RchiOBHm_Chr5g0081101

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0002557
Physical Location & Seq
Forward (+)
87145233 .. 87146028
796 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ35536

Sequence Viewer

Length: 276 bp
ATGAAGGGTAAGGCTACTTTGAATAATACATGGATAATTGATACAGGTGCATCTGATCATATGACCAATGACCCTAGTCTTGTGAAAAACCTTAGACGTTCCTCTCAAAATATTGTCTCTACTGCTGATGGTACTCCAACTCCGGTCACCGGAGAAGGTTCTATTGTTGTATCTGATACCTTAACCCTTGAATCTGTCCTAGTTGTTCCCTCACTAGCTTATAATCTCCTATTTGTTGGACATTCTGACTCGGCGGATTCTTGGTTATGGTGTTAG
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

91

Amino Acids

9.72

Weight (kDa)

4.69

Isoelectric Point (pI)

30.77

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pol_BBD PF22936 11 - 84 4.6e-16 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)
AanI TTATAA 1 cut(s) 222
AciI CCGC 1 cut(s) 254
AfaI GTAC 1 cut(s) 133
AfiI CCNNNNNNNGG 1 cut(s) 149
AgsI TTSAA 2 cut(s) 22, 191
AluBI AGCT 1 cut(s) 218
AluI AGCT 1 cut(s) 218
Alw26I GTCTC 1 cut(s) 121
AsuHPI GGTGA 1 cut(s) 139
BccI CCATC 1 cut(s) 122
BclI TGATCA 1 cut(s) 55
BcoDI GTCTC 1 cut(s) 121
BfaI CTAG 3 cut(s) 75, 200, 215
BmsI GCATC 1 cut(s) 59
BoxI GACNNNNGTC 1 cut(s) 75
BsaWI WCCGGW 2 cut(s) 142, 149
BsaXI ACNNNNNCTCC 2 cut(s) 124, 154
Bsc4I CCNNNNNNNGG 1 cut(s) 149
BseLI CCNNNNNNNGG 1 cut(s) 149
BsiSI CCGG 2 cut(s) 143, 150
BslI CCNNNNNNNGG 1 cut(s) 149
BsmAI GTCTC 1 cut(s) 121
Bsp143I GATC 1 cut(s) 55
BspACI CCGC 1 cut(s) 254
BssMI GATC 1 cut(s) 55
BstDEI CTNAG 1 cut(s) 92
BstEII GGTNACC 1 cut(s) 145
BstKTI GATC 1 cut(s) 58
BstMAI GTCTC 1 cut(s) 121
BstMBI GATC 1 cut(s) 55
BstPAI GACNNNNGTC 1 cut(s) 75
BstPI GGTNACC 1 cut(s) 145
Csp6I GTAC 1 cut(s) 132
CviAII CATG 1 cut(s) 30
CviJI RGCY 2 cut(s) 14, 218
CviKI_1 RGCY 2 cut(s) 14, 218
CviQI GTAC 1 cut(s) 132
DdeI CTNAG 1 cut(s) 92
DpnI GATC 1 cut(s) 57
DpnII GATC 1 cut(s) 55
EciI GGCGGA 1 cut(s) 269
Eco91I GGTNACC 1 cut(s) 145
EcoO65I GGTNACC 1 cut(s) 145
FaeI CATG 1 cut(s) 33
FaiI YATR 5 cut(s) 31, 60, 62, 222, 268
FatI CATG 1 cut(s) 29
FauNDI CATATG 1 cut(s) 60
FbaI TGATCA 1 cut(s) 55
FspBI CTAG 3 cut(s) 75, 200, 215
HapII CCGG 2 cut(s) 143, 150
Hin1II CATG 1 cut(s) 33
HinfI GANTC 3 cut(s) 191, 248, 257
HpaII CCGG 2 cut(s) 143, 150
HphI GGTGA 1 cut(s) 139
Hpy188I TCNGA 3 cut(s) 55, 175, 247
HpyAV CCTTC 1 cut(s) 149
HpyCH4IV ACGT 1 cut(s) 97
HpyCH4V TGCA 1 cut(s) 50
HpyF3I CTNAG 1 cut(s) 92
HpySE526I ACGT 1 cut(s) 97
Hsp92II CATG 1 cut(s) 33
Ksp22I TGATCA 1 cut(s) 55
Kzo9I GATC 1 cut(s) 55
LpnPI CCDG 3 cut(s) 30, 156, 163
LweI GCATC 1 cut(s) 59
MaeI CTAG 3 cut(s) 75, 200, 215
MaeII ACGT 1 cut(s) 97
MaeIII GTNAC 1 cut(s) 145
MalI GATC 1 cut(s) 57
MboI GATC 1 cut(s) 55
MluCI AATT 1 cut(s) 36
MlyI GAGTC 1 cut(s) 242
MmeI TCCRAC 2 cut(s) 161, 217
MnlI CCTC 2 cut(s) 112, 220
MseI TTAA 1 cut(s) 182
MspI CCGG 2 cut(s) 143, 150
NdeI CATATG 1 cut(s) 60
NdeII GATC 1 cut(s) 55
NlaIII CATG 1 cut(s) 33
NmeAIII GCCGAG 1 cut(s) 230
NmuCI GTSAC 1 cut(s) 145
PfeI GAWTC 2 cut(s) 191, 257
PleI GAGTC 1 cut(s) 242
PpsI GAGTC 1 cut(s) 242
PshAI GACNNNNGTC 1 cut(s) 75
PsiI TTATAA 1 cut(s) 222
PspEI GGTNACC 1 cut(s) 145
RsaI GTAC 1 cut(s) 133
RsaNI GTAC 1 cut(s) 132
SaqAI TTAA 1 cut(s) 182
Sau3AI GATC 1 cut(s) 55
SchI GAGTC 1 cut(s) 242
SetI ASST 6 cut(s) 49, 93, 100, 160, 182, 220
SfaNI GCATC 1 cut(s) 59
Sse9I AATT 1 cut(s) 36
SsiI CCGC 1 cut(s) 254
SspI AATATT 1 cut(s) 112
SspMI CTAG 3 cut(s) 75, 200, 215
TaiI ACGT 1 cut(s) 100
TasI AATT 1 cut(s) 36
TfiI GAWTC 2 cut(s) 191, 257
Tru1I TTAA 1 cut(s) 182
Tru9I TTAA 1 cut(s) 182
TseFI GTSAC 1 cut(s) 145
Tsp45I GTSAC 1 cut(s) 145
TspDTI ATGAA 1 cut(s) 17
XspI CTAG 3 cut(s) 75, 200, 215
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.