Rorug06G0237400

Rubber elongation factor protein (REF)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0012392
Physical Location & Seq
Reverse (-)
38010354 .. 38011500
1147 bp
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UTR
Exon/CDS
Intron
Rorug06G0237400.1

Sequence Viewer

Length: 585 bp
ATGGGGCCTAGATGGAAAGGAATCAGCGCTGAAGCTAAATCTCGCTCTAAAGCTAAAGCTTTTGCACAACCCATGTCAAACATATATAGTATTGCAGCTTCAGTCTTCTCTAATCGGATCAAATTCTCGAGGGTTCCTATGTGGGAGCACTTTGTGTATGGAAAAGGCCTTTTACCTATGCCATACTCTAAAATGCCTCGAGATAGGTCAGGAGCTAAATACGGTGTAGACTTTGTTGCCTACCGCCATCATCCAGCTCTAGTTCATTCTGAATATGTGGTGATTGTATTAAATGGTCATACTGTGGACTCCCCATCAAGTGTAGAGATATTTACTGTTGAAGAGCGTACAATCACTAGATGGAAGCCAGAACAATGCCGTGTTGTCGATAGATTAGTTAAAGTGAAAAGGGAACCAGATCGGAGAAACTCGGTGCTGATATTCTCCTGCTGCACTCACTCTACCGAACCTCTTGACATAGATGATTCTCAGCATATGTTGAATGATGATGAGCTCTCTCTTAACACTATGGCAGAGGATGGAAGTGATGAGGAGTGGGGAAACAAAAGAATTCTCTATGGATAA

Protein Analysis

194

Amino Acids

22.18

Weight (kDa)

8.4

Isoelectric Point (pI)

51.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
tRNA_int_endo PF01974 69 - 101 5.7e-07 tRNA intron endonuclease, catalytic C-terminal domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0012392)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G47780
fragaria_vesca FvH4_2g25450
malus_domestica MD03G1285600.v1.1 MD11G1305000.v1.1
prunus_persica Prupe.8G258700_v2.0.a1 Prupe.8G258700_v2.0.a1
pyrus_communis pycom11g26680
rosa_chinensis RchiOBHm_Chr6g0293681
rosa_laevigata RLG00000011933
rosa_multiflora Rmu_co8092110.1_g000001 Rmu_sc0008436.1_g000002 Rmu_sc0028689.1_g000001
rosa_roxburghii Rroxscaffold_7G00173990
rosa_rugosa Rorug06G0237400
rosa_samantha Rh6AG350000 Rh6BG357500 Rh6CG364300 Rh6DG351200
rosa_wichuraiana Rw6G030470

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 228
AciI CCGC 1 cut(s) 244
AclWI GGATC 1 cut(s) 125
AcsI RAATTY 2 cut(s) 122, 570
AcuI CTGAAG 2 cut(s) 51, 84
AdeI CACNNNGTG 1 cut(s) 154
AfaI GTAC 1 cut(s) 349
AfeI AGCGCT 1 cut(s) 28
AgsI TTSAA 2 cut(s) 341, 502
AluBI AGCT 7 cut(s) 35, 53, 59, 98, 215, 257, 514
AluI AGCT 7 cut(s) 35, 53, 59, 98, 215, 257, 514
Alw21I GWGCWC 2 cut(s) 150, 516
AlwI GGATC 1 cut(s) 125
Ama87I CYCGRG 2 cut(s) 127, 198
Aor51HI AGCGCT 1 cut(s) 28
AoxI GGCC 2 cut(s) 5, 166
ApeKI GCWGC 2 cut(s) 95, 450
ApoI RAATTY 2 cut(s) 122, 570
AspLEI GCGC 1 cut(s) 29
AspS9I GGNCC 1 cut(s) 5
AsuHPI GGTGA 1 cut(s) 292
AvaI CYCGRG 2 cut(s) 127, 198
BanII GRGCYC 1 cut(s) 516
BarI GAAGNNNNNNTAC 2 cut(s) 82, 114
BbsI GAAGAC 1 cut(s) 97
Bbv12I GWGCWC 2 cut(s) 150, 516
BbvI GCAGC 2 cut(s) 107, 437
BccI CCATC 5 cut(s) 6, 255, 322, 354, 533
BceAI ACGGC 1 cut(s) 363
BfaI CTAG 3 cut(s) 9, 260, 357
BfoI RGCGCY 1 cut(s) 30
BisI GCNGC 2 cut(s) 96, 451
BlsI GCNGC 2 cut(s) 97, 452
BmeT110I CYCGRG 2 cut(s) 127, 198
BmgT120I GGNCC 1 cut(s) 5
BmiI GGNNCC 3 cut(s) 6, 135, 414
BpiI GAAGAC 1 cut(s) 97
BseGI GGATG 2 cut(s) 250, 544
BseMII CTCAG 1 cut(s) 503
BseRI GAGGAG 1 cut(s) 566
BseXI GCAGC 2 cut(s) 107, 437
BsgI GTGCAG 1 cut(s) 436
BshFI GGCC 2 cut(s) 7, 168
BsiHKAI GWGCWC 2 cut(s) 150, 516
BsiHKCI CYCGRG 2 cut(s) 127, 198
BsnI GGCC 2 cut(s) 7, 168
BsoBI CYCGRG 2 cut(s) 127, 198
Bsp1286I GDGCHC 2 cut(s) 150, 516
Bsp143I GATC 2 cut(s) 117, 418
BspACI CCGC 1 cut(s) 244
BspANI GGCC 2 cut(s) 7, 168
BspCNI CTCAG 1 cut(s) 502
BspLI GGNNCC 3 cut(s) 6, 135, 414
BspPI GGATC 1 cut(s) 125
BspQI GCTCTTC 1 cut(s) 336
BssMI GATC 2 cut(s) 117, 418
Bst4CI ACNGT 3 cut(s) 224, 304, 337
Bst6I CTCTTC 1 cut(s) 336
BstDEI CTNAG 1 cut(s) 489
BstF5I GGATG 2 cut(s) 250, 544
BstH2I RGCGCY 1 cut(s) 30
BstHHI GCGC 1 cut(s) 29
BstKTI GATC 2 cut(s) 120, 421
BstMBI GATC 2 cut(s) 117, 418
BstV1I GCAGC 2 cut(s) 107, 437
BstV2I GAAGAC 1 cut(s) 97
BsuRI GGCC 2 cut(s) 7, 168
BtsCI GGATG 2 cut(s) 250, 544
CfoI GCGC 1 cut(s) 29
Cfr13I GGNCC 1 cut(s) 5
Csp6I GTAC 1 cut(s) 348
CviAII CATG 1 cut(s) 73
CviQI GTAC 1 cut(s) 348
DdeI CTNAG 1 cut(s) 489
DpnI GATC 2 cut(s) 119, 420
DpnII GATC 2 cut(s) 117, 418
DraIII CACNNNGTG 1 cut(s) 154
Eam1104I CTCTTC 1 cut(s) 336
EarI CTCTTC 1 cut(s) 336
Ecl136II GAGCTC 1 cut(s) 514
Eco147I AGGCCT 1 cut(s) 168
Eco24I GRGCYC 1 cut(s) 516
Eco47III AGCGCT 1 cut(s) 28
Eco53kI GAGCTC 1 cut(s) 514
Eco57I CTGAAG 2 cut(s) 51, 84
Eco88I CYCGRG 2 cut(s) 127, 198
EcoICRI GAGCTC 1 cut(s) 514
EcoO109I RGGNCCY 1 cut(s) 5
EcoRI GAATTC 1 cut(s) 570
EcoT38I GRGCYC 1 cut(s) 516
FaeI CATG 1 cut(s) 76
FatI CATG 1 cut(s) 72
FauNDI CATATG 1 cut(s) 495
FblI GTMKAC 1 cut(s) 228
Fnu4HI GCNGC 2 cut(s) 96, 451
FokI GGATG 2 cut(s) 237, 551
FriOI GRGCYC 1 cut(s) 516
Fsp4HI GCNGC 2 cut(s) 96, 451
FspBI CTAG 3 cut(s) 9, 260, 357
GlaI GCGC 1 cut(s) 28
GluI GCNGC 2 cut(s) 96, 451
HaeII RGCGCY 1 cut(s) 30
HaeIII GGCC 2 cut(s) 7, 168
HhaI GCGC 1 cut(s) 29
Hin1II CATG 1 cut(s) 76
Hin6I GCGC 1 cut(s) 27
HinP1I GCGC 1 cut(s) 27
HindIII AAGCTT 1 cut(s) 57
HinfI GANTC 3 cut(s) 21, 308, 485
HphI GGTGA 1 cut(s) 292
Hpy166II GTNNAC 2 cut(s) 229, 307
Hpy188I TCNGA 3 cut(s) 117, 271, 423
Hpy188III TCNNGA 4 cut(s) 127, 200, 210, 473
Hpy8I GTNNAC 2 cut(s) 229, 307
HpyCH4III ACNGT 3 cut(s) 224, 304, 337
HpyCH4V TGCA 3 cut(s) 65, 95, 453
HpyF3I CTNAG 1 cut(s) 489
Hsp92II CATG 1 cut(s) 76
HspAI GCGC 1 cut(s) 27
Kzo9I GATC 2 cut(s) 117, 418
LguI GCTCTTC 1 cut(s) 336
LmnI GCTCC 2 cut(s) 145, 212
LpnPI CCDG 5 cut(s) 195, 267, 381, 429, 460
Lsp1109I GCAGC 2 cut(s) 107, 437
MaeI CTAG 3 cut(s) 9, 260, 357
MalI GATC 2 cut(s) 119, 420
MboI GATC 2 cut(s) 117, 418
MboII GAAGA 2 cut(s) 97, 353
MhlI GDGCHC 2 cut(s) 150, 516
MluCI AATT 2 cut(s) 122, 570
MlyI GAGTC 1 cut(s) 302
MnlI CCTC 5 cut(s) 123, 207, 480, 529, 544
MseI TTAA 3 cut(s) 290, 399, 522
NdeI CATATG 1 cut(s) 495
NdeII GATC 2 cut(s) 117, 418
NlaIII CATG 1 cut(s) 76
NlaIV GGNNCC 3 cut(s) 6, 135, 414
PaeR7I CTCGAG 2 cut(s) 127, 198
PceI AGGCCT 1 cut(s) 168
PciSI GCTCTTC 1 cut(s) 336
PfeI GAWTC 2 cut(s) 21, 485
PkrI GCNGC 2 cut(s) 97, 452
PleI GAGTC 1 cut(s) 302
PpsI GAGTC 1 cut(s) 302
Psp124BI GAGCTC 1 cut(s) 516
PspN4I GGNNCC 3 cut(s) 6, 135, 414
PspPI GGNCC 1 cut(s) 5
RsaI GTAC 1 cut(s) 349
RsaNI GTAC 1 cut(s) 348
SacI GAGCTC 1 cut(s) 516
SapI GCTCTTC 1 cut(s) 336
SaqAI TTAA 3 cut(s) 290, 399, 522
SatI GCNGC 2 cut(s) 96, 451
Sau3AI GATC 2 cut(s) 117, 418
Sau96I GGNCC 1 cut(s) 5
SchI GAGTC 1 cut(s) 302
SduI GDGCHC 2 cut(s) 150, 516
Sfr274I CTCGAG 2 cut(s) 127, 198
SlaI CTCGAG 2 cut(s) 127, 198
SmlI CTYRAG 2 cut(s) 127, 198
SmoI CTYRAG 2 cut(s) 127, 198
Sse9I AATT 2 cut(s) 122, 570
SseBI AGGCCT 1 cut(s) 168
SsiI CCGC 1 cut(s) 244
SspMI CTAG 3 cut(s) 9, 260, 357
SstI GAGCTC 1 cut(s) 516
StuI AGGCCT 1 cut(s) 168
TaaI ACNGT 3 cut(s) 224, 304, 337
TaqI TCGA 3 cut(s) 128, 199, 387
TasI AATT 2 cut(s) 122, 570
TfiI GAWTC 2 cut(s) 21, 485
Tru1I TTAA 3 cut(s) 290, 399, 522
Tru9I TTAA 3 cut(s) 290, 399, 522
TseI GCWGC 2 cut(s) 95, 450
TspDTI ATGAA 1 cut(s) 254
XapI RAATTY 2 cut(s) 122, 570
XhoI CTCGAG 2 cut(s) 127, 198
XmiI GTMKAC 1 cut(s) 228
XspI CTAG 3 cut(s) 9, 260, 357
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.