RchiOBHm_Chr3g0484471

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0000890
Physical Location & Seq
Reverse (-)
30815622 .. 30820410
4789 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ44918

Sequence Viewer

Length: 522 bp
ATGCTGCATTGGACCATGCCTCCTCTGAACTGGTGCAAGCTGAATATTGATGGCGCAAAAGAGCGGAGTGGAAAGATTGGTGCTGGTGGGGTTCTCAGGGATTCTTCTGAATCTTGGATTTCTGGGTTCACTGCTAATTTAGGTTGTGGCAGTGTTATTCAAGCTGAGGCCTGGGGTTTGTTATTGGGGCTTAGAATGTCTGTCATTGCTCATTGCCAAAAGATCATTATTGAAAGTGACTCTGATATACTTGTCACTTTAGTGAATCAAGAAGTGGATGAACTGCATCCTTTGAAATCCATTATAAATAGTTTCCAGTACTTGATGCAGAAGTTTGTGAGCTGTGAAGTGAAGCATGTTTTCCGAGAAATTAACATGGTTGCTGACATGCTATCCAAGTGTAGCCTTACTGAGGATTTGGGTGTGCATTTCATGGAGCAACCTCCTCAGCAAGTTATCAATCTCCTTCTTGACGACTTTTGTGAAAGTCCTAAGTTTAGGACCGTAGTCTCTCATATGTAG
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

173

Amino Acids

19.39

Weight (kDa)

5.44

Isoelectric Point (pI)

38.49

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 15 - 133 3.8e-24 Reverse transcriptase-like
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: OG0000890)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G42905
fragaria_vesca FvH4_1g15070 FvH4_1g21661 FvH4_1g24182 FvH4_2g15861 FvH4_7g26563
prunus_persica Prupe.1G097800_v2.0.a1 Prupe.1G446500_v2.0.a1 Prupe.4G161900_v2.0.a1 Prupe.5G085900_v2.0.a1 Prupe.6G118100_v2.0.a1 Prupe.6G201000_v2.0.a1 Prupe.7G199700_v2.0.a1
pyrus_communis pycom07g22740 pycom15g37390 pycom420g00480 pycom420g00490
rosa_chinensis RchiOBHm_Chr1g0319821 RchiOBHm_Chr1g0331331 RchiOBHm_Chr2g0144631 RchiOBHm_Chr2g0146161 RchiOBHm_Chr2g0152401 RchiOBHm_Chr3g0484381 RchiOBHm_Chr3g0484471 RchiOBHm_Chr3g0494391 RchiOBHm_Chr4g0411801 RchiOBHm_Chr4g0426191 RchiOBHm_Chr5g0016411 RchiOBHm_Chr5g0074971 RchiOBHm_Chr6g0262791 RchiOBHm_Chr6g0272021 RchiOBHm_Chr7g0181271 RchiOBHm_Chr7g0224511 RchiOBHm_Chr7g0225251
rosa_laevigata RLG00000017287
rosa_multiflora Rmu_co8215414.1_g000001 Rmu_sc0001850.1_g000028 Rmu_sc0002132.1_g000045 Rmu_sc0003623.1_g000032 Rmu_sc0003826.1_g000010 Rmu_sc0004165.1_g000032 Rmu_sc0004805.1_g000052 Rmu_sc0005837.1_g000007 Rmu_sc0011261.1_g000003 Rmu_sc0012066.1_g000001 Rmu_sc0021240.1_g000002 Rmu_sc0028377.1_g000003 Rmu_ssc0000454.1_g000003
rosa_roxburghii Rroxscaffold_177G00434230 Rroxscaffold_180G00433210 Rroxscaffold_1G00050960 Rroxscaffold_2G00112540 Rroxscaffold_7G00172420
rosa_rugosa Rorug02G0446000 Rorug03G0370600 Rorug04G0217600.1 Rorug07G0160200 Rorug07G0292300.1
rosa_samantha Rh3AG161100 Rh5AG403600 Rh5CG315600 Rh5CG315800 Rh6BG408500 Rh7CG313500
rosa_wichuraiana Rw4G023910

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 305
AccBSI CCGCTC 1 cut(s) 64
AciI CCGC 1 cut(s) 64
AfaI GTAC 1 cut(s) 320
AfiI CCNNNNNNNGG 1 cut(s) 412
AgsI TTSAA 3 cut(s) 161, 233, 295
AjnI CCWGG 1 cut(s) 170
AleI CACNNNNGTG 1 cut(s) 260
AluBI AGCT 3 cut(s) 40, 164, 342
AluI AGCT 3 cut(s) 40, 164, 342
Alw26I GTCTC 1 cut(s) 514
AoxI GGCC 1 cut(s) 168
ApeKI GCWGC 1 cut(s) 4
AspLEI GCGC 1 cut(s) 56
AspS9I GGNCC 2 cut(s) 12, 501
AvaII GGWCC 2 cut(s) 12, 501
BbvCI CCTCAGC 2 cut(s) 165, 447
BccI CCATC 1 cut(s) 44
BciT130I CCWGG 1 cut(s) 172
BcoDI GTCTC 1 cut(s) 514
BisI GCNGC 1 cut(s) 5
BlsI GCNGC 1 cut(s) 6
BmcAI AGTACT 1 cut(s) 320
Bme1390I CCNGG 1 cut(s) 172
Bme18I GGWCC 2 cut(s) 12, 501
BmgT120I GGNCC 2 cut(s) 12, 501
BmrFI CCNGG 1 cut(s) 172
BmsI GCATC 2 cut(s) 295, 315
BoxI GACNNNNGTC 1 cut(s) 506
Bpu10I CCTNAGC 2 cut(s) 165, 447
BsaJI CCNNGG 1 cut(s) 171
BsaXI ACNNNNNCTCC 1 cut(s) 34
Bsc4I CCNNNNNNNGG 1 cut(s) 412
Bse1I ACTGG 2 cut(s) 35, 316
Bse3DI GCAATG 2 cut(s) 204, 211
BseBI CCWGG 1 cut(s) 172
BseDI CCNNGG 1 cut(s) 171
BseGI GGATG 2 cut(s) 283, 286
BseLI CCNNNNNNNGG 1 cut(s) 412
BseMI GCAATG 2 cut(s) 204, 211
BseMII CTCAG 4 cut(s) 109, 156, 402, 461
BseNI ACTGG 2 cut(s) 35, 316
BseRI GAGGAG 2 cut(s) 12, 435
BshFI GGCC 1 cut(s) 170
BslI CCNNNNNNNGG 1 cut(s) 412
BsmAI GTCTC 1 cut(s) 514
BsnI GGCC 1 cut(s) 170
Bsp143I GATC 1 cut(s) 222
BspACI CCGC 1 cut(s) 64
BspANI GGCC 1 cut(s) 170
BspCNI CTCAG 4 cut(s) 108, 157, 403, 460
BsrBI CCGCTC 1 cut(s) 64
BsrDI GCAATG 2 cut(s) 204, 211
BsrI ACTGG 2 cut(s) 35, 316
BssECI CCNNGG 1 cut(s) 171
BssMI GATC 1 cut(s) 222
Bst2UI CCWGG 1 cut(s) 172
Bst4CI ACNGT 1 cut(s) 505
BstC8I GCNNGC 1 cut(s) 38
BstDEI CTNAG 6 cut(s) 95, 165, 191, 411, 447, 492
BstENI CCTNNNNNAGG 1 cut(s) 410
BstF5I GGATG 2 cut(s) 283, 286
BstHHI GCGC 1 cut(s) 56
BstKTI GATC 1 cut(s) 225
BstMAI GTCTC 1 cut(s) 514
BstMBI GATC 1 cut(s) 222
BstNI CCWGG 1 cut(s) 172
BstNSI RCATGY 2 cut(s) 359, 391
BstPAI GACNNNNGTC 1 cut(s) 506
BstSCI CCNGG 1 cut(s) 170
BsuRI GGCC 1 cut(s) 170
BtsCI GGATG 2 cut(s) 283, 286
BtsI GCAGTG 2 cut(s) 129, 157
BtsIMutI CAGTG 2 cut(s) 129, 157
Cac8I GCNNGC 1 cut(s) 38
CfoI GCGC 1 cut(s) 56
Cfr13I GGNCC 2 cut(s) 12, 501
Csp6I GTAC 1 cut(s) 319
CviAII CATG 5 cut(s) 16, 356, 376, 388, 433
CviJI RGCY 6 cut(s) 40, 164, 170, 190, 342, 405
CviKI_1 RGCY 6 cut(s) 40, 164, 170, 190, 342, 405
CviQI GTAC 1 cut(s) 319
DdeI CTNAG 6 cut(s) 95, 165, 191, 411, 447, 492
DpnI GATC 1 cut(s) 224
DpnII GATC 1 cut(s) 222
Eco147I AGGCCT 1 cut(s) 170
Eco47I GGWCC 2 cut(s) 12, 501
EcoNI CCTNNNNNAGG 1 cut(s) 410
EcoRII CCWGG 1 cut(s) 170
FaeI CATG 5 cut(s) 19, 359, 379, 391, 436
FaiI YATR 9 cut(s) 17, 248, 305, 357, 377, 389, 434, 516, 518
FatI CATG 5 cut(s) 15, 355, 375, 387, 432
FauNDI CATATG 1 cut(s) 516
Fnu4HI GCNGC 1 cut(s) 5
FokI GGATG 2 cut(s) 273, 290
Fsp4HI GCNGC 1 cut(s) 5
GlaI GCGC 1 cut(s) 55
GluI GCNGC 1 cut(s) 5
HaeIII GGCC 1 cut(s) 170
HhaI GCGC 1 cut(s) 56
Hin1II CATG 5 cut(s) 19, 359, 379, 391, 436
Hin6I GCGC 1 cut(s) 54
HinP1I GCGC 1 cut(s) 54
HinfI GANTC 4 cut(s) 101, 110, 239, 265
Hpy166II GTNNAC 1 cut(s) 129
Hpy188I TCNGA 4 cut(s) 27, 109, 244, 365
Hpy188III TCNNGA 2 cut(s) 269, 470
Hpy8I GTNNAC 1 cut(s) 129
HpyAV CCTTC 1 cut(s) 476
HpyCH4III ACNGT 1 cut(s) 505
HpyCH4V TGCA 5 cut(s) 7, 36, 286, 328, 427
HpyF3I CTNAG 6 cut(s) 95, 165, 191, 411, 447, 492
Hsp92II CATG 5 cut(s) 19, 359, 379, 391, 436
HspAI GCGC 1 cut(s) 54
Kzo9I GATC 1 cut(s) 222
LmnI GCTCC 1 cut(s) 436
LpnPI CCDG 7 cut(s) 16, 69, 82, 108, 157, 184, 329
LweI GCATC 2 cut(s) 295, 315
MaeIII GTNAC 2 cut(s) 236, 253
MalI GATC 1 cut(s) 224
MbiI CCGCTC 1 cut(s) 64
MboI GATC 1 cut(s) 222
MboII GAAGA 1 cut(s) 96
MluCI AATT 2 cut(s) 136, 369
MlyI GAGTC 1 cut(s) 233
MnlI CCTC 6 cut(s) 30, 33, 160, 406, 453, 456
MseI TTAA 1 cut(s) 372
MslI CAYNNNNRTG 1 cut(s) 260
MspR9I CCNGG 1 cut(s) 172
MvaI CCWGG 1 cut(s) 172
NdeI CATATG 1 cut(s) 516
NdeII GATC 1 cut(s) 222
NlaIII CATG 5 cut(s) 19, 359, 379, 391, 436
NmuCI GTSAC 2 cut(s) 236, 253
NspI RCATGY 2 cut(s) 359, 391
OliI CACNNNNGTG 1 cut(s) 260
PceI AGGCCT 1 cut(s) 170
PfeI GAWTC 3 cut(s) 101, 110, 265
PkrI GCNGC 1 cut(s) 6
PleI GAGTC 1 cut(s) 233
PpsI GAGTC 1 cut(s) 233
PshAI GACNNNNGTC 1 cut(s) 506
PsiI TTATAA 1 cut(s) 305
Psp6I CCWGG 1 cut(s) 170
PspGI CCWGG 1 cut(s) 170
PspPI GGNCC 2 cut(s) 12, 501
RsaI GTAC 1 cut(s) 320
RsaNI GTAC 1 cut(s) 319
RseI CAYNNNNRTG 1 cut(s) 260
SaqAI TTAA 1 cut(s) 372
SatI GCNGC 1 cut(s) 5
Sau3AI GATC 1 cut(s) 222
Sau96I GGNCC 2 cut(s) 12, 501
ScaI AGTACT 1 cut(s) 320
SchI GAGTC 1 cut(s) 233
ScrFI CCNGG 1 cut(s) 172
SetI ASST 5 cut(s) 42, 145, 166, 344, 445
SfaNI GCATC 2 cut(s) 295, 315
SinI GGWCC 2 cut(s) 12, 501
SmiMI CAYNNNNRTG 1 cut(s) 260
Sse9I AATT 2 cut(s) 136, 369
SseBI AGGCCT 1 cut(s) 170
SsiI CCGC 1 cut(s) 64
SspI AATATT 1 cut(s) 46
StuI AGGCCT 1 cut(s) 170
StyD4I CCNGG 1 cut(s) 170
TaaI ACNGT 1 cut(s) 505
TasI AATT 2 cut(s) 136, 369
TatI WGTACW 1 cut(s) 318
TfiI GAWTC 3 cut(s) 101, 110, 265
Tru1I TTAA 1 cut(s) 372
Tru9I TTAA 1 cut(s) 372
TscAI CASTG 2 cut(s) 136, 157
TseFI GTSAC 2 cut(s) 236, 253
TseI GCWGC 1 cut(s) 4
Tsp45I GTSAC 2 cut(s) 236, 253
TspDTI ATGAA 2 cut(s) 294, 421
TspRI CASTG 2 cut(s) 136, 157
VpaK11BI GGWCC 2 cut(s) 12, 501
XagI CCTNNNNNAGG 1 cut(s) 410
XceI RCATGY 2 cut(s) 359, 391
ZrmI AGTACT 1 cut(s) 320
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.