RchiOBHm_Chr1g0348881

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0000842
Physical Location & Seq
Reverse (-)
41901996 .. 41907918
5923 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ57487

Sequence Viewer

Length: 474 bp
ATGAAGGGGGTGCTTGATAAGGTAATATCCCCCACTCAAAGTGCTTTTGTGCCAGGACGGCATATACATGACAACGTGATAGCGGCCTTTGAGACTATTCACTCTATTAGGAAAAATTCTGGGAGTGGTGCTGCAAACTTGGTGTTAAAGTTGGACATTAGCAAGGCCTATCATAGAGTGGAGTGGCTTTTCCTGAAGAAGATGATGGCAAAGTTGGGTTTTGCAGAGAGTTGGGTGCAGTTGATTTTGAGGCAACTGGCCTTTTCAAACCTTCAAGGGGATCCCCTTTCTCCATATCTCTTTCTTCTGTGCTCCGAGGGATTATCGTGCTTATTCTCCCATGCAGATATGATGGGATTTATCCATGGAGTTCAAGCCAGTAGGAATGCACCATCAGTTTCACAGTTACTTTTTGCAGATGATAGCCTAGTGTTTGCCAAGGCTGAGATGCAGGAGGTTGTCAATCTAAAATAG
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_1 RVT_3 zf-RVT

Protein Analysis

157

Amino Acids

17.36

Weight (kDa)

8.6

Isoelectric Point (pI)

40.6

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_1 PF00078 7 - 151 2.7e-12 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: OG0000842)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g15420 FvH4_2g00771 FvH4_3g29363
malus_domestica MD02G1293300.v1.1 MD06G1023000.v1.1 MD09G1232900.v1.1
prunus_persica Prupe.1G181500_v2.0.a1 Prupe.1G572100_v2.0.a1 Prupe.2G095500_v2.0.a1 Prupe.3G150400_v2.0.a1 Prupe.3G156200_v2.0.a1 Prupe.4G274400_v2.0.a1 Prupe.5G070700_v2.0.a1 Prupe.7G038000_v2.0.a1 Prupe.7G164000_v2.0.a1 Prupe.8G056500_v2.0.a1
pyrus_communis pycom04g02040 pycom05g04600 pycom07g05610 pycom08g16130 pycom11g16470 pycom12g07830 pycom15g38190 pycom215g00040
rosa_chinensis RchiOBHm_Chr1g0348881 RchiOBHm_Chr5g0032951 RchiOBHm_Chr6g0273271 RchiOBHm_Chr7g0218191 RchiOBHm_Chr7g0223721
rosa_multiflora Rmu_co8286615.1_g000001 Rmu_sc0001354.1_g000002 Rmu_sc0001925.1_g000003 Rmu_sc0001925.1_g000005 Rmu_sc0002221.1_g000004 Rmu_sc0002316.1_g000096 Rmu_sc0003291.1_g000005 Rmu_sc0003413.1_g000005 Rmu_sc0003542.1_g000011 Rmu_sc0004035.1_g000003 Rmu_sc0004035.1_g000004 Rmu_sc0004145.1_g000016 Rmu_sc0004660.1_g000004 Rmu_sc0005999.1_g000006 Rmu_sc0006123.1_g000002 Rmu_sc0006586.1_g000006 Rmu_sc0006889.1_g000029 Rmu_sc0008035.1_g000014 Rmu_sc0011962.1_g000002 Rmu_sc0029950.1_g000001 Rmu_sc0042409.1_g000001 Rmu_ssc0000238.1_g000013
rosa_roxburghii Rroxscaffold_2G00137410 Rroxscaffold_4G00312010 Rroxscaffold_4G00320800 Rroxscaffold_5G00341720 Rroxscaffold_5G00353530 Rroxscaffold_5G00360290 Rroxscaffold_7G00214170 Rroxscaffold_7G00215920
rosa_rugosa Rorug02G0157000
rosa_samantha Rh4BG196500 Rh6CG346400 Rh7BG241100 Rh7DG316300
rosa_wichuraiana Rw1G003610 Rw7G012170 Rw7G030150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 83
AclWI GGATC 2 cut(s) 275, 288
AcsI RAATTY 1 cut(s) 115
AcuI CTGAAG 1 cut(s) 215
AfiI CCNNNNNNNGG 1 cut(s) 277
AgsI TTSAA 3 cut(s) 267, 275, 374
AjnI CCWGG 1 cut(s) 52
Alw21I GWGCWC 1 cut(s) 314
Alw26I GTCTC 1 cut(s) 86
AlwI GGATC 2 cut(s) 275, 288
AoxI GGCC 3 cut(s) 84, 165, 258
ApeKI GCWGC 1 cut(s) 131
ApoI RAATTY 1 cut(s) 115
BamHI GGATCC 1 cut(s) 280
Bbv12I GWGCWC 1 cut(s) 314
BbvI GCAGC 1 cut(s) 118
BccI CCATC 3 cut(s) 199, 346, 400
BceAI ACGGC 1 cut(s) 74
BciT130I CCWGG 1 cut(s) 54
BcoDI GTCTC 1 cut(s) 86
BfaI CTAG 1 cut(s) 428
BglI GCCNNNNNGGC 1 cut(s) 58
BisI GCNGC 2 cut(s) 84, 132
BlsI GCNGC 2 cut(s) 85, 133
Bme1390I CCNGG 1 cut(s) 54
BmiI GGNNCC 1 cut(s) 282
BmrFI CCNGG 1 cut(s) 54
BmsI GCATC 1 cut(s) 438
BsaJI CCNNGG 3 cut(s) 315, 364, 438
Bsc4I CCNNNNNNNGG 1 cut(s) 277
Bse1I ACTGG 2 cut(s) 261, 378
BseBI CCWGG 1 cut(s) 54
BseDI CCNNGG 3 cut(s) 315, 364, 438
BseLI CCNNNNNNNGG 1 cut(s) 277
BseMII CTCAG 1 cut(s) 435
BseNI ACTGG 2 cut(s) 261, 378
BseXI GCAGC 1 cut(s) 118
BsgI GTGCAG 1 cut(s) 257
BshFI GGCC 3 cut(s) 86, 167, 260
BsiHKAI GWGCWC 1 cut(s) 314
BslI CCNNNNNNNGG 1 cut(s) 277
BsmAI GTCTC 1 cut(s) 86
BsmI GAATGC 1 cut(s) 391
BsnI GGCC 3 cut(s) 86, 167, 260
Bsp1286I GDGCHC 1 cut(s) 314
Bsp143I GATC 1 cut(s) 280
Bsp19I CCATGG 1 cut(s) 364
BspACI CCGC 1 cut(s) 83
BspANI GGCC 3 cut(s) 86, 167, 260
BspCNI CTCAG 1 cut(s) 436
BspLI GGNNCC 1 cut(s) 282
BspPI GGATC 2 cut(s) 275, 288
BsrI ACTGG 2 cut(s) 261, 378
BssECI CCNNGG 3 cut(s) 315, 364, 438
BssMI GATC 1 cut(s) 280
BssT1I CCWWGG 2 cut(s) 364, 438
Bst2UI CCWGG 1 cut(s) 54
Bst4CI ACNGT 1 cut(s) 405
BstDEI CTNAG 1 cut(s) 444
BstDSI CCRYGG 1 cut(s) 364
BstKTI GATC 1 cut(s) 283
BstMAI GTCTC 1 cut(s) 86
BstMBI GATC 1 cut(s) 280
BstMWI GCNNNNNNNGC 1 cut(s) 58
BstNI CCWGG 1 cut(s) 54
BstSCI CCNGG 1 cut(s) 52
BstV1I GCAGC 1 cut(s) 118
BstX2I RGATCY 1 cut(s) 280
BstYI RGATCY 1 cut(s) 280
BsuRI GGCC 3 cut(s) 86, 167, 260
BtgI CCRYGG 1 cut(s) 364
CviAII CATG 3 cut(s) 68, 341, 365
CviJI RGCY 7 cut(s) 86, 167, 187, 260, 377, 426, 443
CviKI_1 RGCY 7 cut(s) 86, 167, 187, 260, 377, 426, 443
DdeI CTNAG 1 cut(s) 444
DpnI GATC 1 cut(s) 282
DpnII GATC 1 cut(s) 280
Eco130I CCWWGG 2 cut(s) 364, 438
Eco147I AGGCCT 1 cut(s) 167
Eco57I CTGAAG 1 cut(s) 215
EcoRII CCWGG 1 cut(s) 52
EcoT14I CCWWGG 2 cut(s) 364, 438
ErhI CCWWGG 2 cut(s) 364, 438
FaeI CATG 3 cut(s) 71, 344, 368
FaiI YATR 8 cut(s) 63, 65, 69, 174, 295, 342, 350, 366
FatI CATG 3 cut(s) 67, 340, 364
Fnu4HI GCNGC 2 cut(s) 84, 132
Fsp4HI GCNGC 2 cut(s) 84, 132
FspBI CTAG 1 cut(s) 428
GluI GCNGC 2 cut(s) 84, 132
HaeIII GGCC 3 cut(s) 86, 167, 260
Hin1II CATG 3 cut(s) 71, 344, 368
Hpy188I TCNGA 1 cut(s) 316
Hpy188III TCNNGA 1 cut(s) 193
HpyAV CCTTC 1 cut(s) 281
HpyCH4III ACNGT 1 cut(s) 405
HpyCH4IV ACGT 1 cut(s) 75
HpyCH4V TGCA 7 cut(s) 134, 224, 238, 344, 389, 416, 451
HpyF10VI GCNNNNNNNGC 1 cut(s) 58
HpyF3I CTNAG 1 cut(s) 444
HpySE526I ACGT 1 cut(s) 75
Hsp92II CATG 3 cut(s) 71, 344, 368
Kzo9I GATC 1 cut(s) 280
LmnI GCTCC 1 cut(s) 317
LpnPI CCDG 7 cut(s) 39, 66, 105, 206, 242, 391, 437
Lsp1109I GCAGC 1 cut(s) 118
LweI GCATC 1 cut(s) 438
MaeI CTAG 1 cut(s) 428
MaeII ACGT 1 cut(s) 75
MaeIII GTNAC 1 cut(s) 405
MalI GATC 1 cut(s) 282
MboI GATC 1 cut(s) 280
MboII GAAGA 3 cut(s) 208, 211, 296
MflI RGATCY 1 cut(s) 280
MhlI GDGCHC 1 cut(s) 314
MluCI AATT 1 cut(s) 115
MmeI TCCRAC 1 cut(s) 132
MnlI CCTC 3 cut(s) 243, 310, 448
MseI TTAA 1 cut(s) 146
MslI CAYNNNNRTG 1 cut(s) 66
MspR9I CCNGG 1 cut(s) 54
Mva1269I GAATGC 1 cut(s) 391
MvaI CCWGG 1 cut(s) 54
MwoI GCNNNNNNNGC 1 cut(s) 58
NcoI CCATGG 1 cut(s) 364
NdeII GATC 1 cut(s) 280
NlaIII CATG 3 cut(s) 71, 344, 368
NlaIV GGNNCC 1 cut(s) 282
PceI AGGCCT 1 cut(s) 167
PctI GAATGC 1 cut(s) 391
PkrI GCNGC 2 cut(s) 85, 133
Psp6I CCWGG 1 cut(s) 52
PspGI CCWGG 1 cut(s) 52
PspN4I GGNNCC 1 cut(s) 282
PsuI RGATCY 1 cut(s) 280
RseI CAYNNNNRTG 1 cut(s) 66
SaqAI TTAA 1 cut(s) 146
SatI GCNGC 2 cut(s) 84, 132
Sau3AI GATC 1 cut(s) 280
ScrFI CCNGG 1 cut(s) 54
SduI GDGCHC 1 cut(s) 314
SetI ASST 4 cut(s) 24, 78, 273, 459
SfaNI GCATC 1 cut(s) 438
SmiMI CAYNNNNRTG 1 cut(s) 66
Sse9I AATT 1 cut(s) 115
SseBI AGGCCT 1 cut(s) 167
SsiI CCGC 1 cut(s) 83
SspMI CTAG 1 cut(s) 428
StuI AGGCCT 1 cut(s) 167
StyD4I CCNGG 1 cut(s) 52
StyI CCWWGG 2 cut(s) 364, 438
TaaI ACNGT 1 cut(s) 405
TaiI ACGT 1 cut(s) 78
TasI AATT 1 cut(s) 115
TauI GCSGC 1 cut(s) 86
Tru1I TTAA 1 cut(s) 146
Tru9I TTAA 1 cut(s) 146
TseI GCWGC 1 cut(s) 131
TspDTI ATGAA 1 cut(s) 17
XapI RAATTY 1 cut(s) 115
XspI CTAG 1 cut(s) 428
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.