RchiOBHm_Chr1g0369901

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0019676
Physical Location & Seq
Reverse (-)
59550000 .. 59550398
399 bp
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UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 282 bp
ATGAAAAATGAGTTTGAAATGAGTTTGTGTGGCAAATTAAATTATTTTCTTGGTCTGCAAGTCCAACAAAGGAGTAATGGTCTCTACATCTCTCAAACCAAATATGCTAATGACCTTGTGAAAAAGTTTGGTTTGGATGCTGCTACTGCTGTCCGAAATCCCATGGGAACTAGTTCAAAACTTGATGAAGCTTATTGTACCTTACTGCTAGCAGACCCGATATTTCTTTTAGTGTTGGTGTTTGTGCTAGATATCAAGCTAATCCTAAGGAATCACATCTAA
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 Retrotran_gag_2 gag_pre-integrs rve zf-CCHC

Protein Analysis

93

Amino Acids

10.5

Weight (kDa)

8.62

Isoelectric Point (pI)

36.38

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_2 PF07727 1 - 55 5.5e-09 Reverse transcriptase (RNA-dependent DNA polymerase)
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: OG0019676)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g40202
rosa_chinensis RchiOBHm_Chr1g0369901 RchiOBHm_Chr2g0121901
rosa_laevigata RLG00000035900
rosa_roxburghii Rroxscaffold_3G00244770 Rroxscaffold_5G00337010
rosa_wichuraiana Rw2G023390

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AfaI GTAC 1 cut(s) 199
AgsI TTSAA 2 cut(s) 17, 177
AhlI ACTAGT 1 cut(s) 170
AluBI AGCT 2 cut(s) 191, 259
AluI AGCT 2 cut(s) 191, 259
Alw26I GTCTC 1 cut(s) 86
ApeKI GCWGC 1 cut(s) 140
Asp700I GAANNNNTTC 1 cut(s) 172
AsuNHI GCTAGC 1 cut(s) 208
AxyI CCTNAGG 1 cut(s) 266
BbvI GCAGC 1 cut(s) 127
BcoDI GTCTC 1 cut(s) 86
BcuI ACTAGT 1 cut(s) 170
BfaI CTAG 3 cut(s) 171, 209, 248
BisI GCNGC 1 cut(s) 141
BlsI GCNGC 1 cut(s) 142
BmsI GCATC 1 cut(s) 127
BmtI GCTAGC 1 cut(s) 212
BsaI GGTCTC 1 cut(s) 86
BsaJI CCNNGG 1 cut(s) 162
BsaXI ACNNNNNCTCC 2 cut(s) 64, 94
Bse21I CCTNAGG 1 cut(s) 266
BseDI CCNNGG 1 cut(s) 162
BseGI GGATG 1 cut(s) 142
BseXI GCAGC 1 cut(s) 127
BsmAI GTCTC 1 cut(s) 86
Bso31I GGTCTC 1 cut(s) 86
Bsp19I CCATGG 1 cut(s) 162
BspOI GCTAGC 1 cut(s) 212
BspTNI GGTCTC 1 cut(s) 86
BssECI CCNNGG 1 cut(s) 162
BssT1I CCWWGG 1 cut(s) 162
BstC8I GCNNGC 1 cut(s) 210
BstDEI CTNAG 1 cut(s) 266
BstDSI CCRYGG 1 cut(s) 162
BstF5I GGATG 1 cut(s) 142
BstMAI GTCTC 1 cut(s) 86
BstMWI GCNNNNNNNGC 1 cut(s) 146
BstV1I GCAGC 1 cut(s) 127
Bsu36I CCTNAGG 1 cut(s) 266
BtgI CCRYGG 1 cut(s) 162
BtsCI GGATG 1 cut(s) 142
Cac8I GCNNGC 1 cut(s) 210
Csp6I GTAC 1 cut(s) 198
CviAII CATG 1 cut(s) 163
CviJI RGCY 2 cut(s) 191, 259
CviKI_1 RGCY 2 cut(s) 191, 259
CviQI GTAC 1 cut(s) 198
DdeI CTNAG 1 cut(s) 266
Eco130I CCWWGG 1 cut(s) 162
Eco31I GGTCTC 1 cut(s) 86
Eco32I GATATC 1 cut(s) 253
Eco81I CCTNAGG 1 cut(s) 266
EcoRV GATATC 1 cut(s) 253
EcoT14I CCWWGG 1 cut(s) 162
ErhI CCWWGG 1 cut(s) 162
FaeI CATG 1 cut(s) 166
FaiI YATR 2 cut(s) 105, 164
FatI CATG 1 cut(s) 162
Fnu4HI GCNGC 1 cut(s) 141
FokI GGATG 1 cut(s) 149
Fsp4HI GCNGC 1 cut(s) 141
FspBI CTAG 3 cut(s) 171, 209, 248
GluI GCNGC 1 cut(s) 141
Hin1II CATG 1 cut(s) 166
HindIII AAGCTT 1 cut(s) 189
HinfI GANTC 1 cut(s) 271
Hpy188I TCNGA 1 cut(s) 155
HpyCH4V TGCA 1 cut(s) 58
HpyF10VI GCNNNNNNNGC 1 cut(s) 146
HpyF3I CTNAG 1 cut(s) 266
Hsp92II CATG 1 cut(s) 166
Lsp1109I GCAGC 1 cut(s) 127
LweI GCATC 1 cut(s) 127
MaeI CTAG 3 cut(s) 171, 209, 248
MluCI AATT 2 cut(s) 35, 40
MmeI TCCRAC 1 cut(s) 88
MroXI GAANNNNTTC 1 cut(s) 172
MseI TTAA 1 cut(s) 38
MwoI GCNNNNNNNGC 1 cut(s) 146
NcoI CCATGG 1 cut(s) 162
NheI GCTAGC 1 cut(s) 208
NlaIII CATG 1 cut(s) 166
PdmI GAANNNNTTC 1 cut(s) 172
PfeI GAWTC 1 cut(s) 271
PkrI GCNGC 1 cut(s) 142
RsaI GTAC 1 cut(s) 199
RsaNI GTAC 1 cut(s) 198
SaqAI TTAA 1 cut(s) 38
SatI GCNGC 1 cut(s) 141
SetI ASST 4 cut(s) 117, 193, 203, 261
SfaNI GCATC 1 cut(s) 127
SpeI ACTAGT 1 cut(s) 170
Sse9I AATT 2 cut(s) 35, 40
SspMI CTAG 3 cut(s) 171, 209, 248
StyI CCWWGG 1 cut(s) 162
TasI AATT 2 cut(s) 35, 40
TfiI GAWTC 1 cut(s) 271
Tru1I TTAA 1 cut(s) 38
Tru9I TTAA 1 cut(s) 38
TseI GCWGC 1 cut(s) 140
TspDTI ATGAA 2 cut(s) 17, 201
XmnI GAANNNNTTC 1 cut(s) 172
XspI CTAG 3 cut(s) 171, 209, 248
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.