Rorug01G0328400

THO complex subunit 4A-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000001
OG0000403
Physical Location & Seq
Reverse (-)
44735171 .. 44736646
1476 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug01G0328400.1

Sequence Viewer

Length: 897 bp
ATGAAGGAGCTTGGGGTTCAATCAATGGAGACCTTAGTTGAAGCGGCGCTCCGAGTTTTAAACACCGCCGACCCCTTCGACAAGGCCCGACTCGGCGACTCGGTCGCCTCACAATGGCTCAACGGAACCATCACTCTCCCCTACAACCCAACCCTCGACCTCGCCGTACCGGACCGCCCCGCCAGGCTCACCCAAGTGAAGCTGGTGACGCCGAGTCAGATGCCGAAGCTGGGCCGAGGCGTTAGCTTGCAGAGCAGGCAAGCAATGGTTCATAGCTTGGCGCACACGGAGAGCTGGGCGATTGACTTGTCTTGGGACATAATTGCTAGGTTTGGTAAGCAAGAGGCAATGCCGGTGGAGTTTTTCACTGATTTCGTGAAGGTGGCTCAGGACGAAGGGAGACATTTCAGTCTCTTGGCTTCGAGGCTGGAGGAGATGGGATCGTTTTATGGGGCTTTGCCGGCGCACGACGGGTTATGGGACTCGGCAACTGCTACTTCGGATGACCTGCTGGCGCGGTTGGCGGTGGAGCATTGTGTCCATGAGGCGAGAGGAATGGATGTGCTGCCCACGACCATTGCGAGGTTTCGCAATGGGGTTGATGAGAAGACGGCGGGGCTGCTGGAGAGCGTGGTGTACCCTGAAGAGATCACGCATTGTGCTGCGGGAGTGAAATGGTTTAAGTATGTTTTCCTGAGGTCGATGGGAAAAGGTTTGGATGGAAATGAGGAAGATGCAGTGATTGAGAAGTTTCATGAAGTTGTGAGGAAGCATTTTAGGGGGCCTTTGAAGCCTCCTTTCAACGAAGAAGCGAGGAAAGCTGCTGGATTTGGTCCTCAATGGTATGAACCTCTTGCTGTCAAAGAGAGCAAGACTACTACTACTACAGCATTTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03013 ko03015 ko03040 ko05168 map03013 map03015 map03040 map05168
Pfam Domains
Protein Families
FoP_duplication RRM_1

Protein Analysis

298

Amino Acids

33.09

Weight (kDa)

5.76

Isoelectric Point (pI)

37.7

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF455 PF04305 21 - 283 3.4e-87 Protein of unknown function (DUF455)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000403)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G18310 AT5G15870
fragaria_vesca FvH4_3g44967 FvH4_6g45580 FvH4_6g47860 FvH4_6g47870 FvH4_6g53160
malus_domestica MD09G1047100.v1.1 MD09G1081400.v1.1 MD09G1081500.v1.1 MD09G1081600.v1.1 MD09G1081700.v1.1 MD15G1128600.v1.1 MD17G1047200.v1.1 MD17G1048700.v1.1 MD17G1071200.v1.1 MD17G1072700.v1.1
prunus_persica Prupe.3G242000_v2.0.a1 Prupe.3G242100_v2.0.a1 Prupe.3G261700_v2.0.a1 Prupe.8G191700_v2.0.a1 Prupe.8G194600_v2.0.a1 Prupe.8G259500_v2.0.a1
pyrus_communis pycom09g00810 pycom09g00820 pycom09g00830 pycom15g11570 pycom17g04350 pycom17g07070 pycom17g07350
rosa_chinensis RchiOBHm_Chr1g0366281 RchiOBHm_Chr2g0163531 RchiOBHm_Chr2g0163581 RchiOBHm_Chr2g0167061 RchiOBHm_Chr2g0167071 RchiOBHm_Chr3g0490821 RchiOBHm_Chr3g0490841 RchiOBHm_Chr3g0492161 RchiOBHm_Chr3g0492171
rosa_laevigata RLG00000021408 RLG00000021693 RLG00000021694 RLG00000022819 RLG00000022827
rosa_multiflora Rmu_co8304887.1_g000001 Rmu_co8334235.1_g000001 Rmu_co8488335.1_g000001 Rmu_sc0003484.1_g000001 Rmu_sc0003484.1_g000004 Rmu_sc0010966.1_g000013 Rmu_sc0012462.1_g000001 Rmu_sc0019504.1_g000002 Rmu_sc0019504.1_g000004 Rmu_sc0022540.1_g000001 Rmu_sc0023760.1_g000001 Rmu_sc0038280.1_g000002
rosa_roxburghii Rroxscaffold_2G00077500 Rroxscaffold_2G00083750 Rroxscaffold_2G00083760 Rroxscaffold_2G00087160 Rroxscaffold_2G00132530 Rroxscaffold_4G00290030 Rroxscaffold_4G00290040 Rroxscaffold_4G00290280
rosa_rugosa Rorug01G0328400 Rorug02G0265200 Rorug02G0265900 Rorug02G0266000 Rorug02G0266800.1 Rorug02G0266900.1 Rorug02G0267500 Rorug02G0267600 Rorug02G0268300 Rorug02G0268800 Rorug02G0268900 Rorug02G0503600 Rorug02G0528200 Rorug02G0528300 Rorug03G0247200 Rorug03G0247300
rosa_samantha Rh1BG298400 Rh1DG329800 Rh2AG570500 Rh2AG570700 Rh2AG595000 Rh2AG595100 Rh2AG595200 Rh2CG552500 Rh2CG552700 Rh2CG577100 Rh2CG577200 Rh2DG592500 Rh2DG617800 Rh2DG617900 Rh3CG333000 Rh3DG335000
rosa_wichuraiana Rw2G047230 Rw2G049530 Rw2G049540 Rw3G026510

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 408
Acc36I ACCTGC 1 cut(s) 516
AccII CGCG 1 cut(s) 517
AciI CCGC 8 cut(s) 44, 66, 175, 180, 517, 524, 614, 665
AclWI GGATC 1 cut(s) 448
AcuI CTGAAG 1 cut(s) 663
AcyI GRCGYC 1 cut(s) 209
AfaI GTAC 2 cut(s) 168, 638
AfiI CCNNNNNNNGG 3 cut(s) 114, 230, 582
AgsI TTSAA 4 cut(s) 20, 41, 790, 802
AhdI GACNNNNNGTC 1 cut(s) 213
AjnI CCWGG 1 cut(s) 182
AleI CACNNNNGTG 1 cut(s) 194
AluBI AGCT 7 cut(s) 10, 202, 229, 246, 276, 294, 821
AluI AGCT 7 cut(s) 10, 202, 229, 246, 276, 294, 821
Alw26I GTCTC 3 cut(s) 23, 394, 416
AlwI GGATC 1 cut(s) 448
AoxI GGCC 3 cut(s) 84, 232, 782
ApeKI GCWGC 4 cut(s) 565, 619, 662, 821
AspLEI GCGC 4 cut(s) 49, 283, 466, 517
AspS9I GGNCC 5 cut(s) 85, 172, 232, 782, 833
AsuHPI GGTGA 2 cut(s) 181, 217
AvaII GGWCC 2 cut(s) 172, 833
AxyI CCTNAGG 1 cut(s) 695
BbsI GAAGAC 1 cut(s) 614
BbvI GCAGC 4 cut(s) 552, 606, 649, 808
BccI CCATC 4 cut(s) 137, 430, 697, 713
BceAI ACGGC 2 cut(s) 149, 627
BcgI CGANNNNNNTGC 2 cut(s) 202, 236
BciT130I CCWGG 1 cut(s) 184
BcoDI GTCTC 3 cut(s) 23, 394, 416
BfaI CTAG 1 cut(s) 327
BfmI CTRYAG 1 cut(s) 885
BfoI RGCGCY 1 cut(s) 50
BfuAI ACCTGC 1 cut(s) 516
BisI GCNGC 5 cut(s) 45, 566, 620, 663, 822
BlsI GCNGC 5 cut(s) 46, 567, 621, 664, 823
Bme1390I CCNGG 1 cut(s) 184
Bme18I GGWCC 2 cut(s) 172, 833
BmeRI GACNNNNNGTC 1 cut(s) 213
BmgT120I GGNCC 5 cut(s) 85, 172, 232, 782, 833
BmiI GGNNCC 2 cut(s) 127, 783
BmrFI CCNGG 1 cut(s) 184
BmsI GCATC 2 cut(s) 210, 724
BpiI GAAGAC 1 cut(s) 614
BpmI CTGGAG 2 cut(s) 449, 644
Bpu10I CCTNAGC 1 cut(s) 387
BsaHI GRCGYC 1 cut(s) 209
BsaI GGTCTC 1 cut(s) 23
BsaJI CCNNGG 1 cut(s) 235
BsaWI WCCGGW 1 cut(s) 169
Bsc4I CCNNNNNNNGG 3 cut(s) 114, 230, 582
Bse118I RCCGGY 2 cut(s) 352, 460
Bse21I CCTNAGG 1 cut(s) 695
Bse3DI GCAATG 4 cut(s) 270, 354, 576, 598
BseBI CCWGG 1 cut(s) 184
BseDI CCNNGG 1 cut(s) 235
BseGI GGATG 3 cut(s) 508, 565, 724
BseLI CCNNNNNNNGG 3 cut(s) 114, 230, 582
BseMI GCAATG 4 cut(s) 270, 354, 576, 598
BseMII CTCAG 2 cut(s) 401, 686
BseRI GAGGAG 1 cut(s) 446
BseXI GCAGC 4 cut(s) 552, 606, 649, 808
BseYI CCCAGC 2 cut(s) 229, 294
Bsh1236I CGCG 1 cut(s) 517
Bsh1285I CGRYCG 1 cut(s) 105
BshFI GGCC 3 cut(s) 86, 234, 784
BsiEI CGRYCG 1 cut(s) 105
BsiSI CCGG 3 cut(s) 170, 353, 461
BslFI GGGAC 2 cut(s) 329, 494
BslI CCNNNNNNNGG 3 cut(s) 114, 230, 582
BsmAI GTCTC 3 cut(s) 23, 394, 416
BsmFI GGGAC 2 cut(s) 329, 494
BsnI GGCC 3 cut(s) 86, 234, 784
Bso31I GGTCTC 1 cut(s) 23
Bsp143I GATC 2 cut(s) 440, 648
BspACI CCGC 8 cut(s) 44, 66, 175, 180, 517, 524, 614, 665
BspANI GGCC 3 cut(s) 86, 234, 784
BspCNI CTCAG 2 cut(s) 400, 687
BspFNI CGCG 1 cut(s) 517
BspHI TCATGA 1 cut(s) 754
BspLI GGNNCC 2 cut(s) 127, 783
BspMI ACCTGC 1 cut(s) 516
BspPI GGATC 1 cut(s) 448
BspTNI GGTCTC 1 cut(s) 23
BsrDI GCAATG 4 cut(s) 270, 354, 576, 598
BsrFI RCCGGY 2 cut(s) 352, 460
BssAI RCCGGY 2 cut(s) 352, 460
BssECI CCNNGG 1 cut(s) 235
BssMI GATC 2 cut(s) 440, 648
BssNI GRCGYC 1 cut(s) 209
Bst2UI CCWGG 1 cut(s) 184
Bst6I CTCTTC 1 cut(s) 639
BstACI GRCGYC 1 cut(s) 209
BstC8I GCNNGC 5 cut(s) 248, 257, 261, 462, 513
BstDEI CTNAG 3 cut(s) 34, 387, 695
BstF5I GGATG 3 cut(s) 508, 565, 724
BstFNI CGCG 1 cut(s) 517
BstH2I RGCGCY 1 cut(s) 50
BstHHI GCGC 4 cut(s) 49, 283, 466, 517
BstKTI GATC 2 cut(s) 443, 651
BstMAI GTCTC 3 cut(s) 23, 394, 416
BstMBI GATC 2 cut(s) 440, 648
BstMCI CGRYCG 1 cut(s) 105
BstMWI GCNNNNNNNGC 7 cut(s) 208, 252, 256, 461, 521, 790, 818
BstNI CCWGG 1 cut(s) 184
BstSCI CCNGG 1 cut(s) 182
BstSFI CTRYAG 1 cut(s) 885
BstUI CGCG 1 cut(s) 517
BstV1I GCAGC 4 cut(s) 552, 606, 649, 808
BstV2I GAAGAC 1 cut(s) 614
Bsu36I CCTNAGG 1 cut(s) 695
BsuRI GGCC 3 cut(s) 86, 234, 784
BtsCI GGATG 3 cut(s) 508, 565, 724
BtsI GCAGTG 1 cut(s) 744
BtsIMutI CAGTG 2 cut(s) 366, 744
BveI ACCTGC 1 cut(s) 516
Cac8I GCNNGC 5 cut(s) 248, 257, 261, 462, 513
CciI TCATGA 1 cut(s) 754
CfoI GCGC 4 cut(s) 49, 283, 466, 517
Cfr10I RCCGGY 2 cut(s) 352, 460
Cfr13I GGNCC 5 cut(s) 85, 172, 232, 782, 833
CpoI CGGWCCG 1 cut(s) 172
CseI GACGC 1 cut(s) 217
Csp6I GTAC 2 cut(s) 167, 637
CspCI CAANNNNNGTGG 4 cut(s) 336, 371, 559, 594
CspI CGGWCCG 1 cut(s) 172
CviAII CATG 2 cut(s) 542, 755
CviQI GTAC 2 cut(s) 167, 637
DdeI CTNAG 3 cut(s) 34, 387, 695
DpnI GATC 2 cut(s) 442, 650
DpnII GATC 2 cut(s) 440, 648
DraI TTTAAA 1 cut(s) 60
DrdI GACNNNNNNGTC 1 cut(s) 408
DriI GACNNNNNGTC 1 cut(s) 213
DseDI GACNNNNNNGTC 1 cut(s) 408
Eam1104I CTCTTC 1 cut(s) 639
Eam1105I GACNNNNNGTC 1 cut(s) 213
EarI CTCTTC 1 cut(s) 639
Eco31I GGTCTC 1 cut(s) 23
Eco47I GGWCC 2 cut(s) 172, 833
Eco57I CTGAAG 1 cut(s) 663
Eco81I CCTNAGG 1 cut(s) 695
EcoO109I RGGNCCY 1 cut(s) 782
EcoRII CCWGG 1 cut(s) 182
FaeI CATG 2 cut(s) 545, 758
FaiI YATR 8 cut(s) 273, 320, 450, 478, 543, 687, 756, 846
FaqI GGGAC 2 cut(s) 329, 494
FatI CATG 2 cut(s) 541, 754
FauI CCCGC 3 cut(s) 187, 607, 658
Fnu4HI GCNGC 5 cut(s) 45, 566, 620, 663, 822
FokI GGATG 3 cut(s) 515, 572, 731
Fsp4HI GCNGC 5 cut(s) 45, 566, 620, 663, 822
FspBI CTAG 1 cut(s) 327
GlaI GCGC 4 cut(s) 48, 282, 465, 516
GluI GCNGC 5 cut(s) 45, 566, 620, 663, 822
GsaI CCCAGC 2 cut(s) 233, 298
GsuI CTGGAG 2 cut(s) 449, 644
HaeII RGCGCY 1 cut(s) 50
HaeIII GGCC 3 cut(s) 86, 234, 784
HapII CCGG 3 cut(s) 170, 353, 461
HgaI GACGC 1 cut(s) 217
HhaI GCGC 4 cut(s) 49, 283, 466, 517
Hin1I GRCGYC 1 cut(s) 209
Hin1II CATG 2 cut(s) 545, 758
Hin6I GCGC 4 cut(s) 47, 281, 464, 515
HinP1I GCGC 4 cut(s) 47, 281, 464, 515
HinfI GANTC 4 cut(s) 90, 98, 214, 482
HpaII CCGG 3 cut(s) 170, 353, 461
HphI GGTGA 2 cut(s) 181, 217
Hpy166II GTNNAC 1 cut(s) 637
Hpy188I TCNGA 3 cut(s) 53, 219, 502
Hpy188III TCNNGA 4 cut(s) 376, 389, 694, 755
Hpy8I GTNNAC 1 cut(s) 637
Hpy99I CGWCG 1 cut(s) 473
HpyAV CCTTC 3 cut(s) 85, 373, 389
HpyCH4V TGCA 2 cut(s) 250, 737
HpyF10VI GCNNNNNNNGC 7 cut(s) 208, 252, 256, 461, 521, 790, 818
HpyF3I CTNAG 3 cut(s) 34, 387, 695
Hsp92I GRCGYC 1 cut(s) 209
Hsp92II CATG 2 cut(s) 545, 758
HspAI GCGC 4 cut(s) 47, 281, 464, 515
KroI GCCGGC 1 cut(s) 460
KroNI GCCGGC 1 cut(s) 462
Kzo9I GATC 2 cut(s) 440, 648
LmnI GCTCC 3 cut(s) 7, 54, 529
Lsp1109I GCAGC 4 cut(s) 552, 606, 649, 808
LweI GCATC 2 cut(s) 210, 724
MaeI CTAG 1 cut(s) 327
MaeIII GTNAC 1 cut(s) 205
MalI GATC 2 cut(s) 442, 650
MboI GATC 2 cut(s) 440, 648
MboII GAAGA 4 cut(s) 619, 656, 743, 818
MluCI AATT 1 cut(s) 321
MlyI GAGTC 4 cut(s) 84, 92, 223, 476
MroNI GCCGGC 1 cut(s) 460
MseI TTAA 2 cut(s) 59, 681
MslI CAYNNNNRTG 1 cut(s) 194
MspI CCGG 3 cut(s) 170, 353, 461
MspR9I CCNGG 1 cut(s) 184
MvaI CCWGG 1 cut(s) 184
MvnI CGCG 1 cut(s) 517
MwoI GCNNNNNNNGC 7 cut(s) 208, 252, 256, 461, 521, 790, 818
NaeI GCCGGC 1 cut(s) 462
NdeII GATC 2 cut(s) 440, 648
NgoMIV GCCGGC 1 cut(s) 460
NlaIII CATG 2 cut(s) 545, 758
NlaIV GGNNCC 2 cut(s) 127, 783
NmeAIII GCCGAG 4 cut(s) 72, 237, 260, 464
NmuCI GTSAC 1 cut(s) 205
OliI CACNNNNGTG 1 cut(s) 194
PagI TCATGA 1 cut(s) 754
PcsI WCGNNNNNNNCGW 2 cut(s) 162, 578
PdiI GCCGGC 1 cut(s) 462
PflFI GACNNNGTC 1 cut(s) 101
PkrI GCNGC 5 cut(s) 46, 567, 621, 664, 823
PleI GAGTC 4 cut(s) 84, 92, 222, 476
PpsI GAGTC 4 cut(s) 84, 92, 222, 476
Psp6I CCWGG 1 cut(s) 182
PspFI CCCAGC 2 cut(s) 229, 294
PspGI CCWGG 1 cut(s) 182
PspN4I GGNNCC 2 cut(s) 127, 783
PspPI GGNCC 5 cut(s) 85, 172, 232, 782, 833
PsyI GACNNNGTC 1 cut(s) 101
RsaI GTAC 2 cut(s) 168, 638
RsaNI GTAC 2 cut(s) 167, 637
RseI CAYNNNNRTG 1 cut(s) 194
Rsr2I CGGWCCG 1 cut(s) 172
RsrII CGGWCCG 1 cut(s) 172
SaqAI TTAA 2 cut(s) 59, 681
SatI GCNGC 5 cut(s) 45, 566, 620, 663, 822
Sau3AI GATC 2 cut(s) 440, 648
Sau96I GGNCC 5 cut(s) 85, 172, 232, 782, 833
SchI GAGTC 4 cut(s) 84, 92, 223, 476
ScrFI CCNGG 1 cut(s) 184
SfaNI GCATC 2 cut(s) 210, 724
SfcI CTRYAG 1 cut(s) 885
SinI GGWCC 2 cut(s) 172, 833
SmiMI CAYNNNNRTG 1 cut(s) 194
Sse9I AATT 1 cut(s) 321
SsiI CCGC 8 cut(s) 44, 66, 175, 180, 517, 524, 614, 665
SspMI CTAG 1 cut(s) 327
StyD4I CCNGG 1 cut(s) 182
TaqI TCGA 4 cut(s) 78, 156, 422, 701
TaqII GACCGA 1 cut(s) 91
TasI AATT 1 cut(s) 321
TauI GCSGC 1 cut(s) 47
Tru1I TTAA 2 cut(s) 59, 681
Tru9I TTAA 2 cut(s) 59, 681
TscAI CASTG 2 cut(s) 373, 744
TseFI GTSAC 1 cut(s) 205
TseI GCWGC 4 cut(s) 565, 619, 662, 821
Tsp45I GTSAC 1 cut(s) 205
TspDTI ATGAA 5 cut(s) 17, 260, 743, 771, 861
TspGWI ACGGA 2 cut(s) 138, 302
TspRI CASTG 2 cut(s) 373, 744
Tth111I GACNNNGTC 1 cut(s) 101
VpaK11BI GGWCC 2 cut(s) 172, 833
XspI CTAG 1 cut(s) 327
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.