RchiOBHm_Chr2g0115371

DNA polymerase III

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0015333
Physical Location & Seq
Reverse (-)
27481323 .. 27482939
1617 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 849 bp
ATGGACTACCCTTCTACATCATCATGCAAAGAAAGCACATCAACAGAGATTGTGTTCTTTGACATAGAAACAAATGTACCCAATAGAGTTGGACAACGGTTCTGGGTATTAGAATTTGGGGCAATTGTTGTTTGCCCTCGAAAGCTTGTCGAGCTAGACAGCTATAGCAGCCTCATTAGGCCAGCAGACTTGTCTGCAGTACCCTCAAGGTCCGGTCGATGTGACGGGATCACTAAGGATGTTGTTGCAAATGCACCTACGTTTGAGCAAGTTGCTGATAAGATATTCAGCATTTTGAATGGCAGAATTTGGGCAGGTCATAACATCCAGCGGTTCGATTGTGCTCGCATTAAGGAGGCGTTTTCGGACATTGGTAGGCCTGCGCCTACCCCTGTTGGGATGATAGACTCTCTAGGGGTACTAACTGAGAAGTTTGGCAGAAGAGCTGGCAATATGAAGATGGCATCATTGGCAACTTACTTCAAGCTTGGGCAGCAAAAGCACAGGAGCCTTGAAGATGTTAGGATGAACCTGGAGGTCCTCAAGAACTGTGCAACTGTGCTGTTTCTGGAAGCAACCCTTCCTAGCGTGTTAGATGGCAACTGGCATGGCTCTCCAACAGTTACAACTCGCAGTAGAAGTAATGGGAAATTGCCATGCCGAGATGAAACAACAAGCCGGAAGTCTCCCCCAACAACTGCTTTTATCGGATATCAAAGAGCAGTTCCATATACTCCAAGGGGGAGTTTGGGAAAGGTGACAGAAAGGGTAAAGAATCTATTGTGTAGAGCACAAGGAAACCAGCCTCTTAGTAACATATTGAAGCATTCTCATTCACTACTCCGGTGA

Protein Analysis

282

Amino Acids

31.22

Weight (kDa)

9.57

Isoelectric Point (pI)

44.1

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNase_T PF00929 18 - 181 6.5e-27 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: OG0015333)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G39810
fragaria_vesca FvH4_1g21490
malus_domestica MD15G1329100.v1.1
prunus_persica Prupe.6G179800_v2.0.a1
pyrus_communis pycom01g05230 pycom15g29710 pycom15g29720
rosa_chinensis RchiOBHm_Chr2g0115371
rosa_laevigata RLG00000018180
rosa_roxburghii Rroxscaffold_2G00130860
rosa_rugosa Rorug02G0195900
rosa_samantha Rh2AG254300 Rh2BG264500 Rh2CG259000 Rh2DG262400
rosa_wichuraiana Rw2G019860

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 305
AciI CCGC 1 cut(s) 331
AclWI GGATC 1 cut(s) 236
AcsI RAATTY 2 cut(s) 113, 306
AfaI GTAC 3 cut(s) 78, 201, 420
AfiI CCNNNNNNNGG 1 cut(s) 396
AgsI TTSAA 4 cut(s) 298, 484, 515, 823
AjnI CCWGG 1 cut(s) 531
AluBI AGCT 5 cut(s) 145, 154, 162, 446, 487
AluI AGCT 5 cut(s) 145, 154, 162, 446, 487
Alw21I GWGCWC 2 cut(s) 346, 793
Alw26I GTCTC 1 cut(s) 690
AlwI GGATC 1 cut(s) 236
AoxI GGCC 2 cut(s) 179, 377
ApeKI GCWGC 2 cut(s) 168, 493
ApoI RAATTY 2 cut(s) 113, 306
AspLEI GCGC 1 cut(s) 385
AspS9I GGNCC 2 cut(s) 210, 538
AsuHPI GGTGA 1 cut(s) 769
AvaII GGWCC 2 cut(s) 210, 538
BaeI ACNNNNGTAYC 2 cut(s) 60, 93
Bbv12I GWGCWC 2 cut(s) 346, 793
BbvI GCAGC 2 cut(s) 180, 505
BccI CCATC 2 cut(s) 454, 590
BciT130I CCWGG 1 cut(s) 533
BcoDI GTCTC 1 cut(s) 690
BfaI CTAG 3 cut(s) 155, 413, 585
BfmI CTRYAG 2 cut(s) 163, 195
BfuAI ACCTGC 1 cut(s) 305
BisI GCNGC 2 cut(s) 169, 494
BlsI GCNGC 2 cut(s) 170, 495
Bme1390I CCNGG 1 cut(s) 533
Bme18I GGWCC 2 cut(s) 210, 538
BmgT120I GGNCC 2 cut(s) 210, 538
BmiI GGNNCC 1 cut(s) 509
BmrFI CCNGG 1 cut(s) 533
BmsI GCATC 1 cut(s) 473
BpmI CTGGAG 1 cut(s) 554
BpuEI CTTGAG 2 cut(s) 190, 527
BsaJI CCNNGG 1 cut(s) 737
BsaWI WCCGGW 2 cut(s) 212, 843
Bsc4I CCNNNNNNNGG 1 cut(s) 396
Bse1I ACTGG 1 cut(s) 608
BseBI CCWGG 1 cut(s) 533
BseDI CCNNGG 1 cut(s) 737
BseGI GGATG 4 cut(s) 244, 324, 405, 531
BseLI CCNNNNNNNGG 1 cut(s) 396
BseMII CTCAG 1 cut(s) 417
BseNI ACTGG 1 cut(s) 608
BseXI GCAGC 2 cut(s) 180, 505
Bsh1285I CGRYCG 1 cut(s) 217
BshFI GGCC 2 cut(s) 181, 379
BsiEI CGRYCG 1 cut(s) 217
BsiHKAI GWGCWC 2 cut(s) 346, 793
BsiSI CCGG 3 cut(s) 213, 679, 844
BslI CCNNNNNNNGG 1 cut(s) 396
BsmAI GTCTC 1 cut(s) 690
BsmI GAATGC 1 cut(s) 826
BsnI GGCC 2 cut(s) 181, 379
Bsp1286I GDGCHC 2 cut(s) 346, 793
Bsp143I GATC 1 cut(s) 228
BspACI CCGC 1 cut(s) 331
BspANI GGCC 2 cut(s) 181, 379
BspCNI CTCAG 1 cut(s) 418
BspLI GGNNCC 1 cut(s) 509
BspMAI CTGCAG 1 cut(s) 199
BspMI ACCTGC 1 cut(s) 305
BspPI GGATC 1 cut(s) 236
BspQI GCTCTTC 1 cut(s) 436
BsrI ACTGG 1 cut(s) 608
BssECI CCNNGG 1 cut(s) 737
BssMI GATC 1 cut(s) 228
BssT1I CCWWGG 1 cut(s) 737
Bst2UI CCWGG 1 cut(s) 533
Bst4CI ACNGT 4 cut(s) 99, 551, 559, 622
Bst6I CTCTTC 1 cut(s) 436
BstC8I GCNNGC 4 cut(s) 183, 346, 381, 448
BstDEI CTNAG 3 cut(s) 234, 426, 809
BstF5I GGATG 4 cut(s) 244, 324, 405, 531
BstHHI GCGC 1 cut(s) 385
BstKTI GATC 1 cut(s) 231
BstMAI GTCTC 1 cut(s) 690
BstMBI GATC 1 cut(s) 228
BstMCI CGRYCG 1 cut(s) 217
BstMWI GCNNNNNNNGC 6 cut(s) 33, 151, 168, 470, 493, 499
BstNI CCWGG 1 cut(s) 533
BstSCI CCNGG 1 cut(s) 531
BstSFI CTRYAG 2 cut(s) 163, 195
BstV1I GCAGC 2 cut(s) 180, 505
BsuRI GGCC 2 cut(s) 181, 379
BtsCI GGATG 4 cut(s) 244, 324, 405, 531
BveI ACCTGC 1 cut(s) 305
Cac8I GCNNGC 4 cut(s) 183, 346, 381, 448
CfoI GCGC 1 cut(s) 385
Cfr13I GGNCC 2 cut(s) 210, 538
Csp6I GTAC 3 cut(s) 77, 200, 419
CviAII CATG 3 cut(s) 24, 608, 657
CviQI GTAC 3 cut(s) 77, 200, 419
DdeI CTNAG 3 cut(s) 234, 426, 809
DpnI GATC 1 cut(s) 230
DpnII GATC 1 cut(s) 228
Eam1104I CTCTTC 1 cut(s) 436
EarI CTCTTC 1 cut(s) 436
Eco130I CCWWGG 1 cut(s) 737
Eco147I AGGCCT 1 cut(s) 379
Eco32I GATATC 1 cut(s) 713
Eco47I GGWCC 2 cut(s) 210, 538
EcoO109I RGGNCCY 1 cut(s) 538
EcoRII CCWGG 1 cut(s) 531
EcoRV GATATC 1 cut(s) 713
EcoT14I CCWWGG 1 cut(s) 737
ErhI CCWWGG 1 cut(s) 737
FaeI CATG 3 cut(s) 27, 611, 660
FalI AAGNNNNNCTT 2 cut(s) 564, 596
FatI CATG 3 cut(s) 23, 607, 656
Fnu4HI GCNGC 2 cut(s) 169, 494
FokI GGATG 4 cut(s) 251, 311, 412, 538
Fsp4HI GCNGC 2 cut(s) 169, 494
FspBI CTAG 3 cut(s) 155, 413, 585
GlaI GCGC 1 cut(s) 384
GluI GCNGC 2 cut(s) 169, 494
GsuI CTGGAG 1 cut(s) 554
HaeIII GGCC 2 cut(s) 181, 379
HapII CCGG 3 cut(s) 213, 679, 844
HhaI GCGC 1 cut(s) 385
Hin1II CATG 3 cut(s) 27, 611, 660
Hin6I GCGC 1 cut(s) 383
HinP1I GCGC 1 cut(s) 383
HindIII AAGCTT 2 cut(s) 143, 485
HinfI GANTC 2 cut(s) 407, 775
HpaII CCGG 3 cut(s) 213, 679, 844
HphI GGTGA 1 cut(s) 769
Hpy188I TCNGA 2 cut(s) 367, 710
Hpy188III TCNNGA 2 cut(s) 544, 569
HpyAV CCTTC 2 cut(s) 21, 590
HpyCH4III ACNGT 4 cut(s) 99, 551, 559, 622
HpyCH4IV ACGT 1 cut(s) 260
HpyCH4V TGCA 5 cut(s) 27, 197, 248, 254, 554
HpyF10VI GCNNNNNNNGC 6 cut(s) 33, 151, 168, 470, 493, 499
HpyF3I CTNAG 3 cut(s) 234, 426, 809
HpySE526I ACGT 1 cut(s) 260
Hsp92II CATG 3 cut(s) 27, 611, 660
HspAI GCGC 1 cut(s) 383
Kzo9I GATC 1 cut(s) 228
LguI GCTCTTC 1 cut(s) 436
LmnI GCTCC 1 cut(s) 507
Lsp1109I GCAGC 2 cut(s) 180, 505
LweI GCATC 1 cut(s) 473
MaeI CTAG 3 cut(s) 155, 413, 585
MaeII ACGT 1 cut(s) 260
MaeIII GTNAC 4 cut(s) 221, 622, 757, 812
MalI GATC 1 cut(s) 230
MboI GATC 1 cut(s) 228
MboII GAAGA 3 cut(s) 453, 469, 527
MfeI CAATTG 1 cut(s) 123
MhlI GDGCHC 2 cut(s) 346, 793
MluCI AATT 4 cut(s) 113, 123, 306, 650
MlyI GAGTC 1 cut(s) 401
MmeI TCCRAC 2 cut(s) 70, 641
MnlI CCTC 7 cut(s) 147, 182, 214, 349, 529, 551, 816
MseI TTAA 1 cut(s) 351
MslI CAYNNNNRTG 1 cut(s) 22
MspA1I CMGCKG 1 cut(s) 331
MspI CCGG 3 cut(s) 213, 679, 844
MspR9I CCNGG 1 cut(s) 533
MunI CAATTG 1 cut(s) 123
Mva1269I GAATGC 1 cut(s) 826
MvaI CCWGG 1 cut(s) 533
MwoI GCNNNNNNNGC 6 cut(s) 33, 151, 168, 470, 493, 499
NdeII GATC 1 cut(s) 228
NlaIII CATG 3 cut(s) 27, 611, 660
NlaIV GGNNCC 1 cut(s) 509
NmeAIII GCCGAG 1 cut(s) 686
NmuCI GTSAC 2 cut(s) 221, 757
PceI AGGCCT 1 cut(s) 379
PciSI GCTCTTC 1 cut(s) 436
PctI GAATGC 1 cut(s) 826
PfeI GAWTC 1 cut(s) 775
PkrI GCNGC 2 cut(s) 170, 495
PleI GAGTC 1 cut(s) 401
PpsI GAGTC 1 cut(s) 401
PpuMI RGGWCCY 1 cut(s) 538
Psp5II RGGWCCY 1 cut(s) 538
Psp6I CCWGG 1 cut(s) 531
PspGI CCWGG 1 cut(s) 531
PspN4I GGNNCC 1 cut(s) 509
PspPI GGNCC 2 cut(s) 210, 538
PspPPI RGGWCCY 1 cut(s) 538
PstI CTGCAG 1 cut(s) 199
RsaI GTAC 3 cut(s) 78, 201, 420
RsaNI GTAC 3 cut(s) 77, 200, 419
RseI CAYNNNNRTG 1 cut(s) 22
SapI GCTCTTC 1 cut(s) 436
SaqAI TTAA 1 cut(s) 351
SatI GCNGC 2 cut(s) 169, 494
Sau3AI GATC 1 cut(s) 228
Sau96I GGNCC 2 cut(s) 210, 538
SchI GAGTC 1 cut(s) 401
ScrFI CCNGG 1 cut(s) 533
SduI GDGCHC 2 cut(s) 346, 793
SfaNI GCATC 1 cut(s) 473
SfcI CTRYAG 2 cut(s) 163, 195
SinI GGWCC 2 cut(s) 210, 538
SmiMI CAYNNNNRTG 1 cut(s) 22
SmlI CTYRAG 2 cut(s) 205, 542
SmoI CTYRAG 2 cut(s) 205, 542
Sse9I AATT 4 cut(s) 113, 123, 306, 650
SseBI AGGCCT 1 cut(s) 379
SsiI CCGC 1 cut(s) 331
SspMI CTAG 3 cut(s) 155, 413, 585
StuI AGGCCT 1 cut(s) 379
StyD4I CCNGG 1 cut(s) 531
StyI CCWWGG 1 cut(s) 737
TaaI ACNGT 4 cut(s) 99, 551, 559, 622
TaiI ACGT 1 cut(s) 263
TaqI TCGA 4 cut(s) 139, 150, 217, 336
TasI AATT 4 cut(s) 113, 123, 306, 650
TfiI GAWTC 1 cut(s) 775
Tru1I TTAA 1 cut(s) 351
Tru9I TTAA 1 cut(s) 351
TseFI GTSAC 2 cut(s) 221, 757
TseI GCWGC 2 cut(s) 168, 493
Tsp45I GTSAC 2 cut(s) 221, 757
TspDTI ATGAA 3 cut(s) 470, 542, 681
VpaK11BI GGWCC 2 cut(s) 210, 538
XapI RAATTY 2 cut(s) 113, 306
XspI CTAG 3 cut(s) 155, 413, 585
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.