Rw6G042720

RNA-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr6
OG0013372
Physical Location & Seq
Forward (+)
66119416 .. 66121047
1632 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw6G042720.1

Sequence Viewer

Length: 1011 bp
ATGGACTCTGATCAAGCGAAGCTCTTCGTCGGTGGTTTGTCCAAGGACACCACCGACGCCACATTGAAAGAACACTTCGGCCAATACGGCGTCGTTTCGGGCTCGACGGTTACCAAGGACCGCGTCACAAGCAGTTCTCGAGGGTTTGGCTTCGTCTGGTTCTCTGATCCGTCTTCCGCTGATAGAGCCCTAGAAGACTCGCATGTCATTCTCGGAAGAAAGGTAGATGTGAAGAAAGCAAAGCCCAGAAGAGCCTGGGCATACCCCAACCCCAACCCCAAAAACCAAGAACCACTGCCACCGCAACAACTGCAAAGTAGTAGTTTTGAGAGTGGAAGTTATTTTAGAACAAGGAAGATTTTTGTAGGGGGATTGTCGCCGAGTGTAACTGAGTTGGAGTTTAAGAATTACTTTGAGAAGTTTGGTAGGGTAACTGATGTAGTGGTGATGATGGACAGCGCAACTCACCGCCCTCGGGGCTTTGGTTTTATCACTTTTGATTCAGAGGAGTCGGTTGAGAATGTAATGCAGAAGAACTTTCATGAGTTGAATGGTAAGTTTGTGGAGGTCAAGAGGGCTGTGCCGAGGGAGGAGAGTTACAGCAACAATGAGAGGGGTTATCAGCCGGGCAGTAATCGTCCTCGATATACTGGTAGTCCTACTACATATGGAGTTCTTCCTACGCCTGCACCTTATAATGGTTTCGGAGGGTTTACTGGTGGAACAGGTGTTTATGGCGGTTGGTACCCATCGGGTGGATACGCTGGGGTTCCTTATGGCATTACCCCAATTGTTCCTCAGGCGTGGGTTTTTCCATACGGCAACACTTTTTATCCTGCCTACATGAGTGGCGGGGGATGGGTGGCGGCTGCTGCTGGTGGGCATAACTTGTATAACAGAGTGTCCGAGCCAGCTGTGAATCGGCGTGGTTTTGTCATTGAGAATGCACCAGCGGATGTGAAGTCATCTGGGATTGAAGGGGAGAAACTTGATGTTGATGGTGCTGCTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03015 map03015
Pfam Domains
Protein Families
RRM_1

Protein Analysis

336

Amino Acids

36.66

Weight (kDa)

8.5

Isoelectric Point (pI)

43.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 8 - 74 4.5e-16 RNA recognition motif
RRM_7 PF16367 118 - 191 3.3e-07 RNA recognition motif
RRM_1 PF00076 120 - 188 1.9e-17 RNA recognition motif
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: OG0013372)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G58470 AT1G58470
fragaria_vesca FvH4_2g32660
malus_domestica MD15G1064900.v1.1
prunus_persica Prupe.1G418900_v2.0.a1 Prupe.1G418900_v2.0.a1 Prupe.1G418900_v2.0.a1
pyrus_communis pycom15g06160
rosa_chinensis RchiOBHm_Chr6g0310071
rosa_laevigata RLG00000010514
rosa_multiflora Rmu_sc0000294.1_g000020
rosa_roxburghii Rroxscaffold_7G00158910
rosa_rugosa Rorug06G0377200
rosa_samantha Rh6AG490900 Rh6BG500400 Rh6CG505300 Rh6DG491300
rosa_wichuraiana Rw6G042720

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 696
AasI GACNNNNNNGTC 1 cut(s) 203
Acc65I GGTACC 1 cut(s) 744
AccB1I GGYRCC 1 cut(s) 744
AccB7I CCANNNNNTGG 1 cut(s) 755
AccII CGCG 1 cut(s) 123
AciI CCGC 8 cut(s) 121, 177, 302, 469, 738, 852, 866, 953
AclWI GGATC 1 cut(s) 161
AcoI YGGCCR 1 cut(s) 79
AcyI GRCGYC 2 cut(s) 57, 90
AfaI GTAC 1 cut(s) 746
AfiI CCNNNNNNNGG 3 cut(s) 475, 698, 755
AgsI TTSAA 3 cut(s) 67, 550, 977
AjnI CCWGG 1 cut(s) 254
AluBI AGCT 2 cut(s) 22, 914
AluI AGCT 2 cut(s) 22, 914
AlwI GGATC 1 cut(s) 161
Ama87I CYCGRG 2 cut(s) 138, 474
AoxI GGCC 1 cut(s) 79
ApeKI GCWGC 3 cut(s) 869, 872, 1004
Asp700I GAANNNNTTC 1 cut(s) 23
Asp718I GGTACC 1 cut(s) 744
AspLEI GCGC 1 cut(s) 461
AspS9I GGNCC 1 cut(s) 118
AsuC2I CCSGG 1 cut(s) 627
AsuHPI GGTGA 2 cut(s) 457, 458
AvaI CYCGRG 2 cut(s) 138, 474
AvaII GGWCC 1 cut(s) 118
AxyI CCTNAGG 1 cut(s) 798
BanI GGYRCC 1 cut(s) 744
BanII GRGCYC 2 cut(s) 104, 190
BbsI GAAGAC 2 cut(s) 165, 201
BbvI GCAGC 3 cut(s) 856, 859, 991
BccI CCATC 4 cut(s) 445, 757, 852, 992
BceAI ACGGC 2 cut(s) 103, 835
BciT130I CCWGG 1 cut(s) 256
BciVI GTATCC 1 cut(s) 752
BclI TGATCA 1 cut(s) 10
BcnI CCSGG 1 cut(s) 627
BfaI CTAG 1 cut(s) 191
BfuI GTATCC 1 cut(s) 752
BglI GCCNNNNNGGC 2 cut(s) 87, 477
BisI GCNGC 4 cut(s) 867, 870, 873, 1005
BlsI GCNGC 4 cut(s) 868, 871, 874, 1006
Bme1390I CCNGG 2 cut(s) 256, 627
Bme18I GGWCC 1 cut(s) 118
BmeT110I CYCGRG 2 cut(s) 138, 474
BmgT120I GGNCC 1 cut(s) 118
BmiI GGNNCC 2 cut(s) 746, 771
BmrFI CCNGG 2 cut(s) 256, 627
BpiI GAAGAC 2 cut(s) 165, 201
BpuMI CCSGG 1 cut(s) 627
BsaHI GRCGYC 2 cut(s) 57, 90
BsaJI CCNNGG 5 cut(s) 42, 114, 255, 473, 584
Bsc4I CCNNNNNNNGG 3 cut(s) 475, 698, 755
Bse1I ACTGG 2 cut(s) 655, 721
Bse21I CCTNAGG 1 cut(s) 798
BseBI CCWGG 1 cut(s) 256
BseDI CCNNGG 5 cut(s) 42, 114, 255, 473, 584
BseGI GGATG 2 cut(s) 863, 961
BseLI CCNNNNNNNGG 3 cut(s) 475, 698, 755
BseMII CTCAG 2 cut(s) 381, 812
BseNI ACTGG 2 cut(s) 655, 721
BseRI GAGGAG 2 cut(s) 521, 605
BseXI GCAGC 3 cut(s) 856, 859, 991
BseYI CCCAGC 1 cut(s) 764
BsgI GTGCAG 1 cut(s) 672
Bsh1236I CGCG 1 cut(s) 123
BshFI GGCC 1 cut(s) 81
BshNI GGYRCC 1 cut(s) 744
BsiHKCI CYCGRG 2 cut(s) 138, 474
BsiSI CCGG 1 cut(s) 626
BslI CCNNNNNNNGG 3 cut(s) 475, 698, 755
BsmI GAATGC 1 cut(s) 949
BsnI GGCC 1 cut(s) 81
BsoBI CYCGRG 2 cut(s) 138, 474
Bsp1286I GDGCHC 2 cut(s) 104, 190
Bsp143I GATC 2 cut(s) 10, 166
BspACI CCGC 8 cut(s) 121, 177, 302, 469, 738, 852, 866, 953
BspANI GGCC 1 cut(s) 81
BspCNI CTCAG 2 cut(s) 382, 811
BspFNI CGCG 1 cut(s) 123
BspHI TCATGA 1 cut(s) 541
BspLI GGNNCC 2 cut(s) 746, 771
BspPI GGATC 1 cut(s) 161
BspQI GCTCTTC 2 cut(s) 29, 244
BspT107I GGYRCC 1 cut(s) 744
BsrI ACTGG 2 cut(s) 655, 721
BssECI CCNNGG 5 cut(s) 42, 114, 255, 473, 584
BssMI GATC 2 cut(s) 10, 166
BssNI GRCGYC 2 cut(s) 57, 90
BssT1I CCWWGG 2 cut(s) 42, 114
Bst2UI CCWGG 1 cut(s) 256
Bst4CI ACNGT 1 cut(s) 109
Bst6I CTCTTC 2 cut(s) 29, 244
BstACI GRCGYC 2 cut(s) 57, 90
BstAPI GCANNNNNTGC 1 cut(s) 310
BstC8I GCNNGC 2 cut(s) 687, 912
BstDEI CTNAG 2 cut(s) 390, 798
BstEII GGTNACC 1 cut(s) 109
BstF5I GGATG 2 cut(s) 863, 961
BstFNI CGCG 1 cut(s) 123
BstHHI GCGC 1 cut(s) 461
BstKTI GATC 2 cut(s) 13, 169
BstMBI GATC 2 cut(s) 10, 166
BstMWI GCNNNNNNNGC 6 cut(s) 87, 129, 185, 310, 477, 872
BstNI CCWGG 1 cut(s) 256
BstNSI RCATGY 1 cut(s) 206
BstPI GGTNACC 1 cut(s) 109
BstSCI CCNGG 2 cut(s) 254, 625
BstUI CGCG 1 cut(s) 123
BstV1I GCAGC 3 cut(s) 856, 859, 991
BstV2I GAAGAC 2 cut(s) 165, 201
Bsu36I CCTNAGG 1 cut(s) 798
BsuI GTATCC 1 cut(s) 752
BsuRI GGCC 1 cut(s) 81
BtsCI GGATG 2 cut(s) 863, 961
BtsI GCAGTG 1 cut(s) 293
BtsIMutI CAGTG 1 cut(s) 293
Cac8I GCNNGC 2 cut(s) 687, 912
CciI TCATGA 1 cut(s) 541
CfoI GCGC 1 cut(s) 461
Cfr13I GGNCC 1 cut(s) 118
CseI GACGC 3 cut(s) 65, 79, 112
Csp6I GTAC 1 cut(s) 745
CviAII CATG 3 cut(s) 203, 542, 844
CviQI GTAC 1 cut(s) 745
DdeI CTNAG 2 cut(s) 390, 798
DpnI GATC 2 cut(s) 12, 168
DpnII GATC 2 cut(s) 10, 166
DrdI GACNNNNNNGTC 1 cut(s) 203
DseDI GACNNNNNNGTC 1 cut(s) 203
EaeI YGGCCR 1 cut(s) 79
Eam1104I CTCTTC 2 cut(s) 29, 244
EarI CTCTTC 2 cut(s) 29, 244
Eco130I CCWWGG 2 cut(s) 42, 114
Eco24I GRGCYC 2 cut(s) 104, 190
Eco47I GGWCC 1 cut(s) 118
Eco81I CCTNAGG 1 cut(s) 798
Eco88I CYCGRG 2 cut(s) 138, 474
Eco91I GGTNACC 1 cut(s) 109
EcoO65I GGTNACC 1 cut(s) 109
EcoRII CCWGG 1 cut(s) 254
EcoT14I CCWWGG 2 cut(s) 42, 114
EcoT38I GRGCYC 2 cut(s) 104, 190
ErhI CCWWGG 2 cut(s) 42, 114
FaeI CATG 3 cut(s) 206, 545, 847
FalI AAGNNNNNCTT 2 cut(s) 395, 427
FatI CATG 3 cut(s) 202, 541, 843
FauI CCCGC 1 cut(s) 845
FauNDI CATATG 1 cut(s) 667
FbaI TGATCA 1 cut(s) 10
Fnu4HI GCNGC 4 cut(s) 867, 870, 873, 1005
FokI GGATG 2 cut(s) 870, 968
FriOI GRGCYC 2 cut(s) 104, 190
Fsp4HI GCNGC 4 cut(s) 867, 870, 873, 1005
FspBI CTAG 1 cut(s) 191
GlaI GCGC 1 cut(s) 460
GluI GCNGC 4 cut(s) 867, 870, 873, 1005
GsaI CCCAGC 1 cut(s) 768
HaeIII GGCC 1 cut(s) 81
HapII CCGG 1 cut(s) 626
HgaI GACGC 3 cut(s) 65, 79, 112
HhaI GCGC 1 cut(s) 461
Hin1I GRCGYC 2 cut(s) 57, 90
Hin1II CATG 3 cut(s) 206, 545, 847
Hin6I GCGC 1 cut(s) 459
HinP1I GCGC 1 cut(s) 459
HinfI GANTC 5 cut(s) 5, 197, 500, 509, 919
HpaII CCGG 1 cut(s) 626
HphI GGTGA 2 cut(s) 457, 458
Hpy166II GTNNAC 1 cut(s) 714
Hpy188I TCNGA 6 cut(s) 10, 166, 215, 505, 707, 907
Hpy188III TCNNGA 3 cut(s) 138, 542, 571
Hpy8I GTNNAC 1 cut(s) 714
Hpy99I CGWCG 4 cut(s) 32, 59, 95, 109
HpyAV CCTTC 1 cut(s) 971
HpyCH4III ACNGT 1 cut(s) 109
HpyCH4V TGCA 4 cut(s) 313, 529, 689, 947
HpyF10VI GCNNNNNNNGC 6 cut(s) 87, 129, 185, 310, 477, 872
HpyF3I CTNAG 2 cut(s) 390, 798
Hsp92I GRCGYC 2 cut(s) 57, 90
Hsp92II CATG 3 cut(s) 206, 545, 847
HspAI GCGC 1 cut(s) 459
KpnI GGTACC 1 cut(s) 748
Ksp22I TGATCA 1 cut(s) 10
Kzo9I GATC 2 cut(s) 10, 166
LguI GCTCTTC 2 cut(s) 29, 244
Lsp1109I GCAGC 3 cut(s) 856, 859, 991
MaeI CTAG 1 cut(s) 191
MaeIII GTNAC 5 cut(s) 109, 124, 385, 430, 596
MalI GATC 2 cut(s) 12, 168
MboI GATC 2 cut(s) 10, 166
MboII GAAGA 9 cut(s) 16, 165, 206, 228, 244, 261, 367, 544, 668
MfeI CAATTG 1 cut(s) 789
MhlI GDGCHC 2 cut(s) 104, 190
MluCI AATT 2 cut(s) 406, 789
MlyI GAGTC 2 cut(s) 191, 518
MmeI TCCRAC 1 cut(s) 375
MroXI GAANNNNTTC 1 cut(s) 23
MseI TTAA 1 cut(s) 402
MspA1I CMGCKG 3 cut(s) 179, 914, 953
MspI CCGG 1 cut(s) 626
MspR9I CCNGG 2 cut(s) 256, 627
MunI CAATTG 1 cut(s) 789
Mva1269I GAATGC 1 cut(s) 949
MvaI CCWGG 1 cut(s) 256
MvnI CGCG 1 cut(s) 123
MwoI GCNNNNNNNGC 6 cut(s) 87, 129, 185, 310, 477, 872
NciI CCSGG 1 cut(s) 627
NdeI CATATG 1 cut(s) 667
NdeII GATC 2 cut(s) 10, 166
NlaIII CATG 3 cut(s) 206, 545, 847
NlaIV GGNNCC 2 cut(s) 746, 771
NmeAIII GCCGAG 2 cut(s) 405, 609
NmuCI GTSAC 1 cut(s) 124
NspI RCATGY 1 cut(s) 206
PaeR7I CTCGAG 1 cut(s) 138
PagI TCATGA 1 cut(s) 541
PciSI GCTCTTC 2 cut(s) 29, 244
PctI GAATGC 1 cut(s) 949
PdmI GAANNNNTTC 1 cut(s) 23
PfeI GAWTC 2 cut(s) 500, 919
PflFI GACNNNGTC 1 cut(s) 122
PflMI CCANNNNNTGG 1 cut(s) 755
PkrI GCNGC 4 cut(s) 868, 871, 874, 1006
PleI GAGTC 2 cut(s) 191, 517
PpsI GAGTC 2 cut(s) 191, 517
PsiI TTATAA 1 cut(s) 696
Psp6I CCWGG 1 cut(s) 254
PspEI GGTNACC 1 cut(s) 109
PspFI CCCAGC 1 cut(s) 764
PspGI CCWGG 1 cut(s) 254
PspN4I GGNNCC 2 cut(s) 746, 771
PspPI GGNCC 1 cut(s) 118
PsyI GACNNNGTC 1 cut(s) 122
PvuII CAGCTG 1 cut(s) 914
RsaI GTAC 1 cut(s) 746
RsaNI GTAC 1 cut(s) 745
SapI GCTCTTC 2 cut(s) 29, 244
SaqAI TTAA 1 cut(s) 402
SatI GCNGC 4 cut(s) 867, 870, 873, 1005
Sau3AI GATC 2 cut(s) 10, 166
Sau96I GGNCC 1 cut(s) 118
SchI GAGTC 2 cut(s) 191, 518
ScrFI CCNGG 2 cut(s) 256, 627
SduI GDGCHC 2 cut(s) 104, 190
SetI ASST 6 cut(s) 24, 225, 570, 694, 730, 916
Sfr274I CTCGAG 1 cut(s) 138
SinI GGWCC 1 cut(s) 118
SlaI CTCGAG 1 cut(s) 138
SmlI CTYRAG 1 cut(s) 138
SmoI CTYRAG 1 cut(s) 138
Sse9I AATT 2 cut(s) 406, 789
SsiI CCGC 8 cut(s) 121, 177, 302, 469, 738, 852, 866, 953
SspMI CTAG 1 cut(s) 191
StyD4I CCNGG 2 cut(s) 254, 625
StyI CCWWGG 2 cut(s) 42, 114
TaaI ACNGT 1 cut(s) 109
TaqI TCGA 3 cut(s) 104, 139, 643
TasI AATT 2 cut(s) 406, 789
TauI GCSGC 1 cut(s) 869
TfiI GAWTC 2 cut(s) 500, 919
Tru1I TTAA 1 cut(s) 402
Tru9I TTAA 1 cut(s) 402
TscAI CASTG 1 cut(s) 300
TseFI GTSAC 1 cut(s) 124
TseI GCWGC 3 cut(s) 869, 872, 1004
Tsp45I GTSAC 1 cut(s) 124
TspDTI ATGAA 1 cut(s) 530
TspGWI ACGGA 1 cut(s) 159
TspRI CASTG 1 cut(s) 300
Tth111I GACNNNGTC 1 cut(s) 122
Van91I CCANNNNNTGG 1 cut(s) 755
VpaK11BI GGWCC 1 cut(s) 118
XceI RCATGY 1 cut(s) 206
XhoI CTCGAG 1 cut(s) 138
XmnI GAANNNNTTC 1 cut(s) 23
XspI CTAG 1 cut(s) 191
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.