Rroxscaffold_1G00020900

DNA polymerase epsilon subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0009988
Physical Location & Seq
Reverse (-)
25476888 .. 25479494
2607 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00020900.1

Sequence Viewer

Length: 582 bp
ATGGCGACCCCCAAGAAAGACACACCCCCAAAGAAAACCAAAGAAGCACAGAAGCCAAGCACCAAAACCAGCAAGAACGACGGCAACAAAATCAAAAAGAAGACCAGCAATGGCACCGCTGATGCGGCGGCTGTGAGATCCCCGAGCTCACAGCCCCAGAAGAGCAGAGAGCAAAATGGGGGCAAAAGTACGAAAACACCCACCCCGAAATCCAAGAAGCCCCAGCAGAACGGAAAGCGAGTCCGGGAGGAAGAGGTGGAAGAGAAAGAGGATGTGAAGTCGTACACTTTTCCGATGGAGCGGGTCAAGAGGATTATCAGGGCCGAAGATTCCGACTTGCGCATCAGCTCCGACGCCGTTTTTCTCGTCAACAAAGCCACCGAGAAGTTCCTTGAGAAGTTTAGTGAAGATGCGCATAAATGTTGTGTTAAGGATCGCAAGAAGGCTCTTGCTTACAAGCACCTATCCTCAGTCGTTTGCAAACAAAATAGATACGAGTTTCTTTCAGATTTTGTTCCTGAGAAAATAAAAGCCGGGGATGCATTGGCAAAGAGAAAACAACCCCAAGAAGGAGCAAGCTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00230 ko00240 ko01100 ko03030 ko03410 ko03420 ko05166 map00230 map00240 map01100 map03030 map03410 map03420 map05166
Pfam Domains
Protein Families
CBFD_NFYB_HMF

Protein Analysis

193

Amino Acids

21.66

Weight (kDa)

9.83

Isoelectric Point (pI)

46.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Histone PF00125 84 - 160 2.4e-11 Core histone H2A/H2B/H3/H4 domain
CBFD_NFYB_HMF PF00808 96 - 159 8.1e-17 Histone-like transcription factor (CBF/NF-Y) and archaeal histone
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)
Acc16I TGCGCA 2 cut(s) 341, 414
AccB1I GGYRCC 1 cut(s) 113
AccBSI CCGCTC 1 cut(s) 301
AciI CCGC 4 cut(s) 117, 125, 128, 301
AclWI GGATC 2 cut(s) 132, 441
AcyI GRCGYC 1 cut(s) 354
AfaI GTAC 2 cut(s) 190, 284
AfiI CCNNNNNNNGG 1 cut(s) 569
AluBI AGCT 3 cut(s) 147, 348, 579
AluI AGCT 3 cut(s) 147, 348, 579
Alw21I GWGCWC 1 cut(s) 149
AlwI GGATC 2 cut(s) 132, 441
Ama87I CYCGRG 1 cut(s) 142
AoxI GGCC 1 cut(s) 321
AspLEI GCGC 2 cut(s) 342, 415
AspS9I GGNCC 1 cut(s) 321
AsuC2I CCSGG 2 cut(s) 245, 535
AvaI CYCGRG 1 cut(s) 142
BanI GGYRCC 1 cut(s) 113
BanII GRGCYC 1 cut(s) 149
BbsI GAAGAC 1 cut(s) 107
Bbv12I GWGCWC 1 cut(s) 149
BccI CCATC 1 cut(s) 289
BceAI ACGGC 2 cut(s) 97, 341
BcnI CCSGG 2 cut(s) 245, 535
BfaI CTAG 1 cut(s) 580
BisI GCNGC 2 cut(s) 126, 129
BlsI GCNGC 2 cut(s) 127, 130
Bme1390I CCNGG 2 cut(s) 245, 535
BmeT110I CYCGRG 1 cut(s) 142
BmgT120I GGNCC 1 cut(s) 321
BmiI GGNNCC 1 cut(s) 115
BmrFI CCNGG 2 cut(s) 245, 535
BmsI GCATC 4 cut(s) 112, 351, 400, 529
BpiI GAAGAC 1 cut(s) 107
BpuEI CTTGAG 1 cut(s) 413
BpuMI CCSGG 2 cut(s) 245, 535
BsaHI GRCGYC 1 cut(s) 354
BsaJI CCNNGG 1 cut(s) 534
Bsc4I CCNNNNNNNGG 1 cut(s) 569
Bse3DI GCAATG 1 cut(s) 115
BseDI CCNNGG 1 cut(s) 534
BseGI GGATG 2 cut(s) 277, 544
BseLI CCNNNNNNNGG 1 cut(s) 569
BseMI GCAATG 1 cut(s) 115
BseMII CTCAG 2 cut(s) 483, 510
BseYI CCCAGC 1 cut(s) 222
BshFI GGCC 1 cut(s) 323
BshNI GGYRCC 1 cut(s) 113
BsiHKAI GWGCWC 1 cut(s) 149
BsiHKCI CYCGRG 1 cut(s) 142
BsiSI CCGG 2 cut(s) 244, 534
BslI CCNNNNNNNGG 1 cut(s) 569
BsnI GGCC 1 cut(s) 323
BsoBI CYCGRG 1 cut(s) 142
Bsp1286I GDGCHC 1 cut(s) 149
Bsp143I GATC 2 cut(s) 137, 433
BspACI CCGC 4 cut(s) 117, 125, 128, 301
BspANI GGCC 1 cut(s) 323
BspCNI CTCAG 2 cut(s) 482, 511
BspLI GGNNCC 1 cut(s) 115
BspPI GGATC 2 cut(s) 132, 441
BspQI GCTCTTC 1 cut(s) 155
BspT107I GGYRCC 1 cut(s) 113
BsrBI CCGCTC 1 cut(s) 301
BsrDI GCAATG 1 cut(s) 115
BssECI CCNNGG 1 cut(s) 534
BssMI GATC 2 cut(s) 137, 433
BssNI GRCGYC 1 cut(s) 354
Bst6I CTCTTC 3 cut(s) 155, 246, 255
BstACI GRCGYC 1 cut(s) 354
BstC8I GCNNGC 1 cut(s) 577
BstDEI CTNAG 2 cut(s) 469, 519
BstF5I GGATG 2 cut(s) 277, 544
BstHHI GCGC 2 cut(s) 342, 415
BstKTI GATC 2 cut(s) 140, 436
BstMBI GATC 2 cut(s) 137, 433
BstMWI GCNNNNNNNGC 2 cut(s) 125, 539
BstSCI CCNGG 2 cut(s) 243, 533
BstV2I GAAGAC 1 cut(s) 107
BstX2I RGATCY 1 cut(s) 137
BstYI RGATCY 1 cut(s) 137
BsuRI GGCC 1 cut(s) 323
BtsCI GGATG 2 cut(s) 277, 544
Cac8I GCNNGC 1 cut(s) 577
CfoI GCGC 2 cut(s) 342, 415
Cfr13I GGNCC 1 cut(s) 321
CseI GACGC 1 cut(s) 362
Csp6I GTAC 2 cut(s) 189, 283
CviQI GTAC 2 cut(s) 189, 283
DdeI CTNAG 2 cut(s) 469, 519
DpnI GATC 2 cut(s) 139, 435
DpnII GATC 2 cut(s) 137, 433
Eam1104I CTCTTC 3 cut(s) 155, 246, 255
EarI CTCTTC 3 cut(s) 155, 246, 255
Ecl136II GAGCTC 1 cut(s) 147
Eco24I GRGCYC 1 cut(s) 149
Eco53kI GAGCTC 1 cut(s) 147
Eco88I CYCGRG 1 cut(s) 142
EcoICRI GAGCTC 1 cut(s) 147
EcoT22I ATGCAT 1 cut(s) 544
EcoT38I GRGCYC 1 cut(s) 149
FaiI YATR 1 cut(s) 417
FauI CCCGC 1 cut(s) 294
Fnu4HI GCNGC 2 cut(s) 126, 129
FokI GGATG 2 cut(s) 284, 551
FriOI GRGCYC 1 cut(s) 149
Fsp4HI GCNGC 2 cut(s) 126, 129
FspAI RTGCGCAY 1 cut(s) 414
FspBI CTAG 1 cut(s) 580
FspI TGCGCA 2 cut(s) 341, 414
GlaI GCGC 2 cut(s) 341, 414
GluI GCNGC 2 cut(s) 126, 129
GsaI CCCAGC 1 cut(s) 226
HaeIII GGCC 1 cut(s) 323
HapII CCGG 2 cut(s) 244, 534
HgaI GACGC 1 cut(s) 362
HhaI GCGC 2 cut(s) 342, 415
Hin1I GRCGYC 1 cut(s) 354
Hin6I GCGC 2 cut(s) 340, 413
HinP1I GCGC 2 cut(s) 340, 413
HincII GTYRAC 1 cut(s) 370
HindII GTYRAC 1 cut(s) 370
HinfI GANTC 2 cut(s) 240, 329
HpaII CCGG 2 cut(s) 244, 534
Hpy166II GTNNAC 2 cut(s) 285, 370
Hpy188I TCNGA 4 cut(s) 294, 334, 352, 508
Hpy188III TCNNGA 2 cut(s) 307, 518
Hpy8I GTNNAC 2 cut(s) 285, 370
Hpy99I CGWCG 2 cut(s) 83, 356
HpyAV CCTTC 2 cut(s) 436, 563
HpyCH4V TGCA 2 cut(s) 480, 542
HpyF10VI GCNNNNNNNGC 2 cut(s) 125, 539
HpyF3I CTNAG 2 cut(s) 469, 519
Hsp92I GRCGYC 1 cut(s) 354
HspAI GCGC 2 cut(s) 340, 413
Kzo9I GATC 2 cut(s) 137, 433
LguI GCTCTTC 1 cut(s) 155
LmnI GCTCC 3 cut(s) 298, 353, 572
LpnPI CCDG 8 cut(s) 82, 118, 170, 236, 257, 304, 531, 547
LweI GCATC 4 cut(s) 112, 351, 400, 529
MaeI CTAG 1 cut(s) 580
MalI GATC 2 cut(s) 139, 435
MbiI CCGCTC 1 cut(s) 301
MboI GATC 2 cut(s) 137, 433
MboII GAAGA 6 cut(s) 112, 172, 263, 272, 338, 419
MflI RGATCY 1 cut(s) 137
MhlI GDGCHC 1 cut(s) 149
MlyI GAGTC 1 cut(s) 249
MmeI TCCRAC 2 cut(s) 357, 375
MnlI CCTC 5 cut(s) 241, 247, 262, 303, 478
Mph1103I ATGCAT 1 cut(s) 544
MseI TTAA 1 cut(s) 429
MspA1I CMGCKG 1 cut(s) 119
MspI CCGG 2 cut(s) 244, 534
MspR9I CCNGG 2 cut(s) 245, 535
MwoI GCNNNNNNNGC 2 cut(s) 125, 539
NciI CCSGG 2 cut(s) 245, 535
NdeII GATC 2 cut(s) 137, 433
NlaIV GGNNCC 1 cut(s) 115
NsbI TGCGCA 2 cut(s) 341, 414
NsiI ATGCAT 1 cut(s) 544
PciSI GCTCTTC 1 cut(s) 155
PfeI GAWTC 1 cut(s) 329
PfoI TCCNGGA 1 cut(s) 243
PkrI GCNGC 2 cut(s) 127, 130
PleI GAGTC 1 cut(s) 248
PpsI GAGTC 1 cut(s) 248
Psp124BI GAGCTC 1 cut(s) 149
PspFI CCCAGC 1 cut(s) 222
PspN4I GGNNCC 1 cut(s) 115
PspPI GGNCC 1 cut(s) 321
PsuI RGATCY 1 cut(s) 137
RsaI GTAC 2 cut(s) 190, 284
RsaNI GTAC 2 cut(s) 189, 283
SacI GAGCTC 1 cut(s) 149
SapI GCTCTTC 1 cut(s) 155
SaqAI TTAA 1 cut(s) 429
SatI GCNGC 2 cut(s) 126, 129
Sau3AI GATC 2 cut(s) 137, 433
Sau96I GGNCC 1 cut(s) 321
SchI GAGTC 1 cut(s) 249
ScrFI CCNGG 2 cut(s) 245, 535
SduI GDGCHC 1 cut(s) 149
SetI ASST 5 cut(s) 149, 258, 350, 465, 581
SfaNI GCATC 4 cut(s) 112, 351, 400, 529
SmlI CTYRAG 1 cut(s) 392
SmoI CTYRAG 1 cut(s) 392
SsiI CCGC 4 cut(s) 117, 125, 128, 301
SspMI CTAG 1 cut(s) 580
SstI GAGCTC 1 cut(s) 149
StyD4I CCNGG 2 cut(s) 243, 533
TauI GCSGC 2 cut(s) 128, 131
TfiI GAWTC 1 cut(s) 329
Tru1I TTAA 1 cut(s) 429
Tru9I TTAA 1 cut(s) 429
TspGWI ACGGA 1 cut(s) 246
XspI CTAG 1 cut(s) 580
Zsp2I ATGCAT 1 cut(s) 544
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.