Rh1DG290700

RNA-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0017513
Physical Location & Seq
Forward (+)
51460146 .. 51463799
3654 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG290700.1

Sequence Viewer

Length: 966 bp
ATGTCTCAAGCAAGGCAATTTCAGATGGTGGGGGGTAACAATAATATTCCAGGTCATCAATACAATGACACAAGTTTCACCAAAATCTTTGTTGGGGGTTTGGCTTGGGAGACTCAGAGGGAGACTATGAGGAGGTACTTTGAGCAGTTTGGAGAGATCTTGGAGGCTGTTGTTATTACAGATAAAAACACTGGAAGATCCAAAGGCTATGGATTTGTCACATTTAAGGATCCAGAGGCAGCCATGAGGGCTTGTCGGAACCCATCTCCTGTTATTGATGGAAGAAGAGCAAACTGCAATCTTGCTTCTATTGGTGCTCAGAAAACTCGTCTACCTACTCCTCAACATGGTTTTGGAAGGTTTAGACCAGCACCTGGTTTGGTAGCTCCACCTGCTTATCATGGCTCTTCATCCACATACTTCCATCAACCCAGTGGTCAATACACATTTCCTTATTCAGCTTATGGGTACTCTGGATATTCACAAGATTCCATATATCCCATGGTAAAATCATCTATCATTTTCATAAATTCCTTTCTATTTTGGGCTTCTGATGCAGCATTGGTTCATATTCAATATTCACAAACAATTGGATTAAACAATGTCATTCTCTGTTGCTTGCAGAACTATTATAGTGTTTATGGTGGTCAACAATTCTCACCTTACTACACCACCACAGCTGGGGCATCAGGGCCAGCTGGCATGTACCACAATTACTACCCATACTATGCTGCTGCTCAATATGCACAGGCTAGTAGTAACCAAGCACAAGGCTTTGGAGTTCAATATCCCCAAATGGTGCAGTACCCATATTTGCCTCAACACTATGGTTCTTCAGCTGGGATTCTCTCACTTCCTTCTTCAATCCCAGTTGCTACTACCACTTCTACCACCACAGGTGTAACAATAGCCACTGGGGTAACTGGAGCTTCTGCAACCAATTCTGAACAGAATTCTTCGAGTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000075 GO:0000077 GO:0000278 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0003730 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006950 GO:0006974 GO:0006977 GO:0006978 GO:0007049 GO:0007050 GO:0007093 GO:0007154 GO:0007165 GO:0007346 GO:0008150 GO:0008285 GO:0009892 GO:0009893 GO:0009894 GO:0009895 GO:0009987 GO:0010468 GO:0010564 GO:0010604 GO:0010605 GO:0010608 GO:0010628 GO:0010948 GO:0019219 GO:0019222 GO:0022402 GO:0023052 GO:0030330 GO:0031323 GO:0031324 GO:0031329 GO:0031330 GO:0031570 GO:0031571 GO:0033554 GO:0035556 GO:0042127 GO:0042770 GO:0042772 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043484 GO:0043487 GO:0043488 GO:0043489 GO:0044424 GO:0044444 GO:0044464 GO:0044773 GO:0044774 GO:0044783 GO:0044819 GO:0045786 GO:0045787 GO:0045930 GO:0045934 GO:0048255 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0051716 GO:0051726 GO:0060255 GO:0061013 GO:0065007 GO:0065008 GO:0070935 GO:0071156 GO:0071158 GO:0072331 GO:0072395 GO:0072401 GO:0072413 GO:0072422 GO:0072431 GO:0080090 GO:0090068 GO:0097159 GO:1901363 GO:1901987 GO:1901988 GO:1901990 GO:1901991 GO:1902369 GO:1902373 GO:1902400 GO:1902402 GO:1902403 GO:1902806 GO:1902807 GO:1903047 GO:1903311 GO:1903312 GO:2000045 GO:2000134
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RRM_1

Protein Analysis

321

Amino Acids

35.0

Weight (kDa)

8.87

Isoelectric Point (pI)

46.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 29 - 86 2.9e-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: OG0017513)

Species Orthologous Gene IDs
fragaria_vesca FvH4_7g17600
rosa_chinensis RchiOBHm_Chr1g0361041
rosa_laevigata RLG00000027753
rosa_multiflora Rmu_sc0000677.1_g000005
rosa_roxburghii Rroxscaffold_4G00295480
rosa_rugosa Rorug01G0284900 Rorug01G0285000
rosa_samantha Rh1AG296400 Rh1BG260700 Rh1CG278000 Rh1DG290700
rosa_wichuraiana Rw1G026180

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 400
Acc36I ACCTGC 1 cut(s) 400
AccB7I CCANNNNNTGG 1 cut(s) 374
AccI GTMKAC 1 cut(s) 331
AclWI GGATC 3 cut(s) 192, 224, 237
AcsI RAATTY 2 cut(s) 529, 952
AcuI CTGAAG 1 cut(s) 819
AfaI GTAC 4 cut(s) 137, 470, 707, 806
AfiI CCNNNNNNNGG 3 cut(s) 347, 374, 681
AgsI TTSAA 3 cut(s) 575, 785, 864
AjnI CCWGG 2 cut(s) 49, 373
AluBI AGCT 6 cut(s) 386, 461, 680, 698, 839, 929
AluI AGCT 6 cut(s) 386, 461, 680, 698, 839, 929
Alw21I GWGCWC 1 cut(s) 319
Alw26I GTCTC 3 cut(s) 9, 104, 116
AlwI GGATC 3 cut(s) 192, 224, 237
AlwNI CAGNNNCTG 1 cut(s) 374
AoxI GGCC 1 cut(s) 692
ApeKI GCWGC 4 cut(s) 239, 557, 731, 734
ApoI RAATTY 2 cut(s) 529, 952
AspS9I GGNCC 1 cut(s) 692
AsuHPI GGTGA 2 cut(s) 70, 651
BamHI GGATCC 1 cut(s) 229
Bbv12I GWGCWC 1 cut(s) 319
BbvI GCAGC 4 cut(s) 251, 569, 718, 721
BccI CCATC 4 cut(s) 19, 271, 272, 432
BciT130I CCWGG 2 cut(s) 51, 375
BcoDI GTCTC 3 cut(s) 9, 104, 116
BfaI CTAG 1 cut(s) 753
BfuAI ACCTGC 1 cut(s) 400
BglI GCCNNNNNGGC 1 cut(s) 248
BglII AGATCT 1 cut(s) 156
BisI GCNGC 4 cut(s) 240, 558, 732, 735
BlsI GCNGC 4 cut(s) 241, 559, 733, 736
Bme1390I CCNGG 2 cut(s) 51, 375
BmgT120I GGNCC 1 cut(s) 692
BmiI GGNNCC 2 cut(s) 231, 260
BmrFI CCNGG 2 cut(s) 51, 375
BmrI ACTGGG 3 cut(s) 426, 863, 924
BmsI GCATC 2 cut(s) 544, 695
BmuI ACTGGG 3 cut(s) 426, 863, 924
BpmI CTGGAG 1 cut(s) 945
BsaJI CCNNGG 1 cut(s) 501
Bsc4I CCNNNNNNNGG 3 cut(s) 347, 374, 681
Bse1I ACTGG 5 cut(s) 196, 432, 869, 919, 928
BseBI CCWGG 2 cut(s) 51, 375
BseDI CCNNGG 1 cut(s) 501
BseGI GGATG 1 cut(s) 410
BseLI CCNNNNNNNGG 3 cut(s) 347, 374, 681
BseMII CTCAG 2 cut(s) 128, 332
BseNI ACTGG 5 cut(s) 196, 432, 869, 919, 928
BseRI GAGGAG 2 cut(s) 145, 330
BseXI GCAGC 4 cut(s) 251, 569, 718, 721
BseYI CCCAGC 2 cut(s) 680, 839
BsgI GTGCAG 1 cut(s) 821
BshFI GGCC 1 cut(s) 694
BsiHKAI GWGCWC 1 cut(s) 319
BslI CCNNNNNNNGG 3 cut(s) 347, 374, 681
BsmAI GTCTC 3 cut(s) 9, 104, 116
BsnI GGCC 1 cut(s) 694
Bsp1286I GDGCHC 1 cut(s) 319
Bsp143I GATC 3 cut(s) 156, 197, 229
Bsp19I CCATGG 1 cut(s) 501
BspANI GGCC 1 cut(s) 694
BspCNI CTCAG 2 cut(s) 127, 331
BspLI GGNNCC 2 cut(s) 231, 260
BspMI ACCTGC 1 cut(s) 400
BspPI GGATC 3 cut(s) 192, 224, 237
BspQI GCTCTTC 2 cut(s) 280, 412
BsrI ACTGG 5 cut(s) 196, 432, 869, 919, 928
BssECI CCNNGG 1 cut(s) 501
BssMI GATC 3 cut(s) 156, 197, 229
BssT1I CCWWGG 1 cut(s) 501
Bst2UI CCWGG 2 cut(s) 51, 375
Bst6I CTCTTC 2 cut(s) 280, 412
BstC8I GCNNGC 3 cut(s) 620, 696, 700
BstDEI CTNAG 2 cut(s) 114, 318
BstDSI CCRYGG 1 cut(s) 501
BstF5I GGATG 1 cut(s) 410
BstKTI GATC 3 cut(s) 159, 200, 232
BstMAI GTCTC 3 cut(s) 9, 104, 116
BstMBI GATC 3 cut(s) 156, 197, 229
BstMWI GCNNNNNNNGC 4 cut(s) 248, 392, 554, 743
BstNI CCWGG 2 cut(s) 51, 375
BstNSI RCATGY 1 cut(s) 706
BstSCI CCNGG 2 cut(s) 49, 373
BstV1I GCAGC 4 cut(s) 251, 569, 718, 721
BstX2I RGATCY 3 cut(s) 156, 197, 229
BstYI RGATCY 3 cut(s) 156, 197, 229
BsuRI GGCC 1 cut(s) 694
BtgI CCRYGG 1 cut(s) 501
BtsCI GGATG 1 cut(s) 410
BtsIMutI CAGTG 3 cut(s) 189, 439, 912
BveI ACCTGC 1 cut(s) 400
Cac8I GCNNGC 3 cut(s) 620, 696, 700
CaiI CAGNNNCTG 1 cut(s) 374
Cfr13I GGNCC 1 cut(s) 692
CsiI ACCWGGT 1 cut(s) 373
Csp6I GTAC 4 cut(s) 136, 469, 706, 805
CviAII CATG 5 cut(s) 244, 347, 401, 502, 703
CviQI GTAC 4 cut(s) 136, 469, 706, 805
DdeI CTNAG 2 cut(s) 114, 318
DpnI GATC 3 cut(s) 158, 199, 231
DpnII GATC 3 cut(s) 156, 197, 229
Eam1104I CTCTTC 2 cut(s) 280, 412
EarI CTCTTC 2 cut(s) 280, 412
Eco130I CCWWGG 1 cut(s) 501
Eco57I CTGAAG 1 cut(s) 819
EcoRI GAATTC 1 cut(s) 952
EcoRII CCWGG 2 cut(s) 49, 373
EcoT14I CCWWGG 1 cut(s) 501
ErhI CCWWGG 1 cut(s) 501
FaeI CATG 5 cut(s) 247, 350, 404, 505, 706
FatI CATG 5 cut(s) 243, 346, 400, 501, 702
FblI GTMKAC 1 cut(s) 331
Fnu4HI GCNGC 4 cut(s) 240, 558, 732, 735
FokI GGATG 1 cut(s) 397
Fsp4HI GCNGC 4 cut(s) 240, 558, 732, 735
FspBI CTAG 1 cut(s) 753
GluI GCNGC 4 cut(s) 240, 558, 732, 735
GsaI CCCAGC 2 cut(s) 684, 843
GsuI CTGGAG 1 cut(s) 945
HaeIII GGCC 1 cut(s) 694
Hin1II CATG 5 cut(s) 247, 350, 404, 505, 706
HincII GTYRAC 1 cut(s) 650
HindII GTYRAC 1 cut(s) 650
HinfI GANTC 3 cut(s) 112, 488, 844
HphI GGTGA 2 cut(s) 70, 651
Hpy166II GTNNAC 2 cut(s) 332, 650
Hpy188I TCNGA 6 cut(s) 24, 117, 258, 321, 553, 946
Hpy188III TCNNGA 2 cut(s) 233, 474
Hpy8I GTNNAC 2 cut(s) 332, 650
HpyAV CCTTC 2 cut(s) 351, 867
HpyCH4V TGCA 6 cut(s) 297, 557, 622, 746, 802, 935
HpyF10VI GCNNNNNNNGC 4 cut(s) 248, 392, 554, 743
HpyF3I CTNAG 2 cut(s) 114, 318
Hsp92II CATG 5 cut(s) 247, 350, 404, 505, 706
Kzo9I GATC 3 cut(s) 156, 197, 229
LguI GCTCTTC 2 cut(s) 280, 412
LmnI GCTCC 2 cut(s) 391, 926
Lsp1109I GCAGC 4 cut(s) 251, 569, 718, 721
LweI GCATC 2 cut(s) 544, 695
MabI ACCWGGT 1 cut(s) 373
MaeI CTAG 1 cut(s) 753
MaeIII GTNAC 5 cut(s) 35, 217, 758, 901, 919
MalI GATC 3 cut(s) 158, 199, 231
MboI GATC 3 cut(s) 156, 197, 229
MboII GAAGA 7 cut(s) 207, 294, 297, 399, 825, 852, 948
MfeI CAATTG 1 cut(s) 588
MflI RGATCY 3 cut(s) 156, 197, 229
MhlI GDGCHC 1 cut(s) 319
MluCI AATT 7 cut(s) 17, 529, 588, 653, 712, 940, 952
MlyI GAGTC 1 cut(s) 106
MmeI TCCRAC 1 cut(s) 236
MnlI CCTC 8 cut(s) 111, 123, 126, 157, 229, 240, 351, 828
MseI TTAA 3 cut(s) 225, 596, 964
MspA1I CMGCKG 3 cut(s) 680, 698, 839
MspR9I CCNGG 2 cut(s) 51, 375
MunI CAATTG 1 cut(s) 588
MvaI CCWGG 2 cut(s) 51, 375
MwoI GCNNNNNNNGC 4 cut(s) 248, 392, 554, 743
NcoI CCATGG 1 cut(s) 501
NdeII GATC 3 cut(s) 156, 197, 229
NlaIII CATG 5 cut(s) 247, 350, 404, 505, 706
NlaIV GGNNCC 2 cut(s) 231, 260
NmuCI GTSAC 1 cut(s) 217
NspI RCATGY 1 cut(s) 706
PaqCI CACCTGC 1 cut(s) 400
PciSI GCTCTTC 2 cut(s) 280, 412
PfeI GAWTC 2 cut(s) 488, 844
PflMI CCANNNNNTGG 1 cut(s) 374
PkrI GCNGC 4 cut(s) 241, 559, 733, 736
PleI GAGTC 1 cut(s) 106
PpsI GAGTC 1 cut(s) 106
Psp6I CCWGG 2 cut(s) 49, 373
PspFI CCCAGC 2 cut(s) 680, 839
PspGI CCWGG 2 cut(s) 49, 373
PspN4I GGNNCC 2 cut(s) 231, 260
PspPI GGNCC 1 cut(s) 692
PstNI CAGNNNCTG 1 cut(s) 374
PsuI RGATCY 3 cut(s) 156, 197, 229
PvuII CAGCTG 3 cut(s) 680, 698, 839
RsaI GTAC 4 cut(s) 137, 470, 707, 806
RsaNI GTAC 4 cut(s) 136, 469, 706, 805
SapI GCTCTTC 2 cut(s) 280, 412
SaqAI TTAA 3 cut(s) 225, 596, 964
SatI GCNGC 4 cut(s) 240, 558, 732, 735
Sau3AI GATC 3 cut(s) 156, 197, 229
Sau96I GGNCC 1 cut(s) 692
SchI GAGTC 1 cut(s) 106
ScrFI CCNGG 2 cut(s) 51, 375
SduI GDGCHC 1 cut(s) 319
SexAI ACCWGGT 1 cut(s) 373
SfaNI GCATC 2 cut(s) 544, 695
SmlI CTYRAG 1 cut(s) 6
SmoI CTYRAG 1 cut(s) 6
Sse9I AATT 7 cut(s) 17, 529, 588, 653, 712, 940, 952
SspI AATATT 2 cut(s) 46, 578
SspMI CTAG 1 cut(s) 753
StyD4I CCNGG 2 cut(s) 49, 373
StyI CCWWGG 1 cut(s) 501
TaqI TCGA 1 cut(s) 959
TasI AATT 7 cut(s) 17, 529, 588, 653, 712, 940, 952
TfiI GAWTC 2 cut(s) 488, 844
Tru1I TTAA 3 cut(s) 225, 596, 964
Tru9I TTAA 3 cut(s) 225, 596, 964
TscAI CASTG 3 cut(s) 196, 439, 919
TseFI GTSAC 1 cut(s) 217
TseI GCWGC 4 cut(s) 239, 557, 731, 734
Tsp45I GTSAC 1 cut(s) 217
TspDTI ATGAA 3 cut(s) 399, 514, 557
TspRI CASTG 3 cut(s) 196, 439, 919
Van91I CCANNNNNTGG 1 cut(s) 374
XapI RAATTY 2 cut(s) 529, 952
XceI RCATGY 1 cut(s) 706
XcmI CCANNNNNNNNNTGG 2 cut(s) 431, 499
XmiI GTMKAC 1 cut(s) 331
XspI CTAG 1 cut(s) 753
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.