Rroxscaffold_1G00028840

RNA-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0011429
Physical Location & Seq
Forward (+)
37002955 .. 37008301
5347 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00028840.1

Sequence Viewer

Length: 663 bp
ATGGCGAACAACGCAGACGTGGAAGCCGTGGACTTTGAGCCCGAGGACGATGACCTCATGGACGAGGACGGTGCCGTCGACGCCGAGCCCTCAGCGTCCCCCGGGCCCCACTCCCCAAGCTCAAGTCTGCTATCACCGGCGCCTCCTCCGCCTCTCTCTCAGCTCCTAAGAAGACCAAGGGTCGAGGCTTTCGCGAAGATCCCAATGCCGAACGCAACACCCGCCTCGCTGGAGCATCTAGATTTTCATGCTATTGCAACACGGTTATCTTGCAAAATGGTAACTTTGGGTTACTGCTTGTCACCTTGGATTTCTGCTCTTGAGTTTGGATTTTGGATGTCTCAGCCGATCGAGGGATGGATTATTCTGGTTACCGGAATCCATGAAGAGGCACAAGAAGATGATCTGCATGCTACATTTGGTGAATTTGGGGAGATAAAGAATTTGCATTTAAATCTTGATCGCCGTACTGGGTTTGTCAAGGGTTATGCACTTATTGAGTATGAGAATTTTGCGGAGGCGCAAGCTGCAATATCCAGAATGGACGGAAACAGTGTACTTACACAGATTGTTAATGTTGACTGGGCCTTCAGCAATGGATCCTTCCTTGATGGGTCAAAAAAGAAGAACCCAAGAAGGTTTTTGGGTTTATATAAGCGCTAG

Protein Analysis

220

Amino Acids

24.3

Weight (kDa)

4.74

Isoelectric Point (pI)

52.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 122 - 185 2.8e-14 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: OG0011429)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G51510
fragaria_vesca FvH4_3g28440
malus_domestica MD03G1171900.v1.1 MD11G1189700.v1.1 MD12G1080200.v1.1
prunus_persica Prupe.4G255000_v2.0.a1 Prupe.7G055300_v2.0.a1
pyrus_communis pycom03g12900 pycom11g16600 pycom12g06680
rosa_chinensis RchiOBHm_Chr5g0053031
rosa_laevigata RLG00000034777
rosa_multiflora Rmu_sc0006573.1_g000011
rosa_roxburghii Rroxscaffold_1G00028840
rosa_rugosa Rorug05G0268700
rosa_samantha Rh5AG340900 Rh5BG351500 Rh5CG377700 Rh5DG367900
rosa_wichuraiana Rw5G032140

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 74
AccB1I GGYRCC 2 cut(s) 71, 139
AccI GTMKAC 1 cut(s) 78
AccII CGCG 1 cut(s) 194
AciI CCGC 3 cut(s) 149, 222, 515
AclWI GGATC 3 cut(s) 193, 594, 607
AcsI RAATTY 3 cut(s) 425, 442, 508
AcuI CTGAAG 1 cut(s) 574
AcyI GRCGYC 2 cut(s) 81, 140
AfaI GTAC 2 cut(s) 469, 558
AfeI AGCGCT 1 cut(s) 659
AfiI CCNNNNNNNGG 2 cut(s) 353, 388
AhdI GACNNNNNGTC 1 cut(s) 179
AjiI CACGTC 1 cut(s) 19
AluBI AGCT 3 cut(s) 120, 163, 527
AluI AGCT 3 cut(s) 120, 163, 527
Alw26I GTCTC 1 cut(s) 345
AlwI GGATC 3 cut(s) 193, 594, 607
Ama87I CYCGRG 2 cut(s) 41, 101
Aor51HI AGCGCT 1 cut(s) 659
AoxI GGCC 2 cut(s) 104, 585
ApaI GGGCCC 1 cut(s) 108
ApeKI GCWGC 1 cut(s) 527
ApoI RAATTY 3 cut(s) 425, 442, 508
AspLEI GCGC 3 cut(s) 142, 523, 660
AspS9I GGNCC 3 cut(s) 104, 105, 585
AsuC2I CCSGG 2 cut(s) 102, 103
AsuHPI GGTGA 3 cut(s) 126, 294, 434
AvaI CYCGRG 2 cut(s) 41, 101
BaeGI GKGCMC 1 cut(s) 108
BamHI GGATCC 1 cut(s) 599
BanI GGYRCC 2 cut(s) 71, 139
BanII GRGCYC 3 cut(s) 42, 90, 108
BbsI GAAGAC 1 cut(s) 178
BbvCI CCTCAGC 1 cut(s) 91
BbvI GCAGC 1 cut(s) 514
BccI CCATC 2 cut(s) 351, 605
BceAI ACGGC 3 cut(s) 11, 59, 450
BcgI CGANNNNNNTGC 2 cut(s) 53, 87
BcnI CCSGG 2 cut(s) 102, 103
BcoDI GTCTC 1 cut(s) 345
BfaI CTAG 2 cut(s) 239, 661
BfoI RGCGCY 2 cut(s) 143, 661
BisI GCNGC 1 cut(s) 528
BlsI GCNGC 1 cut(s) 529
Bme1390I CCNGG 2 cut(s) 102, 103
BmeRI GACNNNNNGTC 1 cut(s) 179
BmeT110I CYCGRG 2 cut(s) 41, 101
BmgBI CACGTC 1 cut(s) 19
BmgT120I GGNCC 3 cut(s) 104, 105, 585
BmiI GGNNCC 5 cut(s) 73, 106, 107, 141, 601
BmrFI CCNGG 2 cut(s) 102, 103
BmrI ACTGGG 2 cut(s) 480, 592
BmsI GCATC 1 cut(s) 244
BmuI ACTGGG 2 cut(s) 480, 592
BpiI GAAGAC 1 cut(s) 178
BpmI CTGGAG 1 cut(s) 251
Bpu10I CCTNAGC 1 cut(s) 91
BpuEI CTTGAG 2 cut(s) 106, 341
BpuMI CCSGG 2 cut(s) 102, 103
BsaHI GRCGYC 2 cut(s) 81, 140
BsaJI CCNNGG 6 cut(s) 27, 42, 100, 101, 176, 305
BsaWI WCCGGW 1 cut(s) 374
Bsc4I CCNNNNNNNGG 2 cut(s) 353, 388
Bse118I RCCGGY 1 cut(s) 136
Bse1I ACTGG 2 cut(s) 475, 587
Bse3DI GCAATG 1 cut(s) 601
BseDI CCNNGG 6 cut(s) 27, 42, 100, 101, 176, 305
BseGI GGATG 2 cut(s) 342, 362
BseLI CCNNNNNNNGG 2 cut(s) 353, 388
BseMI GCAATG 1 cut(s) 601
BseMII CTCAG 3 cut(s) 105, 173, 356
BseNI ACTGG 2 cut(s) 475, 587
BseRI GAGGAG 1 cut(s) 135
BseSI GKGCMC 1 cut(s) 108
BseXI GCAGC 1 cut(s) 514
Bsh1236I CGCG 1 cut(s) 194
Bsh1285I CGRYCG 1 cut(s) 351
BshFI GGCC 2 cut(s) 106, 587
BshNI GGYRCC 2 cut(s) 71, 139
BsiEI CGRYCG 1 cut(s) 351
BsiHKCI CYCGRG 2 cut(s) 41, 101
BsiSI CCGG 3 cut(s) 102, 137, 375
BslFI GGGAC 1 cut(s) 82
BslI CCNNNNNNNGG 2 cut(s) 353, 388
BsmAI GTCTC 1 cut(s) 345
BsmFI GGGAC 1 cut(s) 82
BsnI GGCC 2 cut(s) 106, 587
BsoBI CYCGRG 2 cut(s) 41, 101
Bsp120I GGGCCC 1 cut(s) 104
Bsp1286I GDGCHC 3 cut(s) 42, 90, 108
Bsp143I GATC 5 cut(s) 198, 348, 403, 460, 599
Bsp68I TCGCGA 1 cut(s) 194
BspACI CCGC 3 cut(s) 149, 222, 515
BspANI GGCC 2 cut(s) 106, 587
BspCNI CTCAG 3 cut(s) 104, 172, 355
BspFNI CGCG 1 cut(s) 194
BspLI GGNNCC 5 cut(s) 73, 106, 107, 141, 601
BspPI GGATC 3 cut(s) 193, 594, 607
BspT107I GGYRCC 2 cut(s) 71, 139
BsrDI GCAATG 1 cut(s) 601
BsrFI RCCGGY 1 cut(s) 136
BsrI ACTGG 2 cut(s) 475, 587
BssAI RCCGGY 1 cut(s) 136
BssECI CCNNGG 6 cut(s) 27, 42, 100, 101, 176, 305
BssMI GATC 5 cut(s) 198, 348, 403, 460, 599
BssNI GRCGYC 2 cut(s) 81, 140
BssT1I CCWWGG 2 cut(s) 176, 305
Bst4CI ACNGT 3 cut(s) 71, 264, 554
Bst6I CTCTTC 1 cut(s) 381
BstACI GRCGYC 2 cut(s) 81, 140
BstC8I GCNNGC 2 cut(s) 411, 525
BstDEI CTNAG 4 cut(s) 91, 159, 167, 342
BstDSI CCRYGG 1 cut(s) 27
BstEII GGTNACC 1 cut(s) 370
BstF5I GGATG 2 cut(s) 342, 362
BstFNI CGCG 1 cut(s) 194
BstH2I RGCGCY 2 cut(s) 143, 661
BstHHI GCGC 3 cut(s) 142, 523, 660
BstKTI GATC 5 cut(s) 201, 351, 406, 463, 602
BstMAI GTCTC 1 cut(s) 345
BstMBI GATC 5 cut(s) 198, 348, 403, 460, 599
BstMCI CGRYCG 1 cut(s) 351
BstMWI GCNNNNNNNGC 5 cut(s) 11, 80, 148, 221, 527
BstNSI RCATGY 1 cut(s) 413
BstPI GGTNACC 1 cut(s) 370
BstSCI CCNGG 2 cut(s) 100, 101
BstSLI GKGCMC 1 cut(s) 108
BstUI CGCG 1 cut(s) 194
BstV1I GCAGC 1 cut(s) 514
BstV2I GAAGAC 1 cut(s) 178
BstX2I RGATCY 2 cut(s) 198, 599
BstYI RGATCY 2 cut(s) 198, 599
BsuRI GGCC 2 cut(s) 106, 587
BtgI CCRYGG 1 cut(s) 27
BtrI CACGTC 1 cut(s) 19
BtsCI GGATG 2 cut(s) 342, 362
BtsIMutI CAGTG 1 cut(s) 559
BtuMI TCGCGA 1 cut(s) 194
Cac8I GCNNGC 2 cut(s) 411, 525
CfoI GCGC 3 cut(s) 142, 523, 660
Cfr10I RCCGGY 1 cut(s) 136
Cfr13I GGNCC 3 cut(s) 104, 105, 585
Cfr9I CCCGGG 1 cut(s) 101
CseI GACGC 2 cut(s) 84, 89
Csp6I GTAC 2 cut(s) 468, 557
CviAII CATG 4 cut(s) 58, 248, 383, 410
CviQI GTAC 2 cut(s) 468, 557
DdeI CTNAG 4 cut(s) 91, 159, 167, 342
DinI GGCGCC 1 cut(s) 141
DpnI GATC 5 cut(s) 200, 350, 405, 462, 601
DpnII GATC 5 cut(s) 198, 348, 403, 460, 599
DraI TTTAAA 1 cut(s) 453
DrdI GACNNNNNNGTC 1 cut(s) 74
DriI GACNNNNNGTC 1 cut(s) 179
DseDI GACNNNNNNGTC 1 cut(s) 74
Eam1104I CTCTTC 1 cut(s) 381
Eam1105I GACNNNNNGTC 1 cut(s) 179
EarI CTCTTC 1 cut(s) 381
EciI GGCGGA 1 cut(s) 138
Eco130I CCWWGG 2 cut(s) 176, 305
Eco24I GRGCYC 3 cut(s) 42, 90, 108
Eco47III AGCGCT 1 cut(s) 659
Eco57I CTGAAG 1 cut(s) 574
Eco88I CYCGRG 2 cut(s) 41, 101
Eco91I GGTNACC 1 cut(s) 370
EcoO109I RGGNCCY 1 cut(s) 105
EcoO65I GGTNACC 1 cut(s) 370
EcoT14I CCWWGG 2 cut(s) 176, 305
EcoT38I GRGCYC 3 cut(s) 42, 90, 108
EgeI GGCGCC 1 cut(s) 141
EheI GGCGCC 1 cut(s) 141
ErhI CCWWGG 2 cut(s) 176, 305
FaeI CATG 4 cut(s) 61, 251, 386, 413
FaiI YATR 8 cut(s) 59, 249, 384, 411, 489, 504, 652, 654
FaqI GGGAC 1 cut(s) 82
FatI CATG 4 cut(s) 57, 247, 382, 409
FauI CCCGC 1 cut(s) 229
FblI GTMKAC 1 cut(s) 78
Fnu4HI GCNGC 1 cut(s) 528
FokI GGATG 2 cut(s) 349, 369
FriOI GRGCYC 3 cut(s) 42, 90, 108
Fsp4HI GCNGC 1 cut(s) 528
FspBI CTAG 2 cut(s) 239, 661
GlaI GCGC 3 cut(s) 141, 522, 659
GluI GCNGC 1 cut(s) 528
GsuI CTGGAG 1 cut(s) 251
HaeII RGCGCY 2 cut(s) 143, 661
HaeIII GGCC 2 cut(s) 106, 587
HapII CCGG 3 cut(s) 102, 137, 375
HgaI GACGC 2 cut(s) 84, 89
HhaI GCGC 3 cut(s) 142, 523, 660
Hin1I GRCGYC 2 cut(s) 81, 140
Hin1II CATG 4 cut(s) 61, 251, 386, 413
Hin6I GCGC 3 cut(s) 140, 521, 658
HinP1I GCGC 3 cut(s) 140, 521, 658
HincII GTYRAC 2 cut(s) 79, 580
HindII GTYRAC 2 cut(s) 79, 580
HinfI GANTC 1 cut(s) 378
HpaII CCGG 3 cut(s) 102, 137, 375
HphI GGTGA 3 cut(s) 126, 294, 434
Hpy166II GTNNAC 4 cut(s) 31, 79, 557, 580
Hpy188III TCNNGA 5 cut(s) 193, 239, 320, 458, 537
Hpy8I GTNNAC 4 cut(s) 31, 79, 557, 580
Hpy99I CGWCG 2 cut(s) 80, 83
HpyAV CCTTC 3 cut(s) 598, 613, 630
HpyCH4III ACNGT 3 cut(s) 71, 264, 554
HpyCH4IV ACGT 1 cut(s) 18
HpyCH4V TGCA 6 cut(s) 257, 273, 409, 448, 491, 530
HpyF10VI GCNNNNNNNGC 5 cut(s) 11, 80, 148, 221, 527
HpyF3I CTNAG 4 cut(s) 91, 159, 167, 342
HpySE526I ACGT 1 cut(s) 18
Hsp92I GRCGYC 2 cut(s) 81, 140
Hsp92II CATG 4 cut(s) 61, 251, 386, 413
HspAI GCGC 3 cut(s) 140, 521, 658
KasI GGCGCC 1 cut(s) 139
Kzo9I GATC 5 cut(s) 198, 348, 403, 460, 599
LmnI GCTCC 2 cut(s) 168, 232
LpnPI CCDG 8 cut(s) 115, 150, 215, 353, 388, 456, 550, 568
Lsp1109I GCAGC 1 cut(s) 514
LweI GCATC 1 cut(s) 244
MaeI CTAG 2 cut(s) 239, 661
MaeII ACGT 1 cut(s) 18
MaeIII GTNAC 4 cut(s) 280, 290, 300, 370
MalI GATC 5 cut(s) 200, 350, 405, 462, 601
MboI GATC 5 cut(s) 198, 348, 403, 460, 599
MboII GAAGA 5 cut(s) 183, 208, 398, 410, 637
MflI RGATCY 2 cut(s) 198, 599
MhlI GDGCHC 3 cut(s) 42, 90, 108
MluCI AATT 3 cut(s) 425, 442, 508
Mly113I GGCGCC 1 cut(s) 140
MseI TTAA 2 cut(s) 452, 573
MspI CCGG 3 cut(s) 102, 137, 375
MspR9I CCNGG 2 cut(s) 102, 103
MvnI CGCG 1 cut(s) 194
MwoI GCNNNNNNNGC 5 cut(s) 11, 80, 148, 221, 527
NarI GGCGCC 1 cut(s) 140
NciI CCSGG 2 cut(s) 102, 103
NdeII GATC 5 cut(s) 198, 348, 403, 460, 599
NlaIII CATG 4 cut(s) 61, 251, 386, 413
NlaIV GGNNCC 5 cut(s) 73, 106, 107, 141, 601
NmeAIII GCCGAG 1 cut(s) 109
NmuCI GTSAC 1 cut(s) 300
NruI TCGCGA 1 cut(s) 194
NspI RCATGY 1 cut(s) 413
PaeI GCATGC 1 cut(s) 413
PcsI WCGNNNNNNNCGW 2 cut(s) 24, 75
PfeI GAWTC 1 cut(s) 378
PkrI GCNGC 1 cut(s) 529
Ple19I CGATCG 1 cut(s) 351
PluTI GGCGCC 1 cut(s) 143
PspEI GGTNACC 1 cut(s) 370
PspN4I GGNNCC 5 cut(s) 73, 106, 107, 141, 601
PspOMI GGGCCC 1 cut(s) 104
PspPI GGNCC 3 cut(s) 104, 105, 585
PsuI RGATCY 2 cut(s) 198, 599
PvuI CGATCG 1 cut(s) 351
RruI TCGCGA 1 cut(s) 194
RsaI GTAC 2 cut(s) 469, 558
RsaNI GTAC 2 cut(s) 468, 557
SalI GTCGAC 1 cut(s) 77
SaqAI TTAA 2 cut(s) 452, 573
SatI GCNGC 1 cut(s) 528
Sau3AI GATC 5 cut(s) 198, 348, 403, 460, 599
Sau96I GGNCC 3 cut(s) 104, 105, 585
ScrFI CCNGG 2 cut(s) 102, 103
SduI GDGCHC 3 cut(s) 42, 90, 108
SetI ASST 7 cut(s) 21, 57, 122, 165, 307, 529, 641
SfaNI GCATC 1 cut(s) 244
SfoI GGCGCC 1 cut(s) 141
SgrAI CRCCGGYG 1 cut(s) 136
SgrDI CGTCGACG 1 cut(s) 77
SmaI CCCGGG 1 cut(s) 103
SmiI ATTTAAAT 1 cut(s) 453
SmlI CTYRAG 2 cut(s) 121, 320
SmoI CTYRAG 2 cut(s) 121, 320
SphI GCATGC 1 cut(s) 413
Sse9I AATT 3 cut(s) 425, 442, 508
SsiI CCGC 3 cut(s) 149, 222, 515
SspDI GGCGCC 1 cut(s) 139
SspMI CTAG 2 cut(s) 239, 661
StyD4I CCNGG 2 cut(s) 100, 101
StyI CCWWGG 2 cut(s) 176, 305
SwaI ATTTAAAT 1 cut(s) 453
TaaI ACNGT 3 cut(s) 71, 264, 554
TaiI ACGT 1 cut(s) 21
TaqI TCGA 3 cut(s) 78, 183, 351
TasI AATT 3 cut(s) 425, 442, 508
TatI WGTACW 1 cut(s) 556
TfiI GAWTC 1 cut(s) 378
Tru1I TTAA 2 cut(s) 452, 573
Tru9I TTAA 2 cut(s) 452, 573
TscAI CASTG 1 cut(s) 559
TseFI GTSAC 1 cut(s) 300
TseI GCWGC 1 cut(s) 527
Tsp45I GTSAC 1 cut(s) 300
TspDTI ATGAA 2 cut(s) 236, 399
TspGWI ACGGA 1 cut(s) 561
TspMI CCCGGG 1 cut(s) 101
TspRI CASTG 1 cut(s) 559
XapI RAATTY 3 cut(s) 425, 442, 508
XbaI TCTAGA 1 cut(s) 238
XceI RCATGY 1 cut(s) 413
XmaI CCCGGG 1 cut(s) 101
XmiI GTMKAC 1 cut(s) 78
XspI CTAG 2 cut(s) 239, 661
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.