RchiOBHm_Chr3g0484381

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0000890
Physical Location & Seq
Reverse (-)
30748468 .. 30755621
7154 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ44909

Sequence Viewer

Length: 819 bp
ATGGGGTGCTACTTTGACTGGATCATTTGTTTGGATACCATTACTAGAGCTATGCATCTGGATTGGATGAGCTGGTTGGCAGCAAATATTCGATGCAAGAGAACTTGTTATGGAGAGTTAAATTGGTGTATTGTCTTTCTTTTTGCTTGCTGGTACATCTGGAAGTGGAGGAATAAGATTATTTTCGATGAGGAGTTTCATTATCCAATTAATCCCAGCAATCTGATCATTGACGCTACTAAGGAGTGGAGCTCAACCACCTCAAAGAATTTAATTCTTGGCCAAGAGACTACTATTATGCTGCATTGGACCATGCCTCCTCTGAACTGGTGCAAGCTGAATATTGATGGCGCAAAAGAGCGGAGTGGAAAGATTGGTGCTGGTGGGGTTCTCAGGGATTCTTCTGAATCTTGGATTTCTGGGTTCACTGCTAATTTAGGTTGTGGCAGTGTTATTCAAGCTGAGGCCTGGGGTTTGTTATTGGGGCTTAGAATGTCTGTCATTGCTCATTGCCAAAAGATCATTATTGAAAGTGACTCTGATATACTTGTCACTTTAGTGAATCAAGAAGTGGATGAACTGCATCCTTTGAAATCCATTATAAATAGTTTCCAGTACTTGATGCAGAAGTTTGTGAGCTGTGAAGTGAAGCATGTTTTCCGAGAAATTAACATGGTTGCTGACATGCTATCCAAGTGTAGCCTTACTGAGGATTTGGGTGTGCATTTCATGGAGCAACCTCCTCAGCAAGTTATCAATCTCCTTCTTGACGACTTTTGTGAAAGTCCTAAGTTTAGGACCGTAGTCTCTCATATGTAG
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

272

Amino Acids

31.3

Weight (kDa)

5.61

Isoelectric Point (pI)

44.7

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 114 - 232 1.3e-23 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) 602
AccBSI CCGCTC 1 cut(s) 361
AciI CCGC 1 cut(s) 361
AclWI GGATC 1 cut(s) 29
AcoI YGGCCR 1 cut(s) 280
AcsI RAATTY 1 cut(s) 268
AfaI GTAC 2 cut(s) 155, 617
AfiI CCNNNNNNNGG 1 cut(s) 709
AgsI TTSAA 3 cut(s) 458, 530, 592
AjnI CCWGG 1 cut(s) 467
AleI CACNNNNGTG 1 cut(s) 557
AluBI AGCT 6 cut(s) 50, 72, 252, 337, 461, 639
AluI AGCT 6 cut(s) 50, 72, 252, 337, 461, 639
Alw21I GWGCWC 1 cut(s) 254
Alw26I GTCTC 2 cut(s) 281, 811
AlwI GGATC 1 cut(s) 29
AoxI GGCC 2 cut(s) 280, 465
ApeKI GCWGC 2 cut(s) 80, 301
ApoI RAATTY 1 cut(s) 268
AseI ATTAAT 1 cut(s) 210
AspLEI GCGC 1 cut(s) 353
AspS9I GGNCC 2 cut(s) 309, 798
AvaII GGWCC 2 cut(s) 309, 798
BalI TGGCCA 1 cut(s) 282
BanII GRGCYC 1 cut(s) 254
Bbv12I GWGCWC 1 cut(s) 254
BbvCI CCTCAGC 2 cut(s) 462, 744
BbvI GCAGC 2 cut(s) 92, 288
BccI CCATC 1 cut(s) 341
BciT130I CCWGG 1 cut(s) 469
BciVI GTATCC 1 cut(s) 28
BclI TGATCA 1 cut(s) 225
BcoDI GTCTC 2 cut(s) 281, 811
BfaI CTAG 1 cut(s) 45
BfuI GTATCC 1 cut(s) 28
BisI GCNGC 2 cut(s) 81, 302
BlsI GCNGC 2 cut(s) 82, 303
BmcAI AGTACT 1 cut(s) 617
Bme1390I CCNGG 1 cut(s) 469
Bme18I GGWCC 2 cut(s) 309, 798
BmgT120I GGNCC 2 cut(s) 309, 798
BmrFI CCNGG 1 cut(s) 469
BmsI GCATC 4 cut(s) 64, 83, 592, 612
BoxI GACNNNNGTC 1 cut(s) 803
BplI GAGNNNNNCTC 2 cut(s) 236, 268
Bpu10I CCTNAGC 2 cut(s) 462, 744
BsaJI CCNNGG 1 cut(s) 468
BsaXI ACNNNNNCTCC 2 cut(s) 301, 331
Bsc4I CCNNNNNNNGG 1 cut(s) 709
Bse1I ACTGG 3 cut(s) 23, 332, 613
Bse3DI GCAATG 2 cut(s) 501, 508
BseBI CCWGG 1 cut(s) 469
BseDI CCNNGG 1 cut(s) 468
BseGI GGATG 3 cut(s) 72, 580, 583
BseLI CCNNNNNNNGG 1 cut(s) 709
BseMI GCAATG 2 cut(s) 501, 508
BseMII CTCAG 4 cut(s) 406, 453, 699, 758
BseNI ACTGG 3 cut(s) 23, 332, 613
BseRI GAGGAG 3 cut(s) 206, 309, 732
BseXI GCAGC 2 cut(s) 92, 288
BseYI CCCAGC 1 cut(s) 215
BshFI GGCC 2 cut(s) 282, 467
BsiHKAI GWGCWC 1 cut(s) 254
BslI CCNNNNNNNGG 1 cut(s) 709
BsmAI GTCTC 2 cut(s) 281, 811
BsnI GGCC 2 cut(s) 282, 467
Bsp1286I GDGCHC 1 cut(s) 254
Bsp143I GATC 3 cut(s) 21, 225, 519
BspACI CCGC 1 cut(s) 361
BspANI GGCC 2 cut(s) 282, 467
BspCNI CTCAG 4 cut(s) 405, 454, 700, 757
BspPI GGATC 1 cut(s) 29
BsrBI CCGCTC 1 cut(s) 361
BsrDI GCAATG 2 cut(s) 501, 508
BsrI ACTGG 3 cut(s) 23, 332, 613
BssECI CCNNGG 1 cut(s) 468
BssMI GATC 3 cut(s) 21, 225, 519
Bst2UI CCWGG 1 cut(s) 469
Bst4CI ACNGT 1 cut(s) 802
BstC8I GCNNGC 2 cut(s) 148, 335
BstDEI CTNAG 7 cut(s) 240, 392, 462, 488, 708, 744, 789
BstENI CCTNNNNNAGG 1 cut(s) 707
BstF5I GGATG 3 cut(s) 72, 580, 583
BstHHI GCGC 1 cut(s) 353
BstKTI GATC 3 cut(s) 24, 228, 522
BstMAI GTCTC 2 cut(s) 281, 811
BstMBI GATC 3 cut(s) 21, 225, 519
BstNI CCWGG 1 cut(s) 469
BstNSI RCATGY 2 cut(s) 656, 688
BstPAI GACNNNNGTC 1 cut(s) 803
BstSCI CCNGG 1 cut(s) 467
BstV1I GCAGC 2 cut(s) 92, 288
BsuI GTATCC 1 cut(s) 28
BsuRI GGCC 2 cut(s) 282, 467
BtsCI GGATG 3 cut(s) 72, 580, 583
BtsI GCAGTG 2 cut(s) 426, 454
BtsIMutI CAGTG 2 cut(s) 426, 454
Cac8I GCNNGC 2 cut(s) 148, 335
CfoI GCGC 1 cut(s) 353
Cfr13I GGNCC 2 cut(s) 309, 798
CseI GACGC 1 cut(s) 242
Csp6I GTAC 2 cut(s) 154, 616
CviAII CATG 5 cut(s) 313, 653, 673, 685, 730
CviQI GTAC 2 cut(s) 154, 616
DdeI CTNAG 7 cut(s) 240, 392, 462, 488, 708, 744, 789
DpnI GATC 3 cut(s) 23, 227, 521
DpnII GATC 3 cut(s) 21, 225, 519
EaeI YGGCCR 1 cut(s) 280
Ecl136II GAGCTC 1 cut(s) 252
Eco147I AGGCCT 1 cut(s) 467
Eco24I GRGCYC 1 cut(s) 254
Eco47I GGWCC 2 cut(s) 309, 798
Eco53kI GAGCTC 1 cut(s) 252
EcoICRI GAGCTC 1 cut(s) 252
EcoNI CCTNNNNNAGG 1 cut(s) 707
EcoRII CCWGG 1 cut(s) 467
EcoT22I ATGCAT 1 cut(s) 57
EcoT38I GRGCYC 1 cut(s) 254
FaeI CATG 5 cut(s) 316, 656, 676, 688, 733
FatI CATG 5 cut(s) 312, 652, 672, 684, 729
FauNDI CATATG 1 cut(s) 813
FbaI TGATCA 1 cut(s) 225
Fnu4HI GCNGC 2 cut(s) 81, 302
FokI GGATG 3 cut(s) 79, 570, 587
FriOI GRGCYC 1 cut(s) 254
Fsp4HI GCNGC 2 cut(s) 81, 302
FspBI CTAG 1 cut(s) 45
GlaI GCGC 1 cut(s) 352
GluI GCNGC 2 cut(s) 81, 302
GsaI CCCAGC 1 cut(s) 219
HaeIII GGCC 2 cut(s) 282, 467
HgaI GACGC 1 cut(s) 242
HhaI GCGC 1 cut(s) 353
Hin1II CATG 5 cut(s) 316, 656, 676, 688, 733
Hin6I GCGC 1 cut(s) 351
HinP1I GCGC 1 cut(s) 351
HinfI GANTC 4 cut(s) 398, 407, 536, 562
Hpy166II GTNNAC 1 cut(s) 426
Hpy188I TCNGA 5 cut(s) 225, 324, 406, 541, 662
Hpy188III TCNNGA 4 cut(s) 59, 160, 566, 767
Hpy8I GTNNAC 1 cut(s) 426
HpyAV CCTTC 1 cut(s) 773
HpyCH4III ACNGT 1 cut(s) 802
HpyCH4V TGCA 7 cut(s) 55, 96, 304, 333, 583, 625, 724
HpyF3I CTNAG 7 cut(s) 240, 392, 462, 488, 708, 744, 789
Hsp92II CATG 5 cut(s) 316, 656, 676, 688, 733
HspAI GCGC 1 cut(s) 351
Ksp22I TGATCA 1 cut(s) 225
Kzo9I GATC 3 cut(s) 21, 225, 519
LmnI GCTCC 2 cut(s) 249, 733
Lsp1109I GCAGC 2 cut(s) 92, 288
LweI GCATC 4 cut(s) 64, 83, 592, 612
MaeI CTAG 1 cut(s) 45
MaeIII GTNAC 2 cut(s) 533, 550
MalI GATC 3 cut(s) 23, 227, 521
MbiI CCGCTC 1 cut(s) 361
MboI GATC 3 cut(s) 21, 225, 519
MboII GAAGA 1 cut(s) 393
MhlI GDGCHC 1 cut(s) 254
MlsI TGGCCA 1 cut(s) 282
MluCI AATT 6 cut(s) 121, 207, 268, 273, 433, 666
MluNI TGGCCA 1 cut(s) 282
MlyI GAGTC 1 cut(s) 530
MnlI CCTC 9 cut(s) 162, 184, 271, 327, 330, 457, 703, 750, 753
Mox20I TGGCCA 1 cut(s) 282
Mph1103I ATGCAT 1 cut(s) 57
MscI TGGCCA 1 cut(s) 282
MseI TTAA 4 cut(s) 119, 210, 272, 669
MslI CAYNNNNRTG 1 cut(s) 557
Msp20I TGGCCA 1 cut(s) 282
MspR9I CCNGG 1 cut(s) 469
MvaI CCWGG 1 cut(s) 469
NdeI CATATG 1 cut(s) 813
NdeII GATC 3 cut(s) 21, 225, 519
NlaIII CATG 5 cut(s) 316, 656, 676, 688, 733
NmuCI GTSAC 2 cut(s) 533, 550
NsiI ATGCAT 1 cut(s) 57
NspI RCATGY 2 cut(s) 656, 688
OliI CACNNNNGTG 1 cut(s) 557
PceI AGGCCT 1 cut(s) 467
PfeI GAWTC 3 cut(s) 398, 407, 562
PkrI GCNGC 2 cut(s) 82, 303
PleI GAGTC 1 cut(s) 530
PpsI GAGTC 1 cut(s) 530
PshAI GACNNNNGTC 1 cut(s) 803
PshBI ATTAAT 1 cut(s) 210
PsiI TTATAA 1 cut(s) 602
Psp124BI GAGCTC 1 cut(s) 254
Psp6I CCWGG 1 cut(s) 467
PspFI CCCAGC 1 cut(s) 215
PspGI CCWGG 1 cut(s) 467
PspPI GGNCC 2 cut(s) 309, 798
RsaI GTAC 2 cut(s) 155, 617
RsaNI GTAC 2 cut(s) 154, 616
RseI CAYNNNNRTG 1 cut(s) 557
SacI GAGCTC 1 cut(s) 254
SaqAI TTAA 4 cut(s) 119, 210, 272, 669
SatI GCNGC 2 cut(s) 81, 302
Sau3AI GATC 3 cut(s) 21, 225, 519
Sau96I GGNCC 2 cut(s) 309, 798
ScaI AGTACT 1 cut(s) 617
SchI GAGTC 1 cut(s) 530
ScrFI CCNGG 1 cut(s) 469
SduI GDGCHC 1 cut(s) 254
SetI ASST 9 cut(s) 52, 74, 254, 263, 339, 442, 463, 641, 742
SfaNI GCATC 4 cut(s) 64, 83, 592, 612
SinI GGWCC 2 cut(s) 309, 798
SmiMI CAYNNNNRTG 1 cut(s) 557
Sse9I AATT 6 cut(s) 121, 207, 268, 273, 433, 666
SseBI AGGCCT 1 cut(s) 467
SsiI CCGC 1 cut(s) 361
SspI AATATT 2 cut(s) 88, 343
SspMI CTAG 1 cut(s) 45
SstI GAGCTC 1 cut(s) 254
StuI AGGCCT 1 cut(s) 467
StyD4I CCNGG 1 cut(s) 467
TaaI ACNGT 1 cut(s) 802
TaqI TCGA 2 cut(s) 91, 186
TasI AATT 6 cut(s) 121, 207, 268, 273, 433, 666
TatI WGTACW 1 cut(s) 615
TfiI GAWTC 3 cut(s) 398, 407, 562
Tru1I TTAA 4 cut(s) 119, 210, 272, 669
Tru9I TTAA 4 cut(s) 119, 210, 272, 669
TscAI CASTG 2 cut(s) 433, 454
TseFI GTSAC 2 cut(s) 533, 550
TseI GCWGC 2 cut(s) 80, 301
Tsp45I GTSAC 2 cut(s) 533, 550
TspDTI ATGAA 3 cut(s) 188, 591, 718
TspRI CASTG 2 cut(s) 433, 454
VpaK11BI GGWCC 2 cut(s) 309, 798
VspI ATTAAT 1 cut(s) 210
XagI CCTNNNNNAGG 1 cut(s) 707
XapI RAATTY 1 cut(s) 268
XceI RCATGY 2 cut(s) 656, 688
XspI CTAG 1 cut(s) 45
ZrmI AGTACT 1 cut(s) 617
Zsp2I ATGCAT 1 cut(s) 57
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.