Rroxscaffold_1G00054780

At4g26485-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000364
Physical Location & Seq
Forward (+)
76120150 .. 76128345
8196 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00054780.1

Sequence Viewer

Length: 930 bp
ATGCGATTTGACGGGAGCACTGAAAAATTTCTCCAATATCTCTGCTCAAACGTGTTATTGCCAAAATTGATTGTCGGCCTCTCGAAGAACCGAGACCGAAACAACAGCTCAACCTACTCGATCCAAGTCTCCTCCATCGAAGACTCGAAGGCTCTCGCTCTTCTCGCACTCCTCTACTCCATCGAAGATCGGAAGGCGTCGGCTGTTCGCTCACTCTCTCTCGCCCTCCTCGAAGATTCGAAGCCTCTCACCCCTCTCTCGCCCTCCATTGAGGAATCGATTCTTCAAGCCTCCCACTCCGAATCGATGGGAAAAGCTGGAAATCATGTAACCTCAGCCTCTTCAACCTCTTGTCCTCCTCCAAAAGCTAAGGGAAAGAATGGTATTGGAACTAATGATGAAGTTGTTCAACTCGCAAAGCAACGTCAAGAAACATCAACGCCTAAAACCATTATGGTGTACATCTCTGCAATCATCACAGCTCGCGCTTCCTCGAAGGACAATGTAGGCCTCCTACCCTACCCCTCATGTGGAAGAGTATCCCCATCTAGCTTCTCCACCGAACCCACAATCATAGTTTTCGAAGTTGACGCGAGGCTTAGGGCACATAAAAACCTAGTCAAGGGATACTTCATGAGCGCACGTCAAATGCTGAGTAGCCTTGGACGTATTCATGTGACACACAATACAAGATTTCCTTTTACAGAGTGGGAAATAGTGAACTTGGCAAAGGAGGCTGGGTTATATCTGGTTGACGAAGAAACATTCTACCCATGGCAATATCCAGGTTATGTAAATAAAAGAGGAGCTGGGAACTGCGAAGAAAGCTTTAGAGTCGGCATGTCTAGCACCTTCAAAGGTACTAGATGTACTCGAGAATTGGTTGTCATGAGCTCTAAGCTGCATTGTTATCGTATGTTTAAAGTTTGA
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
DUF2431

Protein Analysis

309

Amino Acids

34.18

Weight (kDa)

9.29

Isoelectric Point (pI)

49.03

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
BMT5-like PF10354 196 - 268 6.2e-16 rRNA (uridine-N3-)-methyltransferase BTM5-like
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: OG0000364)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G26485
fragaria_vesca FvH4_3g14860 FvH4_3g14860 FvH4_3g14861 FvH4_3g14862 FvH4_3g14862 FvH4_3g14880 FvH4_3g14880 FvH4_3g14890 FvH4_3g14891 FvH4_3g14892 FvH4_3g14901 FvH4_3g14902
malus_domestica MD05G1233500.v1.1 MD05G1233600.v1.1 MD10G1209900.v1.1 MD10G1210000.v1.1 MD10G1210100.v1.1 MD10G1210300.v1.1 MD10G1210400.v1.1
prunus_persica Prupe.4G132900_v2.0.a1 Prupe.4G133200_v2.0.a1 Prupe.4G133200_v2.0.a1 Prupe.4G133200_v2.0.a1 Prupe.4G133300_v2.0.a1 Prupe.4G133300_v2.0.a1 Prupe.4G133400_v2.0.a1 Prupe.4G133500_v2.0.a1 Prupe.4G133500_v2.0.a1 Prupe.4G133600_v2.0.a1 Prupe.4G133600_v2.0.a1
pyrus_communis pycom05g21110 pycom05g21120 pycom10g17840
rosa_chinensis RchiOBHm_Chr5g0024361 RchiOBHm_Chr5g0024391 RchiOBHm_Chr5g0024411 RchiOBHm_Chr5g0024431 RchiOBHm_Chr5g0024451 RchiOBHm_Chr5g0024461 RchiOBHm_Chr5g0024471 RchiOBHm_Chr5g0024481 RchiOBHm_Chr5g0024501 RchiOBHm_Chr5g0024511
rosa_laevigata RLG00000032799 RLG00000032800 RLG00000032801 RLG00000032802 RLG00000032803
rosa_multiflora Rmu_sc0000761.1_g000010 Rmu_sc0000761.1_g000014 Rmu_sc0000761.1_g000018 Rmu_sc0000761.1_g000025 Rmu_sc0005861.1_g000002 Rmu_sc0005861.1_g000004 Rmu_sc0005861.1_g000007 Rmu_sc0011809.1_g000001 Rmu_sc0011809.1_g000006
rosa_roxburghii Rroxscaffold_1G00054740 Rroxscaffold_1G00054750 Rroxscaffold_1G00054760 Rroxscaffold_1G00054770 Rroxscaffold_1G00054780 Rroxscaffold_1G00054790 Rroxscaffold_1G00054840 Rroxscaffold_1G00055860 Rroxscaffold_3G00237770 Rroxscaffold_6G00389330
rosa_rugosa Rorug05G0083300 Rorug05G0083400 Rorug05G0083400
rosa_samantha Rh5AG174100 Rh5AG174300 Rh5AG174600 Rh5AG174700 Rh5AG175000 Rh5AG175300 Rh5BG171000 Rh5BG171400 Rh5BG171500 Rh5BG171600 Rh5BG171700 Rh5BG172100 Rh5BG172300 Rh5BG172500 Rh5CG187400 Rh5CG187700 Rh5CG187900 Rh5CG188000 Rh5CG188200 Rh5CG188400 Rh5CG188500 Rh5CG188600 Rh5DG173200 Rh5DG173400 Rh5DG173500 Rh5DG173700 Rh5DG173900 Rh5DG174000 Rh5DG174100
rosa_wichuraiana Rw5G015700 Rw5G015730 Rw5G015740 Rw5G015770 Rw5G015790

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 2 cut(s) 486, 593
AclWI GGATC 1 cut(s) 115
AcsI RAATTY 1 cut(s) 26
AcyI GRCGYC 1 cut(s) 197
AfaI GTAC 3 cut(s) 461, 862, 871
AfiI CCNNNNNNNGG 2 cut(s) 530, 622
AflIII ACRYGT 1 cut(s) 51
AgsI TTSAA 4 cut(s) 287, 345, 410, 856
AjiI CACGTC 1 cut(s) 644
AjnI CCWGG 1 cut(s) 784
AluBI AGCT 9 cut(s) 108, 317, 368, 482, 552, 809, 828, 894, 901
AluI AGCT 9 cut(s) 108, 317, 368, 482, 552, 809, 828, 894, 901
Alw21I GWGCWC 2 cut(s) 20, 896
Alw26I GTCTC 2 cut(s) 87, 133
AlwI GGATC 1 cut(s) 115
Ama87I CYCGRG 1 cut(s) 873
AoxI GGCC 2 cut(s) 76, 508
ApeKI GCWGC 1 cut(s) 901
ApoI RAATTY 1 cut(s) 26
Asp700I GAANNNNTTC 3 cut(s) 27, 279, 405
AspLEI GCGC 2 cut(s) 488, 641
AsuHPI GGTGA 1 cut(s) 241
AsuII TTCGAA 2 cut(s) 239, 582
AvaI CYCGRG 1 cut(s) 873
BaeGI GKGCMC 1 cut(s) 607
BanII GRGCYC 1 cut(s) 896
BbsI GAAGAC 1 cut(s) 147
Bbv12I GWGCWC 2 cut(s) 20, 896
BbvCI CCTCAGC 1 cut(s) 334
BbvI GCAGC 1 cut(s) 888
BccI CCATC 4 cut(s) 143, 188, 301, 553
BcgI CGANNNNNNTGC 2 cut(s) 893, 927
BciT130I CCWGG 1 cut(s) 786
BciVI GTATCC 2 cut(s) 550, 620
BcoDI GTCTC 2 cut(s) 87, 133
BfaI CTAG 4 cut(s) 549, 617, 846, 864
BfuI GTATCC 2 cut(s) 550, 620
BisI GCNGC 1 cut(s) 902
BlsI GCNGC 1 cut(s) 903
Bme1390I CCNGG 1 cut(s) 786
BmeT110I CYCGRG 1 cut(s) 873
BmgBI CACGTC 1 cut(s) 644
BmrFI CCNGG 1 cut(s) 786
BpiI GAAGAC 1 cut(s) 147
Bpu10I CCTNAGC 3 cut(s) 334, 369, 599
Bpu14I TTCGAA 2 cut(s) 239, 582
Bsa29I ATCGAT 2 cut(s) 278, 305
BsaHI GRCGYC 1 cut(s) 197
BsaI GGTCTC 1 cut(s) 87
BsaJI CCNNGG 2 cut(s) 661, 773
BsaXI ACNNNNNCTCC 2 cut(s) 725, 755
Bsc4I CCNNNNNNNGG 2 cut(s) 530, 622
BseBI CCWGG 1 cut(s) 786
BseCI ATCGAT 2 cut(s) 278, 305
BseDI CCNNGG 2 cut(s) 661, 773
BseLI CCNNNNNNNGG 2 cut(s) 530, 622
BseMII CTCAG 2 cut(s) 348, 644
BseRI GAGGAG 5 cut(s) 121, 161, 218, 348, 819
BseSI GKGCMC 1 cut(s) 607
BseXI GCAGC 1 cut(s) 888
BseYI CCCAGC 2 cut(s) 737, 809
Bsh1236I CGCG 2 cut(s) 486, 593
BshFI GGCC 2 cut(s) 78, 510
BshVI ATCGAT 2 cut(s) 278, 305
BsiHKAI GWGCWC 2 cut(s) 20, 896
BsiHKCI CYCGRG 1 cut(s) 873
BslI CCNNNNNNNGG 2 cut(s) 530, 622
BsmAI GTCTC 2 cut(s) 87, 133
BsnI GGCC 2 cut(s) 78, 510
Bso31I GGTCTC 1 cut(s) 87
BsoBI CYCGRG 1 cut(s) 873
Bsp119I TTCGAA 2 cut(s) 239, 582
Bsp1286I GDGCHC 3 cut(s) 20, 607, 896
Bsp1407I TGTACA 1 cut(s) 459
Bsp143I GATC 2 cut(s) 120, 187
Bsp19I CCATGG 1 cut(s) 773
BspANI GGCC 2 cut(s) 78, 510
BspCNI CTCAG 2 cut(s) 347, 645
BspDI ATCGAT 2 cut(s) 278, 305
BspFNI CGCG 2 cut(s) 486, 593
BspHI TCATGA 2 cut(s) 633, 888
BspPI GGATC 1 cut(s) 115
BspQI GCTCTTC 1 cut(s) 165
BspT104I TTCGAA 2 cut(s) 239, 582
BspTNI GGTCTC 1 cut(s) 87
BsrGI TGTACA 1 cut(s) 459
BssECI CCNNGG 2 cut(s) 661, 773
BssMI GATC 2 cut(s) 120, 187
BssNI GRCGYC 1 cut(s) 197
BssT1I CCWWGG 2 cut(s) 661, 773
Bst2UI CCWGG 1 cut(s) 786
Bst6I CTCTTC 3 cut(s) 165, 346, 529
BstACI GRCGYC 1 cut(s) 197
BstAUI TGTACA 1 cut(s) 459
BstBI TTCGAA 2 cut(s) 239, 582
BstC8I GCNNGC 1 cut(s) 484
BstDEI CTNAG 5 cut(s) 334, 369, 599, 653, 897
BstDSI CCRYGG 1 cut(s) 773
BstENI CCTNNNNNAGG 1 cut(s) 620
BstFNI CGCG 2 cut(s) 486, 593
BstHHI GCGC 2 cut(s) 488, 641
BstKTI GATC 2 cut(s) 123, 190
BstMAI GTCTC 2 cut(s) 87, 133
BstMBI GATC 2 cut(s) 120, 187
BstMWI GCNNNNNNNGC 4 cut(s) 164, 734, 825, 846
BstNI CCWGG 1 cut(s) 786
BstNSI RCATGY 1 cut(s) 844
BstSCI CCNGG 1 cut(s) 784
BstSLI GKGCMC 1 cut(s) 607
BstUI CGCG 2 cut(s) 486, 593
BstV1I GCAGC 1 cut(s) 888
BstV2I GAAGAC 1 cut(s) 147
Bsu15I ATCGAT 2 cut(s) 278, 305
BsuI GTATCC 2 cut(s) 550, 620
BsuRI GGCC 2 cut(s) 78, 510
BsuTUI ATCGAT 2 cut(s) 278, 305
BtgI CCRYGG 1 cut(s) 773
BtrI CACGTC 1 cut(s) 644
BtsIMutI CAGTG 1 cut(s) 18
Cac8I GCNNGC 1 cut(s) 484
CciI TCATGA 2 cut(s) 633, 888
CfoI GCGC 2 cut(s) 488, 641
ClaI ATCGAT 2 cut(s) 278, 305
CseI GACGC 2 cut(s) 186, 599
Csp6I GTAC 3 cut(s) 460, 861, 870
CviAII CATG 7 cut(s) 326, 528, 634, 674, 774, 841, 889
CviQI GTAC 3 cut(s) 460, 861, 870
DdeI CTNAG 5 cut(s) 334, 369, 599, 653, 897
DpnI GATC 2 cut(s) 122, 189
DpnII GATC 2 cut(s) 120, 187
DraI TTTAAA 1 cut(s) 922
Eam1104I CTCTTC 3 cut(s) 165, 346, 529
EarI CTCTTC 3 cut(s) 165, 346, 529
Ecl136II GAGCTC 1 cut(s) 894
Eco130I CCWWGG 2 cut(s) 661, 773
Eco147I AGGCCT 1 cut(s) 510
Eco24I GRGCYC 1 cut(s) 896
Eco31I GGTCTC 1 cut(s) 87
Eco53kI GAGCTC 1 cut(s) 894
Eco88I CYCGRG 1 cut(s) 873
EcoICRI GAGCTC 1 cut(s) 894
EcoNI CCTNNNNNAGG 1 cut(s) 620
EcoRII CCWGG 1 cut(s) 784
EcoT14I CCWWGG 2 cut(s) 661, 773
EcoT38I GRGCYC 1 cut(s) 896
ErhI CCWWGG 2 cut(s) 661, 773
FaeI CATG 7 cut(s) 329, 531, 637, 677, 777, 844, 892
FalI AAGNNNNNCTT 4 cut(s) 614, 646, 682, 714
FatI CATG 7 cut(s) 325, 527, 633, 673, 773, 840, 888
Fnu4HI GCNGC 1 cut(s) 902
FriOI GRGCYC 1 cut(s) 896
Fsp4HI GCNGC 1 cut(s) 902
FspBI CTAG 4 cut(s) 549, 617, 846, 864
GlaI GCGC 2 cut(s) 487, 640
GluI GCNGC 1 cut(s) 902
GsaI CCCAGC 2 cut(s) 741, 813
HaeIII GGCC 2 cut(s) 78, 510
HgaI GACGC 2 cut(s) 186, 599
HhaI GCGC 2 cut(s) 488, 641
Hin1I GRCGYC 1 cut(s) 197
Hin1II CATG 7 cut(s) 329, 531, 637, 677, 777, 844, 892
Hin6I GCGC 2 cut(s) 486, 639
HinP1I GCGC 2 cut(s) 486, 639
HincII GTYRAC 2 cut(s) 589, 754
HindII GTYRAC 2 cut(s) 589, 754
HindIII AAGCTT 1 cut(s) 826
HinfI GANTC 6 cut(s) 143, 236, 275, 280, 302, 834
HphI GGTGA 1 cut(s) 241
Hpy166II GTNNAC 4 cut(s) 460, 589, 721, 754
Hpy188I TCNGA 2 cut(s) 192, 301
Hpy188III TCNNGA 5 cut(s) 82, 428, 634, 875, 889
Hpy8I GTNNAC 4 cut(s) 460, 589, 721, 754
Hpy99I CGWCG 1 cut(s) 202
HpyAV CCTTC 4 cut(s) 142, 187, 490, 862
HpyCH4IV ACGT 4 cut(s) 51, 424, 643, 667
HpyCH4V TGCA 2 cut(s) 470, 904
HpyF10VI GCNNNNNNNGC 4 cut(s) 164, 734, 825, 846
HpyF3I CTNAG 5 cut(s) 334, 369, 599, 653, 897
HpySE526I ACGT 4 cut(s) 51, 424, 643, 667
Hsp92I GRCGYC 1 cut(s) 197
Hsp92II CATG 7 cut(s) 329, 531, 637, 677, 777, 844, 892
HspAI GCGC 2 cut(s) 486, 639
Kzo9I GATC 2 cut(s) 120, 187
LguI GCTCTTC 1 cut(s) 165
LmnI GCTCC 2 cut(s) 15, 806
LpnPI CCDG 6 cut(s) 303, 723, 734, 771, 795, 798
Lsp1109I GCAGC 1 cut(s) 888
MaeI CTAG 4 cut(s) 549, 617, 846, 864
MaeII ACGT 4 cut(s) 51, 424, 643, 667
MaeIII GTNAC 2 cut(s) 328, 676
MalI GATC 2 cut(s) 122, 189
MboI GATC 2 cut(s) 120, 187
MhlI GDGCHC 3 cut(s) 20, 607, 896
MluCI AATT 3 cut(s) 26, 65, 878
MlyI GAGTC 2 cut(s) 137, 843
MroXI GAANNNNTTC 3 cut(s) 27, 279, 405
MseI TTAA 1 cut(s) 921
MslI CAYNNNNRTG 1 cut(s) 455
MspR9I CCNGG 1 cut(s) 786
MvaI CCWGG 1 cut(s) 786
MvnI CGCG 2 cut(s) 486, 593
MwoI GCNNNNNNNGC 4 cut(s) 164, 734, 825, 846
NcoI CCATGG 1 cut(s) 773
NdeII GATC 2 cut(s) 120, 187
NlaIII CATG 7 cut(s) 329, 531, 637, 677, 777, 844, 892
NmuCI GTSAC 1 cut(s) 676
NspI RCATGY 1 cut(s) 844
NspV TTCGAA 2 cut(s) 239, 582
PaeR7I CTCGAG 1 cut(s) 873
PagI TCATGA 2 cut(s) 633, 888
PceI AGGCCT 1 cut(s) 510
PciSI GCTCTTC 1 cut(s) 165
PcsI WCGNNNNNNNCGW 1 cut(s) 228
PdmI GAANNNNTTC 3 cut(s) 27, 279, 405
PfeI GAWTC 4 cut(s) 236, 275, 280, 302
PkrI GCNGC 1 cut(s) 903
PleI GAGTC 2 cut(s) 137, 842
PpsI GAGTC 2 cut(s) 137, 842
Psp124BI GAGCTC 1 cut(s) 896
Psp6I CCWGG 1 cut(s) 784
PspFI CCCAGC 2 cut(s) 737, 809
PspGI CCWGG 1 cut(s) 784
RsaI GTAC 3 cut(s) 461, 862, 871
RsaNI GTAC 3 cut(s) 460, 861, 870
RseI CAYNNNNRTG 1 cut(s) 455
SacI GAGCTC 1 cut(s) 896
SapI GCTCTTC 1 cut(s) 165
SaqAI TTAA 1 cut(s) 921
SatI GCNGC 1 cut(s) 902
Sau3AI GATC 2 cut(s) 120, 187
SchI GAGTC 2 cut(s) 137, 843
ScrFI CCNGG 1 cut(s) 786
SduI GDGCHC 3 cut(s) 20, 607, 896
Sfr274I CTCGAG 1 cut(s) 873
SfuI TTCGAA 2 cut(s) 239, 582
SlaI CTCGAG 1 cut(s) 873
SmiMI CAYNNNNRTG 1 cut(s) 455
SmlI CTYRAG 1 cut(s) 873
SmoI CTYRAG 1 cut(s) 873
Sse9I AATT 3 cut(s) 26, 65, 878
SseBI AGGCCT 1 cut(s) 510
SspMI CTAG 4 cut(s) 549, 617, 846, 864
SstI GAGCTC 1 cut(s) 896
StuI AGGCCT 1 cut(s) 510
StyD4I CCNGG 1 cut(s) 784
StyI CCWWGG 2 cut(s) 661, 773
TaiI ACGT 4 cut(s) 54, 427, 646, 670
TaqII GACCGA 1 cut(s) 111
TasI AATT 3 cut(s) 26, 65, 878
TatI WGTACW 2 cut(s) 459, 869
TfiI GAWTC 4 cut(s) 236, 275, 280, 302
Tru1I TTAA 1 cut(s) 921
Tru9I TTAA 1 cut(s) 921
TscAI CASTG 1 cut(s) 25
TseFI GTSAC 1 cut(s) 676
TseI GCWGC 1 cut(s) 901
Tsp45I GTSAC 1 cut(s) 676
TspDTI ATGAA 3 cut(s) 414, 622, 662
TspRI CASTG 1 cut(s) 25
XagI CCTNNNNNAGG 1 cut(s) 620
XapI RAATTY 1 cut(s) 26
XceI RCATGY 1 cut(s) 844
XhoI CTCGAG 1 cut(s) 873
XmnI GAANNNNTTC 3 cut(s) 27, 279, 405
XspI CTAG 4 cut(s) 549, 617, 846, 864
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.