Rh1AG296400

RNA-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1A
OG0017513
Physical Location & Seq
Forward (+)
52753243 .. 52756773
3531 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1AG296400.1

Sequence Viewer

Length: 849 bp
ATGTCTCAAGCAAGGCAATTTCAGATGGTGGGGGGTAACAATAATATTCCAGGCCATCAATACAATGACACAACTTTCACCAAAATCTTTGTTGGGGGTTTGGCTTGGGAGACTCAGAGGGAGACTATGAGGAGGTACTTTGAGCAGTTTGGAGAGATCTTGGAGGCTGTTGTTATTACAGATAAAAACACTGGAAGATCCAAAGGCTATGGATTTGTCACATTTAAGGATCCAGAGGCAGCCATGAGGGCTTGTCAGAACCCATCTCCTGTTATTGATGGAAGAAGAGCAAACTGCAATCTTGCTTCTATTGGTGCTCAGAAAACTCGTCCACCCACTCCTCAACATGGTTTTGGAAGGTTTAGACCAGCACCTGGTTTGGTAGCTCCACCTGCTTATCATGGCTCTTCATCCACATACTTCCATCAACCCAGTGGTCAATACACATTTCCTTATTCAGCTTATGGGTACTCTGGATATTCACAAGATTCCATATATCCCATGAACTATTATAGTGTTTATGGTGGTCAACAATTCTCACCTTACTACACCACCACAGCTGGGGCATCAGGGCCAGCTGGCATGTACCACAATTACTACCCATACTATGCTGCTGCTCAATATGCACAGGCTAGTAGTAACCAAGCACAAGGCTTTGGAGTTCAATATCCCCAAATGGTGCAGTACCCATATTTGCCTCAACACTATGGTTCTTCAGCTGGGATTCTCTCACTACCTTCTTCAATCCCAGTTGCTACTACCACTTCTACCACCACAGGTAAAAACATAAATCACCCTTTTCCACATTCTTTACTACTAATCAATTTCAACCATCTCAAGAGAATTTGA
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

282

Amino Acids

31.21

Weight (kDa)

9.31

Isoelectric Point (pI)

49.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 29 - 86 1.6e-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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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
AclWI GGATC 3 cut(s) 192, 224, 237
AcsI RAATTY 1 cut(s) 843
AcuI CTGAAG 1 cut(s) 699
AfaI GTAC 4 cut(s) 137, 470, 587, 686
AfiI CCNNNNNNNGG 3 cut(s) 347, 374, 561
AgsI TTSAA 3 cut(s) 665, 744, 829
AjnI CCWGG 2 cut(s) 49, 373
AluBI AGCT 5 cut(s) 386, 461, 560, 578, 719
AluI AGCT 5 cut(s) 386, 461, 560, 578, 719
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 2 cut(s) 52, 572
ApeKI GCWGC 3 cut(s) 239, 611, 614
ApoI RAATTY 1 cut(s) 843
AspS9I GGNCC 1 cut(s) 572
AsuHPI GGTGA 3 cut(s) 70, 531, 785
BamHI GGATCC 1 cut(s) 229
Bbv12I GWGCWC 1 cut(s) 319
BbvI GCAGC 3 cut(s) 251, 598, 601
BccI CCATC 6 cut(s) 19, 63, 271, 272, 432, 840
BciT130I CCWGG 2 cut(s) 51, 375
BcoDI GTCTC 3 cut(s) 9, 104, 116
BfaI CTAG 1 cut(s) 633
BfuAI ACCTGC 1 cut(s) 400
BglI GCCNNNNNGGC 1 cut(s) 248
BglII AGATCT 1 cut(s) 156
BisI GCNGC 3 cut(s) 240, 612, 615
BlsI GCNGC 3 cut(s) 241, 613, 616
Bme1390I CCNGG 2 cut(s) 51, 375
BmgT120I GGNCC 1 cut(s) 572
BmiI GGNNCC 1 cut(s) 231
BmrFI CCNGG 2 cut(s) 51, 375
BmrI ACTGGG 2 cut(s) 426, 743
BmsI GCATC 1 cut(s) 575
BmuI ACTGGG 2 cut(s) 426, 743
BpuEI CTTGAG 1 cut(s) 821
Bsc4I CCNNNNNNNGG 3 cut(s) 347, 374, 561
Bse1I ACTGG 3 cut(s) 196, 432, 749
BseBI CCWGG 2 cut(s) 51, 375
BseGI GGATG 1 cut(s) 410
BseLI CCNNNNNNNGG 3 cut(s) 347, 374, 561
BseMII CTCAG 2 cut(s) 128, 332
BseNI ACTGG 3 cut(s) 196, 432, 749
BseRI GAGGAG 2 cut(s) 145, 330
BseXI GCAGC 3 cut(s) 251, 598, 601
BseYI CCCAGC 2 cut(s) 560, 719
BsgI GTGCAG 1 cut(s) 701
BshFI GGCC 2 cut(s) 54, 574
BsiHKAI GWGCWC 1 cut(s) 319
BslI CCNNNNNNNGG 3 cut(s) 347, 374, 561
BsmAI GTCTC 3 cut(s) 9, 104, 116
BsnI GGCC 2 cut(s) 54, 574
Bsp1286I GDGCHC 1 cut(s) 319
Bsp143I GATC 3 cut(s) 156, 197, 229
BspANI GGCC 2 cut(s) 54, 574
BspCNI CTCAG 2 cut(s) 127, 331
BspLI GGNNCC 1 cut(s) 231
BspMI ACCTGC 1 cut(s) 400
BspPI GGATC 3 cut(s) 192, 224, 237
BspQI GCTCTTC 2 cut(s) 280, 412
BsrI ACTGG 3 cut(s) 196, 432, 749
BssMI GATC 3 cut(s) 156, 197, 229
Bst2UI CCWGG 2 cut(s) 51, 375
Bst6I CTCTTC 2 cut(s) 280, 412
BstC8I GCNNGC 2 cut(s) 576, 580
BstDEI CTNAG 2 cut(s) 114, 318
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 3 cut(s) 248, 392, 623
BstNI CCWGG 2 cut(s) 51, 375
BstNSI RCATGY 1 cut(s) 586
BstSCI CCNGG 2 cut(s) 49, 373
BstV1I GCAGC 3 cut(s) 251, 598, 601
BstX2I RGATCY 3 cut(s) 156, 197, 229
BstYI RGATCY 3 cut(s) 156, 197, 229
BsuRI GGCC 2 cut(s) 54, 574
BtsCI GGATG 1 cut(s) 410
BtsIMutI CAGTG 2 cut(s) 189, 439
BveI ACCTGC 1 cut(s) 400
Cac8I GCNNGC 2 cut(s) 576, 580
CaiI CAGNNNCTG 1 cut(s) 374
Cfr13I GGNCC 1 cut(s) 572
CsiI ACCWGGT 1 cut(s) 373
Csp6I GTAC 4 cut(s) 136, 469, 586, 685
CviAII CATG 5 cut(s) 244, 347, 401, 502, 583
CviQI GTAC 4 cut(s) 136, 469, 586, 685
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
Eco57I CTGAAG 1 cut(s) 699
EcoRII CCWGG 2 cut(s) 49, 373
FaeI CATG 5 cut(s) 247, 350, 404, 505, 586
FatI CATG 5 cut(s) 243, 346, 400, 501, 582
Fnu4HI GCNGC 3 cut(s) 240, 612, 615
FokI GGATG 1 cut(s) 397
Fsp4HI GCNGC 3 cut(s) 240, 612, 615
FspBI CTAG 1 cut(s) 633
GluI GCNGC 3 cut(s) 240, 612, 615
GsaI CCCAGC 2 cut(s) 564, 723
HaeIII GGCC 2 cut(s) 54, 574
Hin1II CATG 5 cut(s) 247, 350, 404, 505, 586
HincII GTYRAC 1 cut(s) 530
HindII GTYRAC 1 cut(s) 530
HinfI GANTC 3 cut(s) 112, 488, 724
HphI GGTGA 3 cut(s) 70, 531, 785
Hpy166II GTNNAC 2 cut(s) 332, 530
Hpy188I TCNGA 4 cut(s) 24, 117, 258, 321
Hpy188III TCNNGA 3 cut(s) 233, 474, 838
Hpy8I GTNNAC 2 cut(s) 332, 530
HpyAV CCTTC 2 cut(s) 351, 747
HpyCH4V TGCA 3 cut(s) 297, 626, 682
HpyF10VI GCNNNNNNNGC 3 cut(s) 248, 392, 623
HpyF3I CTNAG 2 cut(s) 114, 318
Hsp92II CATG 5 cut(s) 247, 350, 404, 505, 586
Kzo9I GATC 3 cut(s) 156, 197, 229
LguI GCTCTTC 2 cut(s) 280, 412
LmnI GCTCC 1 cut(s) 391
Lsp1109I GCAGC 3 cut(s) 251, 598, 601
LweI GCATC 1 cut(s) 575
MabI ACCWGGT 1 cut(s) 373
MaeI CTAG 1 cut(s) 633
MaeIII GTNAC 3 cut(s) 35, 217, 638
MalI GATC 3 cut(s) 158, 199, 231
MboI GATC 3 cut(s) 156, 197, 229
MboII GAAGA 6 cut(s) 207, 294, 297, 399, 705, 732
MflI RGATCY 3 cut(s) 156, 197, 229
MhlI GDGCHC 1 cut(s) 319
MluCI AATT 5 cut(s) 17, 533, 592, 823, 843
MlyI GAGTC 1 cut(s) 106
MnlI CCTC 8 cut(s) 111, 123, 126, 157, 229, 240, 351, 708
MseI TTAA 1 cut(s) 225
MspA1I CMGCKG 3 cut(s) 560, 578, 719
MspR9I CCNGG 2 cut(s) 51, 375
MvaI CCWGG 2 cut(s) 51, 375
MwoI GCNNNNNNNGC 3 cut(s) 248, 392, 623
NdeII GATC 3 cut(s) 156, 197, 229
NlaIII CATG 5 cut(s) 247, 350, 404, 505, 586
NlaIV GGNNCC 1 cut(s) 231
NmuCI GTSAC 1 cut(s) 217
NspI RCATGY 1 cut(s) 586
PaqCI CACCTGC 1 cut(s) 400
PciSI GCTCTTC 2 cut(s) 280, 412
PfeI GAWTC 2 cut(s) 488, 724
PflMI CCANNNNNTGG 1 cut(s) 374
PkrI GCNGC 3 cut(s) 241, 613, 616
PleI GAGTC 1 cut(s) 106
PpsI GAGTC 1 cut(s) 106
Psp6I CCWGG 2 cut(s) 49, 373
PspFI CCCAGC 2 cut(s) 560, 719
PspGI CCWGG 2 cut(s) 49, 373
PspN4I GGNNCC 1 cut(s) 231
PspPI GGNCC 1 cut(s) 572
PstNI CAGNNNCTG 1 cut(s) 374
PsuI RGATCY 3 cut(s) 156, 197, 229
PvuII CAGCTG 3 cut(s) 560, 578, 719
RsaI GTAC 4 cut(s) 137, 470, 587, 686
RsaNI GTAC 4 cut(s) 136, 469, 586, 685
SapI GCTCTTC 2 cut(s) 280, 412
SaqAI TTAA 1 cut(s) 225
SatI GCNGC 3 cut(s) 240, 612, 615
Sau3AI GATC 3 cut(s) 156, 197, 229
Sau96I GGNCC 1 cut(s) 572
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 1 cut(s) 575
SmlI CTYRAG 2 cut(s) 6, 836
SmoI CTYRAG 2 cut(s) 6, 836
Sse9I AATT 5 cut(s) 17, 533, 592, 823, 843
SspI AATATT 1 cut(s) 46
SspMI CTAG 1 cut(s) 633
StyD4I CCNGG 2 cut(s) 49, 373
TasI AATT 5 cut(s) 17, 533, 592, 823, 843
TfiI GAWTC 2 cut(s) 488, 724
Tru1I TTAA 1 cut(s) 225
Tru9I TTAA 1 cut(s) 225
TscAI CASTG 2 cut(s) 196, 439
TseFI GTSAC 1 cut(s) 217
TseI GCWGC 3 cut(s) 239, 611, 614
Tsp45I GTSAC 1 cut(s) 217
TspDTI ATGAA 2 cut(s) 399, 518
TspRI CASTG 2 cut(s) 196, 439
Van91I CCANNNNNTGG 1 cut(s) 374
XapI RAATTY 1 cut(s) 843
XceI RCATGY 1 cut(s) 586
XcmI CCANNNNNNNNNTGG 1 cut(s) 431
XspI CTAG 1 cut(s) 633
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.