RchiOBHm_Chr1g0340271

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0002557
Physical Location & Seq
Forward (+)
31892959 .. 31893285
327 bp
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UTR
Exon/CDS
Intron
PRQ56707

Sequence Viewer

Length: 327 bp
ATGACTAATGATCCTAGCCTCTTGAAAAAGCTGAAACCCTCCTCTCAAAATATTGTTTTTACTACTGATGGTACTCCAACTCCGGTTAGCAGAGAAGGCTCTGTTATCTTATCCGACACATTAACCCTTGACTCTGTATTGGTTGTCCCTTCATTAGCATATAATCTCCTATCTGTTGGCCAGATCATTCTAGCACTAGCATGTATTGTGACTTTTTATCCCTCTTTCTGTGTGTTTCAGAATATTCTGACTCGGCGGATTCTTGGTTATGATGTTAGAAGGGGGAAACTCTACTACTTAGATCTGACAGAAAGTGGAGAGCAATAG
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

108

Amino Acids

11.91

Weight (kDa)

6.11

Isoelectric Point (pI)

57.1

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pol_BBD PF22936 1 - 62 1.1e-07 Pol polyprotein, beta-barrel 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)
AciI CCGC 1 cut(s) 256
AclWI GGATC 1 cut(s) 5
AcoI YGGCCR 1 cut(s) 178
AfaI GTAC 1 cut(s) 73
AgsI TTSAA 1 cut(s) 25
AluBI AGCT 1 cut(s) 31
AluI AGCT 1 cut(s) 31
AlwI GGATC 1 cut(s) 5
AoxI GGCC 1 cut(s) 178
BalI TGGCCA 1 cut(s) 180
BccI CCATC 1 cut(s) 62
BfaI CTAG 3 cut(s) 15, 191, 197
BglII AGATCT 1 cut(s) 301
BsaWI WCCGGW 1 cut(s) 82
BsaXI ACNNNNNCTCC 2 cut(s) 64, 94
BseRI GAGGAG 1 cut(s) 31
BshFI GGCC 1 cut(s) 180
BsiSI CCGG 1 cut(s) 83
BslFI GGGAC 1 cut(s) 131
BsmFI GGGAC 1 cut(s) 131
BsnI GGCC 1 cut(s) 180
Bsp143I GATC 3 cut(s) 10, 183, 301
BspACI CCGC 1 cut(s) 256
BspANI GGCC 1 cut(s) 180
BspPI GGATC 1 cut(s) 5
BssMI GATC 3 cut(s) 10, 183, 301
BstDEI CTNAG 1 cut(s) 298
BstKTI GATC 3 cut(s) 13, 186, 304
BstMBI GATC 3 cut(s) 10, 183, 301
BstMWI GCNNNNNNNGC 1 cut(s) 96
BstNSI RCATGY 1 cut(s) 204
BstX2I RGATCY 1 cut(s) 301
BstYI RGATCY 1 cut(s) 301
BsuRI GGCC 1 cut(s) 180
Csp6I GTAC 1 cut(s) 72
CviAII CATG 1 cut(s) 201
CviJI RGCY 4 cut(s) 18, 31, 99, 180
CviKI_1 RGCY 4 cut(s) 18, 31, 99, 180
CviQI GTAC 1 cut(s) 72
DdeI CTNAG 1 cut(s) 298
DpnI GATC 3 cut(s) 12, 185, 303
DpnII GATC 3 cut(s) 10, 183, 301
EaeI YGGCCR 1 cut(s) 178
EciI GGCGGA 1 cut(s) 271
FaeI CATG 1 cut(s) 204
FaiI YATR 4 cut(s) 160, 162, 202, 270
FaqI GGGAC 1 cut(s) 131
FatI CATG 1 cut(s) 200
FspBI CTAG 3 cut(s) 15, 191, 197
HaeIII GGCC 1 cut(s) 180
HapII CCGG 1 cut(s) 83
Hin1II CATG 1 cut(s) 204
HinfI GANTC 3 cut(s) 131, 250, 259
HpaII CCGG 1 cut(s) 83
Hpy188I TCNGA 4 cut(s) 115, 240, 249, 306
Hpy188III TCNNGA 1 cut(s) 22
HpyAV CCTTC 3 cut(s) 89, 159, 273
HpyF10VI GCNNNNNNNGC 1 cut(s) 96
HpyF3I CTNAG 1 cut(s) 298
Hsp92II CATG 1 cut(s) 204
Kzo9I GATC 3 cut(s) 10, 183, 301
LpnPI CCDG 2 cut(s) 96, 194
MaeI CTAG 3 cut(s) 15, 191, 197
MaeIII GTNAC 1 cut(s) 208
MalI GATC 3 cut(s) 12, 185, 303
MboI GATC 3 cut(s) 10, 183, 301
MflI RGATCY 1 cut(s) 301
MlsI TGGCCA 1 cut(s) 180
MluNI TGGCCA 1 cut(s) 180
MlyI GAGTC 2 cut(s) 125, 244
MmeI TCCRAC 2 cut(s) 101, 138
MnlI CCTC 4 cut(s) 29, 49, 52, 232
Mox20I TGGCCA 1 cut(s) 180
MscI TGGCCA 1 cut(s) 180
MseI TTAA 1 cut(s) 122
MslI CAYNNNNRTG 1 cut(s) 199
Msp20I TGGCCA 1 cut(s) 180
MspI CCGG 1 cut(s) 83
MwoI GCNNNNNNNGC 1 cut(s) 96
NdeII GATC 3 cut(s) 10, 183, 301
NlaIII CATG 1 cut(s) 204
NmeAIII GCCGAG 1 cut(s) 232
NmuCI GTSAC 1 cut(s) 208
NspI RCATGY 1 cut(s) 204
PfeI GAWTC 1 cut(s) 259
PleI GAGTC 2 cut(s) 125, 244
PpsI GAGTC 2 cut(s) 125, 244
PsuI RGATCY 1 cut(s) 301
RsaI GTAC 1 cut(s) 73
RsaNI GTAC 1 cut(s) 72
RseI CAYNNNNRTG 1 cut(s) 199
SaqAI TTAA 1 cut(s) 122
Sau3AI GATC 3 cut(s) 10, 183, 301
SchI GAGTC 2 cut(s) 125, 244
SetI ASST 1 cut(s) 33
SmiMI CAYNNNNRTG 1 cut(s) 199
SsiI CCGC 1 cut(s) 256
SspI AATATT 2 cut(s) 52, 244
SspMI CTAG 3 cut(s) 15, 191, 197
TfiI GAWTC 1 cut(s) 259
Tru1I TTAA 1 cut(s) 122
Tru9I TTAA 1 cut(s) 122
TseFI GTSAC 1 cut(s) 208
Tsp45I GTSAC 1 cut(s) 208
TspDTI ATGAA 1 cut(s) 141
XceI RCATGY 1 cut(s) 204
XspI CTAG 3 cut(s) 15, 191, 197
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.