RchiOBHm_Chr3g0480511

GAG-pre-integrase domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0002557
Physical Location & Seq
Reverse (-)
26305042 .. 26305567
526 bp
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UTR
Exon/CDS
Intron
PRQ44552

Sequence Viewer

Length: 306 bp
ATGCAGAATGCTTCTCTTCCTAATCAATTCTGGTACCATGCTTGTGCTACAGCTGCATATCTCATTAATAGAATGCCTACTCCTGTTCTAAACATGGGTTCTCCATTTGAGAAATTATATCACATCATACCTCAGATTGATATGCTCCGAGTGTTTGGTTGTTCTTGCTTCCCTCTTATGTCAGCATACAGGACCAATAAGCTTCAACCAAAAACTATGAAATGTGTGTTTGTTGGATTTGCAGCAGGCTACAAGGGTTTCATTTGCTATAGTCCAACCACCAGGAAAAGCAGTCTCCAGTTATGA
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
RVT_2 gag_pre-integrs rve

Protein Analysis

101

Amino Acids

11.47

Weight (kDa)

9.54

Isoelectric Point (pI)

55.09

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SH3_retrovirus PF25597 54 - 96 3.5e-12 Retroviral polymerase SH3-like domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 33
AccB1I GGYRCC 1 cut(s) 33
AfaI GTAC 1 cut(s) 35
AgsI TTSAA 1 cut(s) 206
AjnI CCWGG 1 cut(s) 281
AluBI AGCT 2 cut(s) 53, 202
AluI AGCT 2 cut(s) 53, 202
Alw26I GTCTC 1 cut(s) 299
ApeKI GCWGC 2 cut(s) 53, 242
AseI ATTAAT 1 cut(s) 66
Asp718I GGTACC 1 cut(s) 33
AspS9I GGNCC 1 cut(s) 192
AvaII GGWCC 1 cut(s) 192
BanI GGYRCC 1 cut(s) 33
BbvI GCAGC 2 cut(s) 40, 254
BciT130I CCWGG 1 cut(s) 283
BcoDI GTCTC 1 cut(s) 299
BfmI CTRYAG 2 cut(s) 48, 268
BisI GCNGC 2 cut(s) 54, 243
BlsI GCNGC 2 cut(s) 55, 244
Bme1390I CCNGG 1 cut(s) 283
Bme18I GGWCC 1 cut(s) 192
BmgT120I GGNCC 1 cut(s) 192
BmiI GGNNCC 1 cut(s) 35
BmrFI CCNGG 1 cut(s) 283
BpmI CTGGAG 1 cut(s) 281
Bse1I ACTGG 1 cut(s) 298
BseBI CCWGG 1 cut(s) 283
BseMII CTCAG 1 cut(s) 146
BseNI ACTGG 1 cut(s) 298
BseXI GCAGC 2 cut(s) 40, 254
BshNI GGYRCC 1 cut(s) 33
BsmAI GTCTC 1 cut(s) 299
BsmI GAATGC 2 cut(s) 13, 78
BspCNI CTCAG 1 cut(s) 145
BspLI GGNNCC 1 cut(s) 35
BspT107I GGYRCC 1 cut(s) 33
BsrI ACTGG 1 cut(s) 298
Bst2UI CCWGG 1 cut(s) 283
Bst6I CTCTTC 1 cut(s) 21
BstC8I GCNNGC 1 cut(s) 247
BstDEI CTNAG 1 cut(s) 132
BstMAI GTCTC 1 cut(s) 299
BstMWI GCNNNNNNNGC 1 cut(s) 53
BstNI CCWGG 1 cut(s) 283
BstSCI CCNGG 1 cut(s) 281
BstSFI CTRYAG 2 cut(s) 48, 268
BstV1I GCAGC 2 cut(s) 40, 254
Cac8I GCNNGC 1 cut(s) 247
Cfr13I GGNCC 1 cut(s) 192
Csp6I GTAC 1 cut(s) 34
CviAII CATG 2 cut(s) 38, 94
CviJI RGCY 3 cut(s) 53, 202, 249
CviKI_1 RGCY 3 cut(s) 53, 202, 249
CviQI GTAC 1 cut(s) 34
DdeI CTNAG 1 cut(s) 132
Eam1104I CTCTTC 1 cut(s) 21
EarI CTCTTC 1 cut(s) 21
Eco47I GGWCC 1 cut(s) 192
EcoRII CCWGG 1 cut(s) 281
FaeI CATG 2 cut(s) 41, 97
FatI CATG 2 cut(s) 37, 93
Fnu4HI GCNGC 2 cut(s) 54, 243
Fsp4HI GCNGC 2 cut(s) 54, 243
GluI GCNGC 2 cut(s) 54, 243
GsuI CTGGAG 1 cut(s) 281
Hin1II CATG 2 cut(s) 41, 97
HindIII AAGCTT 1 cut(s) 200
Hpy188I TCNGA 2 cut(s) 135, 149
HpyCH4V TGCA 3 cut(s) 4, 56, 242
HpyF10VI GCNNNNNNNGC 1 cut(s) 53
HpyF3I CTNAG 1 cut(s) 132
Hsp92II CATG 2 cut(s) 41, 97
KpnI GGTACC 1 cut(s) 37
LmnI GCTCC 1 cut(s) 150
LpnPI CCDG 6 cut(s) 16, 96, 175, 231, 268, 295
Lsp1109I GCAGC 2 cut(s) 40, 254
MboII GAAGA 1 cut(s) 8
MluCI AATT 2 cut(s) 26, 113
MmeI TCCRAC 2 cut(s) 214, 299
MnlI CCTC 2 cut(s) 141, 183
MseI TTAA 1 cut(s) 66
MslI CAYNNNNRTG 1 cut(s) 42
MspA1I CMGCKG 1 cut(s) 53
MspR9I CCNGG 1 cut(s) 283
Mva1269I GAATGC 2 cut(s) 13, 78
MvaI CCWGG 1 cut(s) 283
MwoI GCNNNNNNNGC 1 cut(s) 53
NlaIII CATG 2 cut(s) 41, 97
NlaIV GGNNCC 1 cut(s) 35
PctI GAATGC 2 cut(s) 13, 78
PkrI GCNGC 2 cut(s) 55, 244
PshBI ATTAAT 1 cut(s) 66
Psp6I CCWGG 1 cut(s) 281
PspGI CCWGG 1 cut(s) 281
PspN4I GGNNCC 1 cut(s) 35
PspPI GGNCC 1 cut(s) 192
PvuII CAGCTG 1 cut(s) 53
RsaI GTAC 1 cut(s) 35
RsaNI GTAC 1 cut(s) 34
RseI CAYNNNNRTG 1 cut(s) 42
SaqAI TTAA 1 cut(s) 66
SatI GCNGC 2 cut(s) 54, 243
Sau96I GGNCC 1 cut(s) 192
ScrFI CCNGG 1 cut(s) 283
SetI ASST 3 cut(s) 55, 133, 204
SfcI CTRYAG 2 cut(s) 48, 268
SinI GGWCC 1 cut(s) 192
SmiMI CAYNNNNRTG 1 cut(s) 42
Sse9I AATT 2 cut(s) 26, 113
StyD4I CCNGG 1 cut(s) 281
TasI AATT 2 cut(s) 26, 113
Tru1I TTAA 1 cut(s) 66
Tru9I TTAA 1 cut(s) 66
TseI GCWGC 2 cut(s) 53, 242
TspDTI ATGAA 2 cut(s) 233, 250
VpaK11BI GGWCC 1 cut(s) 192
VspI ATTAAT 1 cut(s) 66
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.