Rroxscaffold_5G00333130

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0006446
Physical Location & Seq
Reverse (-)
554422 .. 555754
1333 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00333130.1

Sequence Viewer

Length: 447 bp
ATGAAGGTATGTCAAAAGATGGTGATCAGGCTCTCTGTGCAGGACAAGAGGTCTCTATCCAAGGCAATGAGGACAGCAGTTGGAGTTGATGGGGTGGATTCAGCAAGTCTGCTATTGGACAAGGACCAAATTGAAGTAACAGGAAACGATGTTGATGTGGTTTTGCTCACAACACGACTCAGAAAAAGAGTCAAGTGCGCTAATCCTATGGTCGTCAGTGTGAGCCCTGTCAAAGAGGAGGGGGAGAAGAAGGAAGAGAAGAAGGAGGAGCCTAAAGTTGAGCAAATCATCTTGGAGATTGAGATAGGAGGGTTTTACTCTGGCCAAAGTGATGATGACTATCGCTTGGTGGAGATGGGTGTCAAGGAGATCGAATCAGGGAGTTGGAAGTTTGGGCTTGTTATCCATGGCATTGAGATTCGGCCTATCCAACCGAAACCCAATTAA
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
No domains found.

Protein Analysis

148

Amino Acids

16.55

Weight (kDa)

5.96

Isoelectric Point (pI)

52.64

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PP2 PF14299 50 - 142 1.8e-09 Phloem protein 2
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)
AcoI YGGCCR 1 cut(s) 322
AgsI TTSAA 1 cut(s) 134
AhdI GACNNNNNGTC 1 cut(s) 49
Alw26I GTCTC 1 cut(s) 57
AoxI GGCC 2 cut(s) 322, 422
AspLEI GCGC 1 cut(s) 200
AspS9I GGNCC 1 cut(s) 124
AsuHPI GGTGA 1 cut(s) 34
AvaII GGWCC 1 cut(s) 124
BalI TGGCCA 1 cut(s) 324
BanII GRGCYC 1 cut(s) 227
BccI CCATC 3 cut(s) 13, 83, 349
BclI TGATCA 1 cut(s) 24
BcoDI GTCTC 1 cut(s) 57
Bme18I GGWCC 1 cut(s) 124
BmeRI GACNNNNNGTC 1 cut(s) 49
BmgT120I GGNCC 1 cut(s) 124
BmiI GGNNCC 1 cut(s) 270
BsaBI GATNNNNATC 2 cut(s) 23, 339
BsaI GGTCTC 1 cut(s) 57
BsaJI CCNNGG 2 cut(s) 60, 406
Bse3DI GCAATG 1 cut(s) 72
Bse8I GATNNNNATC 2 cut(s) 23, 339
BseDI CCNNGG 2 cut(s) 60, 406
BseJI GATNNNNATC 2 cut(s) 23, 339
BseMI GCAATG 1 cut(s) 72
BseMII CTCAG 1 cut(s) 193
BseRI GAGGAG 2 cut(s) 251, 281
BsgI GTGCAG 1 cut(s) 59
BshFI GGCC 2 cut(s) 324, 424
BsmAI GTCTC 1 cut(s) 57
BsnI GGCC 2 cut(s) 324, 424
Bso31I GGTCTC 1 cut(s) 57
Bsp1286I GDGCHC 1 cut(s) 227
Bsp143I GATC 2 cut(s) 24, 369
Bsp19I CCATGG 1 cut(s) 406
BspANI GGCC 2 cut(s) 324, 424
BspCNI CTCAG 1 cut(s) 192
BspLI GGNNCC 1 cut(s) 270
BspTNI GGTCTC 1 cut(s) 57
BsrDI GCAATG 1 cut(s) 72
BssECI CCNNGG 2 cut(s) 60, 406
BssMI GATC 2 cut(s) 24, 369
BssT1I CCWWGG 2 cut(s) 60, 406
Bst6I CTCTTC 1 cut(s) 249
BstDEI CTNAG 1 cut(s) 179
BstDSI CCRYGG 1 cut(s) 406
BstHHI GCGC 1 cut(s) 200
BstKTI GATC 2 cut(s) 27, 372
BstMAI GTCTC 1 cut(s) 57
BstMBI GATC 2 cut(s) 24, 369
BstMWI GCNNNNNNNGC 1 cut(s) 37
BsuRI GGCC 2 cut(s) 324, 424
BtgI CCRYGG 1 cut(s) 406
BtsIMutI CAGTG 1 cut(s) 223
CfoI GCGC 1 cut(s) 200
Cfr13I GGNCC 1 cut(s) 124
CviAII CATG 1 cut(s) 407
CviJI RGCY 6 cut(s) 31, 225, 271, 324, 397, 424
CviKI_1 RGCY 6 cut(s) 31, 225, 271, 324, 397, 424
DdeI CTNAG 1 cut(s) 179
DpnI GATC 2 cut(s) 26, 371
DpnII GATC 2 cut(s) 24, 369
DriI GACNNNNNGTC 1 cut(s) 49
EaeI YGGCCR 1 cut(s) 322
Eam1104I CTCTTC 1 cut(s) 249
Eam1105I GACNNNNNGTC 1 cut(s) 49
EarI CTCTTC 1 cut(s) 249
Eco130I CCWWGG 2 cut(s) 60, 406
Eco24I GRGCYC 1 cut(s) 227
Eco31I GGTCTC 1 cut(s) 57
Eco47I GGWCC 1 cut(s) 124
EcoT14I CCWWGG 2 cut(s) 60, 406
EcoT38I GRGCYC 1 cut(s) 227
ErhI CCWWGG 2 cut(s) 60, 406
FaeI CATG 1 cut(s) 410
FaiI YATR 3 cut(s) 10, 209, 408
FatI CATG 1 cut(s) 406
FbaI TGATCA 1 cut(s) 24
FriOI GRGCYC 1 cut(s) 227
GlaI GCGC 1 cut(s) 199
HaeIII GGCC 2 cut(s) 324, 424
HhaI GCGC 1 cut(s) 200
Hin1II CATG 1 cut(s) 410
Hin6I GCGC 1 cut(s) 198
HinP1I GCGC 1 cut(s) 198
HinfI GANTC 5 cut(s) 98, 177, 189, 374, 418
HphI GGTGA 1 cut(s) 34
Hpy188I TCNGA 1 cut(s) 182
HpyAV CCTTC 2 cut(s) 244, 256
HpyCH4V TGCA 1 cut(s) 40
HpyF10VI GCNNNNNNNGC 1 cut(s) 37
HpyF3I CTNAG 1 cut(s) 179
Hsp92II CATG 1 cut(s) 410
HspAI GCGC 1 cut(s) 198
Ksp22I TGATCA 1 cut(s) 24
Kzo9I GATC 2 cut(s) 24, 369
LmnI GCTCC 1 cut(s) 268
LpnPI CCDG 6 cut(s) 13, 26, 126, 240, 306, 363
MaeIII GTNAC 1 cut(s) 136
MalI GATC 2 cut(s) 26, 371
MboI GATC 2 cut(s) 24, 369
MboII GAAGA 3 cut(s) 259, 266, 271
MhlI GDGCHC 1 cut(s) 227
MlsI TGGCCA 1 cut(s) 324
MluCI AATT 2 cut(s) 129, 442
MluNI TGGCCA 1 cut(s) 324
MlyI GAGTC 2 cut(s) 171, 198
MmeI TCCRAC 2 cut(s) 61, 365
MnlI CCTC 6 cut(s) 42, 63, 229, 232, 259, 302
Mox20I TGGCCA 1 cut(s) 324
MscI TGGCCA 1 cut(s) 324
MseI TTAA 1 cut(s) 445
Msp20I TGGCCA 1 cut(s) 324
MwoI GCNNNNNNNGC 1 cut(s) 37
NcoI CCATGG 1 cut(s) 406
NdeII GATC 2 cut(s) 24, 369
NlaIII CATG 1 cut(s) 410
NlaIV GGNNCC 1 cut(s) 270
PfeI GAWTC 3 cut(s) 98, 374, 418
PleI GAGTC 2 cut(s) 171, 197
PpsI GAGTC 2 cut(s) 171, 197
PspN4I GGNNCC 1 cut(s) 270
PspPI GGNCC 1 cut(s) 124
SaqAI TTAA 1 cut(s) 445
Sau3AI GATC 2 cut(s) 24, 369
Sau96I GGNCC 1 cut(s) 124
SchI GAGTC 2 cut(s) 171, 198
SduI GDGCHC 1 cut(s) 227
SetI ASST 2 cut(s) 9, 53
SinI GGWCC 1 cut(s) 124
Sse9I AATT 2 cut(s) 129, 442
StyI CCWWGG 2 cut(s) 60, 406
TaqI TCGA 1 cut(s) 372
TasI AATT 2 cut(s) 129, 442
TfiI GAWTC 3 cut(s) 98, 374, 418
Tru1I TTAA 1 cut(s) 445
Tru9I TTAA 1 cut(s) 445
TscAI CASTG 1 cut(s) 223
TspDTI ATGAA 1 cut(s) 17
TspRI CASTG 1 cut(s) 223
VpaK11BI GGWCC 1 cut(s) 124
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.