, 23
GsaI CCCAGC 1 cut(s) 315
HapII CCGG 1 cut(s) 262
Hin1II CATG 4 cut(s) 29, 91, 124, 516
HinfI GANTC 4 cut(s) 91, 197, 290, 332
HpaII CCGG 1 cut(s) 262
HphI GGTGA 3 cut(s) 51, 233, 251
Hpy166II GTNNAC 2 cut(s) 137, 259
Hpy188I TCNGA 1 cut(s) 166
Hpy188III TCNNGA 2 cut(s) 121, 455
Hpy8I GTNNAC 2 cut(s) 137, 259
HpyAV CCTTC 5 cut(s) 54, 127, 172, 375, 490
HpyCH4III ACNGT 1 cut(s) 352
HpyCH4V TGCA 1 cut(s) 206
Hsp92II CATG 4 cut(s) 29, 91, 124, 516
MaeI CTAG 1 cut(s) 231
MaeIII GTNAC 6 cut(s) 32, 101, 158, 271, 319, 354
MboII GAAGA 1 cut(s) 39
MluCI AATT 4 cut(s) 172, 300, 410, 426
MlyI GAGTC 1 cut(s) 326
MseI TTAA 2 cut(s) 171, 248
MslI CAYNNNNRTG 1 cut(s) 517
MspI CCGG 1 cut(s) 262
MspR9I CCNGG 1 cut(s) 64
MvaI CCWGG 1 cut(s) 64
NdeI CATATG 1 cut(s) 216
NlaIII CATG 4 cut(s) 29, 91, 124, 516
NmuCI GTSAC 1 cut(s) 319
NspI RCATGY 1 cut(s) 29
PagI TCATGA 1 cut(s) 120
PfeI GAWTC 3 cut(s) 91, 197, 290
PinAI ACCGGT 1 cut(s) 261
PkrI GCNGC 2 cut(s) 7, 24
PleI GAGTC 1 cut(s) 326
PpsI GAGTC 1 cut(s) 326
Psp6I CCWGG 1 cut(s) 62
PspFI CCCAGC 1 cut(s) 311
PspGI CCWGG 1 cut(s) 62
PspPI GGNCC 1 cut(s) 211
PstNI CAGNNNCTG 1 cut(s) 311
RseI CAYNNNNRTG 1 cut(s) 517
SaqAI TTAA 2 cut(s) 171, 248
SatI GCNGC 2 cut(s) 6, 23
Sau96I GGNCC 1 cut(s) 211
SchI GAGTC 1 cut(s) 326
ScrFI CCNGG 1 cut(s) 64
SetI ASST 6 cut(s) 76, 119, 136, 142, 205, 310
SinI GGWCC 1 cut(s) 211
SmiMI CAYNNNNRTG 1 cut(s) 517
Sse9I AATT 4 cut(s) 172, 300, 410, 426
SsiI CCGC 3 cut(s) 20, 23, 484
SspI AATATT 1 cut(s) 238
SspMI CTAG 1 cut(s) 231
StyD4I CCNGG 1 cut(s) 62
TaaI ACNGT 1 cut(s) 352
TaqI TCGA 2 cut(s) 10, 155
TasI AATT 4 cut(s) 172, 300, 410, 426
TauI GCSGC 1 cut(s) 25
TfiI GAWTC 3 cut(s) 91, 197, 290
Tru1I TTAA 2 cut(s) 171, 248
Tru9I TTAA 2 cut(s) 171, 248
TscAI CASTG 1 cut(s) 357
TseFI GTSAC 1 cut(s) 319
TseI GCWGC 1 cut(s) 5
Tsp45I GTSAC 1 cut(s) 319
TspDTI ATGAA 3 cut(s) 39, 104, 109
TspGWI ACGGA 1 cut(s) 224
TspRI CASTG 1 cut(s) 357
VpaK11BI GGWCC 1 cut(s) 211
XceI RCATGY 1 cut(s) 29
XspI CTAG 1 cut(s) 231
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.