RchiOBHm_Chr5g0031901

RNA exonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0013135
Physical Location & Seq
Forward (+)
25657230 .. 25661249
4020 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ31111

Sequence Viewer

Length: 798 bp
ATGAAAAAGAAAGCTACGCAGTTTCAACTAAACCCCAACTGGGCTCAATTCCAAGAAGCGCTCAAGAGCCAGCCAAAGCCTTCCAGACCCTTCAACAACTCTGACTCTAAAACCCCAAAAACCATCTTAGGGAAACGGAAAGAGAGAGTGGATGATTCTCCGTCTCTTTTGAATGTTCTAGAACCTGTTAATGATGATTGCAGTGTGACAGATGAAATAGCCATGGATTGTGAAATGGTCGGTGTCGGTCTAGGAAATAAAAGTGCCCTTGGACGAGTTACACTGATAAATAAATGGGGGAACGTTATATATGACGAGTTTGTTCGCCCAGTAGAACGTGTTGTTGATTTCCGAACTCAAATAAGTGGCATTCGTTCCTGGGACTTGCGAAAAGCAAAGGATTTTCGGATAGTTCAGAAAAGAGTGGCAGAGCTGATTAAAGGACGAATTCTTGTGGGTCATGCATTACGCAATGATCTGAAGGTGTTACTTCTGAGTCACCCCAAGGAAGACTTGAGAGATACTTCAGTATATCAACCCTTTAAGAGGGACGAAGGATCTGTAAGGGCGCTCCGGCATCTTGCAGCTGAGTTTCTTGGTGTTGAAATCCAAAATGGGGAGCACTGCCCTGTAGAAGATGCCCGTGCTGCGATGCTGCTTTATCAGAAAAACAGACAAGTATGGGAAAAGAACGTTAAACTTCAACTTAGGCTTAAAGAGAAGCAGAAGAAACGCGGCAAGGGGAAAAAGAAGCGGAAGGAGGGGGATGATGTGAAAACTGATCATGCCGAGCATTAA
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
RNase_T

Protein Analysis

265

Amino Acids

30.44

Weight (kDa)

9.75

Isoelectric Point (pI)

32.47

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNase_T PF00929 73 - 221 3.3e-11 Exonuclease
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: OG0013135)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G15080
fragaria_vesca FvH4_3g19101 FvH4_3g19101 FvH4_3g19102
malus_domestica MD03G1236600.v1.1
prunus_persica Prupe.4G172700_v2.0.a1
pyrus_communis pycom03g18260
rosa_chinensis RchiOBHm_Chr5g0031901
rosa_laevigata RLG00000033357
rosa_multiflora Rmu_co8498065.1_g000001
rosa_roxburghii Rroxscaffold_1G00048360
rosa_rugosa Rorug05G0128900 Rorug05G0129000
rosa_samantha Rh5AG223000 Rh5BG223100 Rh5CG246300 Rh5DG228000
rosa_wichuraiana Rw5G020310

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 735
AciI CCGC 2 cut(s) 735, 754
AclI AACGTT 2 cut(s) 303, 693
AclWI GGATC 1 cut(s) 565
AcsI RAATTY 1 cut(s) 447
AcuI CTGAAG 2 cut(s) 500, 510
AfeI AGCGCT 1 cut(s) 60
AfiI CCNNNNNNNGG 4 cut(s) 40, 129, 546, 616
AflIII ACRYGT 1 cut(s) 337
AgsI TTSAA 5 cut(s) 26, 94, 172, 605, 704
AjnI CCWGG 1 cut(s) 377
AluBI AGCT 3 cut(s) 14, 433, 587
AluI AGCT 3 cut(s) 14, 433, 587
Alw21I GWGCWC 1 cut(s) 624
Alw26I GTCTC 1 cut(s) 168
AlwI GGATC 1 cut(s) 565
Aor51HI AGCGCT 1 cut(s) 60
ApeKI GCWGC 3 cut(s) 584, 647, 655
ApoI RAATTY 1 cut(s) 447
AspLEI GCGC 2 cut(s) 61, 571
AsuHPI GGTGA 1 cut(s) 491
BaeGI GKGCMC 1 cut(s) 268
BaeI ACNNNNGTAYC 2 cut(s) 513, 546
BanII GRGCYC 1 cut(s) 46
BbsI GAAGAC 1 cut(s) 516
Bbv12I GWGCWC 1 cut(s) 624
BbvI GCAGC 3 cut(s) 596, 634, 642
BccI CCATC 1 cut(s) 131
BciT130I CCWGG 1 cut(s) 379
BclI TGATCA 1 cut(s) 781
BcoDI GTCTC 1 cut(s) 168
BfaI CTAG 2 cut(s) 179, 251
BfmI CTRYAG 1 cut(s) 630
BfoI RGCGCY 2 cut(s) 62, 572
BisI GCNGC 4 cut(s) 585, 648, 656, 736
BlsI GCNGC 4 cut(s) 586, 649, 657, 737
Bme1390I CCNGG 1 cut(s) 379
BmrFI CCNGG 1 cut(s) 379
BmrI ACTGGG 2 cut(s) 49, 323
BmsI GCATC 3 cut(s) 586, 628, 642
BmuI ACTGGG 2 cut(s) 49, 323
BpiI GAAGAC 1 cut(s) 516
BpuEI CTTGAG 2 cut(s) 47, 535
BsaJI CCNNGG 4 cut(s) 222, 268, 378, 504
Bsc4I CCNNNNNNNGG 4 cut(s) 40, 129, 546, 616
Bse1I ACTGG 2 cut(s) 44, 329
Bse3DI GCAATG 1 cut(s) 478
BseBI CCWGG 1 cut(s) 379
BseDI CCNNGG 4 cut(s) 222, 268, 378, 504
BseGI GGATG 2 cut(s) 157, 772
BseLI CCNNNNNNNGG 4 cut(s) 40, 129, 546, 616
BseMI GCAATG 1 cut(s) 478
BseMII CTCAG 2 cut(s) 485, 579
BseNI ACTGG 2 cut(s) 44, 329
BseSI GKGCMC 1 cut(s) 268
BseXI GCAGC 3 cut(s) 596, 634, 642
Bsh1236I CGCG 1 cut(s) 735
BsiHKAI GWGCWC 1 cut(s) 624
BsiSI CCGG 1 cut(s) 574
BslFI GGGAC 2 cut(s) 395, 563
BslI CCNNNNNNNGG 4 cut(s) 40, 129, 546, 616
BsmAI GTCTC 1 cut(s) 168
BsmBI CGTCTC 1 cut(s) 168
BsmFI GGGAC 2 cut(s) 395, 563
BsmI GAATGC 1 cut(s) 369
Bsp1286I GDGCHC 3 cut(s) 46, 268, 624
Bsp143I GATC 3 cut(s) 475, 557, 781
Bsp19I CCATGG 1 cut(s) 222
BspACI CCGC 2 cut(s) 735, 754
BspCNI CTCAG 2 cut(s) 486, 580
BspFNI CGCG 1 cut(s) 735
BspPI GGATC 1 cut(s) 565
BsrDI GCAATG 1 cut(s) 478
BsrI ACTGG 2 cut(s) 44, 329
BssECI CCNNGG 4 cut(s) 222, 268, 378, 504
BssMI GATC 3 cut(s) 475, 557, 781
BssT1I CCWWGG 3 cut(s) 222, 268, 504
Bst2UI CCWGG 1 cut(s) 379
BstC8I GCNNGC 1 cut(s) 71
BstDEI CTNAG 4 cut(s) 127, 494, 588, 707
BstDSI CCRYGG 1 cut(s) 222
BstENI CCTNNNNNAGG 1 cut(s) 544
BstF5I GGATG 2 cut(s) 157, 772
BstFNI CGCG 1 cut(s) 735
BstH2I RGCGCY 2 cut(s) 62, 572
BstHHI GCGC 2 cut(s) 61, 571
BstKTI GATC 3 cut(s) 478, 560, 784
BstMAI GTCTC 1 cut(s) 168
BstMBI GATC 3 cut(s) 475, 557, 781
BstMWI GCNNNNNNNGC 1 cut(s) 647
BstNI CCWGG 1 cut(s) 379
BstSCI CCNGG 1 cut(s) 377
BstSFI CTRYAG 1 cut(s) 630
BstSLI GKGCMC 1 cut(s) 268
BstUI CGCG 1 cut(s) 735
BstV1I GCAGC 3 cut(s) 596, 634, 642
BstV2I GAAGAC 1 cut(s) 516
BstX2I RGATCY 1 cut(s) 557
BstYI RGATCY 1 cut(s) 557
BtgI CCRYGG 1 cut(s) 222
BtgZI GCGATG 1 cut(s) 665
BtsCI GGATG 2 cut(s) 157, 772
BtsI GCAGTG 2 cut(s) 208, 622
BtsIMutI CAGTG 3 cut(s) 208, 281, 622
Cac8I GCNNGC 1 cut(s) 71
CfoI GCGC 2 cut(s) 61, 571
CviAII CATG 3 cut(s) 223, 461, 785
CviJI RGCY 9 cut(s) 14, 44, 69, 73, 79, 221, 433, 587, 712
CviKI_1 RGCY 9 cut(s) 14, 44, 69, 73, 79, 221, 433, 587, 712
DdeI CTNAG 4 cut(s) 127, 494, 588, 707
DpnI GATC 3 cut(s) 477, 559, 783
DpnII GATC 3 cut(s) 475, 557, 781
Eco130I CCWWGG 3 cut(s) 222, 268, 504
Eco24I GRGCYC 1 cut(s) 46
Eco47III AGCGCT 1 cut(s) 60
Eco57I CTGAAG 2 cut(s) 500, 510
EcoNI CCTNNNNNAGG 1 cut(s) 544
EcoRI GAATTC 1 cut(s) 447
EcoRII CCWGG 1 cut(s) 377
EcoT14I CCWWGG 3 cut(s) 222, 268, 504
EcoT22I ATGCAT 1 cut(s) 466
EcoT38I GRGCYC 1 cut(s) 46
ErhI CCWWGG 3 cut(s) 222, 268, 504
Esp3I CGTCTC 1 cut(s) 168
FaeI CATG 3 cut(s) 226, 464, 788
FaiI YATR 8 cut(s) 224, 308, 310, 312, 462, 532, 682, 786
FalI AAGNNNNNCTT 2 cut(s) 497, 529
FaqI GGGAC 2 cut(s) 395, 563
FatI CATG 3 cut(s) 222, 460, 784
FbaI TGATCA 1 cut(s) 781
Fnu4HI GCNGC 4 cut(s) 585, 648, 656, 736
FokI GGATG 2 cut(s) 164, 779
FriOI GRGCYC 1 cut(s) 46
Fsp4HI GCNGC 4 cut(s) 585, 648, 656, 736
FspBI CTAG 2 cut(s) 179, 251
GlaI GCGC 2 cut(s) 60, 570
GluI GCNGC 4 cut(s) 585, 648, 656, 736
HaeII RGCGCY 2 cut(s) 62, 572
HapII CCGG 1 cut(s) 574
HhaI GCGC 2 cut(s) 61, 571
Hin1II CATG 3 cut(s) 226, 464, 788
Hin6I GCGC 2 cut(s) 59, 569
HinP1I GCGC 2 cut(s) 59, 569
HinfI GANTC 3 cut(s) 104, 155, 496
HpaII CCGG 1 cut(s) 574
HphI GGTGA 1 cut(s) 491
Hpy188I TCNGA 7 cut(s) 103, 353, 408, 417, 480, 495, 666
Hpy188III TCNNGA 3 cut(s) 64, 84, 179
HpyAV CCTTC 5 cut(s) 90, 100, 475, 548, 751
HpyCH4IV ACGT 3 cut(s) 303, 337, 693
HpyCH4V TGCA 3 cut(s) 201, 464, 584
HpyF10VI GCNNNNNNNGC 1 cut(s) 647
HpyF3I CTNAG 4 cut(s) 127, 494, 588, 707
HpySE526I ACGT 3 cut(s) 303, 337, 693
Hsp92II CATG 3 cut(s) 226, 464, 788
HspAI GCGC 2 cut(s) 59, 569
Ksp22I TGATCA 1 cut(s) 781
Kzo9I GATC 3 cut(s) 475, 557, 781
LmnI GCTCC 2 cut(s) 576, 619
LpnPI CCDG 9 cut(s) 25, 83, 97, 198, 342, 364, 391, 587, 642
Lsp1109I GCAGC 3 cut(s) 596, 634, 642
LweI GCATC 3 cut(s) 586, 628, 642
MaeI CTAG 2 cut(s) 179, 251
MaeII ACGT 3 cut(s) 303, 337, 693
MaeIII GTNAC 4 cut(s) 205, 277, 486, 497
MalI GATC 3 cut(s) 477, 559, 783
MboI GATC 3 cut(s) 475, 557, 781
MboII GAAGA 3 cut(s) 521, 647, 739
MflI RGATCY 1 cut(s) 557
MhlI GDGCHC 3 cut(s) 46, 268, 624
MluCI AATT 2 cut(s) 47, 447
MlyI GAGTC 2 cut(s) 98, 505
MnlI CCTC 2 cut(s) 540, 754
Mph1103I ATGCAT 1 cut(s) 466
MseI TTAA 6 cut(s) 189, 438, 543, 696, 714, 796
MspA1I CMGCKG 1 cut(s) 587
MspI CCGG 1 cut(s) 574
MspR9I CCNGG 1 cut(s) 379
Mva1269I GAATGC 1 cut(s) 369
MvaI CCWGG 1 cut(s) 379
MvnI CGCG 1 cut(s) 735
MwoI GCNNNNNNNGC 1 cut(s) 647
NcoI CCATGG 1 cut(s) 222
NdeII GATC 3 cut(s) 475, 557, 781
NlaIII CATG 3 cut(s) 226, 464, 788
NmuCI GTSAC 2 cut(s) 205, 497
NsiI ATGCAT 1 cut(s) 466
PctI GAATGC 1 cut(s) 369
PfeI GAWTC 1 cut(s) 155
PkrI GCNGC 4 cut(s) 586, 649, 657, 737
PleI GAGTC 2 cut(s) 98, 504
PpsI GAGTC 2 cut(s) 98, 504
Psp1406I AACGTT 2 cut(s) 303, 693
Psp6I CCWGG 1 cut(s) 377
PspGI CCWGG 1 cut(s) 377
PsuI RGATCY 1 cut(s) 557
PvuII CAGCTG 1 cut(s) 587
SaqAI TTAA 6 cut(s) 189, 438, 543, 696, 714, 796
SatI GCNGC 4 cut(s) 585, 648, 656, 736
Sau3AI GATC 3 cut(s) 475, 557, 781
SchI GAGTC 2 cut(s) 98, 505
ScrFI CCNGG 1 cut(s) 379
SduI GDGCHC 3 cut(s) 46, 268, 624
SetI ASST 8 cut(s) 16, 187, 306, 340, 435, 486, 589, 696
SfaNI GCATC 3 cut(s) 586, 628, 642
SfcI CTRYAG 1 cut(s) 630
SmlI CTYRAG 2 cut(s) 62, 514
SmoI CTYRAG 2 cut(s) 62, 514
Sse9I AATT 2 cut(s) 47, 447
SsiI CCGC 2 cut(s) 735, 754
SspMI CTAG 2 cut(s) 179, 251
StyD4I CCNGG 1 cut(s) 377
StyI CCWWGG 3 cut(s) 222, 268, 504
TaiI ACGT 3 cut(s) 306, 340, 696
TaqII GACCGA 1 cut(s) 236
TasI AATT 2 cut(s) 47, 447
TauI GCSGC 1 cut(s) 738
TfiI GAWTC 1 cut(s) 155
Tru1I TTAA 6 cut(s) 189, 438, 543, 696, 714, 796
Tru9I TTAA 6 cut(s) 189, 438, 543, 696, 714, 796
TscAI CASTG 3 cut(s) 208, 288, 629
TseFI GTSAC 2 cut(s) 205, 497
TseI GCWGC 3 cut(s) 584, 647, 655
Tsp45I GTSAC 2 cut(s) 205, 497
TspDTI ATGAA 2 cut(s) 17, 228
TspGWI ACGGA 2 cut(s) 150, 151
TspRI CASTG 3 cut(s) 208, 288, 629
XagI CCTNNNNNAGG 1 cut(s) 544
XapI RAATTY 1 cut(s) 447
XbaI TCTAGA 1 cut(s) 178
XspI CTAG 2 cut(s) 179, 251
Zsp2I ATGCAT 1 cut(s) 466
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.