Rroxscaffold_6G00409730

Ribonuclease H

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0008916
Physical Location & Seq
Reverse (-)
32227593 .. 32228487
895 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00409730.1

Sequence Viewer

Length: 411 bp
ATGGTCCCAAGTGATATTGTCAATCAAATTATCAATATCCTTACTGGTTTTGATAATTGTGGTTGTGATTCTTTGATTTGGGGAGCCACATCTAATGGTGCCTTCACAGTCAAGTCTGCCTTTAATTCTAGTTTTGATTTTTCCACCTCCCAAAATTCACAATGGCCTGCTGTATGGAAAAGTAATGTTCCTCCTAAGCTGAAAACCTTCCTGTGGGCTGCTCTCCATAAGAAGCTGTTAACTAATGTTCAAAGGGCTAGAAGAGGTTTTACCTCCTCCTCCTTATGCCCTATCTGCAAGGCTGATGATGAAACCCTCATCCACTTGTTCAGGGACTGTCCTAGATCTCTTGCTATTTGGAATGCTTTTCTTAAACCTGGGGCTATCTTTAACTCCTTCTCTCTAAACTGA
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_3 zf-RVT

Protein Analysis

136

Amino Acids

15.09

Weight (kDa)

9.17

Isoelectric Point (pI)

36.28

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RVT PF13966 35 - 120 3e-21 zinc-binding in reverse transcriptase
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 98
AcsI RAATTY 1 cut(s) 154
AfiI CCNNNNNNNGG 1 cut(s) 213
AgsI TTSAA 1 cut(s) 251
AjnI CCWGG 1 cut(s) 376
AluBI AGCT 2 cut(s) 199, 235
AluI AGCT 2 cut(s) 199, 235
AlwNI CAGNNNCTG 1 cut(s) 336
AoxI GGCC 1 cut(s) 164
ApeKI GCWGC 1 cut(s) 218
ApoI RAATTY 1 cut(s) 154
Asp700I GAANNNNTTC 1 cut(s) 206
AspS9I GGNCC 1 cut(s) 4
AvaII GGWCC 1 cut(s) 4
BanI GGYRCC 1 cut(s) 98
BarI GAAGNNNNNNTAC 2 cut(s) 253, 285
BbvI GCAGC 1 cut(s) 205
BciT130I CCWGG 1 cut(s) 378
BfaI CTAG 3 cut(s) 129, 258, 342
BglII AGATCT 1 cut(s) 344
BisI GCNGC 1 cut(s) 219
BlsI GCNGC 1 cut(s) 220
Bme1390I CCNGG 1 cut(s) 378
Bme18I GGWCC 1 cut(s) 4
BmgT120I GGNCC 1 cut(s) 4
BmiI GGNNCC 3 cut(s) 6, 85, 100
BmrFI CCNGG 1 cut(s) 378
Bpu10I CCTNAGC 1 cut(s) 195
BsaJI CCNNGG 1 cut(s) 377
Bsc4I CCNNNNNNNGG 1 cut(s) 213
Bse1I ACTGG 1 cut(s) 49
BseBI CCWGG 1 cut(s) 378
BseDI CCNNGG 1 cut(s) 377
BseGI GGATG 1 cut(s) 318
BseLI CCNNNNNNNGG 1 cut(s) 213
BseNI ACTGG 1 cut(s) 49
BseRI GAGGAG 2 cut(s) 265, 268
BseXI GCAGC 1 cut(s) 205
BshFI GGCC 1 cut(s) 166
BshNI GGYRCC 1 cut(s) 98
BslFI GGGAC 1 cut(s) 347
BslI CCNNNNNNNGG 1 cut(s) 213
BsmFI GGGAC 1 cut(s) 347
BsmI GAATGC 1 cut(s) 367
BsnI GGCC 1 cut(s) 166
Bsp143I GATC 1 cut(s) 344
BspANI GGCC 1 cut(s) 166
BspLI GGNNCC 3 cut(s) 6, 85, 100
BspT107I GGYRCC 1 cut(s) 98
BsrI ACTGG 1 cut(s) 49
BssECI CCNNGG 1 cut(s) 377
BssMI GATC 1 cut(s) 344
Bst2UI CCWGG 1 cut(s) 378
Bst4CI ACNGT 2 cut(s) 109, 338
Bst6I CTCTTC 1 cut(s) 256
BstC8I GCNNGC 1 cut(s) 168
BstDEI CTNAG 1 cut(s) 195
BstF5I GGATG 1 cut(s) 318
BstKTI GATC 1 cut(s) 347
BstMBI GATC 1 cut(s) 344
BstMWI GCNNNNNNNGC 1 cut(s) 294
BstNI CCWGG 1 cut(s) 378
BstSCI CCNGG 1 cut(s) 376
BstV1I GCAGC 1 cut(s) 205
BstX2I RGATCY 1 cut(s) 344
BstYI RGATCY 1 cut(s) 344
BsuRI GGCC 1 cut(s) 166
BtsCI GGATG 1 cut(s) 318
Cac8I GCNNGC 1 cut(s) 168
CaiI CAGNNNCTG 1 cut(s) 336
Cfr13I GGNCC 1 cut(s) 4
CviJI RGCY 8 cut(s) 86, 166, 199, 218, 235, 257, 302, 383
CviKI_1 RGCY 8 cut(s) 86, 166, 199, 218, 235, 257, 302, 383
DdeI CTNAG 1 cut(s) 195
DpnI GATC 1 cut(s) 346
DpnII GATC 1 cut(s) 344
Eam1104I CTCTTC 1 cut(s) 256
EarI CTCTTC 1 cut(s) 256
Eco47I GGWCC 1 cut(s) 4
EcoRII CCWGG 1 cut(s) 376
FaiI YATR 3 cut(s) 175, 228, 286
FalI AAGNNNNNCTT 2 cut(s) 104, 136
FaqI GGGAC 1 cut(s) 347
Fnu4HI GCNGC 1 cut(s) 219
FokI GGATG 1 cut(s) 305
Fsp4HI GCNGC 1 cut(s) 219
FspBI CTAG 3 cut(s) 129, 258, 342
GluI GCNGC 1 cut(s) 219
HaeIII GGCC 1 cut(s) 166
HincII GTYRAC 1 cut(s) 240
HindII GTYRAC 1 cut(s) 240
HinfI GANTC 1 cut(s) 68
HpaI GTTAAC 1 cut(s) 240
Hpy166II GTNNAC 1 cut(s) 240
Hpy8I GTNNAC 1 cut(s) 240
HpyAV CCTTC 3 cut(s) 112, 217, 406
HpyCH4III ACNGT 2 cut(s) 109, 338
HpyCH4V TGCA 1 cut(s) 297
HpyF10VI GCNNNNNNNGC 1 cut(s) 294
HpyF3I CTNAG 1 cut(s) 195
KspAI GTTAAC 1 cut(s) 240
Kzo9I GATC 1 cut(s) 344
LmnI GCTCC 1 cut(s) 83
LpnPI CCDG 6 cut(s) 30, 180, 224, 316, 363, 390
Lsp1109I GCAGC 1 cut(s) 205
MaeI CTAG 3 cut(s) 129, 258, 342
MalI GATC 1 cut(s) 346
MboI GATC 1 cut(s) 344
MboII GAAGA 1 cut(s) 273
MflI RGATCY 1 cut(s) 344
MluCI AATT 4 cut(s) 27, 55, 124, 154
MnlI CCTC 7 cut(s) 157, 201, 257, 283, 286, 289, 326
MroXI GAANNNNTTC 1 cut(s) 206
MseI TTAA 4 cut(s) 123, 239, 372, 390
MspR9I CCNGG 1 cut(s) 378
Mva1269I GAATGC 1 cut(s) 367
MvaI CCWGG 1 cut(s) 378
MwoI GCNNNNNNNGC 1 cut(s) 294
NdeII GATC 1 cut(s) 344
NlaIV GGNNCC 3 cut(s) 6, 85, 100
PctI GAATGC 1 cut(s) 367
PdmI GAANNNNTTC 1 cut(s) 206
PfeI GAWTC 1 cut(s) 68
PkrI GCNGC 1 cut(s) 220
Psp6I CCWGG 1 cut(s) 376
PspGI CCWGG 1 cut(s) 376
PspN4I GGNNCC 3 cut(s) 6, 85, 100
PspPI GGNCC 1 cut(s) 4
PstNI CAGNNNCTG 1 cut(s) 336
PsuI RGATCY 1 cut(s) 344
SaqAI TTAA 4 cut(s) 123, 239, 372, 390
SatI GCNGC 1 cut(s) 219
Sau3AI GATC 1 cut(s) 344
Sau96I GGNCC 1 cut(s) 4
ScrFI CCNGG 1 cut(s) 378
SetI ASST 7 cut(s) 149, 201, 209, 237, 268, 275, 379
SinI GGWCC 1 cut(s) 4
Sse9I AATT 4 cut(s) 27, 55, 124, 154
SspMI CTAG 3 cut(s) 129, 258, 342
StyD4I CCNGG 1 cut(s) 376
TaaI ACNGT 2 cut(s) 109, 338
TasI AATT 4 cut(s) 27, 55, 124, 154
TfiI GAWTC 1 cut(s) 68
Tru1I TTAA 4 cut(s) 123, 239, 372, 390
Tru9I TTAA 4 cut(s) 123, 239, 372, 390
TseI GCWGC 1 cut(s) 218
TspDTI ATGAA 1 cut(s) 324
VpaK11BI GGWCC 1 cut(s) 4
XapI RAATTY 1 cut(s) 154
XmnI GAANNNNTTC 1 cut(s) 206
XspI CTAG 3 cut(s) 129, 258, 342
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.