Rh4DG285700

RNA recognition motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0016826
Physical Location & Seq
Reverse (-)
50669884 .. 50670856
973 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG285700.1

Sequence Viewer

Length: 579 bp
ATGGACACAGGGGATTTAACTATTCAAGTTCTCAACCTTTCTCCAAGGGTGACCCTCAAAGACTTGATTACCTTCTTCTCTTATTGTGGAACTGTTCACAACGTCCAGCTCTTGAGAGATAAAGAGCAATCGCCCTATGCTTTAGTGACTTTTGGGCAGCCTTATGCTTTCCAAACTGCTCTTCTCCTTGATGATGCTGTGTTTGGAGGGAAACCCATTTGCGTATTACCTTCATGTGTTATAAAGATTCCTATTGAATCAGATGACGACACTGATGAGTCTCAGAGCAAAAGCCAAGGGCAAAACATGTCAGTATGTAGATCGATGGAGCGTATGGCTTCTTCAAAAGGCCTTGAACTAATGTTGAAGAAAAGCAGGGATGGGTTGGAGGAGAGCTTGAAGCTTTCGTCCGAGAAAGGAAGAAGAGTGGTAATTGAACAAGCAAGATCAGCCATTTATGCAGTTGAGCAAGCAGCAGGTCGAATGGGAAGTGCCATCATGAACAACAACTTCATGTCAAATATACTAGACAAAGCCTCGAGATCTGCCTCAGACTTCGGAACTAAGAAGATCCAATAA
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
RRM_1

Protein Analysis

192

Amino Acids

21.12

Weight (kDa)

6.59

Isoelectric Point (pI)

56.98

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 10 - 73 8.6e-08 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: OG0016826)

Species Orthologous Gene IDs
fragaria_vesca FvH4_4g22220
malus_domestica MD16G1144300.v1.1
prunus_persica Prupe.1G211900_v2.0.a1
pyrus_communis pycom16g11360
rosa_chinensis RchiOBHm_Chr4g0428451
rosa_laevigata RLG00000007150
rosa_multiflora Rmu_sc0006844.1_g000006
rosa_roxburghii Rroxscaffold_5G00370130
rosa_rugosa Rorug04G0225300
rosa_samantha Rh4AG282900 Rh4BG288600 Rh4CG304200 Rh4DG285700
rosa_wichuraiana Rw4G024560

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 242
Acc36I ACCTGC 1 cut(s) 467
AclWI GGATC 1 cut(s) 565
AflIII ACRYGT 1 cut(s) 306
AgsI TTSAA 7 cut(s) 26, 257, 345, 356, 367, 400, 437
AjuI GAANNNNNNNTTGG 2 cut(s) 165, 197
AluBI AGCT 3 cut(s) 109, 396, 403
AluI AGCT 3 cut(s) 109, 396, 403
Alw26I GTCTC 1 cut(s) 285
AlwI GGATC 1 cut(s) 565
Ama87I CYCGRG 1 cut(s) 538
AoxI GGCC 1 cut(s) 349
ApeKI GCWGC 2 cut(s) 157, 473
AsuHPI GGTGA 1 cut(s) 61
AvaI CYCGRG 1 cut(s) 538
BarI GAAGNNNNNNTAC 2 cut(s) 325, 357
BbvI GCAGC 2 cut(s) 169, 485
BccI CCATC 3 cut(s) 319, 374, 503
BcoDI GTCTC 1 cut(s) 285
BfaI CTAG 1 cut(s) 527
BfuAI ACCTGC 1 cut(s) 467
BglII AGATCT 1 cut(s) 542
BisI GCNGC 2 cut(s) 158, 474
BlsI GCNGC 2 cut(s) 159, 475
BmeT110I CYCGRG 1 cut(s) 538
BmsI GCATC 1 cut(s) 184
BpuEI CTTGAG 1 cut(s) 133
Bsa29I ATCGAT 1 cut(s) 323
BsaJI CCNNGG 2 cut(s) 44, 295
BseCI ATCGAT 1 cut(s) 323
BseDI CCNNGG 2 cut(s) 44, 295
BseGI GGATG 1 cut(s) 385
BseMII CTCAG 2 cut(s) 296, 564
BseRI GAGGAG 1 cut(s) 404
BseXI GCAGC 2 cut(s) 169, 485
BshFI GGCC 1 cut(s) 351
BshVI ATCGAT 1 cut(s) 323
BsiHKCI CYCGRG 1 cut(s) 538
BsmAI GTCTC 1 cut(s) 285
BsnI GGCC 1 cut(s) 351
BsoBI CYCGRG 1 cut(s) 538
Bsp143I GATC 4 cut(s) 320, 446, 542, 570
BspANI GGCC 1 cut(s) 351
BspCNI CTCAG 2 cut(s) 295, 563
BspDI ATCGAT 1 cut(s) 323
BspHI TCATGA 1 cut(s) 498
BspMI ACCTGC 1 cut(s) 467
BspPI GGATC 1 cut(s) 565
BspQI GCTCTTC 1 cut(s) 186
BssECI CCNNGG 2 cut(s) 44, 295
BssMI GATC 4 cut(s) 320, 446, 542, 570
BssT1I CCWWGG 2 cut(s) 44, 295
Bst4CI ACNGT 1 cut(s) 94
Bst6I CTCTTC 2 cut(s) 186, 418
BstC8I GCNNGC 1 cut(s) 471
BstDEI CTNAG 3 cut(s) 282, 550, 564
BstEII GGTNACC 1 cut(s) 49
BstF5I GGATG 1 cut(s) 385
BstKTI GATC 4 cut(s) 323, 449, 545, 573
BstMAI GTCTC 1 cut(s) 285
BstMBI GATC 4 cut(s) 320, 446, 542, 570
BstMWI GCNNNNNNNGC 2 cut(s) 449, 458
BstNSI RCATGY 1 cut(s) 310
BstPI GGTNACC 1 cut(s) 49
BstV1I GCAGC 2 cut(s) 169, 485
BstX2I RGATCY 2 cut(s) 542, 570
BstYI RGATCY 2 cut(s) 542, 570
Bsu15I ATCGAT 1 cut(s) 323
BsuRI GGCC 1 cut(s) 351
BsuTUI ATCGAT 1 cut(s) 323
BtsCI GGATG 1 cut(s) 385
BtsIMutI CAGTG 1 cut(s) 270
BveI ACCTGC 1 cut(s) 467
Cac8I GCNNGC 1 cut(s) 471
CciI TCATGA 1 cut(s) 498
ClaI ATCGAT 1 cut(s) 323
CviAII CATG 4 cut(s) 234, 307, 499, 514
CviJI RGCY 9 cut(s) 109, 160, 294, 338, 351, 396, 403, 452, 536
CviKI_1 RGCY 9 cut(s) 109, 160, 294, 338, 351, 396, 403, 452, 536
DdeI CTNAG 3 cut(s) 282, 550, 564
DpnI GATC 4 cut(s) 322, 448, 544, 572
DpnII GATC 4 cut(s) 320, 446, 542, 570
Eam1104I CTCTTC 2 cut(s) 186, 418
EarI CTCTTC 2 cut(s) 186, 418
Eco130I CCWWGG 2 cut(s) 44, 295
Eco147I AGGCCT 1 cut(s) 351
Eco88I CYCGRG 1 cut(s) 538
Eco91I GGTNACC 1 cut(s) 49
EcoO65I GGTNACC 1 cut(s) 49
EcoT14I CCWWGG 2 cut(s) 44, 295
ErhI CCWWGG 2 cut(s) 44, 295
FaeI CATG 4 cut(s) 237, 310, 502, 517
FatI CATG 4 cut(s) 233, 306, 498, 513
Fnu4HI GCNGC 2 cut(s) 158, 474
FokI GGATG 1 cut(s) 392
Fsp4HI GCNGC 2 cut(s) 158, 474
FspBI CTAG 1 cut(s) 527
GluI GCNGC 2 cut(s) 158, 474
HaeIII GGCC 1 cut(s) 351
Hin1II CATG 4 cut(s) 237, 310, 502, 517
HindIII AAGCTT 1 cut(s) 401
HinfI GANTC 3 cut(s) 247, 257, 278
HphI GGTGA 1 cut(s) 61
Hpy166II GTNNAC 1 cut(s) 97
Hpy188I TCNGA 5 cut(s) 262, 285, 412, 553, 560
Hpy188III TCNNGA 3 cut(s) 112, 499, 540
Hpy8I GTNNAC 1 cut(s) 97
HpyAV CCTTC 2 cut(s) 82, 240
HpyCH4III ACNGT 1 cut(s) 94
HpyCH4IV ACGT 1 cut(s) 102
HpyCH4V TGCA 1 cut(s) 461
HpyF10VI GCNNNNNNNGC 2 cut(s) 449, 458
HpyF3I CTNAG 3 cut(s) 282, 550, 564
HpySE526I ACGT 1 cut(s) 102
Hsp92II CATG 4 cut(s) 237, 310, 502, 517
Kzo9I GATC 4 cut(s) 320, 446, 542, 570
LguI GCTCTTC 1 cut(s) 186
LmnI GCTCC 1 cut(s) 328
LpnPI CCDG 3 cut(s) 119, 361, 462
Lsp1109I GCAGC 2 cut(s) 169, 485
LweI GCATC 1 cut(s) 184
MaeI CTAG 1 cut(s) 527
MaeII ACGT 1 cut(s) 102
MaeIII GTNAC 2 cut(s) 49, 145
MalI GATC 4 cut(s) 322, 448, 544, 572
MboI GATC 4 cut(s) 320, 446, 542, 570
MboII GAAGA 6 cut(s) 67, 173, 333, 379, 432, 435
MflI RGATCY 2 cut(s) 542, 570
MluCI AATT 1 cut(s) 432
MlyI GAGTC 1 cut(s) 287
MmeI TCCRAC 1 cut(s) 366
MnlI CCTC 5 cut(s) 65, 200, 382, 547, 559
MseI TTAA 1 cut(s) 17
MwoI GCNNNNNNNGC 2 cut(s) 449, 458
NdeII GATC 4 cut(s) 320, 446, 542, 570
NlaIII CATG 4 cut(s) 237, 310, 502, 517
NmuCI GTSAC 2 cut(s) 49, 145
NspI RCATGY 1 cut(s) 310
PaeR7I CTCGAG 1 cut(s) 538
PagI TCATGA 1 cut(s) 498
PceI AGGCCT 1 cut(s) 351
PciI ACATGT 1 cut(s) 306
PciSI GCTCTTC 1 cut(s) 186
PfeI GAWTC 2 cut(s) 247, 257
PkrI GCNGC 2 cut(s) 159, 475
PleI GAGTC 1 cut(s) 286
PpsI GAGTC 1 cut(s) 286
PscI ACATGT 1 cut(s) 306
PsiI TTATAA 1 cut(s) 242
PspEI GGTNACC 1 cut(s) 49
PsuI RGATCY 2 cut(s) 542, 570
SapI GCTCTTC 1 cut(s) 186
SaqAI TTAA 1 cut(s) 17
SatI GCNGC 2 cut(s) 158, 474
Sau3AI GATC 4 cut(s) 320, 446, 542, 570
SchI GAGTC 1 cut(s) 287
SetI ASST 8 cut(s) 39, 74, 105, 111, 232, 398, 405, 481
SfaNI GCATC 1 cut(s) 184
Sfr274I CTCGAG 1 cut(s) 538
SlaI CTCGAG 1 cut(s) 538
SmlI CTYRAG 2 cut(s) 112, 538
SmoI CTYRAG 2 cut(s) 112, 538
Sse9I AATT 1 cut(s) 432
SseBI AGGCCT 1 cut(s) 351
SspMI CTAG 1 cut(s) 527
StuI AGGCCT 1 cut(s) 351
StyI CCWWGG 2 cut(s) 44, 295
TaaI ACNGT 1 cut(s) 94
TaiI ACGT 1 cut(s) 105
TaqI TCGA 3 cut(s) 323, 481, 539
TasI AATT 1 cut(s) 432
TfiI GAWTC 2 cut(s) 247, 257
Tru1I TTAA 1 cut(s) 17
Tru9I TTAA 1 cut(s) 17
TscAI CASTG 1 cut(s) 277
TseFI GTSAC 2 cut(s) 49, 145
TseI GCWGC 2 cut(s) 157, 473
Tsp45I GTSAC 2 cut(s) 49, 145
TspDTI ATGAA 3 cut(s) 222, 502, 515
TspRI CASTG 1 cut(s) 277
XceI RCATGY 1 cut(s) 310
XhoI CTCGAG 1 cut(s) 538
XspI CTAG 1 cut(s) 527
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.