Rroxscaffold_3G00241580

DNA polymerase III, delta subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0008140
Physical Location & Seq
Forward (+)
33817066 .. 33817835
770 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00241580.1

Sequence Viewer

Length: 642 bp
ATGGTGCCTAGAACCATATCATCAAGATGTCAGAAATTCTTCTTTCCCAAACTCAGAGACACTGATATCATGCTCAAGTTGACTAGAATTGCAGCCCAGGAGGGTATAAGGATTGAAAAAGAAGCAATCAAACTGGTTACTACCAAAGCACAAGGATCTTTGCGAGAAGCTGAAAACATATTAGACCAGCTGATGTTACTGGGGCCAAAGATATCAAGTTCCATGGCACAACAGCTTGTAGGTCTTGTTCCGCATGATGAGCTCAATGAATTGCTCGCAATGGCACTTTCCGGAGACACTATGCAAACCATCAGATGTGCAAGGCAGCTGATTGGAACTGGTATTGAACCACAAATGTTTGTATCACAATTGGTTTCGCACATCACCAACATGCTTTTCAGTGAGGCTGATGCTGTTCCTGAAACCTCTTCTTCTACTCACTCATCAACAGATAAGGAACTTCTGCAAGGAGGATCAGAGCACAGTAAGTTGCATTTTCATATCAGTATACATAAAACAAAACACACACACACCCACACACAATACACATATATACATATATACACACACAGTATAATCACACTTGCATTAGAGAACATTTTTACGTCATTTGATTCGTTTAACCAATATTGCAGAAATTGA
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
DNA_pol3_delta2 DNA_pol3_gamma3

Protein Analysis

213

Amino Acids

24.01

Weight (kDa)

6.86

Isoelectric Point (pI)

39.43

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DNAX_ATPase_lid PF22608 23 - 66 8.7e-08 DNA polymerase III clamp loader subunit, ATPase lid domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 4
AccI GTMKAC 1 cut(s) 508
AccIII TCCGGA 1 cut(s) 290
AciI CCGC 1 cut(s) 251
AclWI GGATC 2 cut(s) 163, 481
AcsI RAATTY 1 cut(s) 35
AgsI TTSAA 2 cut(s) 116, 347
AjnI CCWGG 1 cut(s) 96
AjuI GAANNNNNNNTTGG 2 cut(s) 380, 412
AluBI AGCT 5 cut(s) 170, 190, 235, 262, 328
AluI AGCT 5 cut(s) 170, 190, 235, 262, 328
Alw21I GWGCWC 2 cut(s) 264, 483
Alw26I GTCTC 2 cut(s) 51, 288
AlwI GGATC 2 cut(s) 163, 481
Aor13HI TCCGGA 1 cut(s) 290
AoxI GGCC 1 cut(s) 203
ApeKI GCWGC 2 cut(s) 92, 325
ApoI RAATTY 1 cut(s) 35
Asp700I GAANNNNTTC 1 cut(s) 38
AspS9I GGNCC 1 cut(s) 203
AsuHPI GGTGA 1 cut(s) 376
BanI GGYRCC 1 cut(s) 4
BanII GRGCYC 1 cut(s) 264
Bbv12I GWGCWC 2 cut(s) 264, 483
BbvI GCAGC 2 cut(s) 104, 337
BccI CCATC 1 cut(s) 317
BciT130I CCWGG 1 cut(s) 98
BcoDI GTCTC 2 cut(s) 51, 288
BfaI CTAG 2 cut(s) 9, 84
BisI GCNGC 2 cut(s) 93, 326
BlsI GCNGC 2 cut(s) 94, 327
Bme1390I CCNGG 1 cut(s) 98
BmgT120I GGNCC 1 cut(s) 203
BmiI GGNNCC 2 cut(s) 6, 204
BmrFI CCNGG 1 cut(s) 98
BmrI ACTGGG 1 cut(s) 209
BmsI GCATC 1 cut(s) 400
BmuI ACTGGG 1 cut(s) 209
BpuEI CTTGAG 1 cut(s) 59
BsaJI CCNNGG 2 cut(s) 96, 222
BsaWI WCCGGW 1 cut(s) 290
Bse1I ACTGG 3 cut(s) 138, 204, 343
Bse3DI GCAATG 1 cut(s) 285
BseAI TCCGGA 1 cut(s) 290
BseBI CCWGG 1 cut(s) 98
BseDI CCNNGG 2 cut(s) 96, 222
BseMI GCAATG 1 cut(s) 285
BseMII CTCAG 1 cut(s) 67
BseNI ACTGG 3 cut(s) 138, 204, 343
BseXI GCAGC 2 cut(s) 104, 337
BshFI GGCC 1 cut(s) 205
BshNI GGYRCC 1 cut(s) 4
BsiHKAI GWGCWC 2 cut(s) 264, 483
BsiSI CCGG 1 cut(s) 291
BsmAI GTCTC 2 cut(s) 51, 288
BsnI GGCC 1 cut(s) 205
Bsp1286I GDGCHC 2 cut(s) 264, 483
Bsp13I TCCGGA 1 cut(s) 290
Bsp143I GATC 2 cut(s) 155, 473
Bsp19I CCATGG 1 cut(s) 222
BspACI CCGC 1 cut(s) 251
BspANI GGCC 1 cut(s) 205
BspCNI CTCAG 1 cut(s) 66
BspEI TCCGGA 1 cut(s) 290
BspLI GGNNCC 2 cut(s) 6, 204
BspPI GGATC 2 cut(s) 163, 481
BspT107I GGYRCC 1 cut(s) 4
BsrDI GCAATG 1 cut(s) 285
BsrI ACTGG 3 cut(s) 138, 204, 343
BssECI CCNNGG 2 cut(s) 96, 222
BssMI GATC 2 cut(s) 155, 473
BssNAI GTATAC 1 cut(s) 509
BssT1I CCWWGG 1 cut(s) 222
Bst1107I GTATAC 1 cut(s) 509
Bst2UI CCWGG 1 cut(s) 98
Bst4CI ACNGT 2 cut(s) 485, 572
Bst6I CTCTTC 1 cut(s) 433
BstC8I GCNNGC 1 cut(s) 276
BstDEI CTNAG 1 cut(s) 53
BstDSI CCRYGG 1 cut(s) 222
BstKTI GATC 2 cut(s) 158, 476
BstMAI GTCTC 2 cut(s) 51, 288
BstMBI GATC 2 cut(s) 155, 473
BstMWI GCNNNNNNNGC 1 cut(s) 259
BstNI CCWGG 1 cut(s) 98
BstNSI RCATGY 1 cut(s) 394
BstSCI CCNGG 1 cut(s) 96
BstV1I GCAGC 2 cut(s) 104, 337
BstX2I RGATCY 1 cut(s) 155
BstYI RGATCY 1 cut(s) 155
BstZ17I GTATAC 1 cut(s) 509
BsuRI GGCC 1 cut(s) 205
BtgI CCRYGG 1 cut(s) 222
BtsIMutI CAGTG 2 cut(s) 60, 406
Cac8I GCNNGC 1 cut(s) 276
Cfr13I GGNCC 1 cut(s) 203
CviAII CATG 4 cut(s) 70, 223, 254, 391
CviJI RGCY 8 cut(s) 95, 170, 190, 205, 235, 262, 328, 407
CviKI_1 RGCY 8 cut(s) 95, 170, 190, 205, 235, 262, 328, 407
DdeI CTNAG 1 cut(s) 53
DpnI GATC 2 cut(s) 157, 475
DpnII GATC 2 cut(s) 155, 473
Eam1104I CTCTTC 1 cut(s) 433
EarI CTCTTC 1 cut(s) 433
Ecl136II GAGCTC 1 cut(s) 262
Eco130I CCWWGG 1 cut(s) 222
Eco24I GRGCYC 1 cut(s) 264
Eco32I GATATC 2 cut(s) 67, 213
Eco53kI GAGCTC 1 cut(s) 262
EcoICRI GAGCTC 1 cut(s) 262
EcoRII CCWGG 1 cut(s) 96
EcoRV GATATC 2 cut(s) 67, 213
EcoT14I CCWWGG 1 cut(s) 222
EcoT38I GRGCYC 1 cut(s) 264
ErhI CCWWGG 1 cut(s) 222
FaeI CATG 4 cut(s) 73, 226, 257, 394
FatI CATG 4 cut(s) 69, 222, 253, 390
FblI GTMKAC 1 cut(s) 508
Fnu4HI GCNGC 2 cut(s) 93, 326
FriOI GRGCYC 1 cut(s) 264
Fsp4HI GCNGC 2 cut(s) 93, 326
FspBI CTAG 2 cut(s) 9, 84
GluI GCNGC 2 cut(s) 93, 326
HaeIII GGCC 1 cut(s) 205
HapII CCGG 1 cut(s) 291
Hin1II CATG 4 cut(s) 73, 226, 257, 394
HincII GTYRAC 1 cut(s) 81
HindII GTYRAC 1 cut(s) 81
HinfI GANTC 1 cut(s) 614
HpaII CCGG 1 cut(s) 291
HphI GGTGA 1 cut(s) 376
Hpy166II GTNNAC 2 cut(s) 81, 509
Hpy188I TCNGA 4 cut(s) 33, 56, 314, 478
Hpy188III TCNNGA 3 cut(s) 24, 291, 419
Hpy8I GTNNAC 2 cut(s) 81, 509
HpyCH4III ACNGT 2 cut(s) 485, 572
HpyCH4IV ACGT 1 cut(s) 605
HpyCH4V TGCA 7 cut(s) 92, 304, 320, 466, 493, 587, 633
HpyF10VI GCNNNNNNNGC 1 cut(s) 259
HpyF3I CTNAG 1 cut(s) 53
HpySE526I ACGT 1 cut(s) 605
Hsp92II CATG 4 cut(s) 73, 226, 257, 394
Kpn2I TCCGGA 1 cut(s) 290
Kzo9I GATC 2 cut(s) 155, 473
LpnPI CCDG 8 cut(s) 83, 110, 119, 185, 200, 304, 324, 432
Lsp1109I GCAGC 2 cut(s) 104, 337
LweI GCATC 1 cut(s) 400
MaeI CTAG 2 cut(s) 9, 84
MaeII ACGT 1 cut(s) 605
MaeIII GTNAC 2 cut(s) 136, 195
MalI GATC 2 cut(s) 157, 475
MboI GATC 2 cut(s) 155, 473
MboII GAAGA 3 cut(s) 31, 420, 423
MfeI CAATTG 1 cut(s) 368
MflI RGATCY 1 cut(s) 155
MhlI GDGCHC 2 cut(s) 264, 483
MluCI AATT 5 cut(s) 35, 87, 269, 368, 637
MnlI CCTC 4 cut(s) 94, 397, 436, 464
MroI TCCGGA 1 cut(s) 290
MroXI GAANNNNTTC 1 cut(s) 38
MseI TTAA 1 cut(s) 621
MslI CAYNNNNRTG 2 cut(s) 25, 389
MspA1I CMGCKG 2 cut(s) 190, 328
MspI CCGG 1 cut(s) 291
MspR9I CCNGG 1 cut(s) 98
MunI CAATTG 1 cut(s) 368
MvaI CCWGG 1 cut(s) 98
MwoI GCNNNNNNNGC 1 cut(s) 259
NcoI CCATGG 1 cut(s) 222
NdeII GATC 2 cut(s) 155, 473
NlaIII CATG 4 cut(s) 73, 226, 257, 394
NlaIV GGNNCC 2 cut(s) 6, 204
NspI RCATGY 1 cut(s) 394
PdmI GAANNNNTTC 1 cut(s) 38
PfeI GAWTC 1 cut(s) 614
PkrI GCNGC 2 cut(s) 94, 327
Psp124BI GAGCTC 1 cut(s) 264
Psp6I CCWGG 1 cut(s) 96
PspGI CCWGG 1 cut(s) 96
PspN4I GGNNCC 2 cut(s) 6, 204
PspPI GGNCC 1 cut(s) 203
PsrI GAACNNNNNNTAC 2 cut(s) 231, 263
PsuI RGATCY 1 cut(s) 155
PvuII CAGCTG 2 cut(s) 190, 328
RseI CAYNNNNRTG 2 cut(s) 25, 389
SacI GAGCTC 1 cut(s) 264
SaqAI TTAA 1 cut(s) 621
SatI GCNGC 2 cut(s) 93, 326
Sau3AI GATC 2 cut(s) 155, 473
Sau96I GGNCC 1 cut(s) 203
ScrFI CCNGG 1 cut(s) 98
SduI GDGCHC 2 cut(s) 264, 483
SetI ASST 8 cut(s) 172, 192, 237, 244, 264, 330, 428, 608
SfaNI GCATC 1 cut(s) 400
SmiMI CAYNNNNRTG 2 cut(s) 25, 389
SmlI CTYRAG 1 cut(s) 74
SmoI CTYRAG 1 cut(s) 74
Sse9I AATT 5 cut(s) 35, 87, 269, 368, 637
SsiI CCGC 1 cut(s) 251
SspI AATATT 1 cut(s) 629
SspMI CTAG 2 cut(s) 9, 84
SstI GAGCTC 1 cut(s) 264
StyD4I CCNGG 1 cut(s) 96
StyI CCWWGG 1 cut(s) 222
TaaI ACNGT 2 cut(s) 485, 572
TaiI ACGT 1 cut(s) 608
TasI AATT 5 cut(s) 35, 87, 269, 368, 637
TfiI GAWTC 1 cut(s) 614
Tru1I TTAA 1 cut(s) 621
Tru9I TTAA 1 cut(s) 621
TscAI CASTG 2 cut(s) 67, 406
TseI GCWGC 2 cut(s) 92, 325
TspDTI ATGAA 2 cut(s) 282, 488
TspRI CASTG 2 cut(s) 67, 406
XapI RAATTY 1 cut(s) 35
XceI RCATGY 1 cut(s) 394
XmiI GTMKAC 1 cut(s) 508
XmnI GAANNNNTTC 1 cut(s) 38
XspI CTAG 2 cut(s) 9, 84
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.