RLG00000009940

UPF0481 protein At3g47200-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr2
OG0000417
Physical Location & Seq
Forward (+)
60680709 .. 60681944
1236 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000009940

Sequence Viewer

Length: 1236 bp
ATGGAACGAGTGAAAGAGAGCTATGTGAAAGAAATTCTCTCAGATATGAAGAATATAACTTTGAAAGAGTTGACCGCAGAAGTCTTTCAGCTCTCAGATCAAAAGAATGAAGGCGCATTTGAGCAACGCGCGCGCGATTTTTATGCAGAACCACTTGATCATATTTCCTCTGAAGACTTCATCCTGATGATGATAGTTGACGGTTGCTTCCTAATTCAACTGTTTCGGAAGTGTAACGATCCGAAACTCAGGGCCTTTGATGACCCAATATTCAACATGGATTGCATGTTTCATTTCCTATGCCATGACATTTTGCTCCTAGAGAATCAACTACCTTGGTTTGTTATCCACATTTTGTATGACCTTACCCATGATATATACCCTGATGAAGCTTCCCTCTCTATTCTTATCATGAAAGCGCTCAGCATGCTACCATCACTGAAGCAAAGTTGCTCATCTTATAATAAGCATCTCCGCAGACACAAGCATCATTCTGATGTTGATTATCTGCACATACTTGATCTGGTAAGAGCTTCCATAGTTGTTCCATTAAGGACCATAGAAGAGAGAGCGCATAAAGCAGCTGGAAACCCTGAAGAGCATGAAGTGCACTCTGGGAACAAAGACAAGAGAGACAATATTAAAGTTGTTCATGAAGCAATCTTTGACCCAGATCTACATCAAATTCGTACCGCAACCAAGCTCTCAAAGGCAGACATTAAATTCAGAATGGTCAAAAAGGAGAGCATAATGGATATCCGATTCGATGAGGGTGGGTGGTTCTGCAATGGGATTCTTGAGATTCCACAACTAAACGTTGGAATGTCATCGGAAACATTATTCAGGAACCTGATTGCAATTGAACAATGCTACCATGGTTATTCAAACGAGATAACATCTTATGCCATCTTTATGGATAACCTCATCTCTTCAAAGGAAGATATGGAATTACTTTGCAAGGAAAAAGTAATAGGAAATTGGATGAGTGATGAAGATGGTTGTAAGTTTTTCAACAACCTTTACAAGGACATCCCGCATAACAAGTTCTACTATGTTGAGCTGTGCAAAAAATTGAATGATCGTTACAGATTGAAACGGTATACATGGTTGGCTTTACTCAAGATGGAAAAGTTTTCTAACCCCTGGAGAGCTTTGGCTTTTGGGATAGCTATTATCGCTTTGTTTCTCACCTCGTGGAGCTCGGCAAACAACATTCGGGTTAACTGGGATAAGTGA
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
DUF247

Protein Analysis

412

Amino Acids

48.24

Weight (kDa)

6.11

Isoelectric Point (pI)

46.27

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF247 PF03140 1 - 396 3e-83 Plant protein of unknown function
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: OG0000417)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g32770 FvH4_4g02520 FvH4_4g02520 FvH4_4g02530 FvH4_4g02550 FvH4_4g17730 FvH4_4g17730
rosa_chinensis RchiOBHm_Chr1g0318801 RchiOBHm_Chr4g0390011 RchiOBHm_Chr4g0390031 RchiOBHm_Chr4g0390041 RchiOBHm_Chr4g0390061 RchiOBHm_Chr4g0390091 RchiOBHm_Chr4g0390101 RchiOBHm_Chr4g0390141 RchiOBHm_Chr4g0390181 RchiOBHm_Chr4g0390191 RchiOBHm_Chr4g0390201 RchiOBHm_Chr4g0390231 RchiOBHm_Chr4g0390241 RchiOBHm_Chr4g0390251 RchiOBHm_Chr4g0390661 RchiOBHm_Chr4g0390711 RchiOBHm_Chr4g0390741 RchiOBHm_Chr4g0390771 RchiOBHm_Chr4g0390801 RchiOBHm_Chr5g0058271
rosa_laevigata RLG00000008685 RLG00000009910 RLG00000009930 RLG00000009932 RLG00000009933 RLG00000009934 RLG00000009935 RLG00000009937 RLG00000009938 RLG00000009940 RLG00000035208 RLG00000035209
rosa_multiflora Rmu_co8281525.1_g000001 Rmu_co8464925.1_g000001 Rmu_sc0000171.1_g000023 Rmu_sc0000171.1_g000027 Rmu_sc0000367.1_g000061 Rmu_sc0000679.1_g000027 Rmu_sc0001380.1_g000026 Rmu_sc0001380.1_g000030 Rmu_sc0001471.1_g000010 Rmu_sc0003643.1_g000007 Rmu_sc0004336.1_g000002 Rmu_sc0004336.1_g000011 Rmu_sc0004336.1_g000012 Rmu_sc0005003.1_g000007 Rmu_sc0005003.1_g000012 Rmu_sc0005003.1_g000016 Rmu_sc0005003.1_g000022 Rmu_sc0008322.1_g000002 Rmu_sc0011197.1_g000004 Rmu_sc0014620.1_g000006 Rmu_sc0014620.1_g000017 Rmu_sc0018617.1_g000002
rosa_roxburghii Rroxscaffold_1G00022270 Rroxscaffold_5G00336180 Rroxscaffold_5G00336220 Rroxscaffold_5G00336240 Rroxscaffold_5G00336250 Rroxscaffold_5G00336290 Rroxscaffold_5G00336310 Rroxscaffold_5G00336350 Rroxscaffold_5G00336370 Rroxscaffold_5G00336670 Rroxscaffold_5G00336700 Rroxscaffold_5G00336710
rosa_rugosa Rorug01G0020300 Rorug03G0327700 Rorug03G0327800 Rorug03G0328000 Rorug03G0328100 Rorug03G0328300 Rorug03G0328600 Rorug03G0328600 Rorug03G0331700 Rorug03G0331800 Rorug05G0312900
rosa_samantha Rh4DG024700 Rh4DG024900 Rh4DG025000 Rh4DG025200 Rh4DG025500 Rh4DG025900 Rh4DG026200 Rh4DG030200 Rh5DG407000
rosa_wichuraiana Rw4G002360 Rw4G002410 Rw4G002420 Rw4G002450 Rw4G002480

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 462
AccI GTMKAC 1 cut(s) 1100
AccII CGCG 4 cut(s) 129, 131, 133, 135
AciI CCGC 4 cut(s) 75, 475, 693, 1034
AclI AACGTT 1 cut(s) 816
AclWI GGATC 1 cut(s) 233
AcsI RAATTY 3 cut(s) 33, 684, 722
AcuI CTGAAG 3 cut(s) 192, 461, 615
AdeI CACNNNGTG 1 cut(s) 1194
AfaI GTAC 1 cut(s) 691
AfeI AGCGCT 1 cut(s) 420
AfiI CCNNNNNNNGG 1 cut(s) 1024
AgsI TTSAA 9 cut(s) 64, 218, 274, 863, 885, 933, 1012, 1075, 1093
AjnI CCWGG 1 cut(s) 1142
Alw21I GWGCWC 2 cut(s) 612, 1202
Alw26I GTCTC 1 cut(s) 627
Alw44I GTGCAC 1 cut(s) 608
AlwI GGATC 1 cut(s) 233
Aor51HI AGCGCT 1 cut(s) 420
AoxI GGCC 1 cut(s) 252
ApaLI GTGCAC 1 cut(s) 608
ApeKI GCWGC 1 cut(s) 581
ApoI RAATTY 3 cut(s) 33, 684, 722
Asp700I GAANNNNTTC 1 cut(s) 84
AspLEI GCGC 6 cut(s) 116, 131, 133, 135, 421, 574
AspS9I GGNCC 2 cut(s) 252, 555
AsuHPI GGTGA 1 cut(s) 1180
AvaII GGWCC 1 cut(s) 555
BaeGI GKGCMC 1 cut(s) 612
BanII GRGCYC 1 cut(s) 1202
BauI CACGAG 1 cut(s) 1192
BbsI GAAGAC 1 cut(s) 180
Bbv12I GWGCWC 2 cut(s) 612, 1202
BbvI GCAGC 1 cut(s) 593
BccI CCATC 4 cut(s) 442, 914, 989, 1117
BcgI CGANNNNNNTGC 2 cut(s) 125, 159
BciT130I CCWGG 1 cut(s) 1144
BclI TGATCA 1 cut(s) 157
BcoDI GTCTC 1 cut(s) 627
BfaI CTAG 1 cut(s) 320
BfoI RGCGCY 1 cut(s) 422
BglII AGATCT 1 cut(s) 673
BisI GCNGC 1 cut(s) 582
BlpI GCTNAGC 1 cut(s) 422
BlsI GCNGC 1 cut(s) 583
Bme1390I CCNGG 1 cut(s) 1144
Bme18I GGWCC 1 cut(s) 555
BmgT120I GGNCC 2 cut(s) 252, 555
BmiI GGNNCC 1 cut(s) 848
BmrFI CCNGG 1 cut(s) 1144
BmrI ACTGGG 1 cut(s) 1234
BmsI GCATC 2 cut(s) 478, 496
BmuI ACTGGG 1 cut(s) 1234
BpiI GAAGAC 1 cut(s) 180
BpmI CTGGAG 1 cut(s) 1165
Bpu1102I GCTNAGC 1 cut(s) 422
BpuEI CTTGAG 2 cut(s) 818, 1103
BsaBI GATNNNNATC 1 cut(s) 678
BsaJI CCNNGG 3 cut(s) 335, 874, 1142
Bsc4I CCNNNNNNNGG 1 cut(s) 1024
Bse1I ACTGG 1 cut(s) 1229
Bse3DI GCAATG 1 cut(s) 793
Bse8I GATNNNNATC 1 cut(s) 678
BseBI CCWGG 1 cut(s) 1144
BseDI CCNNGG 3 cut(s) 335, 874, 1142
BseGI GGATG 3 cut(s) 180, 987, 1029
BseJI GATNNNNATC 1 cut(s) 678
BseLI CCNNNNNNNGG 1 cut(s) 1024
BseMI GCAATG 1 cut(s) 793
BseMII CTCAG 4 cut(s) 54, 108, 262, 436
BseNI ACTGG 1 cut(s) 1229
BsePI GCGCGC 2 cut(s) 129, 131
BseSI GKGCMC 1 cut(s) 612
BseXI GCAGC 1 cut(s) 593
BsgI GTGCAG 1 cut(s) 494
Bsh1236I CGCG 4 cut(s) 129, 131, 133, 135
BshFI GGCC 1 cut(s) 254
BsiHKAI GWGCWC 2 cut(s) 612, 1202
BslI CCNNNNNNNGG 1 cut(s) 1024
BsmAI GTCTC 1 cut(s) 627
BsnI GGCC 1 cut(s) 254
Bsp1286I GDGCHC 2 cut(s) 612, 1202
Bsp143I GATC 6 cut(s) 97, 157, 238, 520, 673, 1078
Bsp1720I GCTNAGC 1 cut(s) 422
Bsp19I CCATGG 1 cut(s) 874
BspACI CCGC 4 cut(s) 75, 475, 693, 1034
BspANI GGCC 1 cut(s) 254
BspCNI CTCAG 4 cut(s) 53, 107, 261, 435
BspFNI CGCG 4 cut(s) 129, 131, 133, 135
BspHI TCATGA 2 cut(s) 411, 652
BspLI GGNNCC 1 cut(s) 848
BspPI GGATC 1 cut(s) 233
BspQI GCTCTTC 1 cut(s) 591
BsrDI GCAATG 1 cut(s) 793
BsrI ACTGG 1 cut(s) 1229
BssECI CCNNGG 3 cut(s) 335, 874, 1142
BssHII GCGCGC 2 cut(s) 129, 131
BssMI GATC 6 cut(s) 97, 157, 238, 520, 673, 1078
BssNAI GTATAC 1 cut(s) 1101
BssSI CACGAG 1 cut(s) 1192
BssT1I CCWWGG 2 cut(s) 335, 874
Bst1107I GTATAC 1 cut(s) 1101
Bst2BI CACGAG 1 cut(s) 1192
Bst2UI CCWGG 1 cut(s) 1144
Bst4CI ACNGT 3 cut(s) 203, 222, 1098
Bst6I CTCTTC 3 cut(s) 558, 591, 934
BstAPI GCANNNNNTGC 1 cut(s) 607
BstC8I GCNNGC 3 cut(s) 131, 133, 428
BstDEI CTNAG 4 cut(s) 40, 94, 248, 422
BstDSI CCRYGG 1 cut(s) 874
BstENI CCTNNNNNAGG 1 cut(s) 1022
BstF5I GGATG 3 cut(s) 180, 987, 1029
BstFNI CGCG 4 cut(s) 129, 131, 133, 135
BstH2I RGCGCY 1 cut(s) 422
BstHHI GCGC 6 cut(s) 116, 131, 133, 135, 421, 574
BstKTI GATC 6 cut(s) 100, 160, 241, 523, 676, 1081
BstMAI GTCTC 1 cut(s) 627
BstMBI GATC 6 cut(s) 97, 157, 238, 520, 673, 1078
BstMWI GCNNNNNNNGC 5 cut(s) 130, 427, 578, 607, 1175
BstNI CCWGG 1 cut(s) 1144
BstNSI RCATGY 2 cut(s) 289, 430
BstSCI CCNGG 1 cut(s) 1142
BstSLI GKGCMC 1 cut(s) 612
BstUI CGCG 4 cut(s) 129, 131, 133, 135
BstV1I GCAGC 1 cut(s) 593
BstV2I GAAGAC 1 cut(s) 180
BstX2I RGATCY 1 cut(s) 673
BstXI CCANNNNNNTGG 1 cut(s) 913
BstYI RGATCY 1 cut(s) 673
BstZ17I GTATAC 1 cut(s) 1101
BsuRI GGCC 1 cut(s) 254
BtgI CCRYGG 1 cut(s) 874
BtsCI GGATG 3 cut(s) 180, 987, 1029
BtsIMutI CAGTG 1 cut(s) 437
Cac8I GCNNGC 3 cut(s) 131, 133, 428
CciI TCATGA 2 cut(s) 411, 652
CfoI GCGC 6 cut(s) 116, 131, 133, 135, 421, 574
Cfr13I GGNCC 2 cut(s) 252, 555
Csp6I GTAC 1 cut(s) 690
CviQI GTAC 1 cut(s) 690
DdeI CTNAG 4 cut(s) 40, 94, 248, 422
DpnI GATC 6 cut(s) 99, 159, 240, 522, 675, 1080
DpnII GATC 6 cut(s) 97, 157, 238, 520, 673, 1078
DraIII CACNNNGTG 1 cut(s) 1194
Eam1104I CTCTTC 3 cut(s) 558, 591, 934
EarI CTCTTC 3 cut(s) 558, 591, 934
Ecl136II GAGCTC 1 cut(s) 1200
Eco130I CCWWGG 2 cut(s) 335, 874
Eco24I GRGCYC 1 cut(s) 1202
Eco32I GATATC 1 cut(s) 757
Eco47I GGWCC 1 cut(s) 555
Eco47III AGCGCT 1 cut(s) 420
Eco53kI GAGCTC 1 cut(s) 1200
Eco57I CTGAAG 3 cut(s) 192, 461, 615
EcoICRI GAGCTC 1 cut(s) 1200
EcoNI CCTNNNNNAGG 1 cut(s) 1022
EcoO109I RGGNCCY 1 cut(s) 252
EcoRII CCWGG 1 cut(s) 1142
EcoRV GATATC 1 cut(s) 757
EcoT14I CCWWGG 2 cut(s) 335, 874
EcoT38I GRGCYC 1 cut(s) 1202
ErhI CCWWGG 2 cut(s) 335, 874
FauI CCCGC 1 cut(s) 1041
FbaI TGATCA 1 cut(s) 157
FblI GTMKAC 1 cut(s) 1100
Fnu4HI GCNGC 1 cut(s) 582
FokI GGATG 3 cut(s) 167, 994, 1016
FriOI GRGCYC 1 cut(s) 1202
Fsp4HI GCNGC 1 cut(s) 582
FspBI CTAG 1 cut(s) 320
GlaI GCGC 6 cut(s) 115, 130, 132, 134, 420, 573
GluI GCNGC 1 cut(s) 582
GsuI CTGGAG 1 cut(s) 1165
HaeII RGCGCY 1 cut(s) 422
HaeIII GGCC 1 cut(s) 254
HhaI GCGC 6 cut(s) 116, 131, 133, 135, 421, 574
Hin6I GCGC 6 cut(s) 114, 129, 131, 133, 419, 572
HinP1I GCGC 6 cut(s) 114, 129, 131, 133, 419, 572
HincII GTYRAC 3 cut(s) 72, 199, 1222
HindII GTYRAC 3 cut(s) 72, 199, 1222
HindIII AAGCTT 1 cut(s) 390
HinfI GANTC 4 cut(s) 325, 762, 793, 802
HpaI GTTAAC 1 cut(s) 1222
HphI GGTGA 1 cut(s) 1180
Hpy166II GTNNAC 5 cut(s) 72, 199, 610, 1101, 1222
Hpy188I TCNGA 9 cut(s) 43, 97, 172, 228, 243, 496, 728, 761, 832
Hpy188III TCNNGA 6 cut(s) 184, 412, 653, 797, 844, 1120
Hpy8I GTNNAC 5 cut(s) 72, 199, 610, 1101, 1222
HpyAV CCTTC 1 cut(s) 104
HpyCH4III ACNGT 3 cut(s) 203, 222, 1098
HpyCH4IV ACGT 1 cut(s) 816
HpyCH4V TGCA 8 cut(s) 146, 285, 511, 610, 786, 857, 957, 1065
HpyF10VI GCNNNNNNNGC 5 cut(s) 130, 427, 578, 607, 1175
HpyF3I CTNAG 4 cut(s) 40, 94, 248, 422
HpySE526I ACGT 1 cut(s) 816
HspAI GCGC 6 cut(s) 114, 129, 131, 133, 419, 572
Ksp22I TGATCA 1 cut(s) 157
KspAI GTTAAC 1 cut(s) 1222
Kzo9I GATC 6 cut(s) 97, 157, 238, 520, 673, 1078
LguI GCTCTTC 1 cut(s) 591
LmnI GCTCC 2 cut(s) 321, 1197
Lsp1109I GCAGC 1 cut(s) 593
LweI GCATC 2 cut(s) 478, 496
MaeI CTAG 1 cut(s) 320
MaeII ACGT 1 cut(s) 816
MaeIII GTNAC 2 cut(s) 233, 1082
MalI GATC 6 cut(s) 99, 159, 240, 522, 675, 1080
MauBI CGCGCGCG 2 cut(s) 129, 131
MboI GATC 6 cut(s) 97, 157, 238, 520, 673, 1078
MboII GAAGA 7 cut(s) 61, 185, 575, 608, 921, 950, 1004
MfeI CAATTG 1 cut(s) 858
MflI RGATCY 1 cut(s) 673
MhlI GDGCHC 2 cut(s) 612, 1202
MluCI AATT 8 cut(s) 33, 213, 684, 722, 858, 947, 976, 1070
MmeI TCCRAC 1 cut(s) 799
MnlI CCTC 5 cut(s) 178, 407, 763, 932, 1201
MroXI GAANNNNTTC 1 cut(s) 84
MseI TTAA 4 cut(s) 551, 642, 720, 1221
MslI CAYNNNNRTG 3 cut(s) 185, 495, 911
MspA1I CMGCKG 1 cut(s) 584
MspR9I CCNGG 1 cut(s) 1144
MunI CAATTG 1 cut(s) 858
MvaI CCWGG 1 cut(s) 1144
MvnI CGCG 4 cut(s) 129, 131, 133, 135
MwoI GCNNNNNNNGC 5 cut(s) 130, 427, 578, 607, 1175
NcoI CCATGG 1 cut(s) 874
NdeII GATC 6 cut(s) 97, 157, 238, 520, 673, 1078
NlaIV GGNNCC 1 cut(s) 848
NmeAIII GCCGAG 1 cut(s) 1181
NspI RCATGY 2 cut(s) 289, 430
PaeI GCATGC 1 cut(s) 430
PagI TCATGA 2 cut(s) 411, 652
PauI GCGCGC 2 cut(s) 129, 131
PciSI GCTCTTC 1 cut(s) 591
PdmI GAANNNNTTC 1 cut(s) 84
PfeI GAWTC 4 cut(s) 325, 762, 793, 802
PkrI GCNGC 1 cut(s) 583
PsiI TTATAA 1 cut(s) 462
Psp124BI GAGCTC 1 cut(s) 1202
Psp1406I AACGTT 1 cut(s) 816
Psp6I CCWGG 1 cut(s) 1142
PspGI CCWGG 1 cut(s) 1142
PspN4I GGNNCC 1 cut(s) 848
PspPI GGNCC 2 cut(s) 252, 555
PsuI RGATCY 1 cut(s) 673
PteI GCGCGC 2 cut(s) 129, 131
PvuII CAGCTG 1 cut(s) 584
RsaI GTAC 1 cut(s) 691
RsaNI GTAC 1 cut(s) 690
RseI CAYNNNNRTG 3 cut(s) 185, 495, 911
SacI GAGCTC 1 cut(s) 1202
SapI GCTCTTC 1 cut(s) 591
SaqAI TTAA 4 cut(s) 551, 642, 720, 1221
SatI GCNGC 1 cut(s) 582
Sau3AI GATC 6 cut(s) 97, 157, 238, 520, 673, 1078
Sau96I GGNCC 2 cut(s) 252, 555
ScrFI CCNGG 1 cut(s) 1144
SduI GDGCHC 2 cut(s) 612, 1202
SfaNI GCATC 2 cut(s) 478, 496
SinI GGWCC 1 cut(s) 555
SmiMI CAYNNNNRTG 3 cut(s) 185, 495, 911
SmlI CTYRAG 2 cut(s) 797, 1118
SmoI CTYRAG 2 cut(s) 797, 1118
SphI GCATGC 1 cut(s) 430
Sse9I AATT 8 cut(s) 33, 213, 684, 722, 858, 947, 976, 1070
SsiI CCGC 4 cut(s) 75, 475, 693, 1034
SspI AATATT 2 cut(s) 270, 640
SspMI CTAG 1 cut(s) 320
SstI GAGCTC 1 cut(s) 1202
StyD4I CCNGG 1 cut(s) 1142
StyI CCWWGG 2 cut(s) 335, 874
TaaI ACNGT 3 cut(s) 203, 222, 1098
TaiI ACGT 1 cut(s) 819
TaqI TCGA 1 cut(s) 765
TasI AATT 8 cut(s) 33, 213, 684, 722, 858, 947, 976, 1070
TfiI GAWTC 4 cut(s) 325, 762, 793, 802
Tru1I TTAA 4 cut(s) 551, 642, 720, 1221
Tru9I TTAA 4 cut(s) 551, 642, 720, 1221
TscAI CASTG 1 cut(s) 444
TseI GCWGC 1 cut(s) 581
TspRI CASTG 1 cut(s) 444
VneI GTGCAC 1 cut(s) 608
VpaK11BI GGWCC 1 cut(s) 555
XagI CCTNNNNNAGG 1 cut(s) 1022
XapI RAATTY 3 cut(s) 33, 684, 722
XceI RCATGY 2 cut(s) 289, 430
XmiI GTMKAC 1 cut(s) 1100
XmnI GAANNNNTTC 1 cut(s) 84
XspI CTAG 1 cut(s) 320
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.